Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 144 of 221
Found at i:44134163 original size:119 final size:120
Alignment explanation
Indices: 44133946--44134203 Score: 294
Period size: 119 Copynumber: 2.2 Consensus size: 120
44133936 AAATCACGTA
* * * *
44133946 CCTTCGGAATTTAA-CCGGATATAGCTACTCGTAAAAATGCCTTCGGGACATAGCCCGGTTATAG
1 CCTTCGGGACTTAACCCGGATATAGCTACTCGCAAAAATGCCTTCGGGACATAGCCCGGATATAG
* * *
44134010 TAACTCGCACAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTT-GCACAATTG
66 TAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTTAGCACAA-AG
* * *
44134065 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGGACTTAACCCGGATATAGCT-ACTCGCAAAAATGCCTTCGGGACATAGCCCGGATA-T
* ** * *
44134127 AGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAG
64 AGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAACTTAGCACAAAG
*
44134184 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
44134204 CATCATTCAA
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.03
119 80 0.68
120 34 0.29
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (120 bp):
CCTTCGGGACTTAACCCGGATATAGCTACTCGCAAAAATGCCTTCGGGACATAGCCCGGATATAG
TAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTTAGCACAAAG
Found at i:44142026 original size:40 final size:40
Alignment explanation
Indices: 44141989--44142213 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
44141979 GCTACTCGTT
* *
44141989 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
44142029 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
44142069 CAATTGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
44142109 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
44142148 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
44142189 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
44142214 CATCATTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 116 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:44142173 original size:119 final size:120
Alignment explanation
Indices: 44141989--44142206 Score: 282
Period size: 119 Copynumber: 1.8 Consensus size: 120
44141979 GCTACTCGTT
* *
44141989 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
44142054 ATTTAGTAAC-TCGCACAATTGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAA-AGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
* * **
44142109 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
44142171 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
44142207 GCCCGGACAT
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 59 0.70
120 21 0.25
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
Found at i:44152381 original size:30 final size:30
Alignment explanation
Indices: 44152323--44152385 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
44152313 TGCTTTTTGA
* *
44152323 TAATATTTACAAAAAGAGGCATCTAATTTT
1 TAATATTTACAAAAAGAGGCAACAAATTTT
44152353 TAATATTTACAAAAAGA-GCAACAAAATTTT
1 TAATATTTACAAAAAGAGGCAAC-AAATTTT
44152383 TAA
1 TAA
44152386 AAATATTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (30 bp):
TAATATTTACAAAAAGAGGCAACAAATTTT
Found at i:44157224 original size:28 final size:28
Alignment explanation
Indices: 44157165--44157224 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
44157155 ATCTGGGCTA
* * * * *
44157165 AGCCCTAAGTAGTAATAGTTTGGGCCTG
1 AGCCCTAAGCAGTAACAGTGTAGGCATG
*
44157193 AGCCCTAAGCAGTAACAGTGTAGGCATT
1 AGCCCTAAGCAGTAACAGTGTAGGCATG
44157221 AGCC
1 AGCC
44157225 AAATATAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (28 bp):
AGCCCTAAGCAGTAACAGTGTAGGCATG
Found at i:44157603 original size:27 final size:26
Alignment explanation
Indices: 44157570--44157970 Score: 294
Period size: 27 Copynumber: 15.4 Consensus size: 26
44157560 GGGTATAGCA
44157570 GTCATTTTA-CCTTATAGGGTTATTTCG
1 GTCATTTTACCCTT-TAGGG-TATTTCG
* * *
44157597 GTAATTTTACCCTTTTGGGGTATTTTG
1 GTCATTTTACCC-TTTAGGGTATTTCG
**
44157624 GTCATTTTACCCTTTGAGGGTATTTTA
1 GTCATTTTACCCTTT-AGGGTATTTCG
*
44157651 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTT-TAGGGTATTTCG
* *
44157678 GTCATGTTACCTTTTGAGGGTATTTCG
1 GTCATTTTACCCTTT-AGGGTATTTCG
* * *
44157705 GTCATTTTA-TCTTTCGGGGCATTTCG
1 GTCATTTTACCCTTT-AGGGTATTTCG
* *
44157731 GTCATTTTACCCTTCAGGGTATTTCA
1 GTCATTTTACCCTTTAGGGTATTTCG
*
44157757 GTCATTTTA-CCTTTCGAGGGTATTTTG
1 GTCATTTTACCCTTT--AGGGTATTTCG
* * **
44157784 ATCAGTTTA---TTTCA-GACATTT--
1 GTCATTTTACCCTTT-AGGGTATTTCG
* *
44157805 -T-ATGCTT---C--AAGGGTATTTCG
1 GTCAT-TTTACCCTTTAGGGTATTTCG
*
44157825 GTCATTTTACCCTTTGAGGGTATTTCA
1 GTCATTTTACCCTTT-AGGGTATTTCG
*
44157852 GTCATTTTACCCTTTGAGGGTATTTCA
1 GTCATTTTACCCTTT-AGGGTATTTCG
*
44157879 GTCATTTTACCCTTTAAGGGTGTTTCG
1 GTCATTTTACCCTTT-AGGGTATTTCG
* * *
44157906 GTCATTTTACCCTTCAAGGGTGTTTCA
1 GTCATTTTACCCTT-TAGGGTATTTCG
* *
44157933 GTCATTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCTT-TAGGGTATTTCG
44157960 GTCATTTTACC
1 GTCATTTTACC
44157971 TTTCGAGGGC
Statistics
Matches: 304, Mismatches: 48, Indels: 44
0.77 0.12 0.11
Matches are distributed among these distances:
17 1 0.00
18 5 0.02
19 1 0.00
20 3 0.01
21 3 0.01
22 2 0.01
23 5 0.02
24 2 0.01
25 7 0.02
26 41 0.13
27 226 0.74
28 6 0.02
29 2 0.01
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (26 bp):
GTCATTTTACCCTTTAGGGTATTTCG
Found at i:44157688 original size:81 final size:82
Alignment explanation
Indices: 44157568--44157984 Score: 385
Period size: 81 Copynumber: 5.3 Consensus size: 82
44157558 AGGGGTATAG
* *
44157568 CAGTCATTTTA-CCTT-ATAGGGTTATTTCGGTAATTTTACCCTTTTG-GGGTATTTTGGTCATT
1 CAGTCATTTTACCCTTCA-AGGG-TATTTCGGTCATTTTACCCTTTTGAGGGTATTTCGGTCATT
44157630 TTACCCTTTGAGGGTATTT
64 TTACCCTTTGAGGGTATTT
* * *
44157649 TAGTCATTTTACCCTTCGAGGGTATTTCGGTCATGTTA-CCTTTTGAGGGTATTTCGGTCATTTT
1 CAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTTTTGAGGGTATTTCGGTCATTTT
* *
44157713 A-TCTTTCG-GGGCATTT
66 ACCCTTT-GAGGGTATTT
* * * * * *
44157729 CGGTCATTTTACCCTTC-AGGGTATTTCAGTCATTTTA-CCTTTCGAGGGTATTTTGATCAGTTT
1 CAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTTTTGAGGGTATTTCGGTCATTTT
*
44157792 A---TTTCA--G-A---
66 ACCCTTTGAGGGTATTT
** *
44157800 CA-T--TTT-ATGCTTCAAGGGTATTTCGGTCATTTTACCC-TTTGAGGGTATTTCAGTCATTTT
1 CAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTTTTGAGGGTATTTCGGTCATTTT
44157860 ACCCTTTGAGGGTATTT
66 ACCCTTTGAGGGTATTT
* * ** * *
44157877 CAGTCATTTTACCCTTTAAGGGTGTTTCGGTCATTTTACCC-TTCAAGGGTGTTTCAGTCATTTT
1 CAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTTTTGAGGGTATTTCGGTCATTTT
*
44157941 ACCCTTCGAGGGTATTT
66 ACCCTTTGAGGGTATTT
** * * *
44157958 TGGTCATTTTACCTTTCGAGGGCATTT
1 CAGTCATTTTACCCTTCAAGGGTATTT
44157985 TAGCCATTTT
Statistics
Matches: 275, Mismatches: 41, Indels: 40
0.77 0.12 0.11
Matches are distributed among these distances:
67 5 0.02
68 41 0.15
69 2 0.01
70 1 0.00
71 5 0.02
73 1 0.00
74 2 0.01
75 1 0.00
77 5 0.02
78 1 0.00
79 41 0.15
80 36 0.13
81 126 0.46
82 8 0.03
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (82 bp):
CAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTTTTGAGGGTATTTCGGTCATTTT
ACCCTTTGAGGGTATTT
Found at i:44157975 original size:27 final size:27
Alignment explanation
Indices: 44157791--44157995 Score: 232
Period size: 27 Copynumber: 7.6 Consensus size: 27
44157781 TTGATCAGTT
* ** **
44157791 TATTTCAGACATTTTATGCTTCAAGGG
1 TATTTCAGTCATTTTACCCTTTGAGGG
*
44157818 TATTTCGGTCATTTTACCCTTTGAGGG
1 TATTTCAGTCATTTTACCCTTTGAGGG
44157845 TATTTCAGTCATTTTACCCTTTGAGGG
1 TATTTCAGTCATTTTACCCTTTGAGGG
*
44157872 TATTTCAGTCATTTTACCCTTTAAGGG
1 TATTTCAGTCATTTTACCCTTTGAGGG
* * **
44157899 TGTTTCGGTCATTTTACCCTTCAAGGG
1 TATTTCAGTCATTTTACCCTTTGAGGG
* *
44157926 TGTTTCAGTCATTTTACCCTTCGAGGG
1 TATTTCAGTCATTTTACCCTTTGAGGG
**
44157953 TATTTTGGTCATTTTA-CCTTTCGAGGG
1 TATTTCAGTCATTTTACCCTTT-GAGGG
* * *
44157980 CATTTTAGCCATTTTA
1 TATTTCAGTCATTTTA
44157996 GGCCCATTAC
Statistics
Matches: 157, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 4 0.03
27 153 0.97
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (27 bp):
TATTTCAGTCATTTTACCCTTTGAGGG
Found at i:44171028 original size:18 final size:19
Alignment explanation
Indices: 44171002--44171038 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
44170992 AATTTTGGAA
44171002 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
44171020 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
44171039 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:44174887 original size:30 final size:30
Alignment explanation
Indices: 44174853--44174914 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
44174843 GCTTTTTGAA
*
44174853 AATATTTACAAAAAGAGACATCC-AATTTTT
1 AATATTTACAAAAAGAG-CAACCAAATTTTT
44174883 AATATTTACAAAAAGAGCAACCAAATTTTT
1 AATATTTACAAAAAGAGCAACCAAATTTTT
44174913 AA
1 AA
44174915 AAATAATTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.50, C:0.13, G:0.06, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGCAACCAAATTTTT
Found at i:44175371 original size:28 final size:28
Alignment explanation
Indices: 44175336--44175391 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
44175326 AACTCGATGA
*
44175336 ATCATAAATTGACTGGACCAACTTGATT
1 ATCATAAATTGACTGGACCAACGTGATT
44175364 ATCATAAATTGACTGGACCAACGTGATT
1 ATCATAAATTGACTGGACCAACGTGATT
44175392 TTAACTTACC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (28 bp):
ATCATAAATTGACTGGACCAACGTGATT
Found at i:44179190 original size:50 final size:49
Alignment explanation
Indices: 44179136--44179599 Score: 284
Period size: 50 Copynumber: 9.3 Consensus size: 49
44179126 GAAGTTAAAA
* * * *
44179136 AGATTAAAGCTACAACAGCGAATCTTACATCTCAAGCAGTGCAGCGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACCTC-CAGGCAGTGCAGTGGAAC
* * * * * * * * ** *
44179186 AGATTAAAGCCACATCGGTGAATCTTGCTTCGCTGACATTGCAGTTTAAA
1 AGATTAAAGCCACAACAGCGAATCTTACCTC-CAGGCAGTGCAGTGGAAC
* *
44179236 AGATTAAAGCTACAGCAGCGAATCTTACCTCCTAGGCAGTGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACCTCC-AGGCAGTGCAGTGGAAC
* * * * * * * * ** *
44179286 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAG
1 AGATTAAAGCCACAACAGCGAATCTTACCT-CCAGGCAGTGCAGTGGAAC
*
44179336 AGATTAAAGCTACAACAGCGAATCTTACCTCCCAGGCAGTGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACCT-CCAGGCAGTGCAGTGGAAC
* * * * * * * * * *
44179386 AGATTAAAGCCACAACGGTGAACCTTGCCTTCCTGACATTGCAACT-AAAA
1 AGATTAAAGCCACAACAGCGAATCTTACC-TCCAGGCAGTGC-AGTGGAAC
* * * * *
44179436 AGATTAATGCTACAACAGCGAATCTTACCTCCAAGGCGGTGCAATGGAAT
1 AGATTAAAGCCACAACAGCGAATCTTACCTCC-AGGCAGTGCAGTGGAAC
* * * * * * * ** *
44179486 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAG
1 AGATTAAAGCCACAACAGCGAATCTTACCT-CCAGGCAGTGCAGTGGAAC
* * * **
44179536 AGATTAAAGCTACAACAGGGAATCTTACTTCCCTG-ATGGTGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACCTCCAGGCA--GTGCAGTGGAAC
44179586 AGATTAAAGCCACA
1 AGATTAAAGCCACA
44179600 TCGGTACTCC
Statistics
Matches: 305, Mismatches: 100, Indels: 18
0.72 0.24 0.04
Matches are distributed among these distances:
48 1 0.00
49 9 0.03
50 288 0.94
51 7 0.02
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (49 bp):
AGATTAAAGCCACAACAGCGAATCTTACCTCCAGGCAGTGCAGTGGAAC
Found at i:44179193 original size:100 final size:96
Alignment explanation
Indices: 44179057--44179595 Score: 531
Period size: 100 Copynumber: 5.4 Consensus size: 96
44179047 AGAATTATAG
* * * * * **
44179057 ATCTTATCTCCCAAGCGGTGTAGTGGAACAGATTAAAGCTAAGATGGCGTATCTTGTTTTTTCGA
1 ATCTTACCT-CCAAGCAGTGCAGTGGAACAGATTAAAGC-AA-ATGGTGAATCTTG-TTTCCCGA
* *
44179122 TATTGAAGTTAAAAAGATTAAAGCTACAACAGCGA
62 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * * *
44179157 ATCTTACATCTCAAGCAGTGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCGCTGA
1 ATCTTACCTC-CAAGCAGTGCAGTGGAACAGATTAAAG-CAAAT-GGTGAATCTTGTTTC-CCGA
* *
44179222 CATTGCAGTTTAAAAGATTAAAGCTACAGCAGCGA
62 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * *
44179257 ATCTTACCTCCTAGGCAGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
1 ATCTTACCTCC-AAGCAGTGCAGTGGAACAGATTAAAG-CAAAT-GGTGAATCTTG-TTTCCCGA
*
44179322 CATTGCAGTTAAAGAGATTAAAGCTACAACAGCGA
62 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * * *
44179357 ATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAACCTTGCCTTCCTGA
1 ATCTTACCT-CCAAGCAGTGCAGTGGAACAGATTAAAG-CA-AATGGTGAATCTTG-TTTCCCGA
** *
44179422 CATTGCAACTAAAAAGATTAATGCTACAACAGCGA
62 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * * *
44179457 ATCTTACCTCCAAGGCGGTGCAATGGAATAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA
1 ATCTTACCTCCAA-GCAGTGCAGTGGAACAGATTAAAG-CA-AATGGTGAATCTTG-TTTCCCGA
* *
44179522 CATTGCAGTTAAAGAGATTAAAGCTACAACAGGGA
62 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* **
44179557 ATCTTACTTCCCTG-ATGGTGCAGTGGAACAGATTAAAGC
1 ATCTTACCTCCAAGCA--GTGCAGTGGAACAGATTAAAGC
44179596 CACATCGGTA
Statistics
Matches: 374, Mismatches: 54, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
99 11 0.03
100 357 0.95
101 6 0.02
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (96 bp):
ATCTTACCTCCAAGCAGTGCAGTGGAACAGATTAAAGCAAATGGTGAATCTTGTTTCCCGACATT
GCAGTTAAAAAGATTAAAGCTACAACAGCGA
Found at i:44179424 original size:200 final size:200
Alignment explanation
Indices: 44179123--44179604 Score: 732
Period size: 200 Copynumber: 2.4 Consensus size: 200
44179113 TTTTTTCGAT
* * * * *
44179123 ATTGAAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACATCTCAAGCAGTGCAGCGGAACAG
1 ATTGCAGTTAAAGAGATTAAAGCTACAACAGCGAATCTTACATCCCAGGCAGTGCAGTGGAACAG
* ** * *
44179188 ATTAAAGCCACATCGGTGAATCTTGCTTCGCTGACATTGCAGTTTAAAAGATTAAAGCTACAGCA
66 ATTAAAGCCACATCGGTGAACCTTGCTTCGCTGACATTGCAACTAAAAAGATTAAAGCTACAACA
* * *
44179253 GCGAATCTTACCTCCTAGGCAGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCC
131 GCGAATCTTACCTCCAAGGCAGTGCAATGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCC
44179318 CCGAC
196 CCGAC
*
44179323 ATTGCAGTTAAAGAGATTAAAGCTACAACAGCGAATCTTACCTCCCAGGCAGTGCAGTGGAACAG
1 ATTGCAGTTAAAGAGATTAAAGCTACAACAGCGAATCTTACATCCCAGGCAGTGCAGTGGAACAG
* *
44179388 ATTAAAGCCACAACGGTGAACCTTGCCTTC-CTGACATTGCAACTAAAAAGATTAATGCTACAAC
66 ATTAAAGCCACATCGGTGAACCTTG-CTTCGCTGACATTGCAACTAAAAAGATTAAAGCTACAAC
* *
44179452 AGCGAATCTTACCTCCAAGGCGGTGCAATGGAATAGATTAAAGCCACAACGGTGAATCTTGCTTC
130 AGCGAATCTTACCTCCAAGGCAGTGCAATGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTC
44179517 CCCGAC
195 CCCGAC
* * * ***
44179523 ATTGCAGTTAAAGAGATTAAAGCTACAACAGGGAATCTTACTTCCCTGATGGTGCAGTGGAACAG
1 ATTGCAGTTAAAGAGATTAAAGCTACAACAGCGAATCTTACATCCCAGGCAGTGCAGTGGAACAG
44179588 ATTAAAGCCACATCGGT
66 ATTAAAGCCACATCGGT
44179605 ACTCCTCTAA
Statistics
Matches: 256, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
200 252 0.98
201 4 0.02
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (200 bp):
ATTGCAGTTAAAGAGATTAAAGCTACAACAGCGAATCTTACATCCCAGGCAGTGCAGTGGAACAG
ATTAAAGCCACATCGGTGAACCTTGCTTCGCTGACATTGCAACTAAAAAGATTAAAGCTACAACA
GCGAATCTTACCTCCAAGGCAGTGCAATGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCC
CCGAC
Found at i:44179596 original size:100 final size:100
Alignment explanation
Indices: 44179123--44179604 Score: 628
Period size: 100 Copynumber: 4.8 Consensus size: 100
44179113 TTTTTTCGAT
* * * * * *
44179123 ATTGAAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACATCTC-AAGCAGTGCAGCGGAACA
1 ATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCCTGA-CGGTGCAGTGGAACA
* *
44179187 GATTAAAGCCACATCGGTGAATCTTGCTTCGCTGAC
65 GATTAAAGCCACATCGGTGAATCTTGCTTCCCCGAC
* * * *
44179223 ATTGCAGTTTAAAAGATTAAAGCTACAGCAGCGAATCTTACCT-CCTAGGCAGTGCAGTGGAACA
1 ATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCCT-GACGGTGCAGTGGAACA
44179287 GATTAAAGCCACATCGGTGAATCTTGCTTCCCCGAC
65 GATTAAAGCCACATCGGTGAATCTTGCTTCCCCGAC
* * * *
44179323 ATTGCAGTTAAAGAGATTAAAGCTACAACAGCGAATCTTACCTCCCAGGCAGTGCAGTGGAACAG
1 ATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCCTGACGGTGCAGTGGAACAG
* * *
44179388 ATTAAAGCCACAACGGTGAACCTTGCCTT-CCTGAC
66 ATTAAAGCCACATCGGTGAATCTTG-CTTCCCCGAC
** * ** * * *
44179423 ATTGCAACTAAAAAGATTAATGCTACAACAGCGAATCTTACCTCCAAGGCGGTGCAATGGAATAG
1 ATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCCTGACGGTGCAGTGGAACAG
*
44179488 ATTAAAGCCACAACGGTGAATCTTGCTTCCCCGAC
66 ATTAAAGCCACATCGGTGAATCTTGCTTCCCCGAC
* * * *
44179523 ATTGCAGTTAAAGAGATTAAAGCTACAACAGGGAATCTTACTTCCCTGATGGTGCAGTGGAACAG
1 ATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCCTGACGGTGCAGTGGAACAG
44179588 ATTAAAGCCACATCGGT
66 ATTAAAGCCACATCGGT
44179605 ACTCCTCTAA
Statistics
Matches: 337, Mismatches: 40, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
99 4 0.01
100 328 0.97
101 5 0.01
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (100 bp):
ATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCCTGACGGTGCAGTGGAACAG
ATTAAAGCCACATCGGTGAATCTTGCTTCCCCGAC
Found at i:44184620 original size:44 final size:44
Alignment explanation
Indices: 44184554--44185094 Score: 267
Period size: 44 Copynumber: 11.6 Consensus size: 44
44184544 GAAAATGGTG
*
44184554 AATCTTATCTCCCTGATG-TTACAGTGGAGCAAATTGAAGCCAGA
1 AATCTTATCTCCCTGA-GATTACAGTGGAGCAGATTGAAGCCAGA
* *
44184598 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * ***
44184642 AATCCTT-TCTCCCTGAGATTACAGTGGATCGGATT-AAAATA-A
1 AAT-CTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* *
44184684 AGGATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATTGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCCAGA
* *
44184740 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * * * * ***
44184784 AATCCTATTTCCCTGATATTACAGTGGAACGGATTACAATAAAG-
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAAGCCAGA
* *
44184828 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCCAGA
* * *
44184882 AATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAA-ACAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * * * ***
44184925 AATCCTATTTCCCTAAGATTATAGTGGAGCAAATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
**
44184967 AGGATCTTATCTCTTTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCCAGA
* *
44185023 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * *
44185067 AATCCTATTTCCCTGAGATCACGGTGGA
1 AATCTTATCTCCCTGAGATTACAGTGGA
44185095 ATAGACCGAA
Statistics
Matches: 375, Mismatches: 72, Indels: 100
0.69 0.13 0.18
Matches are distributed among these distances:
42 4 0.01
43 45 0.12
44 207 0.55
45 7 0.02
47 6 0.02
49 12 0.03
51 3 0.01
53 4 0.01
54 73 0.19
55 10 0.03
56 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
Found at i:44184847 original size:142 final size:142
Alignment explanation
Indices: 44184586--44185095 Score: 835
Period size: 142 Copynumber: 3.6 Consensus size: 142
44184576 AGTGGAGCAA
* *
44184586 ATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTCAGTAATCCT-TT
1 ATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATT
* *
44184650 CTCCCTGAGATTACAGTGGATCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAG
66 -TCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
*
44184715 TAGATTGCATCAG
130 TAGATCGCATCAG
44184728 ATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATT
1 ATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATT
* *
44184793 TCCCTGATATTACAGTGGAACGGATTACAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
66 TCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
44184858 AGATCGCATCAG
131 AGATCGCATCAG
** *
44184870 ATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAA-ACAGTAATCCTATT
1 ATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATT
* * * ** *
44184934 TCCCTAAGATTATAGTGGAGCAAATTAAAATAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGT
66 TCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
44184999 AGATCGCATCAG
131 AGATCGCATCAG
44185011 ATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATT
1 ATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATT
* *
44185076 TCCCTGAGATCACGGTGGAA
66 TCCCTGAGATTACAGTGGAA
44185096 TAGACCGAAG
Statistics
Matches: 340, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
141 130 0.38
142 208 0.61
143 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (142 bp):
ATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATT
TCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
AGATCGCATCAG
Found at i:44184955 original size:43 final size:44
Alignment explanation
Indices: 44184867--44184955 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 44
44184857 TAGATCGCAT
* * *
44184867 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTAGAG
1 CAGATTGAAGACAGAAATCCTATCTCCCTAAGATTACAGTAGAG
* * * *
44184911 CAGATTGAA-ACAGTAATCCTATTTCCCTAAGATTATAGTGGAG
1 CAGATTGAAGACAGAAATCCTATCTCCCTAAGATTACAGTAGAG
44184954 CA
1 CA
44184956 AATTAAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 29 0.76
44 9 0.24
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (44 bp):
CAGATTGAAGACAGAAATCCTATCTCCCTAAGATTACAGTAGAG
Found at i:44185735 original size:50 final size:50
Alignment explanation
Indices: 44185182--44185774 Score: 323
Period size: 50 Copynumber: 11.9 Consensus size: 50
44185172 TTCTCGACAT
* * * ** *
44185182 TGCAGTTAAAAAGATT-AAGCTACAACAGTGAATCTTACTTCTCAAGCGG
1 TGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCAG
* * * * * ** * * *
44185231 TGCAG-CAGAACAGATTAAAGCCACATCGGTGAATCTTGTTTCCCCGACAT
1 TGCAGTTA-AACAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCAG
* * * * *
44185281 TGCAGTTCAAA-AGATTAAAGCTACAGCAGCAAATCTTACCTCCCAGGCAC
1 TGCAGTT-AAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCAG
** * * * * * * *** *
44185331 TGCAGTGGAACTGATTAAAGCGACATCGGAGAATCTTGCTTCCCCAACAT
1 TGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCAG
* * * * *
44185381 TGCAGTTAAAGAGATTAAACCTACAACAGCGAATCTTACCTCCCAGGCGG
1 TGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCAG
** * ** * * * * ** *
44185431 TGCAGTGGAACAGATTAAAGCCACAATGGTGAACCTTGCCTCCCTAACAT
1 TGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCAG
* * * * *
44185481 TGCAGTTAAAAAGATTAAAGCTACAGCAGTGAATCTTACCT-CCTAGGCGG
1 TGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCT-GGCAG
** * * * * * *
44185531 TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCGCC-GACAT
1 TGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACTTC-CCTGGCAG
* * * **
44185581 TGCAGTTAAAGAGATTAAAGCTACAACATCGAATCTTATTTCCCTGGTGG
1 TGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCAG
** * * * * * *** *
44185631 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCAACAT
1 TGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCAG
* * *
44185681 TGCAGTTAAAGAGATTAAAGCTACAACAACGAATCTTACTTACCTGGCAG
1 TGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCAG
* * * * **
44185731 TGCAGATAAAAAGGTTGAAGCTACAATGGCGAATCTTACTTCCC
1 TGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCC
44185775 AAAAGTTGCG
Statistics
Matches: 390, Mismatches: 145, Indels: 17
0.71 0.26 0.03
Matches are distributed among these distances:
48 1 0.00
49 19 0.05
50 365 0.94
51 2 0.01
52 3 0.01
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (50 bp):
TGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCAG
Found at i:44185774 original size:100 final size:100
Alignment explanation
Indices: 44185114--44185719 Score: 761
Period size: 100 Copynumber: 6.1 Consensus size: 100
44185104 AGAATTATAG
* * * * * * * * * * *
44185114 ATCTTATCTCCCAAGTGGTGTAGTGGAACAGATTAAAGCCA-AGACGGCGTATCTTGTTTTCTCG
1 ATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACA-TCGGTGAATCTTGCTTCCCCA
* *
44185178 ACATTGCAGTTAAAAAGATT-AAGCTACAACAGTGA
65 ACATTGCAGTTAAAGAGATTAAAGCTACAACAGCGA
* * * ** * *
44185213 ATCTTACTTCTCAAGCGGTGCAGCAGAACAGATTAAAGCCACATCGGTGAATCTTGTTTCCCCGA
1 ATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCAA
* *
44185278 CATTGCAGTTCAAA-AGATTAAAGCTACAGCAGCAA
66 CATTGCAGTT-AAAGAGATTAAAGCTACAACAGCGA
** * * *
44185313 ATCTTACCTCCCAGGCACTGCAGTGGAACTGATTAAAGCGACATCGGAGAATCTTGCTTCCCCAA
1 ATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCAA
*
44185378 CATTGCAGTTAAAGAGATTAAACCTACAACAGCGA
66 CATTGCAGTTAAAGAGATTAAAGCTACAACAGCGA
* * *
44185413 ATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAAT-GGTGAACCTTGCCTCCCTA
1 ATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCA
* * *
44185477 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGTGA
65 ACATTGCAGTTAAAGAGATTAAAGCTACAACAGCGA
* * * *
44185513 ATCTTACCTCCTAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCGCCGA
1 ATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCAA
*
44185578 CATTGCAGTTAAAGAGATTAAAGCTACAACATCGA
66 CATTGCAGTTAAAGAGATTAAAGCTACAACAGCGA
** * *
44185613 ATCTTATTTCCCTGGTGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCAA
1 ATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCAA
*
44185678 CATTGCAGTTAAAGAGATTAAAGCTACAACAACGA
66 CATTGCAGTTAAAGAGATTAAAGCTACAACAGCGA
44185713 ATCTTAC
1 ATCTTAC
44185720 TTACCTGGCA
Statistics
Matches: 438, Mismatches: 63, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
99 70 0.16
100 366 0.84
101 2 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
ATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCAA
CATTGCAGTTAAAGAGATTAAAGCTACAACAGCGA
Found at i:44187269 original size:15 final size:15
Alignment explanation
Indices: 44187249--44187283 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
44187239 TGTTATCATC
44187249 ATTATCATTAGAATT
1 ATTATCATTAGAATT
*
44187264 ATTATCATTAGTATT
1 ATTATCATTAGAATT
44187279 ATTAT
1 ATTAT
44187284 TTATATCAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (15 bp):
ATTATCATTAGAATT
Found at i:44187590 original size:12 final size:13
Alignment explanation
Indices: 44187550--44187591 Score: 68
Period size: 14 Copynumber: 3.2 Consensus size: 13
44187540 ATTTCAACTT
44187550 TTATATATTATTA
1 TTATATATTATTA
44187563 TGTATATATTATTA
1 T-TATATATTATTA
44187577 TT-TATATTATTA
1 TTATATATTATTA
44187589 TTA
1 TTA
44187592 AGTTTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 12 0.44
13 2 0.07
14 13 0.48
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TTATATATTATTA
Found at i:44194665 original size:44 final size:44
Alignment explanation
Indices: 44194599--44194721 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
44194589 GGAAATGGTG
44194599 AATCTTATCTCCCTGATG-TTACAGTGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGA-GATTACAGTGGAGCAGATTGAAGCCAGA
* * * *
44194643 AATCTTAACTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * *
44194687 AATCCTATCTCCCTGAGATTAGAGTGGAGCGGATT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATT
44194722 AAAATAAAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 1 0.01
44 68 0.99
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
Found at i:44194740 original size:44 final size:43
Alignment explanation
Indices: 44194599--44194741 Score: 135
Period size: 44 Copynumber: 3.3 Consensus size: 43
44194589 GGAAATGGTG
***
44194599 AATCTTATCTCCCTGATG-TTACAGTGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGA-GATTACAGTGGAGCAGATT-AAAATAGA
* * * * *
44194643 AATCTTAACTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AGA
* * * *
44194687 AATCCTATCTCCCTGAGATTAGAGTGGAGCGGATTAAAATAAA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAGA
44194730 AGATCTTATCTC
1 A-ATCTTATCTC
44194742 TCTAAAGTTA
Statistics
Matches: 79, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
43 4 0.05
44 75 0.95
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAGA
Found at i:44194980 original size:50 final size:51
Alignment explanation
Indices: 44194939--44195538 Score: 431
Period size: 50 Copynumber: 12.0 Consensus size: 51
44194929 TTGTTTTCTC
* * *
44194939 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT-ACTTCTCA
1 GACATTGCAGTTAAACAGATTAAAGCTACAACAGTGAATCTTGACTTCCCA
* ** *** * * * *
44194989 AACGGTGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTG-CTTCCCC
1 GACATTGCAGTTAAACAGATTAAAGCTACAACAGTGAATCTTGACTTCCCA
* * *
44195039 GATATTGCAGTTCAAA-AGATTAAAGCTACAACAGCGAATCTT-ACCTCCCA
1 GACATTGCAGTT-AAACAGATTAAAGCTACAACAGTGAATCTTGACTTCCCA
* * * ** * * *
44195089 GGCAGTACAGTGCAACAGATTAAAGCCACATCGGTGAATCTTG-CTTCCCCA
1 GACATTGCAGTTAAACAGATTAAAGCTACAACAGTGAATCTTGACTT-CCCA
* *
44195140 -ACATTGCAGTTAAAGAGATTAAAGCTACAACAGTGAATCTT-ACCTCCCA
1 GACATTGCAGTTAAACAGATTAAAGCTACAACAGTGAATCTTGACTTCCCA
** * ** * * *
44195189 GGTAGTGCAGTGGAACAGATTAAAGCCACAACAGTGAACCTTG-CCTCCCTA
1 GACATTGCAGTTAAACAGATTAAAGCTACAACAGTGAATCTTGACTTCCC-A
* * * * *
44195240 -ACATTGCAGTTAAAAAGATTAAAGCTCCAGCAGCGAATCTT-ACCTCCCA
1 GACATTGCAGTTAAACAGATTAAAGCTACAACAGTGAATCTTGACTTCCCA
* * ** * *
44195289 GGCAGTGCAGTGGAACAGATTAAAGCCACAAC-GTTGAATCTTG-CTTCCCC
1 GACATTGCAGTTAAACAGATTAAAGCTACAACAG-TGAATCTTGACTTCCCA
* * *
44195339 GACATTGCAGTTAAAGAGATTAAAGCTACAACAGCGAATCTT-ACTTCCCT
1 GACATTGCAGTTAAACAGATTAAAGCTACAACAGTGAATCTTGACTTCCCA
* ** ** * * *
44195389 GGCGGTGCAGTGGAACAGATTAAAGCCATATCAGTGAATCTTG-CTTCCCA
1 GACATTGCAGTTAAACAGATTAAAGCTACAACAGTGAATCTTGACTTCCCA
* ** *
44195439 GACATTGCAGTTAAAGAGATTAAAGCTACAACAACGAATCTT-ACTTCCCT
1 GACATTGCAGTTAAACAGATTAAAGCTACAACAGTGAATCTTGACTTCCCA
* ** * * * ** *
44195489 GGCGGTGCAGTTAAAAAGGTTGAAGCTACAATGGCGAATCTT-ACTTCCCA
1 GACATTGCAGTTAAACAGATTAAAGCTACAACAGTGAATCTTGACTTCCCA
44195539 AAAGTTGCGA
Statistics
Matches: 414, Mismatches: 118, Indels: 36
0.73 0.21 0.06
Matches are distributed among these distances:
49 8 0.02
50 398 0.96
51 8 0.02
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (51 bp):
GACATTGCAGTTAAACAGATTAAAGCTACAACAGTGAATCTTGACTTCCCA
Found at i:44195049 original size:100 final size:100
Alignment explanation
Indices: 44194876--44195499 Score: 818
Period size: 100 Copynumber: 6.2 Consensus size: 100
44194866 AGAATTACAG
* * * * * * * * *
44194876 ATCTTATCTCCCAAGCGGTGTAGTGGAACAGATTAAAGCCA-AGACGGCGTATCTTGTTTTCTCG
1 ATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACA-ACGGTGAATCTTGCTTCCCCG
44194940 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
65 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * ** * * *
44194976 ATCTTACTTCTCAAACGGTGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
1 ATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA
* *
44195041 TATTGCAGTTCAAAAGATTAAAGCTACAACAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * *
44195076 ATCTTACCTCCCAGGCAGTACAGTGCAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCAA
1 ATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA
* *
44195141 CATTGCAGTTAAAGAGATTAAAGCTACAACAGTGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * * **
44195176 ATCTTACCTCCCAGGTAGTGCAGTGGAACAGATTAAAGCCACAACAGTGAACCTTGCCTCCCTAA
1 ATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA
* *
44195241 CATTGCAGTTAAAAAGATTAAAGCTCCAGCAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
*
44195276 ATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGTTGAATCTTGCTTCCCCGA
1 ATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA
*
44195341 CATTGCAGTTAAAGAGATTAAAGCTACAACAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * * * * *
44195376 ATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCATATCAGTGAATCTTGCTTCCCAGA
1 ATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA
* *
44195441 CATTGCAGTTAAAGAGATTAAAGCTACAACAACGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * *
44195476 ATCTTACTTCCCTGGCGGTGCAGT
1 ATCTTACCTCCCAGGCAGTGCAGT
44195500 TAAAAAGGTT
Statistics
Matches: 465, Mismatches: 58, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
100 464 1.00
101 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (100 bp):
ATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA
CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
Found at i:44197034 original size:15 final size:15
Alignment explanation
Indices: 44197014--44197048 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
44197004 TGTTATCATC
44197014 ATTATCATTAGAATT
1 ATTATCATTAGAATT
*
44197029 ATTATCATTAGTATT
1 ATTATCATTAGAATT
44197044 ATTAT
1 ATTAT
44197049 TTAAATTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (15 bp):
ATTATCATTAGAATT
Found at i:44197056 original size:18 final size:18
Alignment explanation
Indices: 44197035--44197069 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44197025 AATTATTATC
44197035 ATTAGTATTAT-TATTTAA
1 ATTAGT-TTATATATTTAA
44197053 ATTAGTTTATATATTTA
1 ATTAGTTTATATATTTA
44197070 TCTACATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
ATTAGTTTATATATTTAA
Found at i:44197330 original size:14 final size:14
Alignment explanation
Indices: 44197311--44197349 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
44197301 TTTCAACTTT
*
44197311 TATATATTATTCTG
1 TATATATTATTATG
44197325 TATATATTATTAT-
1 TATATATTATTATG
44197338 T-TATATTATTAT
1 TATATATTATTAT
44197350 TAAGTTTGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
13 1 0.04
14 12 0.50
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (14 bp):
TATATATTATTATG
Found at i:44197342 original size:12 final size:13
Alignment explanation
Indices: 44197310--44197351 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
44197300 ATTTCAACTT
*
44197310 TTATATATTATTC
1 TTATATATTATTA
44197323 TGTATATATTATTA
1 T-TATATATTATTA
44197337 TT-TATATTATTA
1 TTATATATTATTA
44197349 TTA
1 TTA
44197352 AGTTTGTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 12 0.46
13 2 0.08
14 12 0.46
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (13 bp):
TTATATATTATTA
Found at i:44204016 original size:30 final size:30
Alignment explanation
Indices: 44203982--44204057 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
44203972 TGGTTAACCC
* *
44203982 ATCCCTTTTCATAATTCGATAACCAAAGTT
1 ATCCCTTTTCATAATTCGACAACCAAAGCT
** * *
44204012 ATCCCTTTTTGTAGTTCGACAGCCAAAGCT
1 ATCCCTTTTCATAATTCGACAACCAAAGCT
44204042 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
44204058 TGATGGTCGT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGACAACCAAAGCT
Found at i:44204076 original size:30 final size:30
Alignment explanation
Indices: 44204037--44204352 Score: 132
Period size: 30 Copynumber: 10.5 Consensus size: 30
44204027 TCGACAGCCA
* *
44204037 AAGCTATCCCTTTTCATAATTTGATGGTCG
1 AAGCCATCCCTTTTCATAATTTGATAGTCG
* ** *
44204067 TTA-CCATCCCTTTTCATTGTTTGAT-GGCTG
1 -AAGCCATCCCTTTTCATAATTTGATAGTC-G
* * *
44204097 TCA-CCATTCCTTTTCATAATTTGATAGCCG
1 -AAGCCATCCCTTTTCATAATTTGATAGTCG
* * * *
44204127 GATCTATCCCTTTTCATAGA-TAGATAGTCG
1 AAGCCATCCCTTTTCATA-ATTTGATAGTCG
* * * * * *
44204157 AAGCCATACTTTTTCATAGTTCGGTGGTCG
1 AAGCCATCCCTTTTCATAATTTGATAGTCG
*
44204187 TCA-CCATCCCTTTTCATAATTTGATAGTCG
1 -AAGCCATCCCTTTTCATAATTTGATAGTCG
* *
44204217 AAGCTATCCCTTTTCATAGA-TCGATAG-CTG
1 AAGCCATCCCTTTTCATA-ATTTGATAGTC-G
* *** * * *
44204247 AAACCATAATTTTTCAT-AGTTCAGTGGTCG
1 AAGCCATCCCTTTTCATAATTTGA-TAGTCG
* * *
44204277 TCA-CCATCCCTTTTCATAATTTGATAGCCA
1 -AAGCCATCCCTTTTCATAATTTGATAGTCG
* *
44204307 AAG-CATTCCCTTTTCATAGA-TCGATAGCCG
1 AAGCCA-TCCCTTTTCATA-ATTTGATAGTCG
* *
44204337 CAGCCATCTCTTTTCA
1 AAGCCATCCCTTTTCA
44204353 CAGTTCGATG
Statistics
Matches: 211, Mismatches: 56, Indels: 37
0.69 0.18 0.12
Matches are distributed among these distances:
28 1 0.00
29 10 0.05
30 185 0.88
31 15 0.07
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (30 bp):
AAGCCATCCCTTTTCATAATTTGATAGTCG
Found at i:44204134 original size:90 final size:90
Alignment explanation
Indices: 44204032--44204383 Score: 376
Period size: 90 Copynumber: 3.9 Consensus size: 90
44204022 GTAGTTCGAC
* * * * * * *
44204032 AGCCAAAGCTATCCCTTTTCATA-ATTTGATGGTCGTTA-CCATCCCTTTTCATTGTTTGATGG-
1 AGCCGAAGCTATCCCTTTTCATAGA-TAGATAGTCG-AAGCCATACCTTTTCATAGTTCGATGGT
*
44204094 CTGTCACCATTCCTTTTCATAATTTGAT
64 C-GTCACCATCCCTTTTCATAATTTGAT
* * * *
44204122 AGCCGGATCTATCCCTTTTCATAGATAGATAGTCGAAGCCATACTTTTTCATAGTTCGGTGGTCG
1 AGCCGAAGCTATCCCTTTTCATAGATAGATAGTCGAAGCCATACCTTTTCATAGTTCGATGGTCG
44204187 TCACCATCCCTTTTCATAATTTGAT
66 TCACCATCCCTTTTCATAATTTGAT
* * * **
44204212 AGTCGAAGCTATCCCTTTTCATAGATCGATAG-CTGAAACCATAATTTTTCATAGTTC-AGTGGT
1 AGCCGAAGCTATCCCTTTTCATAGATAGATAGTC-GAAGCCATACCTTTTCATAGTTCGA-TGGT
44204275 CGTCACCATCCCTTTTCATAATTTGAT
64 CGTCACCATCCCTTTTCATAATTTGAT
* * * * *
44204302 AGCCAAAGC-ATTCCCTTTTCATAGATCGATAGCCGCAGCCAT-CTCTTTTCACAGTTCGATGGT
1 AGCCGAAGCTA-TCCCTTTTCATAGATAGATAGTCGAAGCCATAC-CTTTTCATAGTTCGATGGT
* *
44204365 CCTCACCATCCTTTTTCAT
64 CGTCACCATCCCTTTTCAT
44204384 TGTTGATGAT
Statistics
Matches: 225, Mismatches: 28, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
89 3 0.01
90 218 0.97
91 4 0.02
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.37
Consensus pattern (90 bp):
AGCCGAAGCTATCCCTTTTCATAGATAGATAGTCGAAGCCATACCTTTTCATAGTTCGATGGTCG
TCACCATCCCTTTTCATAATTTGAT
Found at i:44206765 original size:20 final size:20
Alignment explanation
Indices: 44206723--44206768 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
44206713 AAATACTTTA
* *
44206723 AAAATATTTTTTTTTATTTTT
1 AAAA-ATTTTTTTGTATTATT
*
44206744 AAAAATTTTTTTGTGTTATT
1 AAAAATTTTTTTGTATTATT
44206764 AAAAA
1 AAAAA
44206769 CCAGGCCGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
AAAAATTTTTTTGTATTATT
Found at i:44223930 original size:12 final size:14
Alignment explanation
Indices: 44223902--44223935 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
44223892 AAGATGAAAG
44223902 CTTGATGAAAAACA
1 CTTGATGAAAAACA
44223916 CTTGA-GAAAAA-A
1 CTTGATGAAAAACA
44223928 CTTGATGA
1 CTTGATGA
44223936 TTAAATGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.32
13 8 0.42
14 5 0.26
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (14 bp):
CTTGATGAAAAACA
Found at i:44238319 original size:20 final size:20
Alignment explanation
Indices: 44238294--44238414 Score: 143
Period size: 20 Copynumber: 6.0 Consensus size: 20
44238284 TTGTACAGGA
*
44238294 TTGCACTTTGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
* *
44238314 TTGCACTTTGGTGCCTCTGA
1 TTGCACTTCGGTGCCTCTGT
* *
44238334 TTGCACTTCAGTGCCTTTGT
1 TTGCACTTCGGTGCCTCTGT
* *
44238354 GTGCACTTTGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
* * *
44238374 TTGTACTTCGGTGGCTCAGT
1 TTGCACTTCGGTGCCTCTGT
*
44238394 TTGCACTACGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
44238414 T
1 T
44238415 ACGCATTTTT
Statistics
Matches: 83, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.08, C:0.25, G:0.26, T:0.41
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGT
Found at i:44238398 original size:60 final size:60
Alignment explanation
Indices: 44238295--44238409 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
44238285 TGTACAGGAT
* * *
44238295 TGCACTTTGGTGCCTCTGTTTGCACTTTGGTGCCTCTGATTGCACTTCAGTGCCTTTGTG
1 TGCACTTTGGTGCCTCTGTTTGCACTTCGGTGCCTCAGATTGCACTACAGTGCCTTTGTG
* * * *
44238355 TGCACTTTGGTGCCTCTGTTTGTACTTCGGTGGCTCAGTTTGCACTACGGTGCCT
1 TGCACTTTGGTGCCTCTGTTTGCACTTCGGTGCCTCAGATTGCACTACAGTGCCT
44238410 CTGTTACGCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.09, C:0.25, G:0.26, T:0.40
Consensus pattern (60 bp):
TGCACTTTGGTGCCTCTGTTTGCACTTCGGTGCCTCAGATTGCACTACAGTGCCTTTGTG
Found at i:44240423 original size:193 final size:193
Alignment explanation
Indices: 44240094--44240480 Score: 765
Period size: 193 Copynumber: 2.0 Consensus size: 193
44240084 TTAACTATAT
44240094 TCAACTCATCCCCATGATCTTCAGTTACAAGCTCTAATTGAATCTCACCATAATTCTCATCATGG
1 TCAACTCATCCCCATGATCTTCAGTTACAAGCTCTAATTGAATCTCACCATAATTCTCATCATGG
44240159 TCATCAATAATACAAAGGTCTGCATGATTCGAGTTGTGAGCATCAAACATGTCCTCTTTCCTGGG
66 TCATCAATAATACAAAGGTCTGCATGATTCGAGTTGTGAGCATCAAACATGTCCTCTTTCCTGGG
44240224 AGGTAGCGCTTCAGATATTTCTTGCATCATTTTAATTATTTGCTCTGTCATATTTGACATGTG
131 AGGTAGCGCTTCAGATATTTCTTGCATCATTTTAATTATTTGCTCTGTCATATTTGACATGTG
*
44240287 TCAACTCATCCCTATGATCTTCAGTTACAAGCTCTAATTGAATCTCACCATAATTCTCATCATGG
1 TCAACTCATCCCCATGATCTTCAGTTACAAGCTCTAATTGAATCTCACCATAATTCTCATCATGG
44240352 TCATCAATAATACAAAGGTCTGCATGATTCGAGTTGTGAGCATCAAACATGTCCTCTTTCCTGGG
66 TCATCAATAATACAAAGGTCTGCATGATTCGAGTTGTGAGCATCAAACATGTCCTCTTTCCTGGG
44240417 AGGTAGCGCTTCAGATATTTCTTGCATCATTTTAATTATTTGCTCTGTCATATTTGACATGTG
131 AGGTAGCGCTTCAGATATTTCTTGCATCATTTTAATTATTTGCTCTGTCATATTTGACATGTG
44240480 T
1 T
44240481 GACAATACTT
Statistics
Matches: 193, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
193 193 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (193 bp):
TCAACTCATCCCCATGATCTTCAGTTACAAGCTCTAATTGAATCTCACCATAATTCTCATCATGG
TCATCAATAATACAAAGGTCTGCATGATTCGAGTTGTGAGCATCAAACATGTCCTCTTTCCTGGG
AGGTAGCGCTTCAGATATTTCTTGCATCATTTTAATTATTTGCTCTGTCATATTTGACATGTG
Found at i:44245796 original size:32 final size:31
Alignment explanation
Indices: 44245749--44245842 Score: 98
Period size: 32 Copynumber: 3.0 Consensus size: 31
44245739 TGGCTACAAG
*
44245749 CCATAAGTATAGTAATATGATTGGCACAAAA
1 CCATAAGTATAGTAATATGATCGGCACAAAA
* * *
44245780 CCATTAGTAGTAGTAATATGATCGGCACACAG
1 CCATAAGTA-TAGTAATATGATCGGCACAAAA
* * * *
44245812 CCATCAGTAATGGTAATATGACCGACACAAA
1 CCATAAGT-ATAGTAATATGATCGGCACAAA
44245843 GTCATCAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
31 8 0.15
32 43 0.83
33 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (31 bp):
CCATAAGTATAGTAATATGATCGGCACAAAA
Found at i:44246128 original size:24 final size:24
Alignment explanation
Indices: 44246012--44246130 Score: 134
Period size: 24 Copynumber: 5.0 Consensus size: 24
44246002 AGTCATACAA
* *
44246012 ATCACAGACAAATCATTCATAT-C
1 ATCACAGACAAATCAATCATTTAC
* * * *
44246035 AATTACAGACAAATCAGTTATTTAA
1 -ATCACAGACAAATCAATCATTTAC
44246060 ATCACAGACAAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
*
44246084 AT-ATCAGAAAAATCAATCATTTAC
1 ATCA-CAGACAAATCAATCATTTAC
*
44246108 ATCACGGACAAATCAATCATTTA
1 ATCACAGACAAATCAATCATTTA
44246131 ACCCCGAGGG
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
23 1 0.01
24 78 0.98
25 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (24 bp):
ATCACAGACAAATCAATCATTTAC
Found at i:44248338 original size:17 final size:17
Alignment explanation
Indices: 44248316--44248348 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44248306 TGGCTCGTTT
*
44248316 ATTTAGGTTTCATAAAA
1 ATTTAGGTTACATAAAA
44248333 ATTTAGGTTACATAAA
1 ATTTAGGTTACATAAA
44248349 TTCCTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (17 bp):
ATTTAGGTTACATAAAA
Found at i:44249373 original size:9 final size:9
Alignment explanation
Indices: 44249359--44249392 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
44249349 TATTTAATCG
44249359 ATTAATTAA
1 ATTAATTAA
44249368 ATTAATTAA
1 ATTAATTAA
* *
44249377 ATTTACTAA
1 ATTAATTAA
44249386 ATTAATT
1 ATTAATT
44249393 TCTCAATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTAATTAA
Found at i:44249409 original size:17 final size:17
Alignment explanation
Indices: 44249383--44249415 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44249373 TTAAATTTAC
*
44249383 TAAATTAATTTCTCAAT
1 TAAATCAATTTCTCAAT
44249400 TAAATCAATTTCTCAA
1 TAAATCAATTTCTCAA
44249416 CCCAATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATCAATTTCTCAAT
Found at i:44250432 original size:13 final size:14
Alignment explanation
Indices: 44250413--44250450 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
44250403 CAATGACATA
44250413 GAAATAATATAAAC
1 GAAATAATATAAAC
44250427 -AAATAA-ATAAAC
1 GAAATAATATAAAC
44250439 GAAATTAATATA
1 GAAA-TAATATA
44250451 CAAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:44250461 original size:27 final size:26
Alignment explanation
Indices: 44250413--44250463 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
44250403 CAATGACATA
*
44250413 GAAATAATATAAACAAATAAATAAAC
1 GAAATAATATAAACAAAAAAATAAAC
44250439 GAAATTAATATACAA-AAAAAAATAA
1 GAAA-TAATATA-AACAAAAAAATAA
44250464 TCCATGACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 4 0.18
27 16 0.73
28 2 0.09
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.20
Consensus pattern (26 bp):
GAAATAATATAAACAAAAAAATAAAC
Found at i:44250554 original size:8 final size:8
Alignment explanation
Indices: 44250535--44250567 Score: 52
Period size: 7 Copynumber: 4.4 Consensus size: 8
44250525 ACAAATGATG
44250535 AAAATA-A
1 AAAATACA
44250542 AAAATACA
1 AAAATACA
44250550 AAAATAC-
1 AAAATACA
44250557 AAAATACA
1 AAAATACA
44250565 AAA
1 AAA
44250568 TATATACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 13 0.54
8 11 0.46
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATACA
Found at i:44250555 original size:15 final size:15
Alignment explanation
Indices: 44250535--44250567 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
44250525 ACAAATGATG
44250535 AAAATAAAAAATACA
1 AAAATAAAAAATACA
*
44250550 AAAATACAAAATACA
1 AAAATAAAAAATACA
44250565 AAA
1 AAA
44250568 TATATACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAATAAAAAATACA
Found at i:44250910 original size:30 final size:31
Alignment explanation
Indices: 44250837--44250919 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 31
44250827 ACATATATAA
* ** *
44250837 AAATAATAATTATCTACATATATATAGATTAT
1 AAATAATAATAAT-TACATATATATAGAAAAC
44250869 AAA-AA-AGATAATTACATATATATA-AAAAC
1 AAATAATA-ATAATTACATATATATAGAAAAC
44250898 AAATAATAATAATTACATATAT
1 AAATAATAATAATTACATATAT
44250920 TGAAATTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
29 5 0.11
30 29 0.66
31 7 0.16
32 3 0.07
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (31 bp):
AAATAATAATAATTACATATATATAGAAAAC
Found at i:44251076 original size:17 final size:17
Alignment explanation
Indices: 44251054--44251097 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
44251044 TAGGAAATAA
44251054 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
44251071 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
44251088 -ATATGTATAT
1 AAAATGTATAT
44251098 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:44251584 original size:23 final size:22
Alignment explanation
Indices: 44251541--44251598 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
44251531 AAAGGGTATC
* *
44251541 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
44251562 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
44251585 TGCATATCATATCT
1 TACAAATCATATCT
44251599 AAGATTGCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:44256110 original size:23 final size:23
Alignment explanation
Indices: 44256075--44256124 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
44256065 ATTATAATAA
44256075 TTTATTTATAT-AATTAATATATT
1 TTTATTTATATAAATT-ATATATT
*
44256098 TTTATTT-TAATAAATTATTTATT
1 TTTATTTAT-ATAAATTATATATT
44256121 TTTA
1 TTTA
44256125 CAATTTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 1 0.04
23 19 0.79
24 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTATTTATATAAATTATATATT
Found at i:44256120 original size:17 final size:17
Alignment explanation
Indices: 44256069--44256122 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 17
44256059 CAAAAAATTA
*
44256069 TAATAATTTATTTATATAAT
1 TAATAAATTATTTAT-T--T
*
44256089 TAATATATT-TTTATTT
1 TAATAAATTATTTATTT
44256105 TAATAAATTATTTATTT
1 TAATAAATTATTTATTT
44256122 T
1 T
44256123 TACAATTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 9 0.30
17 8 0.27
18 1 0.03
19 5 0.17
20 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATAAATTATTTATTT
Found at i:44257915 original size:29 final size:28
Alignment explanation
Indices: 44257873--44257928 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
44257863 AAACATTCAA
* *
44257873 AAATGATTATGGTTTTCTCTGAAATGGAG
1 AAATGAATATGGTTTTCTC-AAAATGGAG
*
44257902 AAATGAATGTGGTTTTCTCAAAATGGA
1 AAATGAATATGGTTTTCTCAAAATGGA
44257929 AGTAAAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (28 bp):
AAATGAATATGGTTTTCTCAAAATGGAG
Found at i:44264300 original size:13 final size:13
Alignment explanation
Indices: 44264282--44264312 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
44264272 ACAAAATAAT
44264282 TAATTTTTCATCA
1 TAATTTTTCATCA
44264295 TAA-TTTTCATCA
1 TAATTTTTCATCA
44264307 TAATTT
1 TAATTT
44264313 ACCTTTGAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (13 bp):
TAATTTTTCATCA
Found at i:44264944 original size:8 final size:8
Alignment explanation
Indices: 44264931--44264957 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
44264921 GGCTCTTTAA
44264931 AAAATTTT
1 AAAATTTT
44264939 AAAATTTT
1 AAAATTTT
44264947 AAAATTTT
1 AAAATTTT
44264955 AAA
1 AAA
44264958 TTATTAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:44277006 original size:18 final size:18
Alignment explanation
Indices: 44276979--44277014 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
44276969 AAACTTATCT
*
44276979 TGATCTTGATGGACATCC
1 TGATCCTGATGGACATCC
44276997 TGATCCTGATGGACATCC
1 TGATCCTGATGGACATCC
44277015 ACTTAATAAG
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:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (18 bp):
TGATCCTGATGGACATCC
Found at i:44277294 original size:18 final size:18
Alignment explanation
Indices: 44277271--44277309 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
44277261 CGAAGAATTT
44277271 TCCTGATCCTGATGGACA
1 TCCTGATCCTGATGGACA
44277289 TCCTGATCCTGATGGACA
1 TCCTGATCCTGATGGACA
44277307 TCC
1 TCC
44277310 ACTTAATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.28
Consensus pattern (18 bp):
TCCTGATCCTGATGGACA
Found at i:44286680 original size:22 final size:22
Alignment explanation
Indices: 44286655--44286697 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
44286645 TTAAGATTGA
*
44286655 ATATCTCATTTTGA-TTTCTTTG
1 ATATCTC-TTATGAGTTTCTTTG
*
44286677 ATATTTCTTATGAGTTTCTTT
1 ATATCTCTTATGAGTTTCTTT
44286698 ATTTCTTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.19, C:0.12, G:0.09, T:0.60
Consensus pattern (22 bp):
ATATCTCTTATGAGTTTCTTTG
Found at i:44288929 original size:66 final size:66
Alignment explanation
Indices: 44288766--44288930 Score: 197
Period size: 66 Copynumber: 2.5 Consensus size: 66
44288756 GGTTACACGG
* * * * * *
44288766 CCAAGCGACACGT-CCGTGTGCTCGGCCGTATGAAAAATGATGAGCATACTGACTTGTGACATAT
1 CCAAGCCACAC-TCCCGTGTGCTAGGCCGTGTGAAAAATGATGAGCATACTAACTTGTGACACAC
**
44288830 GT
65 AA
* * * * *
44288832 CCAAGCCACACGCCCGTGTGCTAGGCTGTGTGAAAAATGGTGAGTATACTAACTTGTGTCACACA
1 CCAAGCCACACTCCCGTGTGCTAGGCCGTGTGAAAAATGATGAGCATACTAACTTGTGACACACA
44288897 A
66 A
44288898 CCAAGCCACACTCCCGTGTGCTAGGCCGTGTGA
1 CCAAGCCACACTCCCGTGTGCTAGGCCGTGTGA
44288931 GCCTACTGAC
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
66 83 1.00
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.22
Consensus pattern (66 bp):
CCAAGCCACACTCCCGTGTGCTAGGCCGTGTGAAAAATGATGAGCATACTAACTTGTGACACACA
A
Found at i:44291653 original size:17 final size:17
Alignment explanation
Indices: 44291631--44291701 Score: 62
Period size: 17 Copynumber: 4.4 Consensus size: 17
44291621 ACACAACCTG
44291631 GACACACAGTCGTGTGT
1 GACACACAGTCGTGTGT
*
44291648 GACACACAG-CCTG-G-
1 GACACACAGTCGTGTGT
*
44291662 G-CACACAGTCATGTGT
1 GACACACAGTCGTGTGT
* *
44291678 GA-AAACTAGTTGTGTGT
1 GACACAC-AGTCGTGTGT
44291695 GACACAC
1 GACACAC
44291702 GGGTATGTGG
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
13 7 0.17
14 4 0.10
15 2 0.05
16 7 0.17
17 19 0.45
18 3 0.07
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (17 bp):
GACACACAGTCGTGTGT
Found at i:44291655 original size:30 final size:30
Alignment explanation
Indices: 44291621--44291679 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
44291611 ATAGAGAGTT
*
44291621 ACACAACCTGGACACACAGTCGTGTGTGAC
1 ACACAACCTGGACACACAGTCATGTGTGAC
* *
44291651 ACACAGCCTGGGCACACAGTCATGTGTGA
1 ACACAACCTGGACACACAGTCATGTGTGA
44291680 AAACTAGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (30 bp):
ACACAACCTGGACACACAGTCATGTGTGAC
Found at i:44292035 original size:6 final size:5
Alignment explanation
Indices: 44292024--44292058 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
44292014 TTTAGTTTTA
44292024 TATTT TATTTT TATTT TATTT TATTT TATTT TATT
1 TATTT TA-TTT TATTT TATTT TATTT TATTT TATT
44292059 ATGCGTTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:44292040 original size:11 final size:11
Alignment explanation
Indices: 44292014--44292055 Score: 59
Period size: 10 Copynumber: 3.7 Consensus size: 11
44292004 TGTGATTTCA
44292014 TTTAGTTTTATAT
1 TTTA-TTTT-TAT
44292027 TTTATTTTTAT
1 TTTATTTTTAT
44292038 TTTA-TTTTAT
1 TTTATTTTTAT
44292048 TTTATTTT
1 TTTATTTT
44292056 ATTATGCGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.36
11 10 0.36
12 4 0.14
13 4 0.14
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:44293328 original size:9 final size:9
Alignment explanation
Indices: 44293314--44293340 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
44293304 ACCATAAACA
44293314 CTTTGAGTG
1 CTTTGAGTG
44293323 CTTTGAGTG
1 CTTTGAGTG
44293332 CTTTGAGTG
1 CTTTGAGTG
44293341 AATCTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.33, T:0.44
Consensus pattern (9 bp):
CTTTGAGTG
Found at i:44295167 original size:16 final size:16
Alignment explanation
Indices: 44295139--44295171 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44295129 CAAATTAAAT
44295139 ATAATAAATTAATTTA
1 ATAATAAATTAATTTA
44295155 ATAATGAAA-TAATTTA
1 ATAAT-AAATTAATTTA
44295171 A
1 A
44295172 ATTTTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
ATAATAAATTAATTTA
Found at i:44296397 original size:39 final size:42
Alignment explanation
Indices: 44296320--44296397 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
44296310 TGTTTAAAAA
* *
44296320 TATTAATTAAAAATAAAATAAAAAATTTAAAAATAACATGTT
1 TATTAATTAAAAATAAAATAAAAAATCTAAAAACAACATGTT
* *
44296362 TATTAATTAAAAA-GAAA-AAAAAA-CTACAAACAACAT
1 TATTAATTAAAAATAAAATAAAAAATCTAAAAACAACAT
44296398 TAGAAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 10 0.31
40 6 0.19
41 3 0.09
42 13 0.41
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (42 bp):
TATTAATTAAAAATAAAATAAAAAATCTAAAAACAACATGTT
Found at i:44296933 original size:20 final size:20
Alignment explanation
Indices: 44296908--44296969 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 20
44296898 AAAAATTATT
44296908 TTATGATTTTTAAATAATTA
1 TTATGATTTTTAAATAATTA
* *
44296928 TTATGATTTTT-AAT-TTTT
1 TTATGATTTTTAAATAATTA
44296946 TTATGATTTTTCAACATAATTA
1 TTATGATTTTT-AA-ATAATTA
44296968 TT
1 TT
44296970 TATATAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 13 0.38
19 3 0.09
20 12 0.35
21 2 0.06
22 4 0.12
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (20 bp):
TTATGATTTTTAAATAATTA
Found at i:44296951 original size:18 final size:19
Alignment explanation
Indices: 44296900--44296956 Score: 71
Period size: 18 Copynumber: 3.0 Consensus size: 19
44296890 AATGCCAAAA
*
44296900 AAATTATTTTATGATTTTT
1 AAATTTTTTTATGATTTTT
* *
44296919 AAATAATTATTATGATTTTT
1 AAAT-TTTTTTATGATTTTT
44296939 -AATTTTTTTATGATTTTT
1 AAATTTTTTTATGATTTTT
44296957 CAACATAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 13 0.41
19 7 0.22
20 12 0.38
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
AAATTTTTTTATGATTTTT
Found at i:44310385 original size:18 final size:17
Alignment explanation
Indices: 44310347--44310390 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
44310337 TATATTTTTA
44310347 TGAATTGTGAATTATATT
1 TGAA-TGTGAATTATATT
44310365 TGATATGTGAATTA-ATAT
1 TGA-ATGTGAATTATAT-T
44310383 TGAATGTG
1 TGAATGTG
44310391 GAAGGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 7 0.29
18 16 0.67
19 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (17 bp):
TGAATGTGAATTATATT
Found at i:44310644 original size:23 final size:23
Alignment explanation
Indices: 44310616--44310691 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
44310606 AGTGTTATTG
44310616 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
44310639 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
44310662 ATCAGTGGTTGCTAT-GGCTACAT
1 ATCAGTGGTAGCT-TCGGCTACAT
44310685 ATCAGTG
1 ATCAGTG
44310692 TGGCACTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:44314972 original size:71 final size:71
Alignment explanation
Indices: 44314889--44315026 Score: 231
Period size: 71 Copynumber: 1.9 Consensus size: 71
44314879 TCTCGGATTT
* *
44314889 AAAAATGGATCATGCCCAGTAAGTTAGGACACGATCTTTTATTAATTCCCGAGATAGTTTAAAAC
1 AAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTATTAATTCCCGAGATAGTTTAAAAC
44314954 TTAAAA
66 TTAAAA
* * *
44314960 AAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCTCGAGATCGTTTAAAAC
1 AAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTATTAATTCCCGAGATAGTTTAAAAC
44315025 TT
66 TT
44315027 GAGTTTGAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (71 bp):
AAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTATTAATTCCCGAGATAGTTTAAAAC
TTAAAA
Found at i:44315465 original size:19 final size:20
Alignment explanation
Indices: 44315427--44315475 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
44315417 ATGTATGTAC
* *
44315427 ATATATATATAAATTATAAG
1 ATATATATAAAAAATATAAG
44315447 ATATA-ATAAAAAATATAAG
1 ATATATATAAAAAATATAAG
*
44315466 TATGTATATA
1 -ATATATATA
44315476 TATAAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 12 0.50
20 9 0.38
21 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (20 bp):
ATATATATAAAAAATATAAG
Found at i:44315488 original size:32 final size:31
Alignment explanation
Indices: 44315452--44315512 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
44315442 ATAAGATATA
*
44315452 ATAAAAAATATAAGTATGTATATATATAAATT
1 ATAAAAAAAATAAGTATGTATAT-TATAAATT
* *
44315484 ATAAAAAAAATATGTCTGTATATTATAAA
1 ATAAAAAAAATAAGTATGTATATTATAAA
44315513 AATGTATGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (31 bp):
ATAAAAAAAATAAGTATGTATATTATAAATT
Found at i:44315586 original size:3 final size:3
Alignment explanation
Indices: 44315578--44315670 Score: 53
Period size: 3 Copynumber: 30.0 Consensus size: 3
44315568 GTAAAAAATT
** *
44315578 ATA ATA ATA ATA AGGTA AGTA ATA ATA ATA A-A CACG ATA ATA GTA ATA
1 ATA ATA ATA ATA A--TA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * * * *
44315626 GTA ACA TTA AAA ATA ATA ATA ATA ATA GTA AAA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44315671 CTATTAAAAT
Statistics
Matches: 67, Mismatches: 19, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
2 1 0.01
3 59 0.88
4 4 0.06
5 3 0.04
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:44315678 original size:21 final size:21
Alignment explanation
Indices: 44315616--44315684 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
44315606 TAAACACGAT
* * *
44315616 AATAGTAATAGTAACATTAAA
1 AATAATAATAATAATATTAAA
*
44315637 AATAATAATAATAATAGTAAA
1 AATAATAATAATAATATTAAA
* *
44315658 AATAATGATAATACTATTAAA
1 AATAATAATAATAATATTAAA
*
44315679 ATTAAT
1 AATAAT
44315685 TAATTTAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (21 bp):
AATAATAATAATAATATTAAA
Found at i:44317778 original size:51 final size:51
Alignment explanation
Indices: 44317656--44317806 Score: 185
Period size: 51 Copynumber: 3.0 Consensus size: 51
44317646 CTTTAATTTT
*
44317656 AACACCAAGGAGATAAGATTCACTACCTTTAGCTTTAATCTGCTCCACTAC
1 AACACCAAAGAGATAAGATTCACTACCTTTAGCTTTAATCTGCTCCACTAC
* * * * * * *
44317707 AACGCTAGAGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTAC
1 AACACCAAAGAGATAAGATTCACTACCTTTAGCTTTAATCTGCTCCACTAC
* * * **
44317758 GACACCAAAGAGATATGATTCACTGCCTTTAGCTTTAATCCACTCCACT
1 AACACCAAAGAGATAAGATTCACTACCTTTAGCTTTAATCTGCTCCACT
44317807 GCAGCTTTAA
Statistics
Matches: 80, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 80 1.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (51 bp):
AACACCAAAGAGATAAGATTCACTACCTTTAGCTTTAATCTGCTCCACTAC
Found at i:44318057 original size:138 final size:138
Alignment explanation
Indices: 44317833--44318194 Score: 444
Period size: 138 Copynumber: 2.6 Consensus size: 138
44317823 CCACAATAAC
* * * * * *
44317833 GCCAGGGAAACAAGATTCGCT-ACTTTTAGCTTTACTCTGTTCCGCTGCAACATCAGGGAAATAA
1 GCCAGGGAAACAAGATTCGCTAAC-TTTAGCTTTAATTTGTTCCACTGCAACACCAAGGAGATAA
* * * *
44317897 GATTCGCT-ACTCTCA-ATCTTAACGCCAGGGAGATAAGATTCACTGCCTTTAGCTTTAATCCGC
65 GATTCGCTGCCT-TCAGCT-TTAACGACAGGGAGATAAGATTCACTGCCTTCAGCTTTAATCCGC
*
44317960 TCT-GTTGAAAT
128 T-TAGCTGAAAT
* *
44317971 GCCAGGGAAACAAGATTCGCTAACTTTAGCTTTAATTTGTTCTACTGCAACACCAAAGAGATAAG
1 GCCAGGGAAACAAGATTCGCTAACTTTAGCTTTAATTTGTTCCACTGCAACACCAAGGAGATAAG
* ** *
44318036 ATTCGCTGCCTTCAGCTTTAACGACATGGAGATAAGATTTGCTGCCTTCAGCTTTAATCTGCTTA
66 ATTCGCTGCCTTCAGCTTTAACGACAGGGAGATAAGATTCACTGCCTTCAGCTTTAATCCGCTTA
*
44318101 GCTGTAAT
131 GCTGAAAT
* * * * *
44318109 GCCAGGGAAACAAGATTTGCTACCTTTAGCTTTAATTTGTTCCACTGTAACGCCAAGGAGATAGG
1 GCCAGGGAAACAAGATTCGCTAACTTTAGCTTTAATTTGTTCCACTGCAACACCAAGGAGATAAG
*
44318174 ATTCACTGCCTTCAGCTTTAA
66 ATTCGCTGCCTTCAGCTTTAA
44318195 TCCGCTCCAC
Statistics
Matches: 194, Mismatches: 26, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
137 1 0.01
138 188 0.97
139 5 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (138 bp):
GCCAGGGAAACAAGATTCGCTAACTTTAGCTTTAATTTGTTCCACTGCAACACCAAGGAGATAAG
ATTCGCTGCCTTCAGCTTTAACGACAGGGAGATAAGATTCACTGCCTTCAGCTTTAATCCGCTTA
GCTGAAAT
Found at i:44318157 original size:51 final size:51
Alignment explanation
Indices: 44318069--44318355 Score: 193
Period size: 51 Copynumber: 5.5 Consensus size: 51
44318059 ACATGGAGAT
* *
44318069 AAGATTTGCTGCCTTCAGCTTTAATCTGCTT--AGCTGTAATGCCAGGGAAAC
1 AAGATTCGCTGCCTTTAGCTTTAATCTG-TTCCA-CTGTAATGCCAGGGAAAC
* * * * * * *
44318120 AAGATTTGCTACCTTTAGCTTTAATTTGTTCCACTGTAACGCCAAGGAGAT
1 AAGATTCGCTGCCTTTAGCTTTAATCTGTTCCACTGTAATGCCAGGGAAAC
* * * * * * ** * *
44318171 AGGATTCACTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAACGATAGGGAGAT
1 AAGATTCGCTGCCTTTAGCTTTAATCTGTTCCAC-T--G---TAATGCCAGGGAAAC
* **
44318228 AAGATTCGCTGCCTTTAGCTTTAATCTGCTCCA-TCGTAATGATAGGGAAAC
1 AAGATTCGCTGCCTTTAGCTTTAATCTGTTCCACT-GTAATGCCAGGGAAAC
* * ** * *
44318279 AAGATTCGCTACCTTTAGCTTTAATCTATTCCACTGTAATGCCAAAGAGAT
1 AAGATTCGCTGCCTTTAGCTTTAATCTGTTCCACTGTAATGCCAGGGAAAC
* * *
44318330 AAGATTCACTGTCTTCAGCTTTAATC
1 AAGATTCGCTGCCTTTAGCTTTAATC
44318356 CGCTCCATTT
Statistics
Matches: 188, Mismatches: 39, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
50 2 0.01
51 139 0.74
52 3 0.02
54 2 0.01
55 1 0.01
57 41 0.22
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (51 bp):
AAGATTCGCTGCCTTTAGCTTTAATCTGTTCCACTGTAATGCCAGGGAAAC
Found at i:44318336 original size:159 final size:159
Alignment explanation
Indices: 44318045--44318374 Score: 491
Period size: 159 Copynumber: 2.1 Consensus size: 159
44318035 GATTCGCTGC
* * *
44318045 CTTCAGCTTTAACGACATGGAGATAAGATTTGCTGCCTTCAGCTTTAATCTGCTTAGCTGTAATG
1 CTTCAGCTTTAACGACAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCAGCTGTAATG
* * * * * *
44318110 CCAGGGAAACAAGATTTGCTACCTTTAGCTTTAATTTGTTCCACTGTAACGCCAAGGAGATAGGA
66 ACAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTGTAACGCCAAAGAGATAAGA
44318175 TTCACTGCCTTCAGCTTTAATCCGCTCCA
131 TTCACTGCCTTCAGCTTTAATCCGCTCCA
* * *
44318204 CTTCAGCTTTAACGATAGGGAGATAAGATTCGCTGCCTTTAGCTTTAATCTGCTCCATC-GTAAT
1 CTTCAGCTTTAACGACAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCT-CAGCTGTAAT
* *
44318268 GATAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTGTAATGCCAAAGAGATAAG
65 GACAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTGTAACGCCAAAGAGATAAG
*
44318333 ATTCACTGTCTTCAGCTTTAATCCGCTCCA
130 ATTCACTGCCTTCAGCTTTAATCCGCTCCA
* *
44318363 TTTTAGCTTTAA
1 CTTCAGCTTTAA
44318375 TCTATTCCAC
Statistics
Matches: 153, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
159 151 0.99
160 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (159 bp):
CTTCAGCTTTAACGACAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCAGCTGTAATG
ACAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTGTAACGCCAAAGAGATAAGA
TTCACTGCCTTCAGCTTTAATCCGCTCCA
Found at i:44318422 original size:72 final size:72
Alignment explanation
Indices: 44318292--44318427 Score: 191
Period size: 72 Copynumber: 1.9 Consensus size: 72
44318282 ATTCGCTACC
* * * * **
44318292 TTTAGCTTTAATCTATTCCACTGTAATGCCAAAGAGATAAGATTCACTGTCTTCAGCTTTAATCC
1 TTTAGCTTTAATCTATTCCACTGCAACGCCAAAGAAACAAGATTCACTACCTTCAGCTTTAATCC
44318357 GCTCCAT
66 GCTCCAT
* * *
44318364 TTTAGCTTTAATCTATTCCACTGCAACGCCAAGGAAACAAGATTCTCTACCTTTAGCTTTAATC
1 TTTAGCTTTAATCTATTCCACTGCAACGCCAAAGAAACAAGATTCACTACCTTCAGCTTTAATC
44318428 TGTTCCACTA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (72 bp):
TTTAGCTTTAATCTATTCCACTGCAACGCCAAAGAAACAAGATTCACTACCTTCAGCTTTAATCC
GCTCCAT
Found at i:44319847 original size:6 final size:6
Alignment explanation
Indices: 44319836--44319887 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
44319826 TCTCCTCTTT
* * *
44319836 TTTTTC TTTTTC TTTTTC -TTTTC TTCTTC TTCTT- TATTTC TTTCTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTT-TTC
44319883 TTTTT
1 TTTTT
44319888 TTCTTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 8 0.21
6 25 0.64
7 6 0.15
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:44319857 original size:11 final size:11
Alignment explanation
Indices: 44319836--44319899 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 11
44319826 TCTCCTCTTT
44319836 TTTTTCTTTTTC
1 TTTTTC-TTTTC
44319848 TTTTTCTTTTC
1 TTTTTCTTTTC
*
44319859 TTCTTCTTCTT-
1 TTTTTCTT-TTC
*
44319870 TATTTC-TTTC
1 TTTTTCTTTTC
44319880 TTCTTT-TTTTC
1 TT-TTTCTTTTC
44319891 TTTTT-TTTT
1 TTTTTCTTTT
44319900 AAATAATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
9 2 0.05
10 9 0.20
11 25 0.57
12 8 0.18
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:44319859 original size:17 final size:16
Alignment explanation
Indices: 44319833--44319889 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 16
44319823 GCCTCTCCTC
44319833 TTTTTTTTCTTTTTCT
1 TTTTTTTTCTTTTTCT
*
44319849 TTTTCTTTTCTTCTTCT
1 TTTT-TTTTCTTTTTCT
*
44319866 TCTTTATTTCTTTCTTCT
1 T-TTTTTTTCTTT-TTCT
44319884 TTTTTT
1 TTTTTT
44319890 CTTTTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
16 4 0.12
17 22 0.65
18 8 0.24
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTTCTTTTTCT
Found at i:44319895 original size:8 final size:8
Alignment explanation
Indices: 44319834--44319897 Score: 60
Period size: 8 Copynumber: 7.9 Consensus size: 8
44319824 CCTCTCCTCT
44319834 TTTTTTTC
1 TTTTTTTC
44319842 TTTTTCTT-
1 TTTTT-TTC
44319850 TTTCTTTTC
1 TTT-TTTTC
*
44319859 TTCTTCTTC
1 TT-TTTTTC
*
44319868 TTTATTTC
1 TTTTTTTC
*
44319876 -TTTCTTC
1 TTTTTTTC
44319883 TTTTTTTC
1 TTTTTTTC
44319891 TTTTTTT
1 TTTTTTT
44319898 TTAAATAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
7 5 0.11
8 27 0.60
9 12 0.27
10 1 0.02
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTTC
Found at i:44324534 original size:73 final size:73
Alignment explanation
Indices: 44324381--44324525 Score: 247
Period size: 73 Copynumber: 2.0 Consensus size: 73
44324371 TCTCGGATTT
* ** *
44324381 AAAAAAAA-GGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTTTCGAGATTGTTTAA
1 AAAAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATGCTCGAGATCGTTTAA
44324445 AACTTGAG
66 AACTTGAG
44324453 AAAAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATGCTCGAGATCGTTTAA
1 AAAAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATGCTCGAGATCGTTTAA
44324518 AACTTGAG
66 AACTTGAG
44324526 TTGGAAAAGA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
72 8 0.12
73 60 0.88
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (73 bp):
AAAAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATGCTCGAGATCGTTTAA
AACTTGAG
Found at i:44325014 original size:21 final size:22
Alignment explanation
Indices: 44324975--44325015 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
44324965 ATATATATAA
*
44324975 ATTATAAAAAATATGTGCATAT
1 ATTATAAAAAATATATGCATAT
*
44324997 ATTAT-AAAAATGTATGCAT
1 ATTATAAAAAATATATGCAT
44325016 GCATATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.37
Consensus pattern (22 bp):
ATTATAAAAAATATATGCATAT
Found at i:44326949 original size:16 final size:17
Alignment explanation
Indices: 44326919--44326953 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
44326909 AAATGGGTAA
*
44326919 TATGTATTTTAAATAAT
1 TATGTATGTTAAATAAT
44326936 TATGTATGTT-AATAAT
1 TATGTATGTTAAATAAT
44326952 TA
1 TA
44326954 CAGATTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (17 bp):
TATGTATGTTAAATAAT
Found at i:44334363 original size:37 final size:37
Alignment explanation
Indices: 44334304--44334460 Score: 278
Period size: 37 Copynumber: 4.2 Consensus size: 37
44334294 AGCTCAGACG
* * *
44334304 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
44334341 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
44334378 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
44334415 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
44334452 AAATCTCCA
1 AAATCTCCA
44334461 AGTTTCATGT
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 115 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:44334720 original size:47 final size:47
Alignment explanation
Indices: 44334658--44334948 Score: 402
Period size: 47 Copynumber: 6.1 Consensus size: 47
44334648 ACACGTTTCG
* * * ** *
44334658 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
44334705 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
44334752 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
44334799 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
44334846 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
*
44334899 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
44334946 CAT
1 CAT
44334949 AAAATCCTAA
Statistics
Matches: 221, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
47 177 0.80
49 1 0.00
51 1 0.00
53 42 0.19
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:44334822 original size:22 final size:22
Alignment explanation
Indices: 44334699--44334775 Score: 59
Period size: 22 Copynumber: 3.4 Consensus size: 22
44334689 ATGTTCACAT
44334699 TTATCACATTGGCCATTCGGCC
1 TTATCACATTGGCCATTCGGCC
* * * *
44334721 TTATCTCATATATG-CATGTTC-ACA
1 TTATCACAT-T-GGCCA--TTCGGCC
44334745 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCGGCC
44334768 TTATCACA
1 TTATCACA
44334776 CATACGCATG
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
22 17 0.43
23 7 0.17
24 7 0.17
25 9 0.22
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (22 bp):
TTATCACATTGGCCATTCGGCC
Found at i:44334929 original size:147 final size:141
Alignment explanation
Indices: 44334658--44334948 Score: 438
Period size: 147 Copynumber: 2.0 Consensus size: 141
44334648 ACACGTTTCG
* ** *
44334658 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTTATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
44334723 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
66 ATCTCATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
*
44334788 CACATTCATCA
131 CACATCCATCA
* *
44334799 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
44334864 ATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
66 AT----C-T-CATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
44334929 CATGTTCACATCCATCA
125 CATGTTCACATCCATCA
44334946 CAT
1 CAT
44334949 AAAATCCTAA
Statistics
Matches: 134, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
141 61 0.46
145 1 0.01
146 1 0.01
147 71 0.53
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (141 bp):
CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCTCATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
CACATCCATCA
Found at i:44337014 original size:85 final size:85
Alignment explanation
Indices: 44336885--44337063 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
44336875 TATTTTATTG
*
44336885 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
44336950 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
44336970 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
44337035 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
44337055 CCCATGCTC
1 CCCATGCTC
44337064 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:44338861 original size:40 final size:40
Alignment explanation
Indices: 44338829--44339180 Score: 542
Period size: 40 Copynumber: 8.8 Consensus size: 40
44338819 CCAGCATGAT
* * *
44338829 TGCTCCTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * ** * *
44338869 TGCTCTTTGGGGTTTAGCACGGATATATCATTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
44338909 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
44338949 TGCTCCTCGGGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
44338989 TGCTCCTCGGGACTTAGCCCGGATATACCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
44339029 TGCTCCTCGGGACTTAGCCCGGATATACCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
44339069 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
44339109 TGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
44339149 TGCTCTTCGGGACTTAGCCCGAATATATCACT
1 TGCTCCTCGGGACTTAGCCCGGATATATCACT
44339181 CTCAATTCTC
Statistics
Matches: 285, Mismatches: 27, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 285 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:44340475 original size:37 final size:37
Alignment explanation
Indices: 44340434--44340554 Score: 197
Period size: 37 Copynumber: 3.3 Consensus size: 37
44340424 ACCTCAGACG
* * *
44340434 AAATCTCCAAATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCAAACGTAGTCATCGGGTCTTACCCGGACA
*
44340471 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCAAACGTAGTCATCGGGTCTTACCCGGACA
*
44340508 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCAAACGTAGTCATCGGGTCTTACCCGGACA
44340545 AAATCTCCAA
1 AAATCTCCAA
44340555 GTTTCATGTA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 79 1.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (37 bp):
AAATCTCCAAACGTAGTCATCGGGTCTTACCCGGACA
Found at i:44340755 original size:46 final size:46
Alignment explanation
Indices: 44340687--44340777 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
44340677 TATATATACA
* * * *
44340687 CATCTCGTACATGTCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACGTCTCACATTAGCCATTCGGCCTTACCACATATC
* *
44340733 CATCTCATACACGTTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACGTCTCACATTAGCCATTCGGCCTTACCACATAT
44340778 ATTCATGTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.24, C:0.32, G:0.11, T:0.33
Consensus pattern (46 bp):
CATCTCATACACGTCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:44340813 original size:47 final size:47
Alignment explanation
Indices: 44340751--44341041 Score: 402
Period size: 47 Copynumber: 6.1 Consensus size: 47
44340741 ACACGTTTCG
* * * *
44340751 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
* *
44340798 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
* *
44340845 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCATATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
* *
44340892 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATTA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
* * *
44340939 CATTGGCCATTCGGCCTTATCATGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATATGCATGTTCACATTCATCA
*
44340992 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
44341039 CAT
1 CAT
44341042 AAAATCCTAA
Statistics
Matches: 219, Mismatches: 19, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
47 176 0.80
49 1 0.00
51 1 0.00
53 41 0.19
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
Found at i:44340908 original size:141 final size:144
Alignment explanation
Indices: 44340751--44341041 Score: 435
Period size: 147 Copynumber: 2.0 Consensus size: 144
44340741 ACACGTTTCG
* **
44340751 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
44340816 ATC-T-C-ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
66 ATCATGCAATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
* *
44340878 GTTCATATTCATCA
131 GTTCACATCCATCA
* * *
44340892 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATTACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
44340957 ATCATGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATG
66 ATCATGC--A-ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
44341022 CATGTTCACATCCATCA
128 CATGTTCACATCCATCA
44341039 CAT
1 CAT
44341042 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
141 62 0.47
142 1 0.01
143 1 0.01
147 69 0.52
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (144 bp):
CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCATGCAATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
GTTCACATCCATCA
Found at i:44343112 original size:85 final size:85
Alignment explanation
Indices: 44342983--44343161 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
44342973 TATTTTATTG
*
44342983 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
44343048 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
44343068 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
44343133 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
44343153 CCCATGCTC
1 CCCATGCTC
44343162 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:44345466 original size:10 final size:10
Alignment explanation
Indices: 44345447--44345476 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
44345437 CTCTACTCTT
*
44345447 GAAAAGAAAA
1 GAAAAAAAAA
44345457 GAAAAAAAAA
1 GAAAAAAAAA
44345467 GAAAAAAAAA
1 GAAAAAAAAA
44345477 AGAGAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:44345468 original size:15 final size:14
Alignment explanation
Indices: 44345448--44345477 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
44345438 TCTACTCTTG
44345448 AAAAGAAAAGAAAAA
1 AAAAGAAAA-AAAAA
44345463 AAAAGAAAAAAAAA
1 AAAAGAAAAAAAAA
44345477 A
1 A
44345478 GAGAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAA
Found at i:44352235 original size:26 final size:26
Alignment explanation
Indices: 44352206--44352257 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
44352196 AAGGCAGTGA
44352206 TCTGCACCAAGTCAGGTATTAAAACT
1 TCTGCACCAAGTCAGGTATTAAAACT
44352232 TCTGCACCAAGTCAGGTATTAAAACT
1 TCTGCACCAAGTCAGGTATTAAAACT
44352258 ATCTCTGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (26 bp):
TCTGCACCAAGTCAGGTATTAAAACT
Found at i:44364481 original size:18 final size:18
Alignment explanation
Indices: 44364460--44364496 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
44364450 ACTCATTCCA
* *
44364460 CATCACTTATAATCATTT
1 CATCACTTACAACCATTT
44364478 CATCACTTACAACCATTT
1 CATCACTTACAACCATTT
44364496 C
1 C
44364497 GAAACATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.00, T:0.38
Consensus pattern (18 bp):
CATCACTTACAACCATTT
Found at i:44366257 original size:3 final size:3
Alignment explanation
Indices: 44366249--44366322 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
44366239 ACCTACTTCT
44366249 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44366297 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
44366323 CTCTTTTATC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:44367857 original size:16 final size:16
Alignment explanation
Indices: 44367828--44367860 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44367818 CCAAACCATA
44367828 TGAAAAATTCCAAATT
1 TGAAAAATTCCAAATT
44367844 TGAAAGAATT-CAAATT
1 TGAAA-AATTCCAAATT
44367860 T
1 T
44367861 AGTATCAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (16 bp):
TGAAAAATTCCAAATT
Found at i:44379089 original size:171 final size:171
Alignment explanation
Indices: 44378804--44379149 Score: 674
Period size: 171 Copynumber: 2.0 Consensus size: 171
44378794 CACCACGATC
44378804 ATTTAATCTTTTAATTAAGTTGGCTTTTAACTTCTTACTTATAGAGAATAAATTCTCTTCGAATT
1 ATTTAATCTTTTAATTAAGTTGGCTTTTAACTTCTTACTTATAGAGAATAAATTCTCTTCGAATT
*
44378869 AGCTCGTAGCAATGAAGGTAATAAACATTTTTATTCCTTCCTTTAATTTAAACAAGTTTTACGAG
66 AGCTCGTAGCAATGAAGGTAATAAACATTTTTATTCCTTCCTCTAATTTAAACAAGTTTTACGAG
44378934 CATTGCTATGCATTAGATCAAGTGGTTTTTGACCTTTGTTA
131 CATTGCTATGCATTAGATCAAGTGGTTTTTGACCTTTGTTA
*
44378975 ATTTAATCTTTTAATTAAGTTGGTTTTTAACTTCTTACTTATAGAGAATAAATTCTCTTCGAATT
1 ATTTAATCTTTTAATTAAGTTGGCTTTTAACTTCTTACTTATAGAGAATAAATTCTCTTCGAATT
44379040 AGCTCGTAGCAATGAAGGTAATAAACATTTTTATTCCTTCCTCTAATTTAAACAAGTTTTACGAG
66 AGCTCGTAGCAATGAAGGTAATAAACATTTTTATTCCTTCCTCTAATTTAAACAAGTTTTACGAG
44379105 CATTGCTATGCATTAGATCAAGTGGTTTTTGACCTTTGTTA
131 CATTGCTATGCATTAGATCAAGTGGTTTTTGACCTTTGTTA
44379146 ATTT
1 ATTT
44379150 TGCCTCAAAA
Statistics
Matches: 173, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
171 173 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (171 bp):
ATTTAATCTTTTAATTAAGTTGGCTTTTAACTTCTTACTTATAGAGAATAAATTCTCTTCGAATT
AGCTCGTAGCAATGAAGGTAATAAACATTTTTATTCCTTCCTCTAATTTAAACAAGTTTTACGAG
CATTGCTATGCATTAGATCAAGTGGTTTTTGACCTTTGTTA
Found at i:44380977 original size:86 final size:86
Alignment explanation
Indices: 44380781--44381104 Score: 288
Period size: 86 Copynumber: 3.8 Consensus size: 86
44380771 TTATATCATT
* * * * *
44380781 AAATCAAAATAAAATTTATTAAACGGCAGGAATAAATCCCGAAACCGA-ATTATTT-TA-TT-AC
1 AAATC-AAATAAAACTTATTAAACGGCAGGAATAAATCCCGAAACAGATTTTATTTACATTTAAT
*
44380842 GTCT-TTGTTTGGAAACAAAA-C
65 TTCTCTT-TTTGGAAACAAAATC
** * * *
44380863 AATATTGAATAAATCTTGTTAAATGGCAGGAATAAATCCCGAAACAGATTTTATTTA-ATTTAAT
1 AA-ATCAAATAAAACTTATTAAACGGCAGGAATAAATCCCGAAACAGATTTTATTTACATTTAAT
* *
44380927 TTCTCATTTTTAGCAACAAAATC
65 TTCTC-TTTTTGGAAACAAAATC
* * * *
44380950 AAATCAAATAAAACTTATTAAACGGCAGGAATCAATCCCAAAACGGATTTTATTTACCTTTAATT
1 AAATCAAATAAAACTTATTAAACGGCAGGAATAAATCCCGAAACAGATTTTATTTACATTTAATT
* *
44381015 TC-CTGTTTGGAAATAAAATC
66 TCTCTTTTTGGAAACAAAATC
* * * * *
44381035 AAAATAATGGAATAAAA-TCAGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTATTTACTTT
1 -AAATCA---AATAAAACTTA-TTAAACGGCAGGAATAAATCCCGAAACAGATTTTATTTACATT
44381099 TAATTT
61 TAATTT
44381105 TGAAAACAAA
Statistics
Matches: 195, Mismatches: 33, Indels: 21
0.78 0.13 0.08
Matches are distributed among these distances:
82 38 0.19
83 9 0.05
84 2 0.01
85 17 0.09
86 63 0.32
87 14 0.07
88 2 0.01
89 50 0.26
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (86 bp):
AAATCAAATAAAACTTATTAAACGGCAGGAATAAATCCCGAAACAGATTTTATTTACATTTAATT
TCTCTTTTTGGAAACAAAATC
Found at i:44384739 original size:44 final size:47
Alignment explanation
Indices: 44384677--44384767 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
44384667 AACTAATGAA
*
44384677 CAGAGAGCACTAAAGTGCT-AT-A-CAGAGAGCA-TAGATGTGCTAAT
1 CAGAGAGCACTAAAGTGCTAATAATCAGAGAGCACT-GATGTCCTAAT
*
44384721 CAGAGAGCACTAACGTGCTAATAATCAGAGAGCACTGATGTCCTAAT
1 CAGAGAGCACTAAAGTGCTAATAATCAGAGAGCACTGATGTCCTAAT
44384768 AAGCAGAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
44 18 0.44
45 2 0.05
46 1 0.02
47 19 0.46
48 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (47 bp):
CAGAGAGCACTAAAGTGCTAATAATCAGAGAGCACTGATGTCCTAAT
Found at i:44384751 original size:25 final size:24
Alignment explanation
Indices: 44384669--44384777 Score: 111
Period size: 22 Copynumber: 4.6 Consensus size: 24
44384659 TTATTATGAA
*
44384669 CTAATGAACAGAGAGCACTAAAGTG
1 CTAAT-AACAGAGAGCACTAATGTG
44384694 CT-AT-ACAGAGAGCA-TAGATGTG
1 CTAATAACAGAGAGCACTA-ATGTG
*
44384716 CTAAT--CAGAGAGCACTAACGTG
1 CTAATAACAGAGAGCACTAATGTG
* *
44384738 CTAATAATCAGAGAGCACTGATGTC
1 CTAATAA-CAGAGAGCACTAATGTG
44384763 CTAATAAGCAGAGAG
1 CTAATAA-CAGAGAG
44384778 TGCGCTAAGG
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
21 2 0.03
22 34 0.47
23 4 0.06
24 2 0.03
25 30 0.42
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.19
Consensus pattern (24 bp):
CTAATAACAGAGAGCACTAATGTG
Found at i:44389740 original size:16 final size:17
Alignment explanation
Indices: 44389709--44389743 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
44389699 TTGTGTTTTG
44389709 TGCAAAAAGGACTAAAA
1 TGCAAAAAGGACTAAAA
*
44389726 TGCAAAAAGTA-TAAAA
1 TGCAAAAAGGACTAAAA
44389742 TG
1 TG
44389744 TTAGGGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (17 bp):
TGCAAAAAGGACTAAAA
Found at i:44390846 original size:41 final size:41
Alignment explanation
Indices: 44390789--44390946 Score: 167
Period size: 41 Copynumber: 3.9 Consensus size: 41
44390779 AATAAGATGG
* *
44390789 TTCAGACTTTACGTCTAGGAGGCTTGATGCCGATGAAATGT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGATGAAATGT
* * **
44390830 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAC
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGATGAAATGT
*
44390871 TTCAGACTTTATGTTTAGCAGGCTTTG-TGCC-AGTGAAATGT
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGA-TGAAATGT
* * * * * *
44390912 ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGATG
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGATG
44390947 TTTTATACAA
Statistics
Matches: 95, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
40 2 0.02
41 89 0.94
42 4 0.04
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGATGAAATGT
Found at i:44390930 original size:82 final size:82
Alignment explanation
Indices: 44390789--44390943 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 82
44390779 AATAAGATGG
* * *
44390789 TTCAGACTTTACGTCTAGGAGGCTTGATGCCGATGAAATGTTTCAGACTTTATGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGATGAAATGTATCAGACTTTATGCCTAGCAGGCT
44390854 TGATGCCGGTGAATTAC
66 TGATGCCGGTGAATTAC
* * * * *
44390871 TTCAGACTTTATGTTTAGCAGGCTTTG-TGCC-AGTGAAATGTATCGGGCTTTGTGCCTAGCAGG
1 TTCAGACTTTACGTCTAGCAGGC-TTGATGCCGA-TGAAATGTATCAGACTTTATGCCTAGCAGG
*
44390934 CTTTATGCCG
64 CTTGATGCCG
44390944 ATGTTTTATA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 1 0.02
82 58 0.94
83 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (82 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGATGAAATGTATCAGACTTTATGCCTAGCAGGCT
TGATGCCGGTGAATTAC
Found at i:44392509 original size:16 final size:17
Alignment explanation
Indices: 44392488--44392525 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
44392478 TTCTATAGGG
*
44392488 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
44392504 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
44392522 ATTT
1 ATTT
44392526 AAATAAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:44393863 original size:99 final size:95
Alignment explanation
Indices: 44393754--44393947 Score: 300
Period size: 99 Copynumber: 2.0 Consensus size: 95
44393744 CAGGTTCGAA
*
44393754 TCGATTTTTTTT-AACTTTTTTTTGAATTTAGGTTTTTTTTCGCTCCGGCCCTTTTAAATTTGAA
1 TCGATTTTTTTTCAACTTTTTTTT-AATTTAGGTTTTTTTT-GCTCCGACCCTTTTAAATTTG--
* *
44393818 ATTTTTTTTAAATTTAGACTTGGACTAAGTCAGAC
62 ATTTTTTTT-AATTTAGACTTAGACCAAGTCAGAC
44393853 TCGATTTTTTTTCAACTTTTTTTTAATTTAGGTTTTTTTTGCTCCGACCCTTTTAAATTTGATTT
1 TCGATTTTTTTTCAACTTTTTTTTAATTTAGGTTTTTTTTGCTCCGACCCTTTTAAATTTGATTT
*
44393918 TTTTTAATTTAGACTTAGACCAAGTGAGAC
66 TTTTTAATTTAGACTTAGACCAAGTCAGAC
44393948 GAGTTCTCAT
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
95 22 0.24
96 9 0.10
98 20 0.22
99 28 0.31
100 11 0.12
ACGTcount: A:0.22, C:0.13, G:0.12, T:0.52
Consensus pattern (95 bp):
TCGATTTTTTTTCAACTTTTTTTTAATTTAGGTTTTTTTTGCTCCGACCCTTTTAAATTTGATTT
TTTTTAATTTAGACTTAGACCAAGTCAGAC
Found at i:44393979 original size:98 final size:97
Alignment explanation
Indices: 44393773--44393947 Score: 230
Period size: 95 Copynumber: 1.8 Consensus size: 97
44393763 TTTAACTTTT
*
44393773 TTTTGAATTTAGGTTTTTTTTCGCTCCGGCCCTTTTAAATTTGAAATTTTTTTTAAATTTAGACT
1 TTTTGAATTTAGGTTTTTTTTCGCTCCGACCCTTTTAAATTTG-AATTTTTTTTAAATTTAGACT
* * * * **
44393838 TGGACTAAGTCAGACTCGATTTTTTTTCAACTTT
65 TAGACCAAGTCAGAC-CGATTTTATTTCAAATAA
*
44393872 TTTTTAATTTAGGTTTTTTTT-GCTCCGACCCTTTTAAATTTG-ATTTTTTTT-AATTTAGACTT
1 TTTTGAATTTAGGTTTTTTTTCGCTCCGACCCTTTTAAATTTGAATTTTTTTTAAATTTAGACTT
*
44393934 AGACCAAGTGAGAC
66 AGACCAAGTCAGAC
44393948 GAGTTCTCAT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
95 22 0.31
96 9 0.13
98 20 0.28
99 20 0.28
ACGTcount: A:0.23, C:0.14, G:0.13, T:0.50
Consensus pattern (97 bp):
TTTTGAATTTAGGTTTTTTTTCGCTCCGACCCTTTTAAATTTGAATTTTTTTTAAATTTAGACTT
AGACCAAGTCAGACCGATTTTATTTCAAATAA
Found at i:44394906 original size:20 final size:19
Alignment explanation
Indices: 44394875--44394923 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
44394865 TAAATAAATC
44394875 ATAAAAATATTACAAA-TTT
1 ATAAAAATATTA-AAAGTTT
44394894 ATAAAAGATATTAAAAGTTT
1 ATAAAA-ATATTAAAAGTTT
44394914 ATAAAAATAT
1 ATAAAAATAT
44394924 ATTAAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (19 bp):
ATAAAAATATTAAAAGTTT
Found at i:44395539 original size:40 final size:38
Alignment explanation
Indices: 44395490--44395582 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 38
44395480 CATATTTATA
* *
44395490 ATTTATTAAATTTTTATAAGCTTATATAAAAAATTTAAAT
1 ATTTTTTAAATTTTTATAA-ATT-TATAAAAAATTTAAAT
* *
44395530 ATTTTTTAAATTTTTATAAATTTATATAAAATTTTAAT
1 ATTTTTTAAATTTTTATAAATTTATAAAAAATTTAAAT
44395568 ATTTTGTTAATATTT
1 ATTTT-TTAA-ATTT
44395583 CACGTGTCCT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 19 0.40
39 6 0.13
40 22 0.47
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (38 bp):
ATTTTTTAAATTTTTATAAATTTATAAAAAATTTAAAT
Found at i:44399566 original size:24 final size:26
Alignment explanation
Indices: 44399534--44399582 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
44399524 AAACCCTAGT
* *
44399534 TTTTTTTCTCCTTT-TTCTT-TTTTG
1 TTTTGTTCTACTTTGTTCTTCTTTTG
44399558 TTTTGTTCTACTTTGTTCTTCTTTT
1 TTTTGTTCTACTTTGTTCTTCTTTT
44399583 TCTTTCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 5 0.24
26 4 0.19
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (26 bp):
TTTTGTTCTACTTTGTTCTTCTTTTG
Found at i:44413359 original size:9 final size:9
Alignment explanation
Indices: 44413345--44413377 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
44413335 ATTTAGTCCC
44413345 GTTTTTATT
1 GTTTTTATT
44413354 GTTTTTATT
1 GTTTTTATT
44413363 GTTTTTATT
1 GTTTTTATT
44413372 -TTTTTA
1 GTTTTTA
44413378 AAAGTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.25
9 18 0.75
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (9 bp):
GTTTTTATT
Found at i:44413433 original size:18 final size:19
Alignment explanation
Indices: 44413412--44413453 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
44413402 ATTATTATTA
*
44413412 TTATTATCATTA-TTGCTT
1 TTATTATCATTATTTGCCT
* *
44413430 TTATTTTTATTATTTGCCT
1 TTATTATCATTATTTGCCT
44413449 TTATT
1 TTATT
44413454 GTTTACTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.67
Consensus pattern (19 bp):
TTATTATCATTATTTGCCT
Found at i:44413451 original size:19 final size:19
Alignment explanation
Indices: 44413420--44413458 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44413410 TATTATTATC
*
44413420 ATTATTGCTTTTATT-TTT
1 ATTATTGCCTTTATTGTTT
44413438 ATTATTTGCCTTTATTGTTT
1 ATTA-TTGCCTTTATTGTTT
44413458 A
1 A
44413459 CTCATTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.67
Consensus pattern (19 bp):
ATTATTGCCTTTATTGTTT
Done.