Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 130 of 253
Found at i:41279614 original size:129 final size:133
Alignment explanation
Indices: 41279481--41279727 Score: 319
Period size: 129 Copynumber: 1.9 Consensus size: 133
41279471 GTTGGAATTT
* * *
41279481 AAAGGAATATTTCGATTG-TTTTG-AACAAACAGGAAATTCGCAACCCAGCACG-TAGGGCACGA
1 AAAGGAATA-TTCGATTGTTTTTGAAACAAA-AGGAAAATCGCAACCCAACACGATAAGGCACGA
*
41279543 TTCCCCGAA-TT-GCCAAACATCGAACATTACCTT-CG-TTTGAAGAATTTTTAAAGCAAAGCGA
64 TT-CCCGAATTTGGCCAAACATCGAACATTACCTTCCGTTTTAAAGAATTTTTAAAGCAAAGCGA
41279604 AATTCC
128 AATTCC
* *
41279610 AAAGGAGTATTCGATTGTTTTTGAAACAAATGGAAAATCGCAACCCAACACGATTAAGGCACGAT
1 AAAGGAATATTCGATTGTTTTTGAAACAAAAGGAAAATCGCAACCCAACACGA-TAAGGCACGAT
* ** *
41279675 TCTCGAATTTGGCCAAACATCGAGTATTGCCTTCCGTTTTAAAGAATTTTTAA
65 TCCCGAATTTGGCCAAACATCGAACATTACCTTCCGTTTTAAAGAATTTTTAA
41279728 TGAATTAATT
Statistics
Matches: 100, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
128 8 0.08
129 32 0.32
130 11 0.11
131 13 0.13
132 19 0.19
133 2 0.02
134 15 0.15
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (133 bp):
AAAGGAATATTCGATTGTTTTTGAAACAAAAGGAAAATCGCAACCCAACACGATAAGGCACGATT
CCCGAATTTGGCCAAACATCGAACATTACCTTCCGTTTTAAAGAATTTTTAAAGCAAAGCGAAAT
TCC
Found at i:41281807 original size:21 final size:22
Alignment explanation
Indices: 41281771--41281814 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
41281761 CGCCGGGGTT
41281771 CCCTTACTCACCTATACGGCGC
1 CCCTTACTCACCTATACGGCGC
41281793 CCCTTACTC-CCTATACGGCGC
1 CCCTTACTCACCTATACGGCGC
41281814 C
1 C
41281815 GTTCTATGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.16, C:0.48, G:0.14, T:0.23
Consensus pattern (22 bp):
CCCTTACTCACCTATACGGCGC
Found at i:41283066 original size:18 final size:18
Alignment explanation
Indices: 41283020--41283066 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
41283010 TGAGAAAAAG
41283020 AGCAAAAAAAAATTATTC
1 AGCAAAAAAAAATTATTC
*
41283038 AGC-CAAAAAAATT-TTCC
1 AGCAAAAAAAAATTATT-C
41283055 AGCAAAAAAAAA
1 AGCAAAAAAAAA
41283067 AAAACAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 2 0.08
17 13 0.52
18 10 0.40
ACGTcount: A:0.62, C:0.15, G:0.06, T:0.17
Consensus pattern (18 bp):
AGCAAAAAAAAATTATTC
Found at i:41284322 original size:46 final size:47
Alignment explanation
Indices: 41284210--41284362 Score: 263
Period size: 47 Copynumber: 3.3 Consensus size: 47
41284200 TCCTTCGGGG
*
41284210 CTTATCACATATATACACTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
41284257 CTTATCACATATATACACTTTCACATTCATCACATTTGCCATT-CGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41284303 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41284350 CTTATCACATATA
1 CTTATCACATATA
41284363 CATATCTTGT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
46 43 0.44
47 55 0.56
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41297263 original size:24 final size:24
Alignment explanation
Indices: 41297230--41297306 Score: 127
Period size: 24 Copynumber: 3.2 Consensus size: 24
41297220 AAGGCTATCA
*
41297230 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
41297254 GGAGAGGATTTATGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
41297278 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
41297302 GGAGA
1 GGAGA
41297307 ACGGTGTTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.34, C:0.04, G:0.40, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:41298780 original size:27 final size:26
Alignment explanation
Indices: 41298739--41298849 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
41298729 AGGAAGCGTC
* *
41298739 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
41298766 CTTGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
41298793 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* * *
41298820 CTGGTGACTCTGTCACATTATCTATT
1 CTGGTGGCTCTGCCACATTATCTGTT
41298846 CTGG
1 CTGG
41298850 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:41303551 original size:21 final size:21
Alignment explanation
Indices: 41303525--41303589 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
41303515 GATATGGTGT
41303525 TGAAGAGGCCACGTGGGAGCC
1 TGAAGAGGCCACGTGGGAGCC
* ** * *
41303546 TGAAGATGTTA--T-GGTG-T
1 TGAAGAGGCCACGTGGGAGCC
41303563 TGAAGAGGCCACGTGGGAGCC
1 TGAAGAGGCCACGTGGGAGCC
41303584 TGAAGA
1 TGAAGA
41303590 TGTTACGAGA
Statistics
Matches: 30, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
17 8 0.27
18 3 0.10
19 2 0.07
20 3 0.10
21 14 0.47
ACGTcount: A:0.26, C:0.15, G:0.40, T:0.18
Consensus pattern (21 bp):
TGAAGAGGCCACGTGGGAGCC
Found at i:41303568 original size:38 final size:38
Alignment explanation
Indices: 41303517--41303594 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
41303507 GTGGCATCGA
41303517 TATGGTGTTGAAGAGGCCACGTGGGAGCCTGAAGATGT
1 TATGGTGTTGAAGAGGCCACGTGGGAGCCTGAAGATGT
41303555 TATGGTGTTGAAGAGGCCACGTGGGAGCCTGAAGATGT
1 TATGGTGTTGAAGAGGCCACGTGGGAGCCTGAAGATGT
41303593 TA
1 TA
41303595 CGAGACAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.24, C:0.13, G:0.38, T:0.24
Consensus pattern (38 bp):
TATGGTGTTGAAGAGGCCACGTGGGAGCCTGAAGATGT
Found at i:41313489 original size:225 final size:225
Alignment explanation
Indices: 41313137--41313587 Score: 850
Period size: 225 Copynumber: 2.0 Consensus size: 225
41313127 ACGGGCACCA
* *
41313137 GACACGCCCATGAGGTCCAGCATGCCAAAGTAGAGTATACATACTGACTTTTACACACGGCCAAC
1 GACACGCCCATGAGGTCCAGCATGCCAAAATAGAGTATACATACTGAATTTTACACACGGCCAAC
41313202 AGACACGGCCATGTGATACTTAGCTAGCTATTGAATTAAGCCCACAGCCATATGACACGCCCATG
66 AGACACGGCCATGTGATACTTAGCTAGCTATTGAATTAAGCCCACAGCCATATGACACGCCCATG
*
41313267 TGTCTTAACCGTATGGCCTTAA-AGGTTACTGCTTTGCATACACGGCTACAAGGCACGCCCGTGT
131 TGTCTTAACCGTATGGCCTTAAGAGGTTACTGCTTTGCATACACAGCTACAAGGCACGCCCGTGT
41313331 TCACTGACCGTGTGGCACAATGCAGGCTTG
196 TCACTGACCGTGTGGCACAATGCAGGCTTG
41313361 GACACGCCCATGAGGTCCAGCCATGCCAAAATAGAGTATACATACTGAATTTTACACACGGCCAA
1 GACACGCCCATGAGGTCCAG-CATGCCAAAATAGAGTATACATACTGAATTTTACACACGGCCAA
41313426 CAGACACGGCCATGTGATACTTAGCTAGCTATTGAATTAAGCCCACAGCCATATGACACGCCCAT
65 CAGACACGGCCATGTGATACTTAGCTAGCTATTGAATTAAGCCCACAGCCATATGACACGCCCAT
*
41313491 GTGTCTTAACCGTATGGCCTTAAGAGGTTACTGCTTTGCATACATAGCTACAAGGCACGCCCGTG
130 GTGTCTTAACCGTATGGCCTTAAGAGGTTACTGCTTTGCATACACAGCTACAAGGCACGCCCGTG
41313556 TTCACTGACCGTGTGGCACAATGCAGGCTTG
195 TTCACTGACCGTGTGGCACAATGCAGGCTTG
41313587 G
1 G
41313588 TTTAAGCCAA
Statistics
Matches: 221, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
224 20 0.09
225 130 0.59
226 71 0.32
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (225 bp):
GACACGCCCATGAGGTCCAGCATGCCAAAATAGAGTATACATACTGAATTTTACACACGGCCAAC
AGACACGGCCATGTGATACTTAGCTAGCTATTGAATTAAGCCCACAGCCATATGACACGCCCATG
TGTCTTAACCGTATGGCCTTAAGAGGTTACTGCTTTGCATACACAGCTACAAGGCACGCCCGTGT
TCACTGACCGTGTGGCACAATGCAGGCTTG
Found at i:41314470 original size:42 final size:42
Alignment explanation
Indices: 41314369--41314505 Score: 131
Period size: 43 Copynumber: 3.2 Consensus size: 42
41314359 GTCCCGGACG
* *
41314369 TGGTCTTACATGTAATTCAG-TATCGATGCCTCTGTCCCAA-A
1 TGGTCTTACATGTAAATCAGATA-CGATGCCTATGTCCCAACA
* *
41314410 TAGGGTTTTACACG-AAATCAGATACGATGCCTATGTCCCAACA
1 T--GGTCTTACATGTAAATCAGATACGATGCCTATGTCCCAACA
* *
41314453 TGGTCTTACATGTAAATCTCAAAT-CG-TGGCCTATGGCCCAACA
1 TGGTCTTACATGTAAA--TCAGATACGAT-GCCTATGTCCCAACA
41314496 TGGTCTTACA
1 TGGTCTTACA
41314506 CGATATCTCA
Statistics
Matches: 80, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
41 10 0.12
42 26 0.32
43 39 0.49
44 5 0.06
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (42 bp):
TGGTCTTACATGTAAATCAGATACGATGCCTATGTCCCAACA
Found at i:41318016 original size:40 final size:40
Alignment explanation
Indices: 41317958--41318125 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
41317948 TCTTCGGTAT
*
41317958 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
41317997 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTTGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * *
41318037 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTC
* * *
41318077 ATAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
41318117 TTAGTCCGG
1 TTAGCCCGG
41318126 TTATCATCCG
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.05
40 102 0.93
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:41332099 original size:17 final size:16
Alignment explanation
Indices: 41332061--41332102 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
41332051 TTTGTACTAT
*
41332061 TACTGAAACTGAACCC
1 TACTGAAACTGAACCA
41332077 TAACTGAAACTGAACCAA
1 T-ACTGAAACTGAACC-A
41332095 TACTGAAA
1 TACTGAAA
41332103 TGGGCTTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.19
Consensus pattern (16 bp):
TACTGAAACTGAACCA
Found at i:41343442 original size:40 final size:40
Alignment explanation
Indices: 41343387--41343609 Score: 261
Period size: 40 Copynumber: 5.5 Consensus size: 40
41343377 TATTCGGATG
41343387 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
41343427 ATATCCGGGCTAAGTCCCGAAGGCATTTGT-CTGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--A--AGTTACT
* ** * *
41343470 ATACCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
41343510 ATATTCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
41343550 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
41343590 ATATCC-GGCTAAATCCCGAA
1 ATATCCGGGCTAAGTCCCGAA
41343610 TATACTTGGG
Statistics
Matches: 160, Mismatches: 18, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
39 13 0.08
40 112 0.70
41 1 0.01
43 33 0.21
44 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:41343530 original size:83 final size:79
Alignment explanation
Indices: 41343391--41343609 Score: 246
Period size: 83 Copynumber: 2.7 Consensus size: 79
41343381 CGGATGATAT
** *
41343391 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT-T
1 CCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTAT
*
41343455 GTCTGAGTAGTTGCTATAC
66 G-CT-AGT-G--ACTATAC
* *
41343474 CCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATTCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT-A
*
41343539 TGCTAGTGACTATAT
65 TGCTAGTGACTATAC
* ** * *
41343554 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAA
1 CCGGGCTAAGTCCCGAAGGCATTCATGCAAG-TGACTATATCCGGGCTAAGTCCCGAA
41343610 TATACTTGGG
Statistics
Matches: 120, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
79 13 0.11
80 39 0.32
81 2 0.02
82 1 0.01
83 61 0.51
84 2 0.02
85 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTAT
GCTAGTGACTATAC
Found at i:41351566 original size:47 final size:47
Alignment explanation
Indices: 41351512--41351705 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
41351502 TTAGGATTTT
** * *
41351512 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
41351559 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
41351606 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
41351653 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
41351700 ATGTGA
1 ATGTGA
41351706 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:41351612 original size:22 final size:22
Alignment explanation
Indices: 41351541--41351612 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
41351531 GTATATATGA
41351541 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
41351563 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
41351588 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
41351610 GAT
1 GAT
41351613 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:41351661 original size:25 final size:25
Alignment explanation
Indices: 41351586--41351661 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
41351576 ATGCATATAT
41351586 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
41351611 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
41351633 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
41351658 GTGA
1 GTGA
41351662 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:41351834 original size:98 final size:96
Alignment explanation
Indices: 41351676--41351859 Score: 316
Period size: 98 Copynumber: 1.9 Consensus size: 96
41351666 GAACATGCAT
*
41351676 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
41351741 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
41351772 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
41351836 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
41351860 GGCGATGTGC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 2 0.02
98 53 0.64
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:41351875 original size:50 final size:48
Alignment explanation
Indices: 41351675--41351859 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
41351665 TGAACATGCA
41351675 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
41351723 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
41351771 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
41351821 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
41351860 GGCGATGTGC
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 81 0.63
49 4 0.03
50 41 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:41352055 original size:37 final size:37
Alignment explanation
Indices: 41352005--41352076 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
41351995 GGAAATATAT
*
41352005 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTA
*
41352042 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
41352077 CTTCTGAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTA
Found at i:41353508 original size:40 final size:40
Alignment explanation
Indices: 41353345--41353496 Score: 232
Period size: 40 Copynumber: 3.8 Consensus size: 40
41353335 GAGAATTGAG
*
41353345 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
41353385 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
41353425 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* * * **
41353465 GGTGTTATATCCGGGCTCGGTCCCGAAGAGCA
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCA
41353497 ATCATGCTGG
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:41363757 original size:14 final size:15
Alignment explanation
Indices: 41363738--41363766 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41363728 ACACATTTGG
41363738 CTTTTAATTT-TTTT
1 CTTTTAATTTATTTT
41363752 CTTTTAATTTATTTT
1 CTTTTAATTTATTTT
41363767 ACCCCTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (15 bp):
CTTTTAATTTATTTT
Found at i:41375233 original size:47 final size:45
Alignment explanation
Indices: 41375176--41375348 Score: 220
Period size: 47 Copynumber: 3.7 Consensus size: 45
41375166 TGTGAATGTG
*
41375176 TATATATGATAAGGCCGAATGATGCCAATGTGATGAATGAACATGCA
1 TATATGTGATAAGGCCGAATG--GCCAATGTGATGAATGAACATGCA
*
41375223 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAA--TGAACATGCA
* *
41375270 TATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATG-A-ATGAACATGCA
* * *
41375317 TATATGTGGTAAAGCCGAAATGGCTAATGTGA
1 TATATGTGATAAGGCCG-AATGGCCAATGTGA
41375349 ATATGTATAT
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
45 14 0.13
47 83 0.75
48 13 0.12
49 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (45 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGAACATGCA
Found at i:41375303 original size:25 final size:25
Alignment explanation
Indices: 41375228--41375303 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
41375218 ATGCATATAT
41375228 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
41375253 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
41375275 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
41375300 GTGA
1 GTGA
41375304 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:41375382 original size:36 final size:38
Alignment explanation
Indices: 41375317--41375393 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 38
41375307 TGAACATGCA
41375317 TATATGTGGTAAAGCCGAAATGGCTAATGTG-AATATG
1 TATATGTGGTAAAGCCGAAATGGCTAATGTGAAATATG
41375354 TATATGTGGTAAAGCCG-AATGGCTAATGTGAAATATG
1 TATATGTGGTAAAGCCGAAATGGCTAATGTGAAATATG
41375391 TAT
1 TAT
41375394 GAGATATGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 13 0.33
37 26 0.67
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (38 bp):
TATATGTGGTAAAGCCGAAATGGCTAATGTGAAATATG
Found at i:41375415 original size:46 final size:46
Alignment explanation
Indices: 41375359--41375489 Score: 158
Period size: 46 Copynumber: 2.7 Consensus size: 46
41375349 ATATGTATAT
41375359 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATA
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA-ATGCATA
* *
41375406 -TGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGAATGTATA
1 GTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATGTATGAGAATGCATA
*
41375455 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 -GTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
41375490 GGCGATGTGC
Statistics
Matches: 72, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
45 1 0.01
46 22 0.31
47 6 0.08
48 2 0.03
49 8 0.11
50 11 0.15
51 21 0.29
52 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.29
Consensus pattern (46 bp):
GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAATGCATA
Found at i:41375468 original size:51 final size:52
Alignment explanation
Indices: 41375349--41375486 Score: 184
Period size: 51 Copynumber: 2.8 Consensus size: 52
41375339 GCTAATGTGA
*
41375349 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAG
*
41375397 ATATGCATA--TGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATATGAG
*
41375447 A-ATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
41375487 GTAGGCGATG
Statistics
Matches: 78, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
45 1 0.01
46 22 0.28
48 9 0.12
49 7 0.09
50 11 0.14
51 27 0.35
52 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.30
Consensus pattern (52 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAG
Found at i:41375510 original size:51 final size:49
Alignment explanation
Indices: 41375353--41375510 Score: 155
Period size: 51 Copynumber: 3.2 Consensus size: 49
41375343 ATGTGAATAT
*
41375353 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA-GAGATGTGC
* * * * *
41375403 --ATA--TGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGAAT
1 GTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATGTAGAGATGTG--C
* *
41375450 GTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATGTGC
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA-GAGATGTGC
41375500 GTATATTGTGG
1 GTATA-TGTGG
41375511 CCGAACGACC
Statistics
Matches: 85, Mismatches: 13, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
45 5 0.06
46 30 0.35
48 3 0.04
49 3 0.04
50 5 0.06
51 34 0.40
52 5 0.06
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGAGATGTGC
Found at i:41375524 original size:97 final size:96
Alignment explanation
Indices: 41375351--41375529 Score: 243
Period size: 97 Copynumber: 1.8 Consensus size: 96
41375341 TAATGTGAAT
*
41375351 ATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGGTAAAGCC
1 ATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATATGCATATGGT-AAGCC
* **
41375416 GAATGGTCAATGTGAAATATATATATATGAGA
65 GAACGACCAATGTGAAATATATATATATGAGA
* * * * *
41375448 ATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATGTGCGTATATTGT-GGC
1 ATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATATGC--ATATGGTAAGC
41375512 CGAACGACCAATGTGAAA
64 CGAACGACCAATGTGAAA
41375530 GGTGTGTATT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
97 65 0.92
99 6 0.08
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.28
Consensus pattern (96 bp):
ATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATATGCATATGGTAAGCCG
AACGACCAATGTGAAATATATATATATGAGA
Found at i:41377168 original size:40 final size:40
Alignment explanation
Indices: 41376966--41377156 Score: 312
Period size: 40 Copynumber: 4.8 Consensus size: 40
41376956 GAGAATTGAG
*
41376966 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
41377006 AGTGATGTATCC-GGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
41377045 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
41377085 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
41377125 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
41377157 ATCATGCTGG
Statistics
Matches: 141, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 39 0.28
40 102 0.72
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:41381232 original size:47 final size:47
Alignment explanation
Indices: 41381178--41381371 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
41381168 TTAGGATTTT
** * *
41381178 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
41381225 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
41381272 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
41381319 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
41381366 ATGTGA
1 ATGTGA
41381372 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:41381278 original size:22 final size:22
Alignment explanation
Indices: 41381207--41381278 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
41381197 GTATATATGA
41381207 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
41381229 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
41381254 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
41381276 GAT
1 GAT
41381279 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:41381327 original size:25 final size:25
Alignment explanation
Indices: 41381252--41381327 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
41381242 ATGCATATAT
41381252 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
41381277 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
41381299 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
41381324 GTGA
1 GTGA
41381328 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:41381500 original size:98 final size:96
Alignment explanation
Indices: 41381342--41381525 Score: 316
Period size: 98 Copynumber: 1.9 Consensus size: 96
41381332 GAACATGCAT
*
41381342 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
41381407 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
41381438 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
41381502 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
41381526 GGCGATGCGC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 2 0.02
98 53 0.64
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:41381501 original size:50 final size:48
Alignment explanation
Indices: 41381341--41381525 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
41381331 TGAACATGCA
41381341 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
41381389 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
41381437 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
41381487 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
41381526 GGCGATGCGC
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 81 0.63
49 4 0.03
50 41 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:41381721 original size:37 final size:37
Alignment explanation
Indices: 41381671--41381742 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
41381661 GGAAATATAT
*
41381671 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTA
*
41381708 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
41381743 CGTCTGAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTA
Found at i:41389624 original size:10 final size:10
Alignment explanation
Indices: 41389609--41389644 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
41389599 ATACCAGTGA
41389609 TTCTGTATTG
1 TTCTGTATTG
41389619 TTCTGTATTG
1 TTCTGTATTG
*
41389629 TTCTGTAATG
1 TTCTGTATTG
41389639 TTCTGT
1 TTCTGT
41389645 CTGACCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.11, C:0.11, G:0.19, T:0.58
Consensus pattern (10 bp):
TTCTGTATTG
Found at i:41392208 original size:19 final size:19
Alignment explanation
Indices: 41392184--41392222 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
41392174 GTTCATACAC
41392184 ATAGAATCAAATACCACAT
1 ATAGAATCAAATACCACAT
**
41392203 ATAGAATCATCTACCACAT
1 ATAGAATCAAATACCACAT
41392222 A
1 A
41392223 GGTATCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.23
Consensus pattern (19 bp):
ATAGAATCAAATACCACAT
Found at i:41399864 original size:40 final size:40
Alignment explanation
Indices: 41399820--41399897 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
41399810 TCGTGCCTCA
*
41399820 TGTAGCCGAAGCTATTCCAACTCGCACAATTAGTGCCATT
1 TGTAGCCGAAGCTATTCCAACTCGCACAATTACTGCCATT
* *
41399860 TGTAGCCGAAGTTATTCCAACTCGCACACTTACTGCCA
1 TGTAGCCGAAGCTATTCCAACTCGCACAATTACTGCCA
41399898 AACTTAATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (40 bp):
TGTAGCCGAAGCTATTCCAACTCGCACAATTACTGCCATT
Found at i:41401017 original size:18 final size:18
Alignment explanation
Indices: 41400991--41401026 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
41400981 CTAACTCAAA
*
41400991 TTTATGGATGTTCGTCCC
1 TTTAGGGATGTTCGTCCC
41401009 TTTAGGGATGTTCGTCCC
1 TTTAGGGATGTTCGTCCC
41401027 CGAAAATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.22, G:0.25, T:0.42
Consensus pattern (18 bp):
TTTAGGGATGTTCGTCCC
Found at i:41404938 original size:43 final size:43
Alignment explanation
Indices: 41404890--41405121 Score: 401
Period size: 43 Copynumber: 5.4 Consensus size: 43
41404880 CCGGCATTAC
*
41404890 GCCTGCTAGGCACGAAGGTCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
41404933 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
41404976 GCCTGCTAGGAACAAAGGCCCGAATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
41405019 GCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
41405062 GCCTGCTATGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
41405105 GCCTGCTAGGTACGAAG
1 GCCTGCTAGGCACGAAG
41405122 CCTGCTAGGC
Statistics
Matches: 177, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 177 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:41405121 original size:16 final size:16
Alignment explanation
Indices: 41405097--41405142 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
41405087 ACACATCACC
41405097 GGCACGAAGCCTGCTA
1 GGCACGAAGCCTGCTA
*
41405113 GGTACGAAGCCTGCTA
1 GGCACGAAGCCTGCTA
41405129 GGCACGAAGGCCTG
1 GGCACGAA-GCCTG
41405143 AATATACATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 22 0.81
17 5 0.19
ACGTcount: A:0.24, C:0.28, G:0.35, T:0.13
Consensus pattern (16 bp):
GGCACGAAGCCTGCTA
Found at i:41405126 original size:59 final size:59
Alignment explanation
Indices: 41405054--41405180 Score: 209
Period size: 59 Copynumber: 2.2 Consensus size: 59
41405044 ACACATCACC
* *
41405054 GGCACGAAGCCTGCTATGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAAGCCTGCTA
* * *
41405113 GGTACGAAGCCTGCTAGGCACGAAGGCCTGAATATACATCACCGACACGAAGCCTGCTA
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAAGCCTGCTA
41405172 GGCACGAAG
1 GGCACGAAG
41405181 GCCCGAATAC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.30, C:0.31, G:0.27, T:0.13
Consensus pattern (59 bp):
GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAAGCCTGCTA
Found at i:41405152 original size:102 final size:102
Alignment explanation
Indices: 41405011--41405223 Score: 372
Period size: 102 Copynumber: 2.1 Consensus size: 102
41405001 ATACATCACC
* *
41405011 GGCACGAAGCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTATGCACG
1 GGCACGAAGCCTACTAGGCACGAAGGCCCGAATACACATCACCGACACGAAGCCTGCTAGGCACG
41405076 AAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
66 AAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
* * * *
41405113 GGTACGAAGCCTGCTAGGCACGAAGGCCTGAATATACATCACCGACACGAAGCCTGCTAGGCACG
1 GGCACGAAGCCTACTAGGCACGAAGGCCCGAATACACATCACCGACACGAAGCCTGCTAGGCACG
41405178 AAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
66 AAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
41405215 GGCACGAAG
1 GGCACGAAG
41405224 GCCCAAATAT
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 104 1.00
ACGTcount: A:0.31, C:0.32, G:0.26, T:0.11
Consensus pattern (102 bp):
GGCACGAAGCCTACTAGGCACGAAGGCCCGAATACACATCACCGACACGAAGCCTGCTAGGCACG
AAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
Found at i:41405163 original size:43 final size:43
Alignment explanation
Indices: 41405116--41405232 Score: 198
Period size: 43 Copynumber: 2.7 Consensus size: 43
41405106 CCTGCTAGGT
* *
41405116 ACGAAGCCTGCTAGGCACGAAGGCCTGAATATACATCACCGAC
1 ACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGAC
*
41405159 ACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGC
1 ACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGAC
*
41405202 ACGAAGCCTGCTAGGCACGAAGGCCCAAATA
1 ACGAAGCCTGCTAGGCACGAAGGCCCGAATA
41405233 TAATACCAGC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.32, C:0.32, G:0.25, T:0.11
Consensus pattern (43 bp):
ACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGAC
Found at i:41405189 original size:145 final size:145
Alignment explanation
Indices: 41404971--41405232 Score: 461
Period size: 145 Copynumber: 1.8 Consensus size: 145
41404961 CATCACCGGC
*
41404971 ACGAAGCCTGCTAGGAACAAAGGCCCGAATATACATCACCGGCACGAAGCCTACTAGGCACGAAG
1 ACGAAGCCTGCTAGGAACAAAGGCCCGAATATACATCACCGACACGAAGCCTACTAGGCACGAAG
* *
41405036 GCCCGAATACACATCACCGGCACGAAGCCTGCTATGCACGAAGGCCCGAATACACATCACCGGCA
66 GCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCA
41405101 CGAAGCCTGCTAGGT
131 CGAAGCCTGCTAGGT
* * * *
41405116 ACGAAGCCTGCTAGGCACGAAGGCCTGAATATACATCACCGACACGAAGCCTGCTAGGCACGAAG
1 ACGAAGCCTGCTAGGAACAAAGGCCCGAATATACATCACCGACACGAAGCCTACTAGGCACGAAG
41405181 GCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATA
66 GCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATA
41405233 TAATACCAGC
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
145 110 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.11
Consensus pattern (145 bp):
ACGAAGCCTGCTAGGAACAAAGGCCCGAATATACATCACCGACACGAAGCCTACTAGGCACGAAG
GCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCA
CGAAGCCTGCTAGGT
Found at i:41405281 original size:38 final size:38
Alignment explanation
Indices: 41405230--41405348 Score: 157
Period size: 38 Copynumber: 3.1 Consensus size: 38
41405220 GAAGGCCCAA
* * * * *
41405230 ATATAATACCAGCACTAGGCCTACGGGATTTATCCCTG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
41405268 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
**
41405306 ATATTTTACCAGCACGAAGCCTGCGGGTATTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
41405346 ATA
1 ATA
41405349 CACATCAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 58 0.81
39 6 0.08
40 8 0.11
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:41411362 original size:40 final size:40
Alignment explanation
Indices: 41411318--41411395 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
41411308 TAGTGCCTCA
*
41411318 TGTAGCCGAAGCTATTCCAACTCGCACAATTAGTGCCATT
1 TGTAGCCGAAGCTATTCCAACTCGCACAATTACTGCCATT
* *
41411358 TGTAGCCGAAGTTATTCCAACTCGCACACTTACTGCCA
1 TGTAGCCGAAGCTATTCCAACTCGCACAATTACTGCCA
41411396 AACTTAATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (40 bp):
TGTAGCCGAAGCTATTCCAACTCGCACAATTACTGCCATT
Found at i:41423481 original size:43 final size:43
Alignment explanation
Indices: 41423433--41423538 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 43
41423423 TCCCAAATAT
* * * *
41423433 GGTCTTACATGTTATCACATATCGATGCCACTGTCCAAGACAG
1 GGTCTTACACGTAATCACATAACGATGCCAATGTCCAAGACAG
* * * * * *
41423476 GGTCTTATACGAAATCATATAACGATGCTAATGTCCCAGACAT
1 GGTCTTACACGTAATCACATAACGATGCCAATGTCCAAGACAG
41423519 GGTCTTACACGTAATCACAT
1 GGTCTTACACGTAATCACAT
41423539 CTCAGTAAAC
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATAACGATGCCAATGTCCAAGACAG
Found at i:41425540 original size:18 final size:19
Alignment explanation
Indices: 41425508--41425543 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
41425498 TGCGTTCTTG
41425508 TGTTTACTTTGTAAAACAT
1 TGTTTACTTTGTAAAACAT
*
41425527 TGTTT-CTTTTTAAAACA
1 TGTTTACTTTGTAAAACA
41425544 CGAGTTCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (19 bp):
TGTTTACTTTGTAAAACAT
Found at i:41426286 original size:27 final size:27
Alignment explanation
Indices: 41426228--41426287 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
41426218 ATATATCTCA
* *
41426228 TAGGCGCATAACAGTCATTTTATCATG
1 TAGGGGCATAACAATCATTTTATCATG
* *
41426255 CAGGGGCATAATAATCATTTTATCGAT-
1 TAGGGGCATAACAATCATTTTATC-ATG
41426282 TAGGGG
1 TAGGGG
41426288 TCCAGGTACA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (27 bp):
TAGGGGCATAACAATCATTTTATCATG
Found at i:41428560 original size:21 final size:21
Alignment explanation
Indices: 41428536--41428617 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
41428526 CTAGGAACTA
*
41428536 TGTGATCTGAACTCATTGAGT
1 TGTGATCTGAGCTCATTGAGT
* * *
41428557 TGTGGTCTGAGTTCA-TGATAT
1 TGTGATCTGAGCTCATTGA-GT
41428578 ATGTGACATCTGAGCTCATTGAGT
1 -TGTG--ATCTGAGCTCATTGAGT
* *
41428602 TGTGGTCTGAGTTCAT
1 TGTGATCTGAGCTCAT
41428618 GACGTTTGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
20 3 0.06
21 23 0.49
22 4 0.09
23 4 0.09
24 10 0.21
25 3 0.06
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.39
Consensus pattern (21 bp):
TGTGATCTGAGCTCATTGAGT
Found at i:41430877 original size:47 final size:47
Alignment explanation
Indices: 41430804--41430933 Score: 175
Period size: 40 Copynumber: 2.9 Consensus size: 47
41430794 ATTTGAAGGC
41430804 ATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTAGGA
1 ATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTAGGA
* *
41430851 ATTTGTGCGAGTTACTATATCTGGGCTAGGTCCC----G-A--AGGA
1 ATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTAGGA
* *
41430891 ATTTGTGCGAGTTACTATAACCGAGCTAAGTCCCGAAGGCATT
1 ATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
41430934 TGAGTGAGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
40 34 0.49
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
47 32 0.46
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (47 bp):
ATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTAGGA
Found at i:41430902 original size:40 final size:40
Alignment explanation
Indices: 41430847--41430968 Score: 140
Period size: 40 Copynumber: 3.1 Consensus size: 40
41430837 CGAAGGCATT
* * * *
41430847 AGGAATTTGTGCGAGTTACTATATCTGGGCTAGGTCCCGA
1 AGGAATTTGTGCGAGTTACTATAACCGAGCTAAGTCCCGA
41430887 AGGAATTTGTGCGAGTTACTATAACCGAGCTAAGTCCCGA
1 AGGAATTTGTGCGAGTTACTATAACCGAGCTAAGTCCCGA
* * * * *
41430927 AGGCATTTGAGTGAG-TAGCTATATCCG-GCTAAATCCCGA
1 AGGAATTTGTGCGAGTTA-CTATAACCGAGCTAAGTCCCGA
41430966 AGG
1 AGG
41430969 TACTTGGTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
39 16 0.22
40 56 0.78
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (40 bp):
AGGAATTTGTGCGAGTTACTATAACCGAGCTAAGTCCCGA
Found at i:41438874 original size:40 final size:40
Alignment explanation
Indices: 41438819--41439045 Score: 278
Period size: 40 Copynumber: 5.5 Consensus size: 40
41438809 CGGATGATAA
41438819 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
41438859 CCGGGGTAAGTCCCGAAGGCATTAGGCATTTGTACGAGTTAGTATAT
1 CCGGGCTAAGTCCC----G-A--AGGCATTTGTGCGAGTTACTATAT
* *
41438906 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
41438946 ACGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
41438986 ACGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
41439026 CC-GGCTAAATCCCGAAGGCA
1 CCGGGCTAAGTCCCGAAGGCA
41439046 CTTGGTTAGG
Statistics
Matches: 165, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 19 0.12
40 108 0.65
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
47 34 0.21
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:41444375 original size:125 final size:125
Alignment explanation
Indices: 41444153--41444401 Score: 399
Period size: 125 Copynumber: 2.0 Consensus size: 125
41444143 TATGTTGCGC
* *
41444153 CGATATAGATCAGATCCTTCACATGTGATTTCACTGACAGAAGTTAAGATTTAACCAGATATGAC
1 CGATATACATCAGATCCTTCACATGTGATTTCACTGACAGAAGTTAAGATTCAACCAGATATGAC
* *
41444218 TTATGGTGAGGAACAGGTTAAGATTTTGGCACGAGAAGTTAAACAATTGAGAAACAAAAT
66 TTATGGTGAGGAACAAGTTAAGATTTTGGCACGAGAAGTTAAAAAATTGAGAAACAAAAT
* * * * **
41444278 CGATATACATCAGATCCTTCACATGTGATTTCATTGACAGCAGTTGAGATTCGACTGGATATGAC
1 CGATATACATCAGATCCTTCACATGTGATTTCACTGACAGAAGTTAAGATTCAACCAGATATGAC
*
41444343 TTATGGTGAGGAGCAAGTTAAGATTTTGGCACGAGAAGTTAAAAAATTGAGAAACAAAA
66 TTATGGTGAGGAACAAGTTAAGATTTTGGCACGAGAAGTTAAAAAATTGAGAAACAAAA
41444402 GCATTGCCTT
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 113 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (125 bp):
CGATATACATCAGATCCTTCACATGTGATTTCACTGACAGAAGTTAAGATTCAACCAGATATGAC
TTATGGTGAGGAACAAGTTAAGATTTTGGCACGAGAAGTTAAAAAATTGAGAAACAAAAT
Found at i:41448224 original size:37 final size:37
Alignment explanation
Indices: 41448165--41448273 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
41448155 AGCTCAGAAG
* *
41448165 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
41448202 AAATCTTCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
41448239 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
41448274 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:41448477 original size:50 final size:50
Alignment explanation
Indices: 41448422--41448605 Score: 259
Period size: 50 Copynumber: 3.7 Consensus size: 50
41448412 CATCGCCTAC
41448422 ATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACA-TAGACCATTCGGCTTTACCACATATACATATCTCATATAT
* * * * *
41448472 ATATTTCACATTGACCATTCAGTTTTACCACATATGCATATCTC--ATAC
1 ATATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATATAT
41448520 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACA-TAGACCATTCGGCTTTACCACATATACATATCTCATATAT
* *
41448570 ATATTTCACATTGACCATTCGGTTTTACCACATATA
1 ATATTTCACATAGACCATTCGGCTTTACCACATATA
41448606 TGCATGTTCA
Statistics
Matches: 117, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
48 40 0.34
49 6 0.05
50 71 0.61
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.38
Consensus pattern (50 bp):
ATATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:41448535 original size:98 final size:98
Alignment explanation
Indices: 41448419--41448604 Score: 354
Period size: 98 Copynumber: 1.9 Consensus size: 98
41448409 GCACATCGCC
41448419 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
41448484 GACCATTCAGTTTTACCACATATGCATATCTCA
66 GACCATTCAGTTTTACCACATATGCATATCTCA
*
41448517 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
*
41448582 GACCATTCGGTTTTACCACATAT
66 GACCATTCAGTTTTACCACATAT
41448605 ATGCATGTTC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 86 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (98 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
GACCATTCAGTTTTACCACATATGCATATCTCA
Found at i:41448654 original size:47 final size:47
Alignment explanation
Indices: 41448575--41448764 Score: 263
Period size: 47 Copynumber: 4.0 Consensus size: 47
41448565 TATATATATT
* ** * *
41448575 TCACATTGACCATTCGGTTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
41448622 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
41448669 TCACACTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
41448716 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
41448763 TC
1 TC
41448765 GCATAAAATC
Statistics
Matches: 126, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:41457430 original size:48 final size:49
Alignment explanation
Indices: 41457351--41457590 Score: 214
Period size: 49 Copynumber: 4.9 Consensus size: 49
41457341 TAACCAAAGC
* *
41457351 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCAACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
* ***
41457400 TATCTGGTACAC-TAGTAGCCTGCACTTAGTACTACACACGTGGCCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
* * * * ** *
41457448 TATCCGGTACACGTAATAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACC-AAT
* * * * * * * *
41457498 CATTTGATACACGTAATAGCCTGCACTTAGTACGACACACATG-ATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTAC--TACACATGCAAC-CAAT
* * *
41457549 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGC
41457591 GACCTCACAA
Statistics
Matches: 156, Mismatches: 29, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
48 42 0.27
49 49 0.31
50 31 0.20
51 27 0.17
52 7 0.04
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
Found at i:41457530 original size:50 final size:49
Alignment explanation
Indices: 41457351--41457587 Score: 242
Period size: 48 Copynumber: 4.8 Consensus size: 49
41457341 TAACCAAAGC
* * * * * **
41457351 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCAACCAAT
1 TATCTGGTACACGTAATAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
41457400 TATCTGGTACAC-TAGTAGCCTGCACTTAGTACTACACACGTGGCCAAT
1 TATCTGGTACACGTAATAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
41457448 TATCCGGTACACGTAATAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAATAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * * * *
41457498 CATTTGATACACGTAATAGCCTGCACTTAGTACGACACACATGATCACAGT
1 TATCTGGTACACGTAATAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * * *
41457549 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAATAGCCTGCACTTAGTACTACACA
41457588 TGCGACCTCA
Statistics
Matches: 157, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
48 42 0.27
49 42 0.27
50 40 0.25
51 32 0.20
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAATAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:41457577 original size:101 final size:97
Alignment explanation
Indices: 41457351--41457587 Score: 267
Period size: 97 Copynumber: 2.4 Consensus size: 97
41457341 TAACCAAAGC
* * * ** * *
41457351 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCAACCAATTATCTGGTACACTAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCAACCAACCATCTGATACACTAAT
* *
41457416 AGCCTGCACTTAGTACTACACACGTGGCCAAT
66 AGCCTGCACTTAGTACGACACACATGGCCAAT
* * * ** *
41457448 TATCCGGTACACGTAATAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCAACC-AACCATCTGATACAC-TA
* *
41457513 ATAGCCTGCACTTAGTACGACACACATGATCACAGT
64 ATAGCCTGCACTTAGTACGACACACATG-GC-CAAT
* *
41457549 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACA
41457588 TGCGACCTCA
Statistics
Matches: 114, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
97 38 0.33
98 11 0.10
99 27 0.24
100 1 0.01
101 37 0.32
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (97 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCAACCAACCATCTGATACACTAAT
AGCCTGCACTTAGTACGACACACATGGCCAAT
Found at i:41457595 original size:101 final size:98
Alignment explanation
Indices: 41457351--41457595 Score: 285
Period size: 101 Copynumber: 2.5 Consensus size: 98
41457341 TAACCAAAGC
* * * ** * *
41457351 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCAACC-AATTATCTGGTACACTAG
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACACTAA
* *
41457415 TAGCCTGCACTTAGTACTACACACGTGGCCAAT
66 TAGCCTGCACTTAGTACGACACACATGGCCAAT
* * * * * *
41457448 TATCCGGTACACGTAATAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACAC-TA
* *
41457513 ATAGCCTGCACTTAGTACGACACACATGATCACAGT
65 ATAGCCTGCACTTAGTACGACACACATG-GC-CAAT
* *
41457549 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
41457596 CACAATAGAT
Statistics
Matches: 120, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
97 38 0.32
98 11 0.09
99 27 0.22
100 1 0.01
101 43 0.36
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACACTAA
TAGCCTGCACTTAGTACGACACACATGGCCAAT
Found at i:41459290 original size:30 final size:30
Alignment explanation
Indices: 41459246--41459314 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
41459236 TAAAGATAAC
*
41459246 AAGAAAACC-GAATAAAGAAATCCAAGA-TA
1 AAGAAACCCAGAATAAAGAAA-CCAAGAGTA
* *
41459275 GAGAAACCCAGAATAAAGAAACCCAGAGTA
1 AAGAAACCCAGAATAAAGAAACCAAGAGTA
41459305 AAGAAACCCA
1 AAGAAACCCA
41459315 AGATACGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.35
30 22 0.65
ACGTcount: A:0.58, C:0.19, G:0.16, T:0.07
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAACCAAGAGTA
Found at i:41459294 original size:15 final size:15
Alignment explanation
Indices: 41459246--41459314 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
41459236 TAAAGATAAC
*
41459246 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
41459260 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
41459275 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
*
41459290 AAGAAACCCAGAGTA
1 AAGAAACCCAGAATA
41459305 AAGAAACCCA
1 AAGAAACCCA
41459315 AGATACGATA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
14 9 0.19
15 37 0.79
16 1 0.02
ACGTcount: A:0.58, C:0.19, G:0.16, T:0.07
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:41462434 original size:49 final size:49
Alignment explanation
Indices: 41462314--41462536 Score: 279
Period size: 49 Copynumber: 4.5 Consensus size: 49
41462304 CTGGTATGCA
* * *
41462314 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCTGGTACAC-
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
* *
41462362 TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
** * *
41462411 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGGTACACG
* * * * *
41462461 TA-TAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCTGGTACACG
41462511 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
41462537 TGCGACCTCA
Statistics
Matches: 150, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
48 43 0.29
49 60 0.40
50 23 0.15
51 24 0.16
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
Found at i:41462544 original size:100 final size:98
Alignment explanation
Indices: 41462301--41462544 Score: 312
Period size: 100 Copynumber: 2.5 Consensus size: 98
41462291 TAACCAAAGC
* * * ** *
41462301 TATCTGGTATGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCTGGTACACTAG
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACACTAG
41462365 TAGCCTGCACTTAGTACTACACACATGACCAAT
66 TAGCCTGCACTTAGTACTACACACATGACCAAT
* * * * *
41462398 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACAC-TA
* *
41462463 -TAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTGCACTTAGTACTACACACATGA-C-CAAT
* *
41462498 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
41462545 CACAATAGAT
Statistics
Matches: 124, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
97 39 0.31
98 38 0.31
99 3 0.02
100 44 0.35
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (98 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACACTAG
TAGCCTGCACTTAGTACTACACACATGACCAAT
Found at i:41469524 original size:40 final size:41
Alignment explanation
Indices: 41469379--41469524 Score: 174
Period size: 40 Copynumber: 3.6 Consensus size: 41
41469369 GCTCCTCGTT
* * *
41469379 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* * *
41469419 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* * *
41469459 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCA
41469500 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41469525 CATCATTCAA
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 3 0.03
40 75 0.84
41 11 0.12
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
Found at i:41473461 original size:23 final size:23
Alignment explanation
Indices: 41473414--41473472 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
41473404 CCATGTATCA
* * *
41473414 TTGATTTCCTCCTAGTGGTTTCC
1 TTGATTTCCTCTTAGTAGTTCCC
*
41473437 TTGATTTCCTCTTGGTAGTTCCC
1 TTGATTTCCTCTTAGTAGTTCCC
* *
41473460 TTGGTTGCCTCTT
1 TTGATTTCCTCTT
41473473 CTCCCAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.07, C:0.25, G:0.19, T:0.49
Consensus pattern (23 bp):
TTGATTTCCTCTTAGTAGTTCCC
Found at i:41475034 original size:29 final size:29
Alignment explanation
Indices: 41474991--41475186 Score: 225
Period size: 29 Copynumber: 6.8 Consensus size: 29
41474981 AATGTGCTAA
* *
41474991 CGATGGTCGTAACCATCCCTTTTCGTATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
*
41475020 CGATGGTTGTCACCATCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
** * * *
41475049 TAATTGTTGTCACCATCCTTTTTCATAGTT
1 CGATGGTCGTCACCATCCCTTTTCATA-TT
* *
41475079 -GATGGCCGTCACCATCCCTTTTCATAGT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* ** *
41475107 CGATAGTCGAAACTATCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
*
41475136 CGATGGTCGTCACCATCCCTTTTCGTAGTT
1 CGATGGTCGTCACCATCCCTTTTCATA-TT
41475166 -GATGGTCGTCACCATCCCTTT
1 CGATGGTCGTCACCATCCCTTT
41475187 CCGTAGCCTG
Statistics
Matches: 140, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
28 1 0.01
29 135 0.96
30 4 0.03
ACGTcount: A:0.18, C:0.28, G:0.15, T:0.39
Consensus pattern (29 bp):
CGATGGTCGTCACCATCCCTTTTCATATT
Found at i:41475148 original size:87 final size:87
Alignment explanation
Indices: 41474992--41475233 Score: 315
Period size: 87 Copynumber: 2.8 Consensus size: 87
41474982 ATGTGCTAAC
* * * ** * ** * *
41474992 GATGGTCGTAACCATCCCTTTTCGTATTCGATGGTTGTCACCATCCCTTTTCATATTTAATTGTT
1 GATGGTCGTCACCATCCCTTTTCGTAGTCGATAGTTGAAACTATCCCTTTTCATATTCGATGGTC
*
41475057 GTCACCATCCTTTTTCATAGTT
66 GTCACCATCCCTTTTCATAGTT
* * *
41475079 GATGGCCGTCACCATCCCTTTTCATAGTCGATAGTCGAAACTATCCCTTTTCATATTCGATGGTC
1 GATGGTCGTCACCATCCCTTTTCGTAGTCGATAGTTGAAACTATCCCTTTTCATATTCGATGGTC
*
41475144 GTCACCATCCCTTTTCGTAGTT
66 GTCACCATCCCTTTTCATAGTT
* *
41475166 GATGGTCGTCACCATCCCTTTCCGTAGCCTG-TAGTTGAAACTATCCCTTTTCATATTCGATGGT
1 GATGGTCGTCACCATCCCTTTTCGTAGTC-GATAGTTGAAACTATCCCTTTTCATATTCGATGGT
41475230 CGTC
65 CGTC
41475234 TGTAACACCC
Statistics
Matches: 134, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
87 133 0.99
88 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.38
Consensus pattern (87 bp):
GATGGTCGTCACCATCCCTTTTCGTAGTCGATAGTTGAAACTATCCCTTTTCATATTCGATGGTC
GTCACCATCCCTTTTCATAGTT
Found at i:41476037 original size:37 final size:37
Alignment explanation
Indices: 41475987--41476065 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
41475977 TTATTACGAA
* * *
41475987 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
41476024 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
41476061 GTCTT
1 GTCTT
41476066 TTGAGCTCGG
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:41476407 original size:49 final size:49
Alignment explanation
Indices: 41476184--41476645 Score: 794
Period size: 49 Copynumber: 9.6 Consensus size: 49
41476174 CCCTTCGGGA
41476184 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41476231 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41476278 CTTATCACATATGTATACACTTTCACATTC-TCACATCGGCCATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
41476326 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
41476373 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
41476422 CTTATCACGTATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41476471 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41476520 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
41476569 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
41476618 CTTATCACATGTATATACACTTTCACAT
1 CTTATCACATGTATATACACTTTCACAT
41476646 ATGGGTTTAA
Statistics
Matches: 396, Mismatches: 14, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
46 18 0.05
47 82 0.21
48 26 0.07
49 270 0.68
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (49 bp):
CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41482879 original size:40 final size:40
Alignment explanation
Indices: 41482328--41482857 Score: 816
Period size: 40 Copynumber: 13.2 Consensus size: 40
41482318 CCAGCATGAT
* * * * * * *
41482328 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*** * *
41482368 TGCTCTTCGGGGTTTAG-CACGGATATATTACTAGCACGAA
1 TGCTCTTCGGAACTTAGTC-CGGATACATCACTAGCACGAA
41482408 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
41482448 TGCTCTTC-GAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGA-ACTTAGTCCGGATACATCACTAGCACGAA
* * * *
41482488 TGCTCTTTGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
41482528 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
41482568 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
41482608 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
41482648 TGCTCTTC-GAGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGA-ACTTAGTCCGGATACATCACTAGCACGAA
*
41482688 TGCTCTTC-GAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGA-ACTTAGTCCGGATACATCACTAGCACGAA
41482728 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
41482768 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
41482808 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
41482848 TGCTCTTCGG
1 TGCTCTTCGG
41482858 GATTTAGCCC
Statistics
Matches: 458, Mismatches: 26, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
39 5 0.01
40 449 0.98
41 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:41484136 original size:37 final size:37
Alignment explanation
Indices: 41484086--41484164 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
41484076 TTATTACGAA
* * *
41484086 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
41484123 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
41484160 GTCTT
1 GTCTT
41484165 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:41484361 original size:47 final size:47
Alignment explanation
Indices: 41484283--41484862 Score: 977
Period size: 47 Copynumber: 12.4 Consensus size: 47
41484273 CCCTTCGAGA
* * * * * *
41484283 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41484330 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
41484377 CTTATCACAT-TATACACTTTCACA-TCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41484422 C-TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41484468 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41484515 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41484562 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41484609 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41484656 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41484703 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41484750 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41484797 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41484844 CTTATCACATATATACACT
1 CTTATCACATATATACACT
41484863 GTCTTGGCTG
Statistics
Matches: 502, Mismatches: 28, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
44 7 0.01
45 32 0.06
46 32 0.06
47 431 0.86
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41494559 original size:30 final size:30
Alignment explanation
Indices: 41494525--41494584 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
41494515 AAAAAATCAT
*
41494525 ACTTTGGAAAAATTACATTTTTGCCCCTAA
1 ACTTTAGAAAAATTACATTTTTGCCCCTAA
** * *
41494555 ACTTTATCATATTTACATTTTTGCCCCTAA
1 ACTTTAGAAAAATTACATTTTTGCCCCTAA
41494585 GCTCGTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.42
Consensus pattern (30 bp):
ACTTTAGAAAAATTACATTTTTGCCCCTAA
Found at i:41499786 original size:694 final size:694
Alignment explanation
Indices: 41498457--41499846 Score: 2629
Period size: 694 Copynumber: 2.0 Consensus size: 694
41498447 ATTTCAAGTA
*
41498457 AAAAATAAATTTGGTTTCCAAATGGCTTAAAACCTAGCAATGTAGTCCTTAGACCAACTTCAAAT
1 AAAAATAAATTTGGTTTCCAAATGGCTTAAAACCTAGCAATGTAGTCCCTAGACCAACTTCAAAT
41498522 CGTAAAGATAAAGATTTTGGTAGAACTCATTAGAAACATACTCTACTTTTTTAATGACAATCAAA
66 CGTAAAGATAAAGATTTTGGTAGAACTCATTAGAAACATACTCTACTTTTTTAATGACAATCAAA
41498587 TTGATTAAATAAAATAAGATACAAATGGGTTTTTATCCTTTACTAAAATTGAGTACTTTTACTGA
131 TTGATTAAATAAAATAAGATACAAATGGGTTTTTATCCTTTACTAAAATTGAGTACTTTTACTGA
41498652 GCCATTTCTGTAACAGTACGTTTTTATGTCAAATTGAAAAAGTAGTTTTGGGATCATAAATTTGA
196 GCCATTTCTGTAACAGTACGTTTTTATGTCAAATTGAAAAAGTAGTTTTGGGATCATAAATTTGA
*
41498717 GGTTAAATTTTTCATTTTATTATTTTAATAGGGTTTACAGCATTATAGAATTATTATATGAAAAT
261 GGTTAAATTTTTCATTTTATTATTTTAATAGGGTTTACAGCATGATAGAATTATTATATGAAAAT
41498782 TTCGTTAAGAAATTTTACCATTTAAATGCTTAATTCGGTAAAAAGGACTAAATCGCGTAATGCGT
326 TTCGTTAAGAAATTTTACCATTTAAATGCTTAATTCGGTAAAAAGGACTAAATCGCGTAATGCGT
* *
41498847 AAAAGTTGAGTTCTACTTGTTAAAGGTGTTTAAATCATAATAAATAAGAGGTCCTTAAGATGTTA
391 AAAAGTTGAGTTCTAATTGTTAAAGGTGTTTAAATCATAATAAATAAGAGGTACTTAAGATGTTA
41498912 TTAGACGATTGATAGTGGAACTTGACATAGATAACCTTATATTTGATGATTTAAATGTTTTATTA
456 TTAGACGATTGATAGTGGAACTTGACATAGATAACCTTATATTTGATGATTTAAATGTTTTATTA
41498977 CTAAGGTTAATATAGTAATTTATGTATTAAGTTAATAATAAATAAAACCAAAATCATTTTATTCA
521 CTAAGGTTAATATAGTAATTTATGTATTAAGTTAATAATAAATAAAACCAAAATCATTTTATTCA
*
41499042 TCATCTTCCATCTATATTGCCGAAATTGAGAAATAAAAATAAGGGTTTGAAGCTTCCATGATTTT
586 TCATCTTCCATCTATATTGCCGAAATTGAGAAAGAAAAATAAGGGTTTGAAGCTTCCATGATTTT
*
41499107 GGCACATCTTTGGCTTGATTAAGATCAATATAAGCAAATTTTGG
651 GGCACATATTTGGCTTGATTAAGATCAATATAAGCAAATTTTGG
41499151 AAAAATAAATTTGGTTTCCAAATGGCTTAAAACCTAGCAATGTAGTCCCTAGACCAACTTCAAAT
1 AAAAATAAATTTGGTTTCCAAATGGCTTAAAACCTAGCAATGTAGTCCCTAGACCAACTTCAAAT
*
41499216 CGTAAAGATATAGATTTTGGTAGAACTCATTAGAAACATACTCTACTTTTTTAATGACAATCAAA
66 CGTAAAGATAAAGATTTTGGTAGAACTCATTAGAAACATACTCTACTTTTTTAATGACAATCAAA
41499281 TTGATTAAATAAAATAAGATACAAATGGGTTTTTATCCTTTACTAAAATTGAGTACTTTTACTGA
131 TTGATTAAATAAAATAAGATACAAATGGGTTTTTATCCTTTACTAAAATTGAGTACTTTTACTGA
*
41499346 GCCATTTCTGTAACAGT-CTGTTTTTATGTCAAATTGAAAAAGTGGTTTTGGGATCATAAATTTG
196 GCCATTTCTGTAACAGTAC-GTTTTTATGTCAAATTGAAAAAGTAGTTTTGGGATCATAAATTTG
* * **
41499410 AGGTTAAATTTTTTATTTTATTATTTTATTAGGGTTTGTAGCATGATAGAATTATTATATGAAAA
260 AGGTTAAATTTTTCATTTTATTATTTTAATAGGGTTTACAGCATGATAGAATTATTATATGAAAA
*
41499475 TTTCGTTAAGAAATTTTACCGTTTAAATGCTTAATTCGGTAAAAAGGACTAAATCGCGTAATGCG
325 TTTCGTTAAGAAATTTTACCATTTAAATGCTTAATTCGGTAAAAAGGACTAAATCGCGTAATGCG
*
41499540 TAAAAGTTGAGTTCTAATTGTTAAAGGTGTTTAAATCATAATAAATGAGAGGTACTTAAGATGTT
390 TAAAAGTTGAGTTCTAATTGTTAAAGGTGTTTAAATCATAATAAATAAGAGGTACTTAAGATGTT
41499605 ATTAGACGATTGATAGTGGAACTTGACATAGATAACCTTATATTTGATGATTTAAATGTTTTATT
455 ATTAGACGATTGATAGTGGAACTTGACATAGATAACCTTATATTTGATGATTTAAATGTTTTATT
41499670 ACTAAGGTTAATATAGTAATTTATGTATTAAGTTAATAATAAATAAAACCAAAATCATTTTATTC
520 ACTAAGGTTAATATAGTAATTTATGTATTAAGTTAATAATAAATAAAACCAAAATCATTTTATTC
*
41499735 ATCATCTTCCATCTATATTGTCGAAATTGAGAAAGAAAAATAAGGGTTTGAAGCTTCCATGATTT
585 ATCATCTTCCATCTATATTGCCGAAATTGAGAAAGAAAAATAAGGGTTTGAAGCTTCCATGATTT
41499800 TGGCACATATTTGGCTTGATTAAGATCAATATAAGCAAATTTTGG
650 TGGCACATATTTGGCTTGATTAAGATCAATATAAGCAAATTTTGG
41499845 AA
1 AA
41499847 CTAGATCGGT
Statistics
Matches: 680, Mismatches: 15, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
693 1 0.00
694 679 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (694 bp):
AAAAATAAATTTGGTTTCCAAATGGCTTAAAACCTAGCAATGTAGTCCCTAGACCAACTTCAAAT
CGTAAAGATAAAGATTTTGGTAGAACTCATTAGAAACATACTCTACTTTTTTAATGACAATCAAA
TTGATTAAATAAAATAAGATACAAATGGGTTTTTATCCTTTACTAAAATTGAGTACTTTTACTGA
GCCATTTCTGTAACAGTACGTTTTTATGTCAAATTGAAAAAGTAGTTTTGGGATCATAAATTTGA
GGTTAAATTTTTCATTTTATTATTTTAATAGGGTTTACAGCATGATAGAATTATTATATGAAAAT
TTCGTTAAGAAATTTTACCATTTAAATGCTTAATTCGGTAAAAAGGACTAAATCGCGTAATGCGT
AAAAGTTGAGTTCTAATTGTTAAAGGTGTTTAAATCATAATAAATAAGAGGTACTTAAGATGTTA
TTAGACGATTGATAGTGGAACTTGACATAGATAACCTTATATTTGATGATTTAAATGTTTTATTA
CTAAGGTTAATATAGTAATTTATGTATTAAGTTAATAATAAATAAAACCAAAATCATTTTATTCA
TCATCTTCCATCTATATTGCCGAAATTGAGAAAGAAAAATAAGGGTTTGAAGCTTCCATGATTTT
GGCACATATTTGGCTTGATTAAGATCAATATAAGCAAATTTTGG
Found at i:41500225 original size:22 final size:23
Alignment explanation
Indices: 41500200--41500266 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
41500190 CAGCTGGTAT
41500200 GAGCTTACTG-TTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
*
41500222 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
*
41500245 GAGCATACTGCTTATCAGCTCA
1 GAGCTTACTG-TT-TCAGCTCA
41500267 GGAGGAGCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
22 9 0.23
23 20 0.51
24 2 0.05
25 8 0.21
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCAATA
Found at i:41500240 original size:23 final size:23
Alignment explanation
Indices: 41500168--41500280 Score: 86
Period size: 23 Copynumber: 4.8 Consensus size: 23
41500158 TACTATTTTT
* * *
41500168 AGCTCATTGGAGCTTACCATTTC
1 AGCTCAATAGAGCTTACCGTTTC
** *
41500191 AGCT-GGTATGAGCTTACTG-TTC
1 AGCTCAATA-GAGCTTACCGTTTC
41500213 AGCTCAATAGAGCTTACCGTTTC
1 AGCTCAATAGAGCTTACCGTTTC
* *
41500236 AGCTCAATAGAGCATACTGCTTATC
1 AGCTCAATAGAGCTTACCG-TT-TC
**
41500261 AGCTCAGGAGGAGCTTACCG
1 AGCTCAATA-GAGCTTACCG
41500281 ATCATGGCTC
Statistics
Matches: 70, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
22 17 0.24
23 34 0.49
24 2 0.03
25 9 0.13
26 8 0.11
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACCGTTTC
Found at i:41500254 original size:45 final size:45
Alignment explanation
Indices: 41500168--41500254 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 45
41500158 TACTATTTTT
* * ** *
41500168 AGCTCATTGGAGCTTACCATTTCAGCTGGTATGAGCTTACTGTTC
1 AGCTCAATAGAGCTTACCATTTCAGCTAATATGAGCATACTGTTC
*
41500213 AGCTCAATAGAGCTTACCGTTTCAGCTCAATA-GAGCATACTG
1 AGCTCAATAGAGCTTACCATTTCAGCT-AATATGAGCATACTG
41500255 CTTATCAGCT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
45 33 0.94
46 2 0.06
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (45 bp):
AGCTCAATAGAGCTTACCATTTCAGCTAATATGAGCATACTGTTC
Found at i:41502307 original size:46 final size:48
Alignment explanation
Indices: 41502127--41502347 Score: 181
Period size: 46 Copynumber: 4.7 Consensus size: 48
41502117 GGTAAGTTAT
*
41502127 CGATGCCATGTCCCGGACATGGTCTTACACTGGCTA-TCATCATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-ACTCATC-TCGAGGC
* * * *
41502176 TGATGCCACGTCCCAGACATGGTCTTACAGT-G-ACACATCTCGTA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCG-AGGC
* * * *
41502222 CGATG-AATGTCCCAGACAT-GTCTTGCACTGGC-TTACGTCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACT-CATCTCGAGGC
* * * * **
41502268 CAATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAATTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGGC
* * *
41502314 CGATGCCATGTCCCAAATATAGTCTTACACTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC
41502348 TCAAACCAAT
Statistics
Matches: 138, Mismatches: 25, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
44 8 0.06
45 14 0.10
46 58 0.42
47 18 0.13
48 13 0.09
49 27 0.20
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGGC
Found at i:41508558 original size:47 final size:47
Alignment explanation
Indices: 41508504--41508743 Score: 356
Period size: 47 Copynumber: 5.1 Consensus size: 47
41508494 TTAGGATTTT
** * *
41508504 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
41508551 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
41508598 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
41508645 ATGTGATGAATGTGAGCATACATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
41508692 ATGTGGTGAATATGAAC-TGCATATATGAGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
41508738 ATGTGA
1 ATGTGA
41508744 AATATATATA
Statistics
Matches: 176, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
46 28 0.16
47 148 0.84
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:41508579 original size:25 final size:25
Alignment explanation
Indices: 41508551--41508629 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
41508541 CGAATGGCCA
41508551 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
41508576 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
41508598 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
41508623 ATGTGAT
1 ATGTGAT
41508630 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 9 0.22
25 15 0.37
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:41508604 original size:22 final size:22
Alignment explanation
Indices: 41508533--41508651 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
41508523 GTATATATGA
41508533 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
41508555 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
41508580 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
41508602 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
41508627 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
41508649 GAT
1 GAT
41508652 GAATGTGAGC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 19 0.27
23 18 0.25
24 18 0.25
25 16 0.23
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:41508774 original size:50 final size:50
Alignment explanation
Indices: 41508713--41508896 Score: 286
Period size: 50 Copynumber: 3.7 Consensus size: 50
41508703 ATGAACTGCA
*
41508713 TATATGAGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATGAGATATG
*
41508763 TATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
*
41508811 CATATGTGGTAAAGCCGAATGG-TAAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATGAGATATG
*
41508861 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
41508897 GTAGGCGATG
Statistics
Matches: 123, Mismatches: 6, Indels: 10
0.88 0.04 0.07
Matches are distributed among these distances:
47 1 0.01
48 42 0.34
49 4 0.03
50 74 0.60
51 2 0.02
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.30
Consensus pattern (50 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
Found at i:41508822 original size:98 final size:98
Alignment explanation
Indices: 41508714--41508899 Score: 345
Period size: 98 Copynumber: 1.9 Consensus size: 98
41508704 TGAACTGCAT
*
41508714 ATATGAGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGAGGTAAAGCCGAATGGTAAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
41508779 GAATGGCTAATGTGAAATATGTATGAGATATGC
66 GAATGGCTAATGTGAAATATGTATGAGATATGC
*
41508812 ATATGTGGTAAAGCCGAATGGTAAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGAGGTAAAGCCGAATGGTAAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
*
41508877 GAATGGCTAGTGTGAAATATGTA
66 GAATGGCTAATGTGAAATATGTA
41508900 GGCGATGTGC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.30
Consensus pattern (98 bp):
ATATGAGGTAAAGCCGAATGGTAAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
GAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:41508914 original size:50 final size:50
Alignment explanation
Indices: 41508713--41508920 Score: 234
Period size: 50 Copynumber: 4.2 Consensus size: 50
41508703 ATGAACTGCA
* *
41508713 TATATGAGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATAT--G
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGCG
41508763 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC-
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCG
*
41508812 -ATATGTGGTAAAGCCGAATGG-TAAATGTGAAATATATATATGAGATAT--G
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGCG
* * * *
41508861 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATGTGCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCG
41508911 TATATTGTGG
1 TATA-TGTGG
41508921 CCAAACGACC
Statistics
Matches: 138, Mismatches: 8, Indels: 23
0.82 0.05 0.14
Matches are distributed among these distances:
47 1 0.01
48 52 0.38
49 6 0.04
50 72 0.52
51 7 0.05
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (50 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCG
Found at i:41509153 original size:37 final size:37
Alignment explanation
Indices: 41509045--41509153 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
41509035 GGAAATATAT
*
41509045 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
41509082 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * **
41509119 TTCGGGTAAGACCCGATAACTTTGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
41509154 CGTCTGATCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:41512083 original size:79 final size:81
Alignment explanation
Indices: 41511947--41512131 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
41511937 TTGAATGATG
* * *
41511947 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
41512011 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
41512026 TTCCGGGCTAAG-CCCGAAGGCATTTGCGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
41512088 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
41512106 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41512132 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:41512138 original size:40 final size:39
Alignment explanation
Indices: 41511948--41512131 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
41511938 TGAATGATGT
* * * *
41511948 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
41511988 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
41512028 CCGGGCTAAG-CCCGAAGGCATTTGCGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
41512066 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41512107 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
41512132 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41512153 original size:79 final size:79
Alignment explanation
Indices: 41512000--41512164 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
41511990 GGACTAAGAT
* * **
41512000 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGCGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
41512065 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
41512079 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
41512142 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
41512158 CCGAAGG
1 CCGAAGG
41512165 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:41519959 original size:39 final size:41
Alignment explanation
Indices: 41519858--41520043 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 41
41519848 TTGAATGATG
* *
41519858 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
41519898 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
* *
41519938 TCCGGGCTAAG-CCCGAAGGCATTTGCGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
41519977 TCC-GGCTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATA
1 TCCGGGC-TAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
41520017 ACCGGGGCTATGTCCCGAAGGCATTTG
1 TCC-GGGCTAAGTCCCGAAGGCATTTG
41520044 AATGAGTAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 21
0.79 0.07 0.13
Matches are distributed among these distances:
38 3 0.02
39 32 0.26
40 56 0.45
41 29 0.23
42 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:41519994 original size:79 final size:81
Alignment explanation
Indices: 41519858--41520043 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
41519848 TTGAATGATG
* * *
41519858 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
41519922 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * *
41519937 TTCCGGGCTAAG-CCCGAAGGCATTTGCGC-GAGTTACTAAATCCGG-CTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGAC-TAAGAT-CCGAAGGC
*
41519998 AATTGTGCGAGTTACTATA
63 AATTGTGCGAGATACTATA
* *
41520017 ACCGGGGCTATGTCCCGAAGGCATTTG
1 TCC-GGGCTAAGTCCCGAAGGCATTTG
41520044 AATGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
78 2 0.02
79 50 0.55
80 25 0.27
81 14 0.15
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:41521553 original size:40 final size:40
Alignment explanation
Indices: 41521498--41521769 Score: 481
Period size: 40 Copynumber: 6.8 Consensus size: 40
41521488 GAGAATTGAG
*
41521498 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
41521538 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
41521578 AGTGATATATCCGGGCTAAGTCCCAAAGAACATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
41521618 AGTGATGTATCCGGGCTAAGTCCCAAATAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
41521658 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
41521698 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
41521738 AGTGATGTATCCGGACTAAGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
41521770 ATCATGCTGG
Statistics
Matches: 222, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 222 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:41524811 original size:47 final size:47
Alignment explanation
Indices: 41524757--41524903 Score: 195
Period size: 47 Copynumber: 3.1 Consensus size: 47
41524747 TTAGGATTTT
** *
41524757 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * *
41524804 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * *
41524851 ATGTGGTGAATATGAACATGTATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
41524898 ATGTGA
1 ATGTGA
41524904 AATATATATA
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 85 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:41524859 original size:25 final size:25
Alignment explanation
Indices: 41524786--41524859 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 25
41524776 GTATATATGA
*
41524786 GATAAGGCCGAATGGCCAATGTGAT
1 GATAAGGCCGAATGGCCAATGTGGT
* * *
41524811 GA-ATGTG-AGCAT-G-CATATGT-GT
1 GATAAG-GCCGAATGGCCA-ATGTGGT
41524833 GATAAGGCCGAATGGCCAATGTGGT
1 GATAAGGCCGAATGGCCAATGTGGT
41524858 GA
1 GA
41524860 ATATGAACAT
Statistics
Matches: 35, Mismatches: 7, Indels: 14
0.62 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 10 0.29
24 10 0.29
25 9 0.26
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.23
Consensus pattern (25 bp):
GATAAGGCCGAATGGCCAATGTGGT
Found at i:41524983 original size:48 final size:50
Alignment explanation
Indices: 41524873--41525056 Score: 286
Period size: 50 Copynumber: 3.7 Consensus size: 50
41524863 TGAACATGTA
41524873 TATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATG
* *
41524923 TAGATGTGGTAAAGCCGAATGG-CTAATGTG-AA-ATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGTC-AATGTGAAATATATATATGAGATATG
*
41524971 CATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATG
*
41525021 TATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
41525057 GTAGTTGATG
Statistics
Matches: 122, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
48 41 0.34
49 7 0.06
50 74 0.61
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (50 bp):
TATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATG
Found at i:41524988 original size:98 final size:98
Alignment explanation
Indices: 41524874--41525059 Score: 354
Period size: 98 Copynumber: 1.9 Consensus size: 98
41524864 GAACATGTAT
41524874 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTAGATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTAGATGTGGTAAAGCC
41524939 GAATGGCTAATGTGAAATATGTATGAGATATGC
66 GAATGGCTAATGTGAAATATGTATGAGATATGC
*
41524972 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTAGATGTGGTAAAGCC
*
41525037 GAATGGCTAGTGTGAAATATGTA
66 GAATGGCTAATGTGAAATATGTA
41525060 GTTGATGTGC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 86 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (98 bp):
ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTAGATGTGGTAAAGCC
GAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:41525312 original size:37 final size:37
Alignment explanation
Indices: 41525204--41525312 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
41525194 GGAAATATAT
* *
41525204 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTC
41525241 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTC
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTC
* *
41525278 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
41525313 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTC
Found at i:41531372 original size:216 final size:216
Alignment explanation
Indices: 41530998--41531422 Score: 735
Period size: 216 Copynumber: 2.0 Consensus size: 216
41530988 GATATGACCC
* * * *
41530998 GAGGAAGATGATGATCCCTTCCTGTTCTTTGAAATAGAGATGGCGGCTTTCTTTCCTCGTGAAGA
1 GAGGAAGATGATGATCCCTTCCTGTTCTTCGAAATAGAGACGACGACTTTCTTTCCTCGTGAAGA
41531063 CGACATAGTATACCTGTAAGCAAAACCATTAATTTGTCGTGATGAATGTTCAAGGTAAGATGAAA
66 CGACATAGTATACCTGTAAGCAAAACCATTAATTTGTCGTGATGAATGTTCAAGGTAAGATGAAA
* * *
41531128 CAATTTTAAAAAGGAAAATGTAATAAATTAAAATTAATAATCTTAGTCATAACTACTAGCAAACT
131 CAAATTTAAAAAGGAAAAAGTAATAAATTAAAATTAATAATCTTAGTCATAACTACTAGAAAACT
*
41531193 AAATCAAAAACGATAGGACAT
196 AAATAAAAAACGATAGGACAT
* * *
41531214 GAGGAAGATGATGATCCCTTCTTGTTCTTCGAAGTAGGGACGACGACTTTCTTTCCTCGTGAAGA
1 GAGGAAGATGATGATCCCTTCCTGTTCTTCGAAATAGAGACGACGACTTTCTTTCCTCGTGAAGA
41531279 CGACATAGTATACCTGTAAGCAAAACCATTAATTTGTCGTGATGAATGTTCAAGGTAAGATGAAA
66 CGACATAGTATACCTGTAAGCAAAACCATTAATTTGTCGTGATGAATGTTCAAGGTAAGATG-AA
41531344 ACAAATTT-AAAAGGAAAAAGTAATAAATTAAAATTAATAATCTTAGTCATAACTACTAGAAAAC
130 ACAAATTTAAAAAGGAAAAAGTAATAAATTAAAATTAATAATCTTAGTCATAACTACTAGAAAAC
41531408 TAAATAAAAAACGAT
195 TAAATAAAAAACGAT
41531423 TAATTTGATG
Statistics
Matches: 197, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
216 188 0.95
217 9 0.05
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Consensus pattern (216 bp):
GAGGAAGATGATGATCCCTTCCTGTTCTTCGAAATAGAGACGACGACTTTCTTTCCTCGTGAAGA
CGACATAGTATACCTGTAAGCAAAACCATTAATTTGTCGTGATGAATGTTCAAGGTAAGATGAAA
CAAATTTAAAAAGGAAAAAGTAATAAATTAAAATTAATAATCTTAGTCATAACTACTAGAAAACT
AAATAAAAAACGATAGGACAT
Found at i:41532022 original size:13 final size:13
Alignment explanation
Indices: 41532004--41532028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41531994 GTTGGTGCAG
41532004 ACGGCCGTGTCGC
1 ACGGCCGTGTCGC
41532017 ACGGCCGTGTCG
1 ACGGCCGTGTCG
41532029 TCTTTGTTCG
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:0.08, C:0.36, G:0.40, T:0.16
Consensus pattern (13 bp):
ACGGCCGTGTCGC
Found at i:41538825 original size:53 final size:54
Alignment explanation
Indices: 41538631--41538836 Score: 166
Period size: 55 Copynumber: 3.8 Consensus size: 54
41538621 AGGGTTTCAA
* ** * * * *
41538631 GATACCATGTATGACCATGCCAAGGCATGGAAATTGGTAAGGT-TACTAAGGCAAG
1 GATACCATGTAAGACCATGTAAAGACATGG-CATTGGTAAGTTCTA-TAAGGAAAG
* *
41538686 GATACCATGTAAGACCATGTCAAAGACATGGCATTGATAAGCTACTATAAGGCAAAG
1 GATACCATGTAAGACCATGT-AAAGACATGGCATTGGTAAG-TTCTATAAGG-AAAG
* * ** * * *
41538743 G-TCCCACGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGTAAG
1 GATACCATGTAAGACCATGTAAAGACATGGCATTGGTAAGTTCTATAAGGAAAG
** * *
41538795 GATACCATGTAAGACCATGTTGAGATATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGTAAAGACATGGCATTGGTAAGTT
41538837 TCAAAAGGAT
Statistics
Matches: 119, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
52 4 0.03
53 37 0.31
54 2 0.02
55 42 0.35
56 28 0.24
57 6 0.05
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (54 bp):
GATACCATGTAAGACCATGTAAAGACATGGCATTGGTAAGTTCTATAAGGAAAG
Found at i:41545780 original size:55 final size:54
Alignment explanation
Indices: 41545693--41545937 Score: 249
Period size: 55 Copynumber: 4.6 Consensus size: 54
41545683 ATTAGGGTTT
* * * *
41545693 AAGGATACCATGTAAGACCAGGCCAAGGCATGGCAATTGGTAAGGTT-ACTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGATAA-GTTCA-TAAGGA
*
41545748 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATTGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGATAAGTT-C-ATAAGG-A
* *
41545804 AAGG-TCCCATGTAAGACCATGCCAAGGA-ATGGC-ATTGATGAGTTCATAAGGA
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCAATTGATAAGTTCATAAGGA
* * *
41545856 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTT--TAA--A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGATAAGTTCATAAGGA
* * *
41545905 AAGGATACCATGTAATACCATGACAAGTCATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
41545938 AAATAGTAAG
Statistics
Matches: 164, Mismatches: 17, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
49 30 0.18
51 3 0.02
52 7 0.04
53 39 0.24
54 10 0.06
55 68 0.41
56 7 0.04
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGATAAGTTCATAAGGA
Found at i:41546160 original size:16 final size:16
Alignment explanation
Indices: 41546139--41546169 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41546129 GTAAATTTGA
41546139 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
41546155 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
41546170 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:41560464 original size:27 final size:27
Alignment explanation
Indices: 41560427--41560604 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
41560417 TAAATTGTAC
41560427 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
41560454 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
41560480 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
41560508 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
41560536 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
41560563 AGCACTAAGTGTGCGAGTTGA-TGATAT
1 AGCACTAAGTGTGCGATTTGACT-ATGT
*
41560590 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
41560605 GACTCAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 104 0.81
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:41560541 original size:82 final size:81
Alignment explanation
Indices: 41560428--41560583 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
41560418 AAATTGTACA
* *
41560428 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
41560492 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
41560509 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
41560574 TGCGAGTTGA
65 TGCGAATTGA
41560584 TGATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:41560595 original size:82 final size:81
Alignment explanation
Indices: 41560424--41560604 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
41560414 GAGTAAATTG
* *
41560424 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
41560489 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
41560505 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
41560569 AAGTGTGCGAGTTGATGA
64 AAGTGTGCGAATTGACCA
* *
41560587 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
41560605 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:41569675 original size:100 final size:99
Alignment explanation
Indices: 41569486--41569717 Score: 301
Period size: 100 Copynumber: 2.3 Consensus size: 99
41569476 TGTGCCAACG
* *
41569486 CATGTCCAAGACATGGTCTTACACTGGCT-TACA-CATCATAGTCAATGCCATGTCCCAGACGTG
1 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATCATCATAGTCAATGCCATGTCCCAGACATG
41569549 GTCTTACACAGACTCTGGTATATCGAGGCCGATGC
65 GTCTTACACAGACTCTGGTATATCGAGGCCGATGC
* **
41569584 CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCGGT-GTTGATGCCATGTCCCAGACAT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCATC-ATC-ATAGTCAATGCCATGTCCCAGACAT
* * *
41569648 GGTCTTACACTAG-CTCTTGTATCTCGAGGTCGATGC
64 GGTCTTACAC-AGACTCTGGTATATCGAGGCCGATGC
* * *
41569684 TATGTCCCAAACATGGTCTTACACTAGCTCTCAT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCAT
41569718 ATCTCCCTAG
Statistics
Matches: 118, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
98 30 0.25
99 2 0.02
100 83 0.70
101 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (99 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTCATCATCATAGTCAATGCCATGTCCCAGACATGG
TCTTACACAGACTCTGGTATATCGAGGCCGATGC
Found at i:41569722 original size:50 final size:50
Alignment explanation
Indices: 41569486--41569719 Score: 246
Period size: 50 Copynumber: 4.7 Consensus size: 50
41569476 TGTGCCAACG
* * * *
41569486 CATGTCCAAGACATGGTCTTACACTGGCT-TACACATCAT--A-GTCAATGC
1 CATGTCCCAGACATGGTCTTACACTAGCTCT-CATAT-ATCGAGGTCGATGC
* ** *
41569534 CATGTCCCAGACGTGGTCTTACAC-AGACTCTGGTATATCGAGGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTAG-CTCTCATATATCGAGGTCGATGC
* * *
41569584 CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCG-GTGTTGATGC
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAG-GTCGATGC
** *
41569634 CATGTCCCAGACATGGTCTTACACTAGCTCTTGTATCTCGAGGTCGATGC
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGTCGATGC
* *
41569684 TATGTCCCAAACATGGTCTTACACTAGCTCTCATAT
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
41569720 CTCCCTAGCA
Statistics
Matches: 153, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
47 3 0.02
48 26 0.17
49 3 0.02
50 119 0.78
51 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGTCGATGC
Found at i:41572392 original size:15 final size:15
Alignment explanation
Indices: 41572357--41572401 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
41572347 CAAAGATAAC
*
41572357 AAGAAAACCAAG-TA
1 AAGAAATCCAAGATA
41572371 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
*
41572386 GAGAAATCCCAAGATA
1 AAGAAAT-CCAAGATA
41572402 CGATACTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 11 0.41
15 8 0.30
16 8 0.30
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:41575233 original size:46 final size:46
Alignment explanation
Indices: 41575183--41575358 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
41575173 TGGTTGAGCA
41575183 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41575229 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
41575274 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41575322 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41575359 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:41575339 original size:93 final size:93
Alignment explanation
Indices: 41575180--41575351 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
41575170 GGATGGTTGA
* *
41575180 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41575245 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
41575273 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41575338 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
41575352 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41582897 original size:93 final size:92
Alignment explanation
Indices: 41582739--41582909 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
41582729 GGATGGTTGA
* *
41582739 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
41582804 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
41582831 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41582896 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
41582910 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 24 0.32
93 51 0.68
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41582907 original size:46 final size:46
Alignment explanation
Indices: 41582743--41582916 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
41582733 GGTTGAGCAT
* *
41582743 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
41582788 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
41582833 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
41582881 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41582917 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 23 0.21
46 41 0.38
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:41585587 original size:39 final size:39
Alignment explanation
Indices: 41585516--41585659 Score: 173
Period size: 39 Copynumber: 3.7 Consensus size: 39
41585506 ACCAGCTCGA
* * * * *
41585516 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACAT
*
41585555 AGCCTGCGGACCTTAAGTCCGGTTATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
41585594 AGCCTGCGGACCTTAAGTCCAGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
** * *
41585633 AGCCTGTAGACCTTAAGTTCAGATATA
1 AGCCTGCGGACCTTAAGTCCGGATATA
41585660 CTTCATCACT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 3 0.03
39 90 0.97
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:41595419 original size:22 final size:22
Alignment explanation
Indices: 41595394--41595515 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
41595384 TTCCACATCC
41595394 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
41595416 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
41595440 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
41595463 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
41595487 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
41595510 ATCACA
1 ATCACA
41595516 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:41595690 original size:49 final size:47
Alignment explanation
Indices: 41595366--41595830 Score: 641
Period size: 47 Copynumber: 9.8 Consensus size: 47
41595356 CCCTTCGGGA
* * * *
41595366 CTTATCATATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
41595413 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
41595460 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
41595507 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
41595554 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
41595601 CTTATCACACATACACA-TGTACACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
41595648 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
41595697 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
41595746 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
41595793 CTTATCACATATATATACACTTTCACATTCATCACATT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATT
41595831 CCAATGAATA
Statistics
Matches: 385, Mismatches: 27, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 266 0.69
49 117 0.30
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:41597276 original size:56 final size:56
Alignment explanation
Indices: 41597209--41597328 Score: 240
Period size: 56 Copynumber: 2.1 Consensus size: 56
41597199 TATTAGTTTA
41597209 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
41597265 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
41597321 TTGCCCAT
1 TTGCCCAT
41597329 CATCCCTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Done.