Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 151 of 255
Found at i:48993202 original size:50 final size:49
Alignment explanation
Indices: 48993038--48993208 Score: 261
Period size: 49 Copynumber: 3.5 Consensus size: 49
48993028 GTACGCATAA
* * *
48993038 TAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAG
48993087 TAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAG
* ** * *
48993136 TAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACGTAG
48993186 TAGCCTGCACTTAGTACTACACA
1 TAGCCTGCACTTAGTACTACACA
48993209 TGCGACCTCA
Statistics
Matches: 113, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
49 75 0.66
50 38 0.34
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (49 bp):
TAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAG
Found at i:49006252 original size:25 final size:26
Alignment explanation
Indices: 49006224--49006272 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
49006214 TCAATAGCAT
49006224 AAATGCCTTCGGA-CTTAGCCCGGCC
1 AAATGCCTTCGGATCTTAGCCCGGCC
*
49006249 AAATGCCTTCGGATCTTAGTCCGG
1 AAATGCCTTCGGATCTTAGCCCGG
49006273 ATGTAGTCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.24
Consensus pattern (26 bp):
AAATGCCTTCGGATCTTAGCCCGGCC
Found at i:49007517 original size:31 final size:33
Alignment explanation
Indices: 49007475--49007537 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
49007465 AACTCCTTCC
49007475 TCCTTCCTTAGAATTTCGCC-AAAGAAATGAAT
1 TCCTTCCTTAGAATTTCGCCAAAAGAAATGAAT
49007507 TCCTT-CTTAGAATTTCGCCAAAAGAAATGAA
1 TCCTTCCTTAGAATTTCGCCAAAAGAAATGAA
49007538 AAATGATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 14 0.47
32 16 0.53
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.30
Consensus pattern (33 bp):
TCCTTCCTTAGAATTTCGCCAAAAGAAATGAAT
Found at i:49007939 original size:1 final size:1
Alignment explanation
Indices: 49007929--49007958 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
49007919 TTTTCTAGTA
*
49007929 TTTTTATTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
49007959 ATTAAGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:49008663 original size:23 final size:23
Alignment explanation
Indices: 49008637--49008717 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
49008627 TAATGTTCAC
49008637 GAACATGTTCATTTAAC-TTAATT
1 GAACATGTTCA-TTAACATTAATT
* **
49008660 GAACATGTTCACTAACATTAAAC
1 GAACATGTTCATTAACATTAATT
* *
49008683 AAACATGTTCATGAACATATAATT
1 GAACATGTTCATTAACAT-TAATT
49008707 GAACATGTTCA
1 GAACATGTTCA
49008718 CGAACAACGT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 4 0.09
23 30 0.64
24 13 0.28
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (23 bp):
GAACATGTTCATTAACATTAATT
Found at i:49017696 original size:41 final size:41
Alignment explanation
Indices: 49017651--49017732 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
49017641 ATATTATATA
** *
49017651 TTATATTAGTTTT-AATAATTTTTACCTTTTAAAAATTAATT
1 TTATATT-GTTTTGAATAATTTTTAAATTTTAAAAAATAATT
* *
49017692 TTATATTTTTTTGAATATTTTTTAAATTTTAAAAAATAATT
1 TTATATTGTTTTGAATAATTTTTAAATTTTAAAAAATAATT
49017733 AATTGTTGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 4 0.11
41 31 0.89
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (41 bp):
TTATATTGTTTTGAATAATTTTTAAATTTTAAAAAATAATT
Found at i:49018320 original size:15 final size:16
Alignment explanation
Indices: 49018300--49018332 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
49018290 TTATAATTCA
*
49018300 ATTTTAAATTTAT-TT
1 ATTTTAAAATTATATT
49018315 ATTTTAAAATTATATT
1 ATTTTAAAATTATATT
49018331 AT
1 AT
49018333 AACATCTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTTAAAATTATATT
Found at i:49022286 original size:71 final size:71
Alignment explanation
Indices: 49022170--49022314 Score: 254
Period size: 71 Copynumber: 2.0 Consensus size: 71
49022160 AACTAACTCA
* * *
49022170 AATATTCACCCATCTACTACTGTATTGTGACCTGAAGTTTCTCCTTGAATCGGCAAAAAGGTGAT
1 AATATTCACCCATCTACTACTATATTGTGACCTGAAGTTTCTCCTTGAACCGGCAAAAAGGCGAT
49022235 GAGGAT
66 GAGGAT
*
49022241 AATATTCACCCATCTACTCCTATATTGTGACCTGAAGTTTCTCCTTGAACCGGCAAAAAGGCGAT
1 AATATTCACCCATCTACTACTATATTGTGACCTGAAGTTTCTCCTTGAACCGGCAAAAAGGCGAT
49022306 GAGGAT
66 GAGGAT
49022312 AAT
1 AAT
49022315 GGTTTAGTGA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (71 bp):
AATATTCACCCATCTACTACTATATTGTGACCTGAAGTTTCTCCTTGAACCGGCAAAAAGGCGAT
GAGGAT
Found at i:49025740 original size:354 final size:354
Alignment explanation
Indices: 49025091--49026139 Score: 1956
Period size: 354 Copynumber: 3.0 Consensus size: 354
49025081 AACACATTTT
* * *
49025091 TTAAATGCAACAATTTACAAGAAATAGAAATAGTGCTATGACCCAAATGCACAATATGAACACAA
1 TTAAATGCAACAATTTACGAGAAATAGAAATAATGCTATGACCCAAACGCACAATATGAACACAA
*
49025156 GTACCATCACCCATAAGTAGAGGAATTTTACCTAAATATTGAGTCGAATTATTCAATATAGAAGC
66 GTACCATCACCCATAAGTAGAGGAATTTTACCTAAATATTGACTCGAATTATTCAATATAGAAGC
*
49025221 CTCCTGACATACGTGGTTGGTGGCACCAGAGTCAAAGTACCAAACGAACATCTTGGTAGATGTAG
131 CTCCTGACATACGTGGTTGGTGGCACCAGAGTCGAAGTACCAAACGAACATCTTGGTAGATGTAG
49025286 AAGGCAATGACATAGACAGCTGAGTAGAAACACCACTTGATAAACCAGGCCTAGCAGAATTTATA
196 AAGGCAATGACATAGACAGCTGAGTAGAAACACCACTTGATAAACCAGGCCTAGCAGAATTTATA
49025351 GCAACAGGCCCAACAAACTCAAGAGAAAAAAAGCCAAAAGTAAACCCAGCCGAATTAATGTCAAT
261 GCAACAGGCCCAACAAACTCAAGAGAAAAAAAGCCAAAAGTAAACCCAGCCGAATTAATGTCAAT
49025416 AGACCCAAAAATAGGCCCATCTAAATTAG
326 AGACCCAAAAATAGGCCCATCTAAATTAG
49025445 TTAAATGCAACAATTTACGAGAAATAGAAATAATGCTATGACCCAAACGCACAATATGAACACAA
1 TTAAATGCAACAATTTACGAGAAATAGAAATAATGCTATGACCCAAACGCACAATATGAACACAA
49025510 GTACCATCACCCATAAGTAGAGGAATTTTACCTAAATATTGACTCGAATTATTCAATATAGAAGC
66 GTACCATCACCCATAAGTAGAGGAATTTTACCTAAATATTGACTCGAATTATTCAATATAGAAGC
49025575 CTCCTGACATACGTGGTTGGTGGCACCAGAGTCGAAGTACCAAACGAACATCTTGGTAGATGTAG
131 CTCCTGACATACGTGGTTGGTGGCACCAGAGTCGAAGTACCAAACGAACATCTTGGTAGATGTAG
49025640 AAGGCAATGACATAGACAGCTGAGTAGAAACACCACTTGATAAACCAGGCCTAGCAGAATTTATA
196 AAGGCAATGACATAGACAGCTGAGTAGAAACACCACTTGATAAACCAGGCCTAGCAGAATTTATA
*
49025705 GCAACAGGCCCAACAAACTCAAGAGAAAAAAAGCCAAAAGTAAACCCAGTCGAATTAATGTCAAT
261 GCAACAGGCCCAACAAACTCAAGAGAAAAAAAGCCAAAAGTAAACCCAGCCGAATTAATGTCAAT
49025770 AGACCCAAAAATAGGCCCATCTAAATTAG
326 AGACCCAAAAATAGGCCCATCTAAATTAG
49025799 TTAAATGCAACAATTTACGAGAAATAGAAATAATGCTATGACCCAAACGCACAATATGAACACAA
1 TTAAATGCAACAATTTACGAGAAATAGAAATAATGCTATGACCCAAACGCACAATATGAACACAA
49025864 GTACCATCACCCATAAGTAGAGGAATTTTACCTAAATATTGACTCGAATTATTCAATATAGAAGC
66 GTACCATCACCCATAAGTAGAGGAATTTTACCTAAATATTGACTCGAATTATTCAATATAGAAGC
* *
49025929 CTCCTGACATACGTGGTTGGTGGCACCAGAGTCGAAATACCAAACGAACATCTTAGTAGATGTAG
131 CTCCTGACATACGTGGTTGGTGGCACCAGAGTCGAAGTACCAAACGAACATCTTGGTAGATGTAG
*
49025994 AAGGCAATGACATAGACAGCTGAGTAGAAACACCACTTGATAAACCATGCCTAGCAGAATTTATA
196 AAGGCAATGACATAGACAGCTGAGTAGAAACACCACTTGATAAACCAGGCCTAGCAGAATTTATA
* * *
49026059 GCAACAGGCTCAACAAACTCAAGAGCAAAAAAA-CCAAAAGCAAACCCAGCTGAATTAATGTCAA
261 GCAACAGGCCCAACAAACTCAAGAG-AAAAAAAGCCAAAAGTAAACCCAGCCGAATTAATGTCAA
* *
49026123 TAGGCCCAAAAACAGGC
325 TAGACCCAAAAATAGGC
49026140 TCAGTTAAAT
Statistics
Matches: 679, Mismatches: 15, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
354 672 0.99
355 7 0.01
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (354 bp):
TTAAATGCAACAATTTACGAGAAATAGAAATAATGCTATGACCCAAACGCACAATATGAACACAA
GTACCATCACCCATAAGTAGAGGAATTTTACCTAAATATTGACTCGAATTATTCAATATAGAAGC
CTCCTGACATACGTGGTTGGTGGCACCAGAGTCGAAGTACCAAACGAACATCTTGGTAGATGTAG
AAGGCAATGACATAGACAGCTGAGTAGAAACACCACTTGATAAACCAGGCCTAGCAGAATTTATA
GCAACAGGCCCAACAAACTCAAGAGAAAAAAAGCCAAAAGTAAACCCAGCCGAATTAATGTCAAT
AGACCCAAAAATAGGCCCATCTAAATTAG
Found at i:49042010 original size:24 final size:24
Alignment explanation
Indices: 49041924--49042031 Score: 128
Period size: 25 Copynumber: 4.4 Consensus size: 24
49041914 GGAGGAAGTG
* * *
49041924 CAAAAGGGCTATGCCCTAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
49041948 CGAAAAGGGTTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
*
49041973 CAAAAAGGGTTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
49041998 CAAAAGGGCTTTGCCCCAG-TTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
49042021 TAAAAGAGGCT
1 CAAAAG-GGCT
49042032 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
23 9 0.12
24 22 0.29
25 44 0.59
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:49042042 original size:49 final size:50
Alignment explanation
Indices: 49041924--49042043 Score: 131
Period size: 49 Copynumber: 2.4 Consensus size: 50
49041914 GGAGGAAGTG
* *
49041924 CAAAAG-GGCTATGCCCTAGTTTACCGAAAAGGGTTTTGCCCCAGTTTAT
1 CAAAAGAGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAT
* * *
49041973 CAAAA-AGGGTTTTGCCCCAGTTTATC-AAAAGGGCTTTGCCCCAG-TTAT
1 CAAAAGA-GGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAT
* *
49042021 TAAAAGAGGCTAGGCCTCCAGTT
1 CAAAAGAGGCTATGCC-CCAGTT
49042044 ATATGATAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
48 14 0.24
49 29 0.50
50 15 0.26
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.28
Consensus pattern (50 bp):
CAAAAGAGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAT
Found at i:49042972 original size:12 final size:13
Alignment explanation
Indices: 49042955--49042983 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
49042945 CATTAGAACT
49042955 TTTATTTTA-TTA
1 TTTATTTTACTTA
49042967 TTTATTTTACTTA
1 TTTATTTTACTTA
49042980 TTTA
1 TTTA
49042984 AAATTCTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATTTTACTTA
Found at i:49050811 original size:76 final size:73
Alignment explanation
Indices: 49050687--49050831 Score: 236
Period size: 76 Copynumber: 1.9 Consensus size: 73
49050677 TGACTTATGC
*
49050687 CAGACGGCCAAGCACGCCCATGTGCTGAGCCATGTGGAGCATATTGACTTGGTTTCTAATAAACA
1 CAGACGGCCAAGCACGCCCATGTGCTGAGCCATGTGGAGCATACTGACTTGGTTTCTAATAAACA
49050752 TCAGCAGA
66 TCAGCAGA
* *
49050760 CAGACGGCCAAGTTACACGCCCATGTGCTGGGCCGTGTGGAGCATACTGACTTGGTTTCTAATAA
1 CAGACGGCCAAG---CACGCCCATGTGCTGAGCCATGTGGAGCATACTGACTTGGTTTCTAATAA
49050825 ACATCAG
63 ACATCAG
49050832 GGGATACACG
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
73 12 0.18
76 54 0.82
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.23
Consensus pattern (73 bp):
CAGACGGCCAAGCACGCCCATGTGCTGAGCCATGTGGAGCATACTGACTTGGTTTCTAATAAACA
TCAGCAGA
Found at i:49056367 original size:15 final size:15
Alignment explanation
Indices: 49056347--49056383 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
49056337 AGCTTCAACT
49056347 CGGACACACAGTGTA
1 CGGACACACAGTGTA
49056362 CGGACACACAGTGTA
1 CGGACACACAGTGTA
49056377 CGGACAC
1 CGGACAC
49056384 TTAGAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.30, G:0.27, T:0.11
Consensus pattern (15 bp):
CGGACACACAGTGTA
Found at i:49058711 original size:6 final size:6
Alignment explanation
Indices: 49058700--49058730 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
49058690 TTTTTTGCTT
*
49058700 GGTTAG GGTTAG GGTTAG GGTTAG AGTTAG G
1 GGTTAG GGTTAG GGTTAG GGTTAG GGTTAG G
49058731 ATTTTAAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.32
Consensus pattern (6 bp):
GGTTAG
Found at i:49059227 original size:128 final size:126
Alignment explanation
Indices: 49058843--49059237 Score: 583
Period size: 126 Copynumber: 3.1 Consensus size: 126
49058833 TAAAAACTTT
*
49058843 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTTCAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
** * * *
49058908 ACACTTCAAGCAGGATGGACTGTCAGCAAAATTACAGGAAAAAGCTCCCACGTGGATGCTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
49058969 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* * * * * * *
49059034 ATGGTTCAAGCAGGATACACTGTCACCAAAATTACTGAAAAAAACTCCCACGTGAATGTTTTT
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATG--CTC
* * * *
49059097 TTTTTCTACAGTAGCATCTGAAAAAATAATTTTGAAAAGACATTTCTGAACAAATAGTATCCAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* * **
49059162 ATGCTTCAAGCAGGATGCACTGTCAGGAAAATTACTGAAAAAAGCTCCAACGTGGACACTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
49059223 TTTTTCTACAGTAGT
1 TTTTTCTACAGTAGT
49059238 TCCTATTTGG
Statistics
Matches: 238, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
126 127 0.53
128 111 0.47
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
Found at i:49061173 original size:42 final size:41
Alignment explanation
Indices: 49061113--49061217 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 41
49061103 ATTAGCCGCT
*
49061113 GCAAAAGGTAAAGCAATAGTGGCATTTTT-TACATAAATGTC
1 GCAAAAGGTAAAGCAATAGTGGCATTTTTCT-CATAAACGTC
* *
49061154 GCCAAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACGTT
1 G-CAAAAGGTAAAGCAATAGTGGCATTTTTCTCATAAACGTC
* *
49061196 GCAAAACGTAAAGGAATAGTGG
1 GCAAAAGGTAAAGCAATAGTGG
49061218 TGATTATAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
41 19 0.34
42 36 0.64
43 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (41 bp):
GCAAAAGGTAAAGCAATAGTGGCATTTTTCTCATAAACGTC
Found at i:49063473 original size:30 final size:30
Alignment explanation
Indices: 49063437--49063522 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 30
49063427 TAGTGATTTG
*
49063437 TGAAAATTGAATTAAATTTAAATTTTATGTA
1 TGAAAATT-AATTAAATTTAAATTTCATGTA
* *
49063468 T-AAAATT-ATAAAAAATTAAATTTCATGTA
1 TGAAAATTAAT-TAAATTTAAATTTCATGTA
* *
49063497 TGAAAATACACATTAAATTAAAATTT
1 TGAAAAT-TA-ATTAAATTTAAATTT
49063523 ATATTTAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
28 2 0.05
29 17 0.40
30 11 0.26
31 1 0.02
32 10 0.23
33 2 0.05
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (30 bp):
TGAAAATTAATTAAATTTAAATTTCATGTA
Found at i:49065635 original size:43 final size:43
Alignment explanation
Indices: 49065551--49065676 Score: 182
Period size: 43 Copynumber: 3.0 Consensus size: 43
49065541 GCGTTTATAA
* * * *
49065551 GGAAAGCGTCACTAAAGATCATG-TCTTTAGCGGAATTTTTGG
1 GGAAAGCGCCACTAAAGGTCATGTTCTTTAGTGGCATTTTTGG
*
49065593 GGAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCATTTTTGG
1 GGAAAGCGCCACTAAAGGTCATGTTCTTTAGTGGCATTTTTGG
* *
49065636 GGAAAGTGCCACTAAAGGTCATGTTCTTTTGTGGCATTTTT
1 GGAAAGCGCCACTAAAGGTCATGTTCTTTAGTGGCATTTTT
49065677 TTGTAAAAAC
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 20 0.27
43 55 0.73
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
GGAAAGCGCCACTAAAGGTCATGTTCTTTAGTGGCATTTTTGG
Found at i:49070495 original size:9 final size:9
Alignment explanation
Indices: 49070483--49070557 Score: 55
Period size: 9 Copynumber: 8.4 Consensus size: 9
49070473 AGAATTTTTT
49070483 AAAATTATA
1 AAAATTATA
*
49070492 AAAATTAAA
1 AAAATTATA
*
49070501 AAAAGTATA
1 AAAATTATA
*
49070510 TAAA-TAT-
1 AAAATTATA
*
49070517 AAAATTATT
1 AAAATTATA
*
49070526 AAAATTACA
1 AAAATTATA
** *
49070535 TTAATATATT
1 AAAAT-TATA
49070545 AAAATTATA
1 AAAATTATA
49070554 AAAA
1 AAAA
49070558 AATTTAAATT
Statistics
Matches: 49, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
7 3 0.06
8 6 0.12
9 35 0.71
10 5 0.10
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:49070529 original size:25 final size:28
Alignment explanation
Indices: 49070492--49070557 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 28
49070482 TAAAATTATA
* *
49070492 AAAATTAAAAAAAGTATA-TAA-ATA-T
1 AAAATTATAAAAAGTACATTAATATATT
* *
49070517 AAAATTATTAAAATTACATTAATATATT
1 AAAATTATAAAAAGTACATTAATATATT
49070545 AAAATTATAAAAA
1 AAAATTATAAAAA
49070558 AATTTAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 14 0.42
26 3 0.09
27 3 0.09
28 13 0.39
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (28 bp):
AAAATTATAAAAAGTACATTAATATATT
Found at i:49071112 original size:21 final size:21
Alignment explanation
Indices: 49071086--49071159 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
49071076 TTTTCAATAT
49071086 TTTATAGTTTTTAAATATTTC
1 TTTATAGTTTTTAAATATTTC
*
49071107 TTTATA-ATTTTATAAT-TTTC
1 TTTATAGTTTTTA-AATATTTC
* *
49071127 TAT-TAGTTTTT-AATAATT-
1 TTTATAGTTTTTAAATATTTC
*
49071145 TTTATGGTTTTTAAA
1 TTTATAGTTTTTAAA
49071160 CTTTTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
18 5 0.12
19 11 0.26
20 17 0.40
21 9 0.21
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTATAGTTTTTAAATATTTC
Found at i:49071117 original size:29 final size:29
Alignment explanation
Indices: 49071076--49071159 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 29
49071066 TCTTAAAACA
*
49071076 TTTTCAAT-ATTTTATAGTTTTTAAATA-
1 TTTTTAATAATTTTATAGTTTTTAAATAG
* * *
49071103 TTTCTTTATAATTTTATAATTTTCT-ATTAG
1 TTT-TTAATAATTTTATAGTTTT-TAAATAG
*
49071133 TTTTTAATAATTTTTATGGTTTTTAAA
1 TTTTTAATAA-TTTTATAGTTTTTAAA
49071160 CTTTTTAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
27 3 0.07
28 3 0.07
29 22 0.51
30 15 0.35
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.62
Consensus pattern (29 bp):
TTTTTAATAATTTTATAGTTTTTAAATAG
Found at i:49082032 original size:99 final size:99
Alignment explanation
Indices: 49081861--49082058 Score: 396
Period size: 99 Copynumber: 2.0 Consensus size: 99
49081851 CTGTACCTTA
49081861 GTTTTTGAAATTGTTGAAGATTTTGAGATATTCCATTGTTGAATACTTGGGTATTTTGAAGTTTC
1 GTTTTTGAAATTGTTGAAGATTTTGAGATATTCCATTGTTGAATACTTGGGTATTTTGAAGTTTC
49081926 TTGTTAGATTATTGATGGTTGTTAATAGATATAC
66 TTGTTAGATTATTGATGGTTGTTAATAGATATAC
49081960 GTTTTTGAAATTGTTGAAGATTTTGAGATATTCCATTGTTGAATACTTGGGTATTTTGAAGTTTC
1 GTTTTTGAAATTGTTGAAGATTTTGAGATATTCCATTGTTGAATACTTGGGTATTTTGAAGTTTC
49082025 TTGTTAGATTATTGATGGTTGTTAATAGATATAC
66 TTGTTAGATTATTGATGGTTGTTAATAGATATAC
49082059 AAGTTTTATA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (99 bp):
GTTTTTGAAATTGTTGAAGATTTTGAGATATTCCATTGTTGAATACTTGGGTATTTTGAAGTTTC
TTGTTAGATTATTGATGGTTGTTAATAGATATAC
Found at i:49082678 original size:23 final size:23
Alignment explanation
Indices: 49082652--49082739 Score: 99
Period size: 23 Copynumber: 3.9 Consensus size: 23
49082642 CTGACCACAA
*
49082652 CTCATAAGAGCCTACTGTTTCAG
1 CTCATAAGAGCTTACTGTTTCAG
** * *
49082675 CTCATTGGAGCTTACCGATTCAG
1 CTCATAAGAGCTTACTGTTTCAG
*
49082698 CTCAAAAGAGCTTACTGTTT-AG
1 CTCATAAGAGCTTACTGTTTCAG
49082720 CTCA-ATAGAGCTTACTGTTT
1 CTCATA-AGAGCTTACTGTTT
49082740 ATTAGCTTAG
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
21 1 0.02
22 20 0.37
23 33 0.61
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (23 bp):
CTCATAAGAGCTTACTGTTTCAG
Found at i:49087953 original size:48 final size:48
Alignment explanation
Indices: 49087857--49088535 Score: 1189
Period size: 48 Copynumber: 14.2 Consensus size: 48
49087847 GATAAATATA
* * * *
49087857 TATGAGATATGTATATGTGGTAAAG-CGAATGACTAATGTGAAATATG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
* *
49087904 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
*
49087952 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAATACG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
49088000 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
49088048 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
49088096 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
49088144 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
*
49088192 TATGAGATATGTATACGTGGTAAAGCTGAATGGCTAGTGTGAAATACG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
49088240 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
*
49088288 TATGAGATATGTATACGTGGTAAAGCCGAATGGCAAGTGTGAAATACG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
* *
49088336 TATGAGATATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
* *
49088384 TATGAGATATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
* *
49088432 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
* *
49088480 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
1 TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
*
49088528 TAGGAGAT
1 TATGAGAT
49088536 GTGTGTATAT
Statistics
Matches: 618, Mismatches: 13, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
47 24 0.04
48 594 0.96
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (48 bp):
TATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATACG
Found at i:49088718 original size:37 final size:37
Alignment explanation
Indices: 49088676--49088815 Score: 226
Period size: 37 Copynumber: 3.8 Consensus size: 37
49088666 GGAAATATAT
*
49088676 TCCGGGTAAGACCCGATGACTACGTGTGGATATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49088713 TCCGGGTAAGACCCGATGACAACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
49088750 TCCTGGTAAAACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49088787 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
49088816 GGACTATTCG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 94 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:49090184 original size:30 final size:30
Alignment explanation
Indices: 49090150--49090211 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
49090140 GAGGGGACGA
49090150 ATCTTGTCCTTAATCGGAAGAAACCATTTT
1 ATCTTGTCCTTAATCGGAAGAAACCATTTT
* *
49090180 ATCTTGTCCTTAATTGGGAGAAACCATTTT
1 ATCTTGTCCTTAATCGGAAGAAACCATTTT
49090210 AT
1 AT
49090212 GTTAAGGAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (30 bp):
ATCTTGTCCTTAATCGGAAGAAACCATTTT
Found at i:49092581 original size:14 final size:14
Alignment explanation
Indices: 49092562--49092588 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49092552 TTTTTAGTGT
49092562 TTATATGTGTGAAC
1 TTATATGTGTGAAC
49092576 TTATATGTGTGAA
1 TTATATGTGTGAA
49092589 ATTTTTGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (14 bp):
TTATATGTGTGAAC
Found at i:49099236 original size:40 final size:40
Alignment explanation
Indices: 49099181--49099323 Score: 243
Period size: 40 Copynumber: 3.6 Consensus size: 40
49099171 CGGATGATAA
* *
49099181 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
49099221 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
49099261 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
49099301 CCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
49099324 GGAGCAAGTA
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 98 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:49099340 original size:80 final size:80
Alignment explanation
Indices: 49099181--49099357 Score: 234
Period size: 80 Copynumber: 2.2 Consensus size: 80
49099171 CGGATGATAA
* * *
49099181 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCATTGG
* *
49099246 TGCGAGTTACTATAT
66 AGCAAGTTACTATAT
*
49099261 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGCATTG
*
49099325 GAGCAAG-TAGTTATAT
65 GAGCAAGTTA-CTATAT
* *
49099341 TC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
49099358 ATGCTTGGGT
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
79 18 0.21
80 68 0.79
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCATTGG
AGCAAGTTACTATAT
Found at i:49099625 original size:22 final size:21
Alignment explanation
Indices: 49099584--49099627 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
49099574 GAATGTGCAT
49099584 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
49099606 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
49099628 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:49102099 original size:20 final size:20
Alignment explanation
Indices: 49102065--49102114 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
49102055 TTTATAGCAC
*
49102065 ATTTATTCATAAAATTTTAGA
1 ATTT-TTCATAAAATTTTACA
*
49102086 ATTTTTCATCAAATTTTACA
1 ATTTTTCATAAAATTTTACA
*
49102106 ACTTTTCAT
1 ATTTTTCAT
49102115 TTCAGTCCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTTTTCATAAAATTTTACA
Found at i:49103936 original size:40 final size:40
Alignment explanation
Indices: 49103892--49104119 Score: 293
Period size: 40 Copynumber: 5.7 Consensus size: 40
49103882 GCCACTAGCT
*
49103892 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
49103932 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
* *
49103972 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
** * *
49104011 CAAATGCCTTCGGGACTTAGCCC-GAAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTTGCA
* ** * *
49104051 CAAATGCCTTCGGGACTTAGCCCGG-AATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTTGCA
49104091 CAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGGTTAT
49104120 CATCCGAACA
Statistics
Matches: 171, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 38 0.22
40 130 0.76
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
Found at i:49104018 original size:79 final size:79
Alignment explanation
Indices: 49103892--49104119 Score: 300
Period size: 79 Copynumber: 2.9 Consensus size: 79
49103882 GCCACTAGCT
49103892 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTA-CACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCG
*
49103956 GTTATAGTAACTTGCA
64 GTTATAGTAACTCGCA
* * *
49103972 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCACAAATGCCTTCGGGACTTAGCCC-GA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGT
* *
49104036 AATTAGTAGCTCGCA
66 TA-TAGTAACTCGCA
* ** *
49104051 CAAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTAGCACAAATGCCT-TCGGGACTTAGCCCG
49104115 GTTAT
64 GTTAT
49104120 CATCCGAACA
Statistics
Matches: 129, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 3 0.02
79 71 0.55
80 53 0.41
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGT
TATAGTAACTCGCA
Found at i:49104070 original size:119 final size:119
Alignment explanation
Indices: 49103892--49104116 Score: 312
Period size: 119 Copynumber: 1.9 Consensus size: 119
49103882 GCCACTAGCT
** *
49103892 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTACACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
* * *
49103957 -TTATAGTAACTTGCACAAATGC-CTTCGGGACTTAGCCCGGTATAATAACTCGCA
66 AAT-TAGCAACTAGCACAAATGCTC-TCGGGACTTAGCCCGGTATAATAACTCGCA
* *
49104011 CAAATGCCTTCGGGACTTAGCCCGAA-ATTAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCACACAAATGCCTTCGGGACTTAGCCCG
* *
49104075 GAATTAGCCACTAGCTCAAATGCTCTCGGGACTTAGCCCGGT
65 GAATTAGCAACTAGCACAAATGCTCTCGGGACTTAGCCCGGT
49104117 TATCATCCGA
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
118 1 0.01
119 90 0.97
120 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
AATTAGCAACTAGCACAAATGCTCTCGGGACTTAGCCCGGTATAATAACTCGCA
Found at i:49119728 original size:27 final size:27
Alignment explanation
Indices: 49119698--49119875 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
49119688 ATATTGAGCC
* * **
49119698 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
49119725 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
49119752 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-AAT
* ** ** *
49119780 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
49119807 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
49119834 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
49119861 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
49119876 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:49119837 original size:82 final size:81
Alignment explanation
Indices: 49119724--49119874 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
49119714 TATAATCATC
* * * *
49119724 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCACTCTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCACCCTT
49119789 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* **
49119806 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACCCTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTT
49119870 AGTGC
65 AGTGC
49119875 TGTACAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 17 0.28
82 44 0.72
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTTA
GTGCCGCATGGTCAAT
Found at i:49122730 original size:40 final size:39
Alignment explanation
Indices: 49122686--49122870 Score: 237
Period size: 40 Copynumber: 4.7 Consensus size: 39
49122676 GCCACTAGCT
*
49122686 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
49122726 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
** *
49122765 CAAATGCCTTCGGGACTTAGCCCGAAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* ** * *
49122805 CAAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
49122845 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
49122871 TATCATCCGA
Statistics
Matches: 130, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 39 0.30
40 91 0.70
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:49122785 original size:79 final size:80
Alignment explanation
Indices: 49122679--49122873 Score: 252
Period size: 79 Copynumber: 2.5 Consensus size: 80
49122669 GGATATAGCC
* *
49122679 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
* *
49122744 AGCCCGGTA-TAATA
66 AGCCCGGAATTAACA
* ** *
49122758 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GAAATTAGTAGCTCGCACAAATGCCTTCGGGACT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGACT
* *
49122822 TAGCCCGGAATTAGCC
65 TAGCCCGGAATTAACA
*
49122838 ACTAGCTCAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 ACTAGCACAAATGCCT-TCGGGACTTAGCCCGGTTAT
49122874 CATCCGAACA
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
78 2 0.02
79 66 0.67
80 28 0.29
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGAATTAACA
Found at i:49125874 original size:20 final size:20
Alignment explanation
Indices: 49125849--49125893 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
49125839 AGATAGGGGC
*
49125849 ACATGCCCATGTGGCCTGGG
1 ACATGCCCATGTCGCCTGGG
*
49125869 ACATGCCCATGTCGCTTGGG
1 ACATGCCCATGTCGCCTGGG
49125889 ACATG
1 ACATG
49125894 GCCGTGGGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.18, C:0.29, G:0.31, T:0.22
Consensus pattern (20 bp):
ACATGCCCATGTCGCCTGGG
Found at i:49127702 original size:16 final size:17
Alignment explanation
Indices: 49127681--49127712 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
49127671 TAACATATAT
49127681 ATTATTAT-ATTATTAA
1 ATTATTATAATTATTAA
49127697 ATTATTATAATTATTA
1 ATTATTATAATTATTA
49127713 TTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTATAATTATTAA
Found at i:49133547 original size:55 final size:54
Alignment explanation
Indices: 49133460--49133714 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
49133450 ATTAGGGTTT
* *
49133460 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * * *
49133515 AAGGAAATCATGTAAGCCCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
49133570 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
49133623 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* *
49133672 AAGGATACCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
49133715 GTACCCGTGT
Statistics
Matches: 169, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
49 40 0.24
52 7 0.04
53 41 0.24
54 12 0.07
55 65 0.38
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:49133666 original size:108 final size:110
Alignment explanation
Indices: 49133470--49133716 Score: 307
Period size: 108 Copynumber: 2.3 Consensus size: 110
49133460 AAGGATACCG
* *
49133470 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGCCCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
49133535 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* **
49133580 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
* * * *
49133642 ATGTCAAGACATGGCAATGGTAAGTTTC-AAAAGG---A--TACCA
65 ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* *
49133682 TGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGT
49133717 ACCCGTGTAT
Statistics
Matches: 120, Mismatches: 13, Indels: 14
0.82 0.09 0.10
Matches are distributed among these distances:
102 31 0.26
103 2 0.02
104 1 0.01
107 8 0.07
108 47 0.39
109 7 0.06
110 24 0.20
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:49135845 original size:20 final size:20
Alignment explanation
Indices: 49135820--49135867 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
49135810 GCACACGCCC
49135820 GTGTGGCCTAGGACATGCCT
1 GTGTGGCCTAGGACATGCCT
* * *
49135840 GTGTGGCTTGGGACATGGCT
1 GTGTGGCCTAGGACATGCCT
*
49135860 GTGGGGCC
1 GTGTGGCC
49135868 AGGCCATGGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.10, C:0.21, G:0.44, T:0.25
Consensus pattern (20 bp):
GTGTGGCCTAGGACATGCCT
Found at i:49137700 original size:16 final size:17
Alignment explanation
Indices: 49137679--49137710 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
49137669 TAACATATAT
49137679 ATTATTAT-ATTATTAA
1 ATTATTATAATTATTAA
49137695 ATTATTATAATTATTA
1 ATTATTATAATTATTA
49137711 TTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTATAATTATTAA
Found at i:49140226 original size:11 final size:11
Alignment explanation
Indices: 49140210--49140234 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49140200 AAAAATGTAA
49140210 AAATTATCAAT
1 AAATTATCAAT
49140221 AAATTATCAAT
1 AAATTATCAAT
49140232 AAA
1 AAA
49140235 AGGCATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTATCAAT
Found at i:49146126 original size:31 final size:31
Alignment explanation
Indices: 49146088--49146159 Score: 128
Period size: 31 Copynumber: 2.3 Consensus size: 31
49146078 GTTACTAGGT
49146088 CGAAGCCTTTTCATAAATCATATCACT-GGGC
1 CGAAGCCTTTTCATAAATCATATCA-TGGGGC
49146119 CGAAGCCTTTTCATAAATCATATCATGGGGC
1 CGAAGCCTTTTCATAAATCATATCATGGGGC
49146150 CGAAGCCTTT
1 CGAAGCCTTT
49146160 ACTGTAAACG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (31 bp):
CGAAGCCTTTTCATAAATCATATCATGGGGC
Found at i:49146230 original size:42 final size:42
Alignment explanation
Indices: 49146183--49146274 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
49146173 TAGCCCTTAG
* * *
49146183 GCCCATTTCAATATCACATGTAATGCCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
49146225 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
49146267 GCCCATTT
1 GCCCATTT
49146275 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:49146491 original size:26 final size:26
Alignment explanation
Indices: 49146407--49146594 Score: 276
Period size: 26 Copynumber: 7.3 Consensus size: 26
49146397 CTAGAGGCCT
49146407 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
49146431 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
49146456 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
49146482 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
49146508 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
49146534 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
49146560 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
49146586 AGCCCTTTT
1 AGCCCTTTT
49146595 GCACTTCCTC
Statistics
Matches: 147, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
23 5 0.03
24 5 0.03
25 32 0.22
26 105 0.71
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:49146532 original size:52 final size:52
Alignment explanation
Indices: 49146407--49146594 Score: 330
Period size: 52 Copynumber: 3.7 Consensus size: 52
49146397 CTAGAGGCCT
49146407 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
*
49146456 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
49146508 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
49146560 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
49146595 GCACTTCCTC
Statistics
Matches: 133, Mismatches: 2, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
48 5 0.04
49 7 0.05
50 9 0.07
51 25 0.19
52 87 0.65
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (52 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
Found at i:49147425 original size:27 final size:26
Alignment explanation
Indices: 49147395--49147488 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 26
49147385 GGGCATATTC
49147395 GTCATTTTACCGTACAGGGG-TATTACG
1 GTCATTTTACC-TACAGGGGCT-TTACG
*
49147422 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTA-CCTACAGGGGCTTTACG
49147449 GTC-TCTTTACCTTACAGGGGCTTTACG
1 GTCAT-TTTACC-TACAGGGGCTTTACG
* *
49147476 ATCTTTTTACCTA
1 GTCATTTTACCTA
49147489 ATAGGGGTAT
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
26 4 0.07
27 51 0.86
28 4 0.07
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGCTTTACG
Found at i:49147570 original size:27 final size:27
Alignment explanation
Indices: 49147525--49147876 Score: 248
Period size: 27 Copynumber: 13.0 Consensus size: 27
49147515 TACAATGGTG
* * *
49147525 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
** ** * *
49147552 TTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
*** *
49147579 TTTCCATAATTTTTAGAAAGTCAAGGGTA
1 TTTTGGTAA-TTTTACAAA-TCAAGGGTA
* *
49147608 TTTCT-GTAACTTTT-TAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAATCAAGGGTA
**
49147635 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* * *
49147662 TTTCGGTAATTTCACAAA-CTAGTGGTA
1 TTTTGGTAATTTTACAAATCAAG-GGTA
*
49147689 TTTTGGTAATTTTACAAA-CTAGGGGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
**
49147716 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
*
49147743 TTTCT-GTAATTTTACAAACCAAGGGTA
1 TTT-TGGTAATTTTACAAATCAAGGGTA
* * * *
49147770 TTTTAGCAATTTTACAGA-CTAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
**
49147796 TTTTGGTAATTTTACTGATCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
** ** *
49147823 TTTTGGTAATTTTGTAAGCCGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* ** *
49147850 TTTTAGTAATTTTGGAAATCGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
49147877 AAACAGTAAT
Statistics
Matches: 260, Mismatches: 54, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
26 30 0.12
27 201 0.77
28 12 0.05
29 17 0.07
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAATCAAGGGTA
Found at i:49147723 original size:81 final size:81
Alignment explanation
Indices: 49147628--49147862 Score: 294
Period size: 81 Copynumber: 2.9 Consensus size: 81
49147618 TTTTTAAATC
*
49147628 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CTAGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GGTATTT
* *
49147692 TGGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
* *
49147709 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
*
49147774 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
** ** * *** * *
49147790 A-GGGTATTTTGGTAATTTTACTGATCAAGGGTATTTTGGTAATTTTGTAAGCCGAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
*
49147854 AGTAATTTT
66 AGCAATTTT
49147863 GGAAATCGAG
Statistics
Matches: 136, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
80 61 0.45
81 72 0.53
82 3 0.02
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:49147884 original size:27 final size:27
Alignment explanation
Indices: 49147854--49147984 Score: 190
Period size: 27 Copynumber: 4.9 Consensus size: 27
49147844 AGGGTATTTT
* *
49147854 AGTAATTTTGGAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
49147881 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49147908 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
49147935 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49147962 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
49147985 CTTTGGTAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:49148029 original size:81 final size:80
Alignment explanation
Indices: 49147842--49148029 Score: 173
Period size: 81 Copynumber: 2.3 Consensus size: 80
49147832 TTTTGTAAGC
* *
49147842 CGAGGGTATTTTAGTAATTTTGG-AAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAA
1 CGAGGGTA-ATTAGTAA-TTTGGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAA
*
49147906 ACAGTAATTCTATAAAT
64 ACAGTAATTCTACAAAT
* * * * **
49147923 CGAGGGTAAAATGGTAATTCT-GTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTACT
1 CGAGGGT-AATTAGTAATT-TGGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAA
*** * *
49147987 TTGGTAATTTTACAATT
64 ACAGTAATTCTACAAAT
* *
49148004 TGAGGGTACTTCAGTAATTTGGTAAA
1 CGAGGGTAATT-AGTAATTTGGTAAA
49148030 CTAAAGTATT
Statistics
Matches: 84, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
80 6 0.07
81 77 0.92
82 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (80 bp):
CGAGGGTAATTAGTAATTTGGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAAC
AGTAATTCTACAAAT
Found at i:49150018 original size:34 final size:34
Alignment explanation
Indices: 49149971--49150043 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 34
49149961 CTGTATGCAT
49149971 CACTGATACTGCTAC-AATAATGGGCTAAGGCCCA
1 CACTGATACTGCTACTAAT-ATGGGCTAAGGCCCA
* *
49150005 CACTGATATTGCTACTAATATGGGCTTAGGCCCA
1 CACTGATACTGCTACTAATATGGGCTAAGGCCCA
*
49150039 GACTG
1 CACTG
49150044 TCCATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 32 0.91
35 3 0.09
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (34 bp):
CACTGATACTGCTACTAATATGGGCTAAGGCCCA
Found at i:49151167 original size:20 final size:20
Alignment explanation
Indices: 49151132--49151169 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49151122 ACTTGAAATT
**
49151132 TGAAAATTTTTCTATGTTTC
1 TGAAAATTTTAATATGTTTC
49151152 TGAAAATTTTAATATGTT
1 TGAAAATTTTAATATGTT
49151170 ACAATTTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (20 bp):
TGAAAATTTTAATATGTTTC
Found at i:49158467 original size:49 final size:50
Alignment explanation
Indices: 49158400--49158646 Score: 300
Period size: 49 Copynumber: 5.0 Consensus size: 50
49158390 AGCTATTGTG
* *
49158400 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * *
49158450 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT
* * * * *
49158500 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
** * * *
49158550 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* *
49158600 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
49158647 CTTCGGCTAC
Statistics
Matches: 164, Mismatches: 31, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
49 80 0.49
50 46 0.28
51 38 0.23
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:49164117 original size:40 final size:40
Alignment explanation
Indices: 49164063--49164256 Score: 318
Period size: 40 Copynumber: 4.9 Consensus size: 40
49164053 GATATAGCTC
*
49164063 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
49164103 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
49164143 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
49164183 CTCGTACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
49164223 CTCGCACAAATGCCTTTGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
49164257 CAATCTGAAT
Statistics
Matches: 144, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.09
40 131 0.91
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:49164172 original size:80 final size:80
Alignment explanation
Indices: 49164036--49164256 Score: 322
Period size: 80 Copynumber: 2.8 Consensus size: 80
49164026 AAACCAAGTA
** * *
49164036 CCTTCGGGGTTTAG-CCGGATATAGCT-CCTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
*
49164099 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
* * *
49164115 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
*
49164180 TAACTCGTACAAATG
66 TAACTCGCACAAATG
*
49164195 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTTGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
49164257 CAATCTGAAT
Statistics
Matches: 127, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
79 26 0.20
80 101 0.80
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:49168544 original size:43 final size:43
Alignment explanation
Indices: 49168400--49168545 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 43
49168390 TATTATTATA
*
49168400 GTCTGGGACGTTGGCATCAAT-TTGTGATTGACGTGTAAGACCAA
1 GTCTGGGACGTTGGCATCAATATT-TGATT-ACGTGTAAGACCAC
* * * *
49168444 GTCTGGGACATTGGCATC-GTATATGATTTCGTGTAAGACC-C
1 GTCTGGGACGTTGGCATCAATATTTGATTACGTGTAAGACCAC
* *
49168485 TGTCTGGGATAG-TGGCATCAATATTTGATTACATGTAAGACCAC
1 -GTCTGGGA-CGTTGGCATCAATATTTGATTACGTGTAAGACCAC
* *
49168529 GTCTGCGATGTTGGCAT
1 GTCTGGGACGTTGGCAT
49168546 TGTACGAGCT
Statistics
Matches: 83, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
42 27 0.33
43 37 0.45
44 19 0.23
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
GTCTGGGACGTTGGCATCAATATTTGATTACGTGTAAGACCAC
Found at i:49171409 original size:24 final size:24
Alignment explanation
Indices: 49171382--49171429 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
49171372 ATGTGACCAT
*
49171382 TTAGTTTTAGAAAGAATTCTTATC
1 TTAGTTTCAGAAAGAATTCTTATC
49171406 TTAGTTTCAGAAAGAATTCTTATC
1 TTAGTTTCAGAAAGAATTCTTATC
49171430 GTATGACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.44
Consensus pattern (24 bp):
TTAGTTTCAGAAAGAATTCTTATC
Found at i:49173948 original size:26 final size:26
Alignment explanation
Indices: 49173908--49173981 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
49173898 AACACACCGG
* *
49173908 TATCGCAGCATAGCTGCCAGTAATAA
1 TATCGCAGCAAAGCTGCCAGTAACAA
*
49173934 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAA
* *
49173960 TAACGCAGCAAAGTTGCCAGTA
1 TATCGCAGCAAAGCTGCCAGTA
49173982 TCAGTATATG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAA
Found at i:49174196 original size:20 final size:20
Alignment explanation
Indices: 49173991--49174185 Score: 273
Period size: 20 Copynumber: 9.8 Consensus size: 20
49173981 ATCAGTATAT
* * * *
49173991 GGCACAAACCCATGAGTAGA
1 GGCACAAAGCCATCAATAGC
*
49174011 GGCACGAAGCCATCAATAGC
1 GGCACAAAGCCATCAATAGC
* *
49174031 GGTACAAAGCCATCAATAGT
1 GGCACAAAGCCATCAATAGC
* *
49174051 GGCACGAAGCCGTCAATAGC
1 GGCACAAAGCCATCAATAGC
49174071 GGCACAAAGCCATCAATAGC
1 GGCACAAAGCCATCAATAGC
*
49174091 GGCACAAAGCCATCAGTAGC
1 GGCACAAAGCCATCAATAGC
*
49174111 AGCACAAAGCCATCAATAGC
1 GGCACAAAGCCATCAATAGC
*
49174131 GGCATAAAGCCATCAATAGC
1 GGCACAAAGCCATCAATAGC
49174151 GGCACAAAGCCATCAATAGC
1 GGCACAAAGCCATCAATAGC
*
49174171 TGCACAAAGCCATCA
1 GGCACAAAGCCATCA
49174186 GTAGGTCCAC
Statistics
Matches: 154, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 154 1.00
ACGTcount: A:0.38, C:0.28, G:0.22, T:0.12
Consensus pattern (20 bp):
GGCACAAAGCCATCAATAGC
Found at i:49174720 original size:19 final size:19
Alignment explanation
Indices: 49174685--49174722 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
49174675 GTGTGAAGTC
*
49174685 CACGAGCCCATTGGGCCCA
1 CACGAGCCCATCGGGCCCA
49174704 CACG-GCCCATCGAGGCCCA
1 CACGAGCCCATCG-GGCCCA
49174723 AAACAGCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.21, C:0.45, G:0.26, T:0.08
Consensus pattern (19 bp):
CACGAGCCCATCGGGCCCA
Found at i:49177956 original size:27 final size:27
Alignment explanation
Indices: 49177926--49178103 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
49177916 ATATCGAGCC
* * *
49177926 CGCACACTCAGTGCTATAAAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
49177953 CGCACACTTAGTGCCACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
49177980 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
49178008 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
49178035 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
49178062 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
49178089 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49178104 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:49178039 original size:82 final size:81
Alignment explanation
Indices: 49177947--49178102 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
49177937 TGCTATAAAA
*
49177947 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
49178011 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
49178029 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
49178094 ACTTAGTGC
66 ACTTAGTGC
49178103 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.25
82 51 0.75
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49185965 original size:27 final size:27
Alignment explanation
Indices: 49185935--49186112 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
49185925 ATATCGAGCC
* * *
49185935 CGCACACTCAGTGCTATAAAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
49185962 CGCACACTTAGTGCCACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
49185989 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
49186017 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
49186044 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
49186071 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
49186098 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49186113 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:49186048 original size:82 final size:81
Alignment explanation
Indices: 49185956--49186111 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
49185946 TGCTATAAAA
*
49185956 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
49186020 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
49186038 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
49186103 ACTTAGTGC
66 ACTTAGTGC
49186112 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.25
82 51 0.75
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49186134 original size:82 final size:83
Alignment explanation
Indices: 49185935--49186141 Score: 228
Period size: 82 Copynumber: 2.5 Consensus size: 83
49185925 ATATCGAGCC
* * *
49185935 CGCACACTCAGTGCTATA-AAATCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTA
*
49185999 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * * **
49186017 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACAC
49186078 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
* * * *
49186098 CGCACACTTAGTGCTGTACAATTTAACCCGCGCACTTAGCGCCA
1 CGCACACTTAGTGCTGTACAATTCAACTCGCACACTTAGTGCCA
49186142 ATCTCATGGT
Statistics
Matches: 102, Mismatches: 15, Indels: 15
0.77 0.11 0.11
Matches are distributed among these distances:
80 1 0.01
81 18 0.18
82 78 0.76
83 3 0.03
84 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.25
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:49188989 original size:42 final size:43
Alignment explanation
Indices: 49188877--49189033 Score: 115
Period size: 43 Copynumber: 3.7 Consensus size: 43
49188867 TGTGTTATCA
* * * * *
49188877 TGTAAGACCACGTCTGGGAC-GTTGGCATCGATTTTTAT-TTTATG
1 TGTAAGACCAGGTCTAGGACAG-TGGCATCGA--TATATGATTACG
* *
49188921 TGTAAGACCAGGTCTAGGACATTGGCATCG-TATATGATTTCG
1 TGTAAGACCAGGTCTAGGACAGTGGCATCGATATATGATTACG
** * * * *
49188963 TGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAGGTCTAGGACAGTGGCATCGATATATGATTACG
**
49189006 TGTAAGACCACATCTAGGAC-GTTGGCAT
1 TGTAAGACCAGGTCTAGGACAG-TGGCAT
49189034 TGCATGAGCT
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
41 4 0.04
42 29 0.33
43 30 0.34
44 26 0.29
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCAGGTCTAGGACAGTGGCATCGATATATGATTACG
Found at i:49192031 original size:20 final size:18
Alignment explanation
Indices: 49192006--49192042 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
49191996 ACCTAACATG
49192006 AATTAAATTTAAGACATATT
1 AATTAAA-TTAA-ACATATT
49192026 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
49192043 CAAAATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:49193623 original size:21 final size:21
Alignment explanation
Indices: 49193593--49193633 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49193583 CCCCATGTAA
*
49193593 GGATTCTCATTGTGATCATTT
1 GGATTCTCATTGAGATCATTT
*
49193614 GGATTTTCATTGAGATCATT
1 GGATTCTCATTGAGATCATT
49193634 CCTATTTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.46
Consensus pattern (21 bp):
GGATTCTCATTGAGATCATTT
Found at i:49198575 original size:43 final size:43
Alignment explanation
Indices: 49198514--49198669 Score: 208
Period size: 43 Copynumber: 3.6 Consensus size: 43
49198504 CAATGCTATA
* * *
49198514 TCCCAGATATTGTCTTACATGTTATCATATATCGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCATATATCGATGCCAATG
* *
49198557 TCCCAGACATGGTCTTACACGAAATCATATAAT-GATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCATAT-ATCGATGCCAATG
*
49198600 TCCCAGACATGGTCTTACATGTAATCATA-ATACAATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCATATAT-CGATGCCAATG
* *
49198643 TCCCAAACATGGTCTTACATGCAATCA
1 TCCCAGACATGGTCTTACATGTAATCA
49198670 CATCACGGTA
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.02
43 96 0.96
44 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAATCATATATCGATGCCAATG
Found at i:49200447 original size:49 final size:49
Alignment explanation
Indices: 49200375--49200475 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
49200365 CTGGTACAAG
49200375 TTTAAATTTTTAACTGAAACAGCTGAGCGTGAAACATTTAACTCAGTCT
1 TTTAAATTTTTAACTGAAACAGCTGAGCGTGAAACATTTAACTCAGTCT
49200424 TTTAAATTTTTAACTGAAACAGCTGAGCGTGAAACATTTAACTCAGTCT
1 TTTAAATTTTTAACTGAAACAGCTGAGCGTGAAACATTTAACTCAGTCT
49200473 TTT
1 TTT
49200476 CGGCATTGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (49 bp):
TTTAAATTTTTAACTGAAACAGCTGAGCGTGAAACATTTAACTCAGTCT
Found at i:49213945 original size:28 final size:29
Alignment explanation
Indices: 49213905--49213960 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
49213895 CTGGGTTTTT
49213905 GGACACGGGCGTGT-CTAGGCGGTGTGAG
1 GGACACGGGCGTGTGCTAGGCGGTGTGAG
* *
49213933 GGACACGGGCGTGTGCTCGGCTGTGTGA
1 GGACACGGGCGTGTGCTAGGCGGTGTGA
49213961 CAACCCCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.12, C:0.20, G:0.48, T:0.20
Consensus pattern (29 bp):
GGACACGGGCGTGTGCTAGGCGGTGTGAG
Found at i:49223736 original size:43 final size:43
Alignment explanation
Indices: 49223688--49223970 Score: 349
Period size: 43 Copynumber: 6.6 Consensus size: 43
49223678 TTATGTAAAA
*
49223688 AAACGCCGCTATAGAACATGACCTTTAGCAGCACTTTTTTCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCAGCACTTTTTCCAC
*
49223731 AAACGCCGCTATAGAACATGACCTTTAGCAGTACTTTTTCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCAGCACTTTTTCCAC
* * * *
49223774 AAAAGCCGCTTTAGAACATGACCTTTAGCGGCAC-TTTACCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCAGCACTTTTTCCAC
* * ** *
49223816 AAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCAGCACTTTTTCCAC
* * *
49223859 AAACGCCGCTATAGAACA-GACCTTTCG-AGGCGCTTTTGCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCA-GCACTTTTTCCAC
* * *
49223901 AAATGCCACTATAGAATA-GACCTTTAGCAGCACTTTTTCTCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCAGCACTTTTTC-CAC
* *
49223944 AAACACCGCTAAAGAACATGACCTTTA
1 AAACGCCGCTATAGAACATGACCTTTA
49223971 AAAAATATAT
Statistics
Matches: 206, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
42 86 0.42
43 112 0.54
44 8 0.04
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACCTTTAGCAGCACTTTTTCCAC
Found at i:49223844 original size:85 final size:86
Alignment explanation
Indices: 49223687--49223970 Score: 351
Period size: 85 Copynumber: 3.3 Consensus size: 86
49223677 TTTATGTAAA
* **
49223687 AAAACGCCGCTATAGAACATGACCTTTAGCAGCACTTTTTTCACAAACGCCGCTATAGAACATGA
1 AAAA-GCCGCTATAGAACATGACCTTTAGCGGCACTTTTACCACAAACGCCGCTATAGAACATGA
49223752 CCTTTAGCAGTACTTTTTCCAC
65 CCTTTAGCAGTACTTTTTCCAC
* *
49223774 AAAAGCCGCTTTAGAACATGACCTTTAGCGGCAC-TTTACCACAAACGCCGCTAAAGAACATGAC
1 AAAAGCCGCTATAGAACATGACCTTTAGCGGCACTTTTACCACAAACGCCGCTATAGAACATGAC
* * *
49223838 CTTTAGCGGTGCTTTTCCCAC
66 CTTTAGCAGTACTTTTTCCAC
* * * * * * * *
49223859 AAACGCCGCTATAGAACA-GACCTTTCGAGGCGCTTTTGCCACAAATGCCACTATAGAATA-GAC
1 AAAAGCCGCTATAGAACATGACCTTTAGCGGCACTTTTACCACAAACGCCGCTATAGAACATGAC
*
49223922 CTTTAGCAGCACTTTTTCTCAC
66 CTTTAGCAGTACTTTTTC-CAC
*
49223944 AAACA-CCGCTAAAGAACATGACCTTTA
1 AAA-AGCCGCTATAGAACATGACCTTTA
49223971 AAAAATATAT
Statistics
Matches: 168, Mismatches: 25, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
84 29 0.17
85 100 0.60
86 35 0.21
87 4 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (86 bp):
AAAAGCCGCTATAGAACATGACCTTTAGCGGCACTTTTACCACAAACGCCGCTATAGAACATGAC
CTTTAGCAGTACTTTTTCCAC
Found at i:49223945 original size:128 final size:128
Alignment explanation
Indices: 49223688--49223970 Score: 365
Period size: 128 Copynumber: 2.2 Consensus size: 128
49223678 TTATGTAAAA
* **
49223688 AAACGCCGCTATAGAACATGACCTTTAGCAGCACTTTTTTCACAAACGCCGCTATAGAACATGAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCAGCACTTTTCCCACAAACGCCGCTATAGAACATGAC
* * * * *
49223753 CTTTAGCAGTACTTTTTCCACAAAAGCCGCTTTAGAACATGACCTTTAGCGGCACTTTACCAC
66 CTTTAGCAGCACTTTTGCCACAAAAGCCACTATAGAACATGACCTTTAGCAGCACTTTACCAC
* **
49223816 AAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTATAGAACA-GAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCAGCACTTTTCCCACAAACGCCGCTATAGAACATGAC
* * * * *
49223880 CTTTCG-AGGCGCTTTTGCCACAAATGCCACTATAGAATA-GACCTTTAGCAGCACTTTTTCTCA
66 CTTTAGCA-GCACTTTTGCCACAAAAGCCACTATAGAACATGACCTTTAGCAGCAC-TTTAC-CA
49223943 C
128 C
*
49223944 AAACACCGCTAAAGAACATGACCTTTA
1 AAACGCCGCTAAAGAACATGACCTTTA
49223971 AAAAATATAT
Statistics
Matches: 135, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
126 15 0.11
127 36 0.27
128 84 0.62
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (128 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCAGCACTTTTCCCACAAACGCCGCTATAGAACATGAC
CTTTAGCAGCACTTTTGCCACAAAAGCCACTATAGAACATGACCTTTAGCAGCACTTTACCAC
Found at i:49224099 original size:34 final size:35
Alignment explanation
Indices: 49224061--49224126 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
49224051 CTATTAAAAT
49224061 TTTAAATTTA-AAACTAAATATAA-AAATTAATGAA
1 TTTAAATTTAGAAACTAAA-ATAATAAATTAATGAA
**
49224095 TTTAAATTTAGAATTTAAAATAATAAATTAAT
1 TTTAAATTTAGAAACTAAAATAATAAATTAAT
49224127 AACACAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (35 bp):
TTTAAATTTAGAAACTAAAATAATAAATTAATGAA
Found at i:49235521 original size:22 final size:23
Alignment explanation
Indices: 49235466--49235519 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
49235456 AAAGGAAGAG
*
49235466 GGGTTGGGGTTTTTAAAAGAGAA
1 GGGTTAGGGTTTTTAAAAGAGAA
49235489 GGGTTAGGGTTTTTAAAAGAGAA
1 GGGTTAGGGTTTTTAAAAGAGAA
49235512 GGGTTAGG
1 GGGTTAGG
49235520 TTAAAATGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.41, T:0.30
Consensus pattern (23 bp):
GGGTTAGGGTTTTTAAAAGAGAA
Found at i:49243732 original size:41 final size:41
Alignment explanation
Indices: 49243625--49243831 Score: 285
Period size: 41 Copynumber: 5.1 Consensus size: 41
49243615 GCAAAAATTG
*
49243625 AAAAACACAGAGCAATAGCGGCG-TTTTGGTAAAACGCCGCT
1 AAAAAC-CAGAGCAATAGCGGCGCTTTTGGCAAAACGCCGCT
*
49243666 AAAAA-CAGAGTAATAGCGGCGCTTTTGGCAAAACGCCGCT
1 AAAAACCAGAGCAATAGCGGCGCTTTTGGCAAAACGCCGCT
* * * *
49243706 AAAAACCAGAGCATTAGCGACACTTTTGGAAAAACGCCGCT
1 AAAAACCAGAGCAATAGCGGCGCTTTTGGCAAAACGCCGCT
*
49243747 AAAAA-CAGAGCAATAGCGGAGCTTTTGGCAAAACGCCGCT
1 AAAAACCAGAGCAATAGCGGCGCTTTTGGCAAAACGCCGCT
* * * *
49243787 AAAAACCAGAGCATTAGCGGCGCTTTCGACAAAACGCCACT
1 AAAAACCAGAGCAATAGCGGCGCTTTTGGCAAAACGCCGCT
49243828 AAAA
1 AAAA
49243832 GTCATATAAC
Statistics
Matches: 146, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 15 0.10
40 57 0.39
41 74 0.51
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (41 bp):
AAAAACCAGAGCAATAGCGGCGCTTTTGGCAAAACGCCGCT
Found at i:49243762 original size:81 final size:80
Alignment explanation
Indices: 49243625--49243831 Score: 299
Period size: 81 Copynumber: 2.5 Consensus size: 80
49243615 GCAAAAATTG
* * * * *
49243625 AAAAACACAGAGCAATAGCGGCGTTTTGGTAAAACGCCGCTAAAAACAGAGTAATAGCGGCGCTT
1 AAAAAC-CAGAGCATTAGCGGCCTTTTGGAAAAACGCCGCTAAAAACAGAGCAATAGCGGAGCTT
49243690 TTGGCAAAACGCCGCT
65 TTGGCAAAACGCCGCT
*
49243706 AAAAACCAGAGCATTAGCGACACTTTTGGAAAAACGCCGCTAAAAACAGAGCAATAGCGGAGCTT
1 AAAAACCAGAGCATTAGCGGC-CTTTTGGAAAAACGCCGCTAAAAACAGAGCAATAGCGGAGCTT
49243771 TTGGCAAAACGCCGCT
65 TTGGCAAAACGCCGCT
* *
49243787 AAAAACCAGAGCATTAGCGGCGC-TTTCGACAAAACGCCACTAAAA
1 AAAAACCAGAGCATTAGCGGC-CTTTTGGA-AAAACGCCGCTAAAA
49243832 GTCATATAAC
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
80 18 0.16
81 96 0.84
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (80 bp):
AAAAACCAGAGCATTAGCGGCCTTTTGGAAAAACGCCGCTAAAAACAGAGCAATAGCGGAGCTTT
TGGCAAAACGCCGCT
Found at i:49243994 original size:25 final size:25
Alignment explanation
Indices: 49243960--49244007 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
49243950 AGAGATAGTA
49243960 TTGAATTTAAAATATCGAATTAAAT
1 TTGAATTTAAAATATCGAATTAAAT
49243985 TTGAATTTAAAATATCGAATTAA
1 TTGAATTTAAAATATCGAATTAA
49244008 TTATCATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (25 bp):
TTGAATTTAAAATATCGAATTAAAT
Found at i:49244007 original size:13 final size:13
Alignment explanation
Indices: 49243966--49244007 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
49243956 AGTATTGAAT
49243966 TTAAAATATCGAA
1 TTAAAATATCGAA
*
49243979 TT-AAAT-TTGAA
1 TTAAAATATCGAA
49243990 TTTAAAATATCGAA
1 -TTAAAATATCGAA
49244004 TTAA
1 TTAA
49244008 TTATCATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 4 0.17
12 6 0.25
13 10 0.42
14 4 0.17
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (13 bp):
TTAAAATATCGAA
Found at i:49244053 original size:21 final size:22
Alignment explanation
Indices: 49244026--49244106 Score: 94
Period size: 21 Copynumber: 3.6 Consensus size: 22
49244016 ATAGTTTAAG
49244026 GTTTAGGGTTTAAGATATATGA
1 GTTTAGGGTTTAAGATATATGA
* *
49244048 -TTTAGGGTTTAAGGTTTATGA
1 GTTTAGGGTTTAAGATATATGA
*
49244069 GTTAACTATGGTTTAAGATATAT-A
1 GTT---TAGGGTTTAAGATATATGA
49244093 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
49244107 GTTTAGGAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
21 29 0.59
22 2 0.04
24 4 0.08
25 14 0.29
ACGTcount: A:0.30, C:0.01, G:0.26, T:0.43
Consensus pattern (22 bp):
GTTTAGGGTTTAAGATATATGA
Found at i:49244085 original size:46 final size:46
Alignment explanation
Indices: 49244032--49244122 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
49244022 TAAGGTTTAG
*
49244032 GGTTTAAGATATAT-GATTTAGGGTTTAAGGTTTATGAGTTAACTAT
1 GGTTTAAGATATATAG-TTTAGGGTTTAAGGTTTAGGAGTTAACTAT
49244078 GGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAGGAGTTAACTA
1 GGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAGGAGTTAACTA
49244123 GTATTTGAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 42 0.98
47 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.25, T:0.42
Consensus pattern (46 bp):
GGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAGGAGTTAACTAT
Found at i:49244200 original size:22 final size:22
Alignment explanation
Indices: 49244162--49244210 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
49244152 TTTAGGGGTT
*
49244162 AGGG-TTGGAGTTTAAGGTGT-A
1 AGGGTTTGGAGTTAAAGGT-TCA
*
49244183 AGGGTTTGGGGTTAAAGGTTCA
1 AGGGTTTGGAGTTAAAGGTTCA
49244205 AGGGTT
1 AGGGTT
49244211 AGTGTTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.22, C:0.02, G:0.43, T:0.33
Consensus pattern (22 bp):
AGGGTTTGGAGTTAAAGGTTCA
Found at i:49244698 original size:74 final size:73
Alignment explanation
Indices: 49244619--49244756 Score: 181
Period size: 74 Copynumber: 1.9 Consensus size: 73
49244609 TTAAGTAAAA
****
49244619 TTTAATTAGAA-ATTTAAGGGG-TTAGTGGCGTTTTTCGAAAAAACGCCGCAAAAAATAAAATAA
1 TTTAATT-GAAGATTT-AGGGGATTAGTGGCGTTTAAAAAAAAAACGCCGCAAAAAA-AAAATAA
49244682 TTTAACGTCAT
63 TTTAACGTCAT
* *
49244693 TTTAATTGAAGATTTAGGGGATTTGTGGCGTTTAAAAAAAAAACGCCGCAAAAAAAACATAATT
1 TTTAATTGAAGATTTAGGGGATTAGTGGCGTTTAAAAAAAAAACGCCGCAAAAAAAAAATAATT
49244757 GTTTACTTAG
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
73 16 0.29
74 40 0.71
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (73 bp):
TTTAATTGAAGATTTAGGGGATTAGTGGCGTTTAAAAAAAAAACGCCGCAAAAAAAAAATAATTT
AACGTCAT
Found at i:49248142 original size:17 final size:18
Alignment explanation
Indices: 49248120--49248153 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
49248110 TACATGTGGG
49248120 GGAATATGGAG-TCAACT
1 GGAATATGGAGTTCAACT
49248137 GGAATATGGAGTTCAAC
1 GGAATATGGAGTTCAAC
49248154 ATTTTGGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (18 bp):
GGAATATGGAGTTCAACT
Found at i:49248538 original size:43 final size:42
Alignment explanation
Indices: 49248474--49248694 Score: 234
Period size: 43 Copynumber: 5.2 Consensus size: 42
49248464 GATCATTGTT
*
49248474 TTTAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGT-AAAAAAGCGCCGCTAAAGGTCATGGTC
* *
49248517 TTTAGCGGCGTTTGCTTAAAAAGCGTCGCTAAAGGTCATGGT-
1 TTTAGCGGCGTTTG-TAAAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
49248559 TTTAGCAGCGTTTG-AGAAAAATGCGCCACTAAAGATCATGGTT
1 TTTAGCGGCGTTTGTA-AAAAA-GCGCCGCTAAAGGTCATGGTC
** * *
49248602 TTTAGCGGCGTTT-TTTAAAAGCGCCGCTAAAAGTTC-TAGTC
1 TTTAGCGGCGTTTGTAAAAAAGCGCCGCT-AAAGGTCATGGTC
* * *
49248643 TTTAGCGGCATTTGCAAAAAAGGTGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTAAAAAA-GCGCCGCTAAAGGTCATGGTC
49248686 TTTAGCGGC
1 TTTAGCGGC
49248695 ATTTTTTTTC
Statistics
Matches: 147, Mismatches: 22, Indels: 18
0.79 0.12 0.10
Matches are distributed among these distances:
41 27 0.18
42 50 0.34
43 69 0.47
44 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:49248591 original size:85 final size:83
Alignment explanation
Indices: 49248473--49248700 Score: 262
Period size: 84 Copynumber: 2.7 Consensus size: 83
49248463 AGATCATTGT
* *
49248473 TTTTAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCTTAAAA
1 TTTTAGCGGCGTTTGAGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTT--TTAAAA
* *
49248538 AGCGTCGCT-AAAGGTCATGG
64 AGCGCCGCTAAAAGGTC-TAG
* * * * * *
49248558 TTTTAGCAGCGTTTGAGAAAAATGCGCCACTAAAGATCATGGTTTTTAGCGGCGTTTTTTAAAAG
1 TTTTAGCGGCGTTTGAGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTAAAAAG
*
49248623 CGCCGCTAAAAGTTCTAG
66 CGCCGCTAAAAGGTCTAG
* * * *
49248641 TCTTTAGCGGCATTTGCA-AAAAAGGTGCCGCTAAAGGTCATGGTCTTTAGCGGCATTTTT
1 T-TTTAGCGGCGTTTG-AGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTT
49248701 TTTCAAAAAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
83 16 0.13
84 54 0.45
85 51 0.42
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (83 bp):
TTTTAGCGGCGTTTGAGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTAAAAAG
CGCCGCTAAAAGGTCTAG
Found at i:49258176 original size:43 final size:44
Alignment explanation
Indices: 49258128--49258278 Score: 184
Period size: 43 Copynumber: 3.5 Consensus size: 44
49258118 GATTGCCGAG
*
49258128 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
49258172 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * ** *
49258214 ATATGATTTCGTAG-AAGACCCTGTCTAAGACAGTGGCATCG-AT
1 ATGTGATTACAT-GTAAGACCATGTCTGGGACATTGGCATCGTAT
*
49258257 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
49258279 ATTCGGGGTA
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 2 0.02
43 87 0.97
44 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:49261312 original size:40 final size:40
Alignment explanation
Indices: 49261164--49261375 Score: 232
Period size: 40 Copynumber: 5.3 Consensus size: 40
49261154 CATTTGAATG
* * *
49261164 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * *
49261204 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
49261244 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * *
49261284 ATATCCGGGCTAAGACCCGACGGCATTTGTGCGGGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * ** *
49261324 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
49261364 ATATCC-GGCTAA
1 ATATCCGGGCTAA
49261376 ATTCCGAAGA
Statistics
Matches: 153, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 7 0.05
40 143 0.93
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:49269491 original size:39 final size:39
Alignment explanation
Indices: 49269394--49269602 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
49269384 ATTTGAATGA
* *
49269394 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA-TT
* *
49269434 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
49269473 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * *
49269513 TATCCGGGCTAAGACCCGACGGCATTTGTGCGAGTTGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
49269553 TACCCGGGTTAAGA-CCGAAGGCAATTGTGCTTGTGGTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
49269591 ATATCC-GGCTAA
1 -TATCCGGGCTAA
49269603 ATTCCGAAGA
Statistics
Matches: 151, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
38 8 0.05
39 52 0.34
40 91 0.60
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:49269525 original size:79 final size:80
Alignment explanation
Indices: 49269393--49269602 Score: 239
Period size: 79 Copynumber: 2.7 Consensus size: 80
49269383 CATTTGAATG
* * * * *
49269393 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
*
49269458 TTTATGCTAG-TGAT
66 TTTATGCGAGTTGAT
* *
49269472 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGACGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
* *
49269536 ATTTGTGCGAGTTGCT
65 ATTTATGCGAGTTGAT
* * * ** *
49269552 ATACCCGGGTTAAGA-CCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAA
49269603 ATTCCGAAGA
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
78 8 0.07
79 85 0.77
80 18 0.16
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTATGCGAGTTGAT
Found at i:49272901 original size:6 final size:6
Alignment explanation
Indices: 49272880--49273057 Score: 132
Period size: 6 Copynumber: 28.8 Consensus size: 6
49272870 TATTAGAACT
* * * *
49272880 AGAATC AAAATG AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* * * *
49272929 AAAATC AGAATC AGAATC AGAATT AGGTAA-C AGAATC AGAATT AGTATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
* *
49272978 AGGTAA-C AGAATC AGAATC AGAACC AGAATC AGAATT AGGTAAT- AGAATC
1 A-G-AATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
49273028 AGAATC AGTATC AGGTAA-C AGAATC AGAAT
1 AGAATC AGAATC A-G-AATC AGAATC AGAAT
49273058 GTGAATGTGA
Statistics
Matches: 136, Mismatches: 21, Indels: 30
0.73 0.11 0.16
Matches are distributed among these distances:
5 10 0.07
6 106 0.78
7 12 0.09
8 8 0.06
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:49272927 original size:19 final size:19
Alignment explanation
Indices: 49272903--49273032 Score: 115
Period size: 19 Copynumber: 6.6 Consensus size: 19
49272893 GAATCAGAAT
*
49272903 CAGAATCAGAATTAGGTGA
1 CAGAATCAGAATTAGGTAA
* *
49272922 CAGAATCAAAATCA-G-AA
1 CAGAATCAGAATTAGGTAA
49272939 TCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATTAGGTAA
49272959 CAGAATCAGAATTAGTATCAGGTAA
1 CAGAATCAG-A--A-T-T-AGGTAA
*
49272984 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATTAGGTAA
49273001 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATTAGGTAA
*
49273021 TAGAATCAGAAT
1 CAGAATCAGAAT
49273033 CAGTATCAGG
Statistics
Matches: 91, Mismatches: 8, Indels: 24
0.74 0.07 0.20
Matches are distributed among these distances:
17 3 0.03
18 27 0.30
19 35 0.38
20 5 0.05
21 1 0.01
22 2 0.02
23 1 0.01
24 2 0.02
25 15 0.16
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTAA
Found at i:49272979 original size:37 final size:37
Alignment explanation
Indices: 49272892--49273013 Score: 142
Period size: 37 Copynumber: 3.3 Consensus size: 37
49272882 AATCAAAATG
*
49272892 AGAATCAGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATTAGGTAACAGAATC
*
49272929 AAAATCAGAATCAGAATCAGAATTAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATTAGGTAACAGAATC
* * * *
49272966 AGAATTAGTATCAGGTAA-CAGAATCA-G-AATCAGAACC
1 AGAATCAGAATCA-G-AATCAGAATTAGGTAA-CAGAATC
49273003 AGAATCAGAAT
1 AGAATCAGAAT
49273014 TAGGTAATAG
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
36 2 0.03
37 61 0.84
38 8 0.11
39 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATTAGGTAACAGAATC
Found at i:49273019 original size:37 final size:37
Alignment explanation
Indices: 49272959--49273035 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
49272949 AATTAGGTAA
* * *
49272959 CAGAATCAGAATTAGTATCAGGTAACAGAATCAGAAT
1 CAGAACCAGAATCAGAATCAGGTAACAGAATCAGAAT
* *
49272996 CAGAACCAGAATCAGAATTAGGTAATAGAATCAGAAT
1 CAGAACCAGAATCAGAATCAGGTAACAGAATCAGAAT
49273033 CAG
1 CAG
49273036 TATCAGGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (37 bp):
CAGAACCAGAATCAGAATCAGGTAACAGAATCAGAAT
Found at i:49273030 original size:25 final size:23
Alignment explanation
Indices: 49272880--49273057 Score: 108
Period size: 25 Copynumber: 7.2 Consensus size: 23
49272870 TATTAGAACT
* *
49272880 AGAATCAAAATGAGAATCAGAATC
1 AGAATCAGAATCAGAAT-AGAATC
* * *
49272904 AGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCA-G-AATAGAATC
* *
49272929 AAAATCAGAATCAGAATCAGAATT
1 AGAATCAGAATCAGAAT-AGAATC
*
49272953 AGGTAA-CAGAATCAGAATTAGTATC
1 A-G-AATCAGAATCAGAA-TAGAATC
*
49272978 AGGTAA-CAGAATCAGAATCAGAACC
1 A-G-AATCAGAATCAGAAT-AGAATC
*
49273003 AGAATCAGAATTAGGTAATAGAATC
1 AGAATCAGAATCA-G-AATAGAATC
* *
49273028 AGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCA-G-AATAGAATC
49273053 AGAAT
1 AGAAT
49273058 GTGAATGTGA
Statistics
Matches: 125, Mismatches: 19, Indels: 19
0.77 0.12 0.12
Matches are distributed among these distances:
23 3 0.02
24 27 0.22
25 88 0.70
26 7 0.06
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (23 bp):
AGAATCAGAATCAGAATAGAATC
Found at i:49273054 original size:62 final size:62
Alignment explanation
Indices: 49272897--49273057 Score: 259
Period size: 62 Copynumber: 2.6 Consensus size: 62
49272887 AAATGAGAAT
* * * * *
49272897 CAGAATCAGAATCAGAATTAGGTGACAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
*
49272959 CAGAATCAGAATTAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
*
49273021 TAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
49273058 GTGAATGTGA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 91 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (62 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
Found at i:49273254 original size:33 final size:32
Alignment explanation
Indices: 49273203--49273266 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
49273193 ACGAAGTCAC
* *
49273203 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
49273235 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
49273267 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:49274190 original size:27 final size:27
Alignment explanation
Indices: 49274160--49274224 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
49274150 GGGCATATTC
49274160 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * * *
49274187 GTCACTTTGCCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
49274214 GTCTTTTTACC
1 GTCATTTTACC
49274225 TATTAGGGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:49274308 original size:27 final size:27
Alignment explanation
Indices: 49274278--49274445 Score: 117
Period size: 27 Copynumber: 6.1 Consensus size: 27
49274268 GTAAATCTAC
49274278 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
49274305 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTT-TAGTAATTTTGT
*
49274331 AGAAAGTCAAGGGTATTTCT-GTAATTTTGT
1 --AAA-CCAAGGGTATTT-TAGTAATTTTGT
* * * **
49274361 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
*** * **
49274388 AAATTGAGGGTATTTCAGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
* * * *
49274415 AAACTAGGGGTATTTTGGTAATTTGGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
49274442 AAAC
1 AAAC
49274446 TAAAGTATTC
Statistics
Matches: 115, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
26 2 0.02
27 85 0.74
28 8 0.07
29 19 0.17
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTGT
Found at i:49274383 original size:56 final size:54
Alignment explanation
Indices: 49274258--49274438 Score: 163
Period size: 54 Copynumber: 3.3 Consensus size: 54
49274248 CATCCTACAA
* * * * *
49274258 GGGTGTTTTGGTAA-ATCTACAAACCAAGGGTATTT-TAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTTACAAATCAAGGGTATTTCT-GTAATTTTGTAAA-CAG
* * *
49274312 TGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTTACAAA-TCAAGGGTATTTCTGTAATTTTGTAAA-CAG
** * **
49274368 GGGTATTTTGGTAA-TTTTACAAATTGAGGGTATTTCAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTTACAAATCAAGGGTATTTCTGTAATTTTGTAAAC-AG
49274422 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
49274439 GGTAAACTAA
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
53 1 0.01
54 47 0.46
55 18 0.17
56 36 0.35
57 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTTACAAATCAAGGGTATTTCTGTAATTTTGTAAACAG
Found at i:49277538 original size:38 final size:38
Alignment explanation
Indices: 49277487--49277565 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
49277477 ATTCATCAAC
49277487 ATTCAATCATCAATAACCATAGGCCATATCATAATGGA
1 ATTCAATCATCAATAACCATAGGCCATATCATAATGGA
49277525 ATTCAATCATCAATAACCATAGGCCATATCATAATGGA
1 ATTCAATCATCAATAACCATAGGCCATATCATAATGGA
49277563 ATT
1 ATT
49277566 GGAATAAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (38 bp):
ATTCAATCATCAATAACCATAGGCCATATCATAATGGA
Found at i:49285401 original size:42 final size:42
Alignment explanation
Indices: 49285283--49285445 Score: 141
Period size: 42 Copynumber: 3.9 Consensus size: 42
49285273 AGATGCCAAT
* * * *
49285283 GCCATGTCCCAAACATGGTCTTACATGGAATCTCACATCAAT
1 GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCAAC
* * * * * * * *
49285325 GTCATATCCCAGATATGGTCTTATACGAATTCTCATTTCGAC
1 GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCAAC
* *
49285367 GCCATGTCCCAGGCATGGTCTTACATGAAATCTCATATAAAC
1 GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCAAC
* * *
49285409 GCCATAT-CCACGATATGATCTTACATGATAA-CTCATA
1 GCCATGTCCCA-GACATGGTCTTACATGA-AATCTCATA
49285446 CTAATGCCAA
Statistics
Matches: 93, Mismatches: 26, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
41 3 0.03
42 88 0.95
43 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCAAC
Found at i:49289230 original size:13 final size:13
Alignment explanation
Indices: 49289212--49289240 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
49289202 AGTTGTTTAT
49289212 TAAACTAATTAAC
1 TAAACTAATTAAC
49289225 TAAACTAATTAAC
1 TAAACTAATTAAC
49289238 TAA
1 TAA
49289241 TTAAACTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:49292180 original size:6 final size:6
Alignment explanation
Indices: 49292171--49292209 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
49292161 AATAAAATTG
*
49292171 AAATGA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
49292210 GATAAGAGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:49293742 original size:19 final size:21
Alignment explanation
Indices: 49293718--49293756 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49293708 ACTGCTGTAG
49293718 GGTGGC-A-CACGAGCGTGTT
1 GGTGGCGAGCACGAGCGTGTT
*
49293737 GGTGGCGAGCACGGGCGTGT
1 GGTGGCGAGCACGAGCGTGT
49293757 GGCGTGGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 10 0.59
ACGTcount: A:0.13, C:0.21, G:0.49, T:0.18
Consensus pattern (21 bp):
GGTGGCGAGCACGAGCGTGTT
Found at i:49294511 original size:7 final size:7
Alignment explanation
Indices: 49294499--49294536 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
49294489 ATAGTGTTAG
49294499 AAATAAA
1 AAATAAA
49294506 AAATAAA
1 AAATAAA
49294513 AAATAAA
1 AAATAAA
49294520 AAATAAA
1 AAATAAA
49294527 GAAATCAAA
1 -AAAT-AAA
49294536 A
1 A
49294537 TTTGTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 21 0.72
8 5 0.17
9 3 0.10
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:49294518 original size:14 final size:15
Alignment explanation
Indices: 49294497--49294536 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
49294487 TTATAGTGTT
49294497 AGAAATAAAAAATAA
1 AGAAATAAAAAATAA
49294512 A-AAATAAAAAATAA
1 AGAAATAAAAAATAA
49294526 AGAAATCAAAA
1 AGAAAT-AAAA
49294537 TTTGTTAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 14 0.61
15 5 0.22
16 4 0.17
ACGTcount: A:0.80, C:0.03, G:0.05, T:0.12
Consensus pattern (15 bp):
AGAAATAAAAAATAA
Found at i:49301418 original size:30 final size:30
Alignment explanation
Indices: 49301384--49301446 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
49301374 ATGTAACAAG
49301384 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* * *
49301414 CAAATGCCTTTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
49301444 CAA
1 CAA
49301447 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:49301505 original size:22 final size:22
Alignment explanation
Indices: 49301473--49301515 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
49301463 CAATATCCAA
49301473 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGTAGCAAC
* *
49301495 ATAATACTAAAATGGTAGCAA
1 ATAATAATAAAATAGTAGCAA
49301516 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (22 bp):
ATAATAATAAAATAGTAGCAAC
Found at i:49302346 original size:17 final size:17
Alignment explanation
Indices: 49302313--49302350 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
49302303 TGTAATGTAT
*
49302313 ATTATTAATTTTGGTTA
1 ATTATTAATTTTAGTTA
49302330 ATTAGTTAA-TTTAGTTA
1 ATTA-TTAATTTTAGTTA
49302347 ATTA
1 ATTA
49302351 CAATAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (17 bp):
ATTATTAATTTTAGTTA
Found at i:49315542 original size:77 final size:78
Alignment explanation
Indices: 49315401--49315654 Score: 283
Period size: 77 Copynumber: 3.3 Consensus size: 78
49315391 TTGAATGAAG
* * * *
49315401 TCCGGGCTAAGTCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGA-T-ACTAAT-TCCGGGCTAAGACCGAAGGCATT
49315462 TGTGCGAGATACTAAT
63 TGTGCGAGATACTAAT
*
49315478 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCA-TTGT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGACCGAAGGCATTTGT
49315542 GCGAGATACTAAT
66 GCGAGATACTAAT
* * * * *
49315555 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT-CGAGTTAAGTCCGAA-GCATTTGT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGACCGAAGGCATTTGT
*
49315618 ACGA-ATTACT-AT
66 GCGAGA-TACTAAT
* * *
49315630 ACCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTG
49315655 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
75 28 0.18
76 23 0.15
77 74 0.47
78 20 0.13
79 11 0.07
80 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGACCGAAGGCATTTGT
GCGAGATACTAAT
Found at i:49315551 original size:38 final size:39
Alignment explanation
Indices: 49315401--49315654 Score: 283
Period size: 39 Copynumber: 6.6 Consensus size: 39
49315391 TTGAATGAAG
* *
49315401 TCCGGGCTAAGTCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* **
49315438 ATCCGGACTAAGATCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
49315478 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
49315517 TCCGGGCTAAGCCCGAAGGCA-TTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
49315555 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * * *
49315594 T-CGAGTTAAGTCCGAA-GCATTTGTACGA-ATTACT-AT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGA-TACTAAT
* * *
49315630 ACCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTG
49315655 AACGAGGAGC
Statistics
Matches: 189, Mismatches: 19, Indels: 16
0.84 0.08 0.07
Matches are distributed among these distances:
36 1 0.01
37 27 0.14
38 74 0.39
39 75 0.40
40 11 0.06
41 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:49318780 original size:49 final size:47
Alignment explanation
Indices: 49318665--49318786 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 47
49318655 AATATAGATG
* * * **
49318665 CCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGACA
*
49318712 CCATGTCCCAAACATGGTCTTACACTGACT-ATCAAAATCGAAGCCGACA
1 CCATGTCCCAGACATGGTCTTACACTGACTCATC--AATC-AAGCCGACA
* *
49318761 TCATGTCCTAGACATGGTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
49318787 AGCTCTTACA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 3 0.05
47 28 0.44
48 3 0.05
49 29 0.46
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGACA
Done.