Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 156 of 207
Found at i:47891671 original size:29 final size:30
Alignment explanation
Indices: 47891638--47891697 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
47891628 TGCATATTTC
* *
47891638 TATACTTTATATAC-TTTATAATTTATATA
1 TATACGTTATATACATTTATAATATATATA
47891667 TATACGTTATATACATTTTATAATATATATA
1 TATACGTTATATACA-TTTATAATATATATA
47891698 CATATATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 13 0.48
31 14 0.52
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.52
Consensus pattern (30 bp):
TATACGTTATATACATTTATAATATATATA
Found at i:47892382 original size:109 final size:109
Alignment explanation
Indices: 47892191--47892627 Score: 736
Period size: 109 Copynumber: 4.0 Consensus size: 109
47892181 TCAAAAAGGA
* * * * * *
47892191 AAAAATTTCTAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCTTAATGTGCTA
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTG
*
47892256 GGTTTCGATTTTTCTCGTTCGACCAAATGGCCAAATATCCTTTT
66 GGTTTCGATTTTTCTCGTTCGACCAAATGACCAAATATCCTTTT
*
47892300 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTG
47892365 GGTTTCGATTTTTCTCGTTCGACCAAATGACCAAATATCCTTTT
66 GGTTTCGATTTTTCTCGTTCGACCAAATGACCAAATATCCTTTT
47892409 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTG
47892474 GGTTTCGATTTTTCTCGTTCGACCAAATGACCAAATATCCTTTT
66 GGTTTCGATTTTTCTCGTTCGACCAAATGACCAAATATCCTTTT
* *
47892518 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTACCCTAACGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTG
* *
47892583 GGTTTCGA--TTTCTCGTTGGACCAAAT-AGCCAAATATCCTCTT
66 GGTTTCGATTTTTCTCGTTCGACCAAATGA-CCAAATATCCTTTT
47892625 AAA
1 AAA
47892628 TCTTAATCCA
Statistics
Matches: 316, Mismatches: 11, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
106 1 0.00
107 33 0.10
109 282 0.89
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (109 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTG
GGTTTCGATTTTTCTCGTTCGACCAAATGACCAAATATCCTTTT
Found at i:47904107 original size:44 final size:44
Alignment explanation
Indices: 47903913--47904513 Score: 238
Period size: 44 Copynumber: 13.8 Consensus size: 44
47903903 TAACAAGTCC
* * **
47903913 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACAGTAGATCT
* * * * * **
47903957 TATTTCCCTAAACAGTAGTGAAGCAGATCAAAGAC-G-ACGAATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACAGTA-G-ATCT
* * * * * **
47904001 TATCT-TCTCGAG-A-TAATAGGAAGTATATTTAAGCCACCAG-TC-
1 TATCTCCCT-GAGCAGTAGT-GG-AGTAGATTGAAGACAGTAGATCT
* * **
47904043 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACAGTAGATCT
* * * * *
47904087 TATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACAG-CGAATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACAGTAG-ATCT
* * * * ** *
47904131 TATCT-TCTCGAG-A-TAGTAGGAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCT-GAGCAGTAGT-GG-AGTAGATTGAAGACAGTAGATCT
* * **
47904174 TATCTCCCTGAGTAGTAGTGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACAGTAGATCT
* * *
47904218 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGT-GAATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACAGTAG-ATCT
* * * * ** *
47904262 TATCTTCCC-GAG-A-TAGTAGGAAGCATATTTAAGCCACCAG-TCC
1 TATC-TCCCTGAGCAGTAGT-GG-AGTAGATTGAAGACAGTAGATCT
* * **
47904305 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACAGTAGATCT
* * * * *
47904349 TATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGAC-G-ACGAATTT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACAGTA-G-ATCT
* * * * * * ** *
47904393 TATCTTCCAGAG-A-TAGTAGAAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCTGAGCAGTAGT-G-GAGTAGATTGAAGACAGTAGATCT
* * * **
47904436 TATCTCCCAGAGCAGTATTGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACAGTAGATCT
* *
47904480 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGA
47904514 TGACGAATCT
Statistics
Matches: 396, Mismatches: 122, Indels: 78
0.66 0.20 0.13
Matches are distributed among these distances:
42 40 0.10
43 91 0.23
44 245 0.62
45 18 0.05
46 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACAGTAGATCT
Found at i:47904599 original size:131 final size:131
Alignment explanation
Indices: 47903908--47904578 Score: 1076
Period size: 131 Copynumber: 5.1 Consensus size: 131
47903898 CATCATAACA
* *
47903908 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATTTCCCTAAACAGT
1 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
* * * * * *
47903973 AGTGAAGCAGATCAAAGACGACGAATCTTATCTTCTCGAGATAATAGGAAGTATATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCAC
47904038 C
131 C
*
47904039 AGT-CTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCTTAAGCAGT
1 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
*
47904103 AGTGGAGCAGATCGAAGAC-AGCGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATCGAAGACGA-CGAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCA
47904167 CC
130 CC
* *
47904169 AGTCCTATCTCCCTGAGTAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
* ** *
47904234 AGTGGAGTAGATCGAAGACGGTGAATCTTATCTTCCCGAGATAGTAGGAAGCATATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCAC
47904299 C
131 C
*
47904300 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTTCCTAAGCAGT
1 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
* * *
47904365 AGTGGAGCAGATCGAAGACGACGAATTTTATCTTCCAGAGATAGTAGAAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCAC
47904430 C
131 C
* * *
47904431 AGTCCTATCTCCCAGAGCAGTATTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
* * *
47904496 AGTGGAGCAGATTGAAGATGACGAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCAAC
66 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCAC
47904561 C
131 C
*
47904562 AGTCCTATGTCCCTGAG
1 AGTCCTATCTCCCTGAG
47904579 TTGCAGTAGA
Statistics
Matches: 499, Mismatches: 38, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
129 1 0.00
130 120 0.24
131 378 0.76
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (131 bp):
AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCAC
C
Found at i:47906327 original size:3 final size:3
Alignment explanation
Indices: 47906319--47906354 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
47906309 CTATTTTCAA
47906319 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
47906355 TTCTCATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:47906449 original size:9 final size:9
Alignment explanation
Indices: 47906435--47906494 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
47906425 TGCATACTTC
47906435 TATACTTTA
1 TATACTTTA
47906444 TATACTTTA
1 TATACTTTA
*
47906453 TA-ATTTATA
1 TATACTT-TA
*
47906462 TATACGTTA
1 TATACTTTA
*
47906471 TATACATTTT
1 TATAC-TTTA
* *
47906481 TATAATATA
1 TATACTTTA
47906490 TATAC
1 TATAC
47906495 ATATATAGAT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
8 3 0.08
9 28 0.72
10 8 0.21
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (9 bp):
TATACTTTA
Found at i:47906454 original size:16 final size:17
Alignment explanation
Indices: 47906428--47906463 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
47906418 ATATATATGC
*
47906428 ATACTTCTATACTTTAT
1 ATACTTCTATAATTTAT
47906445 ATACTT-TATAATTTAT
1 ATACTTCTATAATTTAT
47906461 ATA
1 ATA
47906464 TACGTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (17 bp):
ATACTTCTATAATTTAT
Found at i:47910835 original size:29 final size:29
Alignment explanation
Indices: 47910793--47910850 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
47910783 ATGAATTATG
*
47910793 AAGTTTTATGGTAGAAATGGAAAGGTTGT
1 AAGTTTTATGGTAGAAATAGAAAGGTTGT
47910822 AAGTTTTATGGTAGAAATAGAAAGGTTGT
1 AAGTTTTATGGTAGAAATAGAAAGGTTGT
47910851 TGATAGATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.34
Consensus pattern (29 bp):
AAGTTTTATGGTAGAAATAGAAAGGTTGT
Found at i:47911556 original size:24 final size:25
Alignment explanation
Indices: 47911504--47911550 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47911494 TGGCCCTCTT
* *
47911504 GAGCTTCTTGTTATATAGTTCTTGC
1 GAGCTTCTCGTTATATAGCTCTTGC
47911529 GAGCTTCTCGTTA-ATAGCTCTT
1 GAGCTTCTCGTTATATAGCTCTT
47911551 CGGAGCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (25 bp):
GAGCTTCTCGTTATATAGCTCTTGC
Found at i:47911643 original size:26 final size:25
Alignment explanation
Indices: 47911608--47911708 Score: 103
Period size: 26 Copynumber: 3.9 Consensus size: 25
47911598 GTAGCTCTTA
* **
47911608 TGAGCATCCCATTATATGGCTCTTCG
1 TGAGCTTCCCATTA-ATGGCTCTTTT
*
47911634 TGAGCTTCCCGATTAAAGGCTCTTTT
1 TGAGCTTCCC-ATTAATGGCTCTTTT
*
47911660 TGAGCTTCCTGATTAATGGCTCTTTT
1 TGAGCTTCC-CATTAATGGCTCTTTT
**
47911686 TGAGCTTCCTGTTTAATGGCTCT
1 TGAGCTTCC-CATTAATGGCTCT
47911709 CCGAAGCTTC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 62 0.94
27 4 0.06
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (25 bp):
TGAGCTTCCCATTAATGGCTCTTTT
Found at i:47911805 original size:24 final size:24
Alignment explanation
Indices: 47911778--47911839 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
47911768 TGGCTATTTA
*
47911778 GAGCTACCTGTTATTGGCTCGCAT
1 GAGCTTCCTGTTATTGGCTCGCAT
* **
47911802 GAGCTTCTTGATTA-TGGCTCTTAT
1 GAGCTTCCTG-TTATTGGCTCGCAT
47911826 GAGCTTCCTGTTAT
1 GAGCTTCCTGTTAT
47911840 ATAGCCTGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
23 3 0.10
24 25 0.81
25 3 0.10
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (24 bp):
GAGCTTCCTGTTATTGGCTCGCAT
Found at i:47920149 original size:81 final size:82
Alignment explanation
Indices: 47920030--47920217 Score: 260
Period size: 81 Copynumber: 2.3 Consensus size: 82
47920020 ACCGAAGTGT
* *
47920030 AAACAGGGGCAC-AAGTGTGC-ATTCAGGGGTATCGAAGTACAAACAGGGGCATGTATGTGC-AA
1 AAACAGGGGCACGAA-TGTGCAATTCAGGGGTATCAAAGTACAAACAGGGGCACGTATGT-CTAA
*
47920092 TTC-AGGGTACAAAAGTAC
64 TTCAAGGGTACAAAAGTAA
*
47920110 AAACAGGGGCACGCATGTGCAATTCAGGGGTA-CAAAAGTACAAACAGGGGCACGTATGTCTAAT
1 AAACAGGGGCACGAATGTGCAATTCAGGGGTATC-AAAGTACAAACAGGGGCACGTATGTCTAAT
47920174 TCAAGGGTACAAAAGTAA
65 TCAAGGGTACAAAAGTAA
* *
47920192 AAACAGTGGCACGTATGTGCAATTCA
1 AAACAGGGGCACGAATGTGCAATTCA
47920218 TACAACAATT
Statistics
Matches: 97, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
80 19 0.20
81 40 0.41
82 38 0.39
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.19
Consensus pattern (82 bp):
AAACAGGGGCACGAATGTGCAATTCAGGGGTATCAAAGTACAAACAGGGGCACGTATGTCTAATT
CAAGGGTACAAAAGTAA
Found at i:47920153 original size:41 final size:41
Alignment explanation
Indices: 47920030--47920217 Score: 251
Period size: 41 Copynumber: 4.6 Consensus size: 41
47920020 ACCGAAGTGT
* *
47920030 AAACAGGGGCAC-AAGTGTGC-ATTCAGGGGTATC-GAAGTAC
1 AAACAGGGGCACGTA-TGTGCAATTCAGGGGTA-CAAAAGTAC
*
47920070 AAACAGGGGCATGTATGTGCAATTCA-GGGTACAAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACAAAAGTAC
*
47920110 AAACAGGGGCACGCATGTGCAATTCAGGGGTACAAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACAAAAGTAC
* *
47920151 AAACAGGGGCACGTATGT-CTAATTCAAGGGTACAAAAGTAA
1 AAACAGGGGCACGTATGTGC-AATTCAGGGGTACAAAAGTAC
*
47920192 AAACAGTGGCACGTATGTGCAATTCA
1 AAACAGGGGCACGTATGTGCAATTCA
47920218 TACAACAATT
Statistics
Matches: 133, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
39 1 0.01
40 52 0.39
41 79 0.59
42 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.19
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGTACAAAAGTAC
Found at i:47920159 original size:20 final size:20
Alignment explanation
Indices: 47920096--47920159 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
47920086 GTGCAATTCA
47920096 GGGTACAAAAGTACAAACAG
1 GGGTACAAAAGTACAAACAG
* ** * * *
47920116 GGGCACGCATGTGCAATTCAG
1 GGGTACAAAAGTACAA-ACAG
47920137 GGGTACAAAAGTACAAACAG
1 GGGTACAAAAGTACAAACAG
47920157 GGG
1 GGG
47920160 CACGTATGTC
Statistics
Matches: 31, Mismatches: 12, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.39, C:0.17, G:0.31, T:0.12
Consensus pattern (20 bp):
GGGTACAAAAGTACAAACAG
Found at i:47932424 original size:14 final size:13
Alignment explanation
Indices: 47932405--47932435 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
47932395 TAGATTTGGC
47932405 ATTAATTAATCTTA
1 ATTAATTAA-CTTA
47932419 ATTAATTAACTTA
1 ATTAATTAACTTA
47932432 ATTA
1 ATTA
47932436 TGGCTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAATTAACTTA
Found at i:47932967 original size:215 final size:216
Alignment explanation
Indices: 47932549--47932952 Score: 587
Period size: 215 Copynumber: 1.9 Consensus size: 216
47932539 TTGGATAATT
* * * * *
47932549 GTTATTTAACTCCTTAATCCCTACCTTAATTAAAACTCTACAATGGTTAGACATTTATAATTTAG
1 GTTATTTAACTCCTTAAGCCATACCTTAATTAAAACTCTACAACGATTAGACATTTACAATTTAG
* *** * *
47932614 TCCTTAAGCTTTAATAACTAGTTTATTGGCTCAATTACTTGACCACTCTTTATTATATTCACATA
66 TCCTTAAGCTTTAATAACTAGCTTATCAACTAAATTACTTGACCACTCTTTATTATATTCACAGA
* * * *
47932679 TTAACTATGTAAATATTCATATTTTATATTTATGAACTCGGTTTACGGAAATGAGGTTTCAAAAT
131 TTAACTACGTAAATATTCATAATTTATATTTACGAACTCGGTTTAAGGAAATGAGGTTTCAAAAT
47932744 CGTATTTTCCAATATCACTGA
196 CGTATTTTCCAATATCACTGA
* * *
47932765 GTTATTTAACT-C-TAAGCCATACCTTAATTAAAACTCTATAGCGATTAGACTTTTACAATTTAG
1 GTTATTTAACTCCTTAAGCCATACCTTAATTAAAACTCTACAACGATTAGACATTTACAATTTAG
*
47932828 TCCTTAAGCTTTAATTAACTAGCTTATCAACTAAATTACTTGACCACTCTTTATTATATTCATAG
66 TCCTTAAGCTTTAA-TAACTAGCTTATCAACTAAATTACTTGACCACTCTTTATTATATTCACAG
* * *
47932893 ATTAACTCCGTAAATATTCATAATTTATATTTACGGACTTGGTTTAAGGAAATGAGGTTT
130 ATTAACTACGTAAATATTCATAATTTATATTTACGAACTCGGTTTAAGGAAATGAGGTTT
47932953 TGAAACTGTA
Statistics
Matches: 165, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
214 57 0.35
215 97 0.59
216 11 0.07
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (216 bp):
GTTATTTAACTCCTTAAGCCATACCTTAATTAAAACTCTACAACGATTAGACATTTACAATTTAG
TCCTTAAGCTTTAATAACTAGCTTATCAACTAAATTACTTGACCACTCTTTATTATATTCACAGA
TTAACTACGTAAATATTCATAATTTATATTTACGAACTCGGTTTAAGGAAATGAGGTTTCAAAAT
CGTATTTTCCAATATCACTGA
Found at i:47935531 original size:17 final size:17
Alignment explanation
Indices: 47935487--47935531 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
47935477 ATTTAGTCCA
*
47935487 AATCACTAGTACTCGAT
1 AATCACTAGTACTCAAT
47935504 --TCAC-A-TACTCAAT
1 AATCACTAGTACTCAAT
47935517 AATCACTAGTACTCA
1 AATCACTAGTACTCA
47935532 TTAGTACGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
13 7 0.30
14 1 0.04
15 8 0.35
16 1 0.04
17 6 0.26
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.29
Consensus pattern (17 bp):
AATCACTAGTACTCAAT
Found at i:47940744 original size:9 final size:9
Alignment explanation
Indices: 47940730--47940760 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47940720 GTTAAACGAA
47940730 TCGAGTTAT
1 TCGAGTTAT
*
47940739 TCGAGTTAA
1 TCGAGTTAT
47940748 TCGAGTTAT
1 TCGAGTTAT
47940757 TCGA
1 TCGA
47940761 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:47941873 original size:5 final size:5
Alignment explanation
Indices: 47941863--47941888 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47941853 CTCGAAAATT
47941863 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
47941889 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:47947969 original size:30 final size:31
Alignment explanation
Indices: 47947930--47947989 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
47947920 GGAGGTGAAA
*
47947930 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
47947961 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
47947990 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:47948159 original size:21 final size:21
Alignment explanation
Indices: 47948125--47948165 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47948115 GGGGGAAAGT
*
47948125 GGGAAGAAGTAAAAGTTTTGA
1 GGGAAGAAGTAAAAGGTTTGA
47948146 GGGAA-AAGTAAAAAGGTTTG
1 GGGAAGAAGT-AAAAGGTTTG
47948166 GGAGTTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAGAAGTAAAAGGTTTGA
Found at i:47948217 original size:9 final size:9
Alignment explanation
Indices: 47948203--47948239 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
47948193 TATAGTTTGA
47948203 TATTCGAAT
1 TATTCGAAT
47948212 TATTCGAAT
1 TATTCGAAT
* *
47948221 TATTTGAGT
1 TATTCGAAT
47948230 TATTCGAAT
1 TATTCGAAT
47948239 T
1 T
47948240 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:47950558 original size:27 final size:27
Alignment explanation
Indices: 47950522--47950633 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
47950512 AATGGAAAAC
*
47950522 TGTGGCAATCTATAAAATGAAAGCCTT
1 TGTGGCAATCTATGAAATGAAAGCCTT
* * *
47950549 TGTTGCAATCTATGAAATGGATGTCC-T
1 TGTGGCAATCTATGAAATGAAAG-CCTT
* * *
47950576 TGAGGCAATCTATGAAATGGAAGCTTT
1 TGTGGCAATCTATGAAATGAAAGCCTT
* * *
47950603 TGTGGC-ATATATTAAATAAAAGCCTT
1 TGTGGCAATCTATGAAATGAAAGCCTT
47950629 TGTGG
1 TGTGG
47950634 AATTCTCTGA
Statistics
Matches: 69, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
26 21 0.30
27 46 0.67
28 2 0.03
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.33
Consensus pattern (27 bp):
TGTGGCAATCTATGAAATGAAAGCCTT
Found at i:47957418 original size:2 final size:2
Alignment explanation
Indices: 47957411--47957442 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
47957401 GAGCTTCCTT
*
47957411 GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
47957443 TCCCTATTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:47962856 original size:18 final size:18
Alignment explanation
Indices: 47962835--47962892 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
47962825 TGAACTTGTC
47962835 TAAAAAATTATACTTTTT
1 TAAAAAATTATACTTTTT
* *
47962853 TAAATTATTTATA-TTTTT
1 TAAA-AAATTATACTTTTT
47962871 TAAAATAATTATACTTTTT
1 TAAAA-AATTATACTTTTT
47962890 TAA
1 TAA
47962893 TTTATGTCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 19 0.58
19 14 0.42
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
TAAAAAATTATACTTTTT
Found at i:47962870 original size:19 final size:19
Alignment explanation
Indices: 47962842--47962897 Score: 78
Period size: 18 Copynumber: 3.0 Consensus size: 19
47962832 GTCTAAAAAA
47962842 TTATACTTTTTTAAATTAT
1 TTATACTTTTTTAAATTAT
* *
47962861 TTATA-TTTTTTAAAATAA
1 TTATACTTTTTTAAATTAT
*
47962879 TTATACTTTTTTAATTTAT
1 TTATACTTTTTTAAATTAT
47962898 GTCCCCACGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 16 0.52
19 15 0.48
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATACTTTTTTAAATTAT
Found at i:47974492 original size:11 final size:12
Alignment explanation
Indices: 47974447--47974499 Score: 90
Period size: 12 Copynumber: 4.5 Consensus size: 12
47974437 AACAAGCTCT
47974447 TTTATTGACTCG
1 TTTATTGACTCG
*
47974459 TTTATTGGCTCG
1 TTTATTGACTCG
47974471 TTTATTGACTCG
1 TTTATTGACTCG
47974483 TTTA-TGACTCG
1 TTTATTGACTCG
47974494 TTTATT
1 TTTATT
47974500 TATTAATGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 11 0.29
12 27 0.71
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.53
Consensus pattern (12 bp):
TTTATTGACTCG
Found at i:47974559 original size:4 final size:4
Alignment explanation
Indices: 47974552--47974577 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
47974542 TGTGTATTTA
47974552 TTGT TTGT TTGT TTGT TTGT TTGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TT
47974578 ATTATTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTGT
Found at i:47974610 original size:12 final size:12
Alignment explanation
Indices: 47974582--47974633 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
47974572 TTGTTTATTA
*
47974582 TTCATTAACATTG
1 TTCATGAACA-TG
47974595 TTCATGAACATG
1 TTCATGAACATG
* *
47974607 TTCAAT-TATATG
1 TTC-ATGAACATG
47974619 TTCATGAACATG
1 TTCATGAACATG
47974631 TTC
1 TTC
47974634 GATTAAGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
11 2 0.06
12 19 0.59
13 11 0.34
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (12 bp):
TTCATGAACATG
Found at i:47974620 original size:24 final size:23
Alignment explanation
Indices: 47974593--47974656 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 23
47974583 TCATTAACAT
47974593 TGTTCATGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCAATTA-A
*
47974617 TGTTCATGAACATGTTCGATTAA
1 TGTTCATGAACATGTTCAATTAA
*
47974640 -GTTAAATGAACATGTTC
1 TGTT-CATGAACATGTTC
47974657 GTGAACATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 3 0.08
23 13 0.35
24 21 0.57
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (23 bp):
TGTTCATGAACATGTTCAATTAA
Found at i:47974667 original size:23 final size:23
Alignment explanation
Indices: 47974622--47974668 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
47974612 TTATATGTTC
* *
47974622 ATGAACATGTTCGATTAAGTTAA
1 ATGAACATGTTCGATGAAATTAA
47974645 ATGAACATGTTCG-TGAACATTAA
1 ATGAACATGTTCGATGAA-ATTAA
47974668 A
1 A
47974669 CAAACGAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (23 bp):
ATGAACATGTTCGATGAAATTAA
Found at i:47976386 original size:26 final size:28
Alignment explanation
Indices: 47976328--47976391 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
47976318 GTGTCATATG
47976328 AATTAA-AATAGGATAAAATAAATAATA
1 AATTAATAATAGGATAAAATAAATAATA
*
47976355 AGTTAATAATA-G-TAAAAT-AATAATTA
1 AATTAATAATAGGATAAAATAAATAA-TA
47976381 AATTAAATAAT
1 AATT-AATAAT
47976392 TATGGTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 5 0.16
26 11 0.34
27 12 0.38
28 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (28 bp):
AATTAATAATAGGATAAAATAAATAATA
Found at i:47979653 original size:33 final size:34
Alignment explanation
Indices: 47979614--47979677 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
47979604 ATCTTAACCA
*
47979614 CATTGAAACTAATTCATC-ACTTA-CCATATTGGT
1 CATTGAAA-TAATGCATCAACTTAGCCATATTGGT
*
47979647 CATTGAAATCATGCATCAACTTAGCCATATT
1 CATTGAAATAATGCATCAACTTAGCCATATT
47979678 AACACACATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 7 0.26
33 13 0.48
34 7 0.26
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (34 bp):
CATTGAAATAATGCATCAACTTAGCCATATTGGT
Found at i:47980214 original size:18 final size:18
Alignment explanation
Indices: 47980157--47980215 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
47980147 TAGATATACA
47980157 TTCATTGATCATTTCCAT
1 TTCATTGATCATTTCCAT
* *
47980175 TTCA-T-A-CCTTTTCAT
1 TTCATTGATCATTTCCAT
47980190 ACATTCATTGATCATTTCCAT
1 ---TTCATTGATCATTTCCAT
47980211 TTCAT
1 TTCAT
47980216 ACATTTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
15 7 0.23
16 1 0.03
17 1 0.03
18 13 0.42
19 1 0.03
20 1 0.03
21 7 0.23
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.49
Consensus pattern (18 bp):
TTCATTGATCATTTCCAT
Found at i:47980234 original size:36 final size:36
Alignment explanation
Indices: 47980152--47980226 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
47980142 GAACATAGAT
*
47980152 ATACATTCATTGATCATTTCCATTTCATACCTTTTC
1 ATACATTCATTGATCATTTCCATTTCATACATTTTC
47980188 ATACATTCATTGATCATTTCCATTTCATACATTTTC
1 ATACATTCATTGATCATTTCCATTTCATACATTTTC
47980224 ATA
1 ATA
47980227 TGTTCATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.28, C:0.23, G:0.03, T:0.47
Consensus pattern (36 bp):
ATACATTCATTGATCATTTCCATTTCATACATTTTC
Found at i:47988388 original size:25 final size:23
Alignment explanation
Indices: 47988355--47988415 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 23
47988345 TTTAAATAAC
*
47988355 AATATATAATAAAGATTAAAACCA
1 AATACATAATAAAGATTAAAA-CA
* **
47988379 TAATACATAATAGATTTTAAAACA
1 -AATACATAATAAAGATTAAAACA
*
47988403 AATACCTAATAAA
1 AATACATAATAAA
47988416 TCTATAATGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 11 0.37
24 2 0.07
25 17 0.57
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (23 bp):
AATACATAATAAAGATTAAAACA
Found at i:47988606 original size:6 final size:6
Alignment explanation
Indices: 47988577--47988668 Score: 51
Period size: 6 Copynumber: 14.8 Consensus size: 6
47988567 AAAACAAATG
* * * *
47988577 AATATAT AAAAAT -ATAAT ACTAAT AATAAT CATAGAGGT AATAAT AATAAG
1 AATA-AT AATAAT AATAAT AATAAT AATAAT AATA-A--T AATAAT AATAAT
* * * * * *
47988628 AATAAG GATAAT AATAAC AATATT AATAAG AATATT AATAA
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAA
47988669 ATTTAAAAAA
Statistics
Matches: 63, Mismatches: 18, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
5 4 0.06
6 50 0.79
7 4 0.06
8 1 0.02
9 4 0.06
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (6 bp):
AATAAT
Found at i:47988621 original size:21 final size:21
Alignment explanation
Indices: 47988598--47988644 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
47988588 ATATAATACT
**
47988598 AATAATAATCATAGAGG-TAAT
1 AATAATAAGAATA-AGGATAAT
47988619 AATAATAAGAATAAGGATAAT
1 AATAATAAGAATAAGGATAAT
47988640 AATAA
1 AATAA
47988645 CAATATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.60, C:0.02, G:0.13, T:0.26
Consensus pattern (21 bp):
AATAATAAGAATAAGGATAAT
Found at i:47993460 original size:86 final size:86
Alignment explanation
Indices: 47993315--47993485 Score: 299
Period size: 86 Copynumber: 2.0 Consensus size: 86
47993305 CTTTTGACAA
*
47993315 CCCAATGTGAGTCTAATCTTAAACTATTATATAGAATTGTTCAAACAGAAAAGCATTTAATTTAG
1 CCCAATGTGAGTCTAATCTTAAACCATTATATAGAATTGTTCAAACAGAAAAGCATTTAATTTAG
47993380 AGCATCATACCAATTGAGCAG
66 AGCATCATACCAATTGAGCAG
* *
47993401 CCCAATGTGAGTCTAATTTTAAACCATTATATATAATTGTTCAAACA-ATAAAGCATTTAATTTA
1 CCCAATGTGAGTCTAATCTTAAACCATTATATAGAATTGTTCAAACAGA-AAAGCATTTAATTTA
47993465 GAGCATCATACCAATTGAGCA
65 GAGCATCATACCAATTGAGCA
47993486 TAATGTAAGG
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
85 1 0.01
86 80 0.99
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (86 bp):
CCCAATGTGAGTCTAATCTTAAACCATTATATAGAATTGTTCAAACAGAAAAGCATTTAATTTAG
AGCATCATACCAATTGAGCAG
Found at i:47997761 original size:22 final size:22
Alignment explanation
Indices: 47997742--47997793 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
47997732 AATGGCTAAG
* *
47997742 AGCCATAAATAGGATAGCTATA
1 AGCCATAAATAGAATAGCTACA
* *
47997764 AGCTATAAATAGAATGGCTACA
1 AGCCATAAATAGAATAGCTACA
47997786 AGCCATAA
1 AGCCATAA
47997794 GTACATTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.21
Consensus pattern (22 bp):
AGCCATAAATAGAATAGCTACA
Found at i:47997840 original size:32 final size:33
Alignment explanation
Indices: 47997783--47997926 Score: 138
Period size: 32 Copynumber: 4.5 Consensus size: 33
47997773 TAGAATGGCT
* * * *
47997783 ACAAGCCATAAGTA-CATTAATATGATTAGCAT
1 ACAAGCCATCAGTAGCAGTAATATGATCAGCAC
* *
47997815 A-AAGCCATCAGTAGCAGTGATATGATCGGCAC
1 ACAAGCCATCAGTAGCAGTAATATGATCAGCAC
* *
47997847 ATAA-CCATCAGTAACAGTAATATGAT-AGGCAC
1 ACAAGCCATCAGTAGCAGTAATATGATCA-GCAC
* * *
47997879 A-AAGCTATCAGTAGCAGTGATATGATCAGTAC
1 ACAAGCCATCAGTAGCAGTAATATGATCAGCAC
47997911 ACAA-CCATCAGTAGCA
1 ACAAGCCATCAGTAGCA
47997927 TCGCAGCAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
31 13 0.14
32 74 0.80
33 5 0.05
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.22
Consensus pattern (33 bp):
ACAAGCCATCAGTAGCAGTAATATGATCAGCAC
Found at i:47997901 original size:64 final size:64
Alignment explanation
Indices: 47997783--47997923 Score: 187
Period size: 64 Copynumber: 2.2 Consensus size: 64
47997773 TAGAATGGCT
* * * *
47997783 ACAAGCCATAAGT-ACATTAATATGATTAGCATAAAGCCATCAGTAGCAGTGATATGATCGGCAC
1 ACAA-CCATCAGTAACAGTAATATGATTAGCACAAAGCCATCAGTAGCAGTGATATGATCAGCAC
* * *
47997847 ATAACCATCAGTAACAGTAATATGA-TAGGCACAAAGCTATCAGTAGCAGTGATATGATCAGTAC
1 ACAACCATCAGTAACAGTAATATGATTA-GCACAAAGCCATCAGTAGCAGTGATATGATCAGCAC
47997911 ACAACCATCAGTA
1 ACAACCATCAGTA
47997924 GCATCGCAGC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
63 9 0.13
64 58 0.87
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (64 bp):
ACAACCATCAGTAACAGTAATATGATTAGCACAAAGCCATCAGTAGCAGTGATATGATCAGCAC
Found at i:47998125 original size:24 final size:24
Alignment explanation
Indices: 47998093--47998150 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
47998083 CCATGCTCAG
47998093 AATCAGTCATACAAATCACAAACA
1 AATCAGTCATACAAATCACAAACA
* *
47998117 AATCAGTCATACCAATCACAGACA
1 AATCAGTCATACAAATCACAAACA
*
47998141 AACCAGTCAT
1 AATCAGTCAT
47998151 TTACATCACG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAAACA
Found at i:47998158 original size:24 final size:24
Alignment explanation
Indices: 47998131--47998179 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
47998121 AGTCATACCA
*
47998131 ATCACAGACAAACCAGTCATTTAC
1 ATCACAGACAAACCAATCATTTAC
* *
47998155 ATCACGGACAAATCAATCATTTAC
1 ATCACAGACAAACCAATCATTTAC
47998179 A
1 A
47998180 CTCAAGGGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.27, G:0.08, T:0.22
Consensus pattern (24 bp):
ATCACAGACAAACCAATCATTTAC
Found at i:47998283 original size:27 final size:26
Alignment explanation
Indices: 47998213--47998419 Score: 171
Period size: 27 Copynumber: 7.8 Consensus size: 26
47998203 ACCCTCCAGA
* * *
47998213 GGCATTACGGTCATTTAAACTTATAGG
1 GGCATTACGGTCATTTTACCCTAT-GG
* ** * *
47998240 GGTATTTTGGTTATTTAACCCTATGG
1 GGCATTACGGTCATTTTACCCTATGG
* *
47998266 GGTATTACGGTCATTTTACCCTACAGG
1 GGCATTACGGTCATTTTACCCTA-TGG
*
47998293 GGCATTACAGTCATTTTACCCTATAGG
1 GGCATTACGGTCATTTTACCCTAT-GG
* * ***
47998320 GGAATTACAGTCATTTTACCCTACAA
1 GGCATTACGGTCATTTTACCCTATGG
* * *
47998346 TGCATTACGATCATTTTACCCTACAGG
1 GGCATTACGGTCATTTTACCCTA-TGG
*
47998373 GGCACTACGGTCATTTTACCCTATAGG
1 GGCATTACGGTCATTTTACCCTAT-GG
* *
47998400 GGCATTACGGTTAATTTACC
1 GGCATTACGGTCATTTTACC
47998420 TATCGACGGT
Statistics
Matches: 144, Mismatches: 32, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
26 40 0.28
27 104 0.72
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (26 bp):
GGCATTACGGTCATTTTACCCTATGG
Found at i:47998294 original size:53 final size:54
Alignment explanation
Indices: 47998252--47998407 Score: 192
Period size: 53 Copynumber: 2.9 Consensus size: 54
47998242 TATTTTGGTT
*
47998252 ATTTAACCCTAT-GGGGTATTACGGTCATTTTACCCTACAGGGGCATTACAGTC
1 ATTTAACCCTATAGGGGAATTACGGTCATTTTACCCTACAGGGGCATTACAGTC
* * **
47998305 ATTTTACCCTATAGGGGAATTACAGTCATTTTACCCTACA-ATGCATTAC-GATC
1 ATTTAACCCTATAGGGGAATTACGGTCATTTTACCCTACAGGGGCATTACAG-TC
* * * * *
47998358 ATTTTACCCTACAGGGGCACTACGGTCATTTTACCCTATAGGGGCATTAC
1 ATTTAACCCTATAGGGGAATTACGGTCATTTTACCCTACAGGGGCATTAC
47998408 GGTTAATTTA
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.01
53 55 0.62
54 32 0.36
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (54 bp):
ATTTAACCCTATAGGGGAATTACGGTCATTTTACCCTACAGGGGCATTACAGTC
Found at i:47998297 original size:80 final size:80
Alignment explanation
Indices: 47998196--47998407 Score: 219
Period size: 80 Copynumber: 2.7 Consensus size: 80
47998186 GGGCAAAATA
* * * * *** *
47998196 GTCA-TTTACCCTCCAGAGGCATTACGGTCATTTAAACTTATAGGGGTATTTTGGTTATTTAACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTAAACCTATAGGGGAATTACAGTCATTTAACC
*** *
47998260 CTATGGGGTATTACG
66 CTACAAGGCATTACG
* * * *
47998275 GTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCCTATAGGGGAATTACAGTCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTAAACCTATAGGGGAATTACAGTCATTTAACC
*
47998340 CTACAATGCATTACG
66 CTACAAGGCATTACG
* * * * *
47998355 ATCATTTTACCCTACAGGGGCACTACGGTCATTTTACCCTATAGGGGCATTAC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTAAACCTATAGGGGAATTAC
47998408 GGTTAATTTA
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
79 4 0.04
80 107 0.96
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (80 bp):
GTCATTTTACCCTACAGGGGCATTACGGTCATTTAAACCTATAGGGGAATTACAGTCATTTAACC
CTACAAGGCATTACG
Found at i:47998418 original size:80 final size:80
Alignment explanation
Indices: 47998269--47998419 Score: 239
Period size: 80 Copynumber: 1.9 Consensus size: 80
47998259 CCTATGGGGT
* * *
47998269 ATTACGGTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCCTATAGGGGAATTACAGTCAT
1 ATTACGATCATTTTACCCTACAGGGGCACTACAGTCATTTTACCCTATAGGGGAATTACAGTCAA
47998334 TTTACCCTACAATGC
66 TTTACCCTACAATGC
* * * *
47998349 ATTACGATCATTTTACCCTACAGGGGCACTACGGTCATTTTACCCTATAGGGGCATTACGGTTAA
1 ATTACGATCATTTTACCCTACAGGGGCACTACAGTCATTTTACCCTATAGGGGAATTACAGTCAA
47998414 TTTACC
66 TTTACC
47998420 TATCGACGGT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (80 bp):
ATTACGATCATTTTACCCTACAGGGGCACTACAGTCATTTTACCCTATAGGGGAATTACAGTCAA
TTTACCCTACAATGC
Found at i:47998443 original size:54 final size:55
Alignment explanation
Indices: 47998385--47998526 Score: 166
Period size: 54 Copynumber: 2.6 Consensus size: 55
47998375 CACTACGGTC
* *
47998385 ATTTTACCCTATAG-GGGCATTACGGTTAA-TTTACCTATCGACGGTATTTCAGTA
1 ATTTTACCCTATAGAGGGCATTAC-GATAATTTTACCCATCGACGGTATTTCAGTA
* * * * *
47998439 ATTTTACCC-ATCGAGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGGTA
1 ATTTTACCCTATAGAGGGCATTACGATAATTTTACCCATCGACGGTATTTCAGTA
* *
47998493 ATTTTACCCT-TCGAGGGCATTTCGATAATTTTAC
1 ATTTTACCCTATAGAGGGCATTACGATAATTTTAC
47998527 GGCCCAATCC
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
53 7 0.09
54 70 0.91
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (55 bp):
ATTTTACCCTATAGAGGGCATTACGATAATTTTACCCATCGACGGTATTTCAGTA
Found at i:47998444 original size:27 final size:27
Alignment explanation
Indices: 47998414--47998526 Score: 165
Period size: 27 Copynumber: 4.2 Consensus size: 27
47998404 TTACGGTTAA
* *
47998414 TTTACCTATCGACGGTATTTC-AGTAAT
1 TTTACCCATCGAGGGTATTTCGA-TAAT
47998441 TTTACCCATCGAGGGTATTTCGATAAT
1 TTTACCCATCGAGGGTATTTCGATAAT
*
47998468 TTTACCCATCGAGGGTATTTCGGTAAT
1 TTTACCCATCGAGGGTATTTCGATAAT
* *
47998495 TTTACCCTTCGAGGGCATTTCGATAAT
1 TTTACCCATCGAGGGTATTTCGATAAT
47998522 TTTAC
1 TTTAC
47998527 GGCCCAATCC
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 78 0.99
28 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (27 bp):
TTTACCCATCGAGGGTATTTCGATAAT
Found at i:48000468 original size:21 final size:21
Alignment explanation
Indices: 48000410--48000462 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
48000400 TTTTTTTCCA
* *
48000410 AAACCACTTTACTTTAGGGGT
1 AAACCACTTGACTTTAAGGGT
48000431 AAACCACTTGACTTTAAGGGT
1 AAACCACTTGACTTTAAGGGT
48000452 AAACCACTTGA
1 AAACCACTTGA
48000463 ACTTAACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (21 bp):
AAACCACTTGACTTTAAGGGT
Found at i:48000643 original size:15 final size:15
Alignment explanation
Indices: 48000623--48000656 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
48000613 GGGCTATTAT
48000623 ATATAAGGTTCGCAC
1 ATATAAGGTTCGCAC
48000638 ATATAAGGTTCGCAC
1 ATATAAGGTTCGCAC
48000653 ATAT
1 ATAT
48000657 TAAATCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (15 bp):
ATATAAGGTTCGCAC
Found at i:48000691 original size:36 final size:34
Alignment explanation
Indices: 48000650--48000716 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
48000640 ATAAGGTTCG
48000650 CACATATTAAATCACATACTATATAACATGGGGATT
1 CACATATT--ATCACATACTATATAACATGGGGATT
**
48000686 CACATATTATGTCATACTATATAACATGGGG
1 CACATATTATCACATACTATATAACATGGGG
48000717 GCTCGTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 21 0.72
36 8 0.28
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (34 bp):
CACATATTATCACATACTATATAACATGGGGATT
Found at i:48003859 original size:152 final size:151
Alignment explanation
Indices: 48003662--48004460 Score: 1252
Period size: 152 Copynumber: 5.3 Consensus size: 151
48003652 CAATTGTTCG
* * * *
48003662 TATTTTGGCCATTT-TTTGTATTTTTTTCCCGGATTTTATTACTTTTAAAAAATATACTATTTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATACTATTTTT
48003726 TAATTTTTTAATTTTAAATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTTT
66 TAATTTTTT-ATTTTAAATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTTT
* *
48003791 TAAATAAATTTAAAAAAAACCCT
130 TAAATAAATTT-AAAAAAATCAT
* * * *
48003814 TATTTCGGTCCTATGTTCGTA-TTTTTTCCCGGATTTTATTACTTTTAAAAAATATACTATTTTC
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATACTATTTTT
* * *
48003878 TACTTTTTTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTATTTTTT
66 TAATTTTTTATTTTAAATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTTTT
* *
48003943 AAATAAGTTTAAAAAAACCAT
131 AAATAAATTTAAAAAAATCAT
* *
48003964 TATTTCGGCCCTATGTTCGTATTTTTTATCCCGGATTTTATTACTTTTAAAAAATATACTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTT-TCCCGAATTTTATTACTTTTAAAAAATATACTATTTT
* * * *
48004029 TTAATTTTTTTATTTTACATCATTTTAGTACATTATATTTGAAATGTATTAATTTGGTTTGTTTT
65 TTAA-TTTTTTATTTTAAATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTT
48004094 TTAAATAAATTTAAAAAAATCAT
129 TTAAATAAATTTAAAAAAATCAT
*
48004117 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATACACTATTTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATACTATTTTT
* *
48004182 TAATTTTTTAATTTTAAATTATTTTACTACATTATATTTAAAATGTATTAATTTAGTGTGTTTTT
66 TAATTTTTT-ATTTTAAATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTTT
*
48004247 TAAATAAA-TT-AAAAAATCCT
130 TAAATAAATTTAAAAAAATCAT
48004267 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATACTATTTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATACTATTTTT
48004332 TAA-TTTTTATTTTAAATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTTTT
66 TAATTTTTTATTTTAAATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTTTT
*
48004396 AAATAAA-TTAAAAAAATCTT
131 AAATAAATTTAAAAAAATCAT
* *
48004416 TATTTCGGCCCTTTGTTCGTA-TTTTTTCCCAAATTTTCTTACTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTT
48004461 CAATAAAAAC
Statistics
Matches: 605, Mismatches: 36, Indels: 16
0.92 0.05 0.02
Matches are distributed among these distances:
148 85 0.14
149 35 0.06
150 106 0.18
151 76 0.13
152 195 0.32
153 108 0.18
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (151 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATACTATTTTT
TAATTTTTTATTTTAAATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTTTT
AAATAAATTTAAAAAAATCAT
Found at i:48004963 original size:152 final size:150
Alignment explanation
Indices: 48004464--48007273 Score: 2919
Period size: 143 Copynumber: 18.8 Consensus size: 150
48004454 TTACTTTCAA
*
48004464 TAAAAACACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
1 TAAAAA-ACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAA
* *
48004529 T-TAGAAAATAATATATTTTTTAAAAGTAATAAAATCC--GAGAAAAATACGAACAAATGGCCGA
65 TAT-GAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGA
48004591 AATAAGGATTTTTTAATTTATT
129 AATAAGGATTTTTTAATTTATT
*
48004613 TAAAAAACACACTAAATTAATACATTTCAAATATAATATACTAAAATAATGTAAAATTAA-AAAA
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAA-TAATAAAA
* * * * * *
48004677 TTTAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAAATACCAACAAAGGGCTGA
65 TATGAAAATAATATATTTTTTAAAAGTAATAAAATCCGGG-AAAAAAATACGAACAAAGGGCCGA
48004742 AATAAGGATTTATTTTTTAAATTTATT
129 AATAAGG----ATTTTTT-AATTTATT
* * * *
48004769 TTAAAAACACAGTAAATTAATACATTTCAAACATGATGTACTAAAATAATGTAAAATAATAAAAT
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAAT
* * *
48004834 ATGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGAGTCGA
66 ATGAAAATAATATA-TTTT-TTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGA
48004899 AATAAGGATTTTTTAATTTATT
129 AATAAGGATTTTTTAATTTATT
*
48004921 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAATTAA-AAAAT
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAAT
* * * * *
48004985 TTAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAGAAAAAAATACGAACAAAAGGCCGAAA
66 ATGAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAA
48005050 TAAGGATTTTTTTTAAATTTATT
131 TAAGGA--TTTTTT-AATTTATT
* * *
48005073 T-CAAAA-ACAC------AATACATTTCATATATAATGTACTAAAATAATGTAAAATAAAAAAAT
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAAT
* * * *
48005130 -TAAAAAGTAGTATATTTTTTAAAAGTAATAAAATCCGGGATAAAAAATACGAACATAGGGCAGA
66 ATGAAAA-TAATATATTTTTTAAAAGTAATAAAATCCGGGA-AAAAAATACGAACAAAGGGCCGA
* *
48005194 AATAAGGGTTTTTTTTAACTTATT
129 AATAA-GG-ATTTTTTAATTTATT
* *
48005218 TAAAAAATACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAA-AAAAA
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAAT
* *
48005282 ATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATCC-GGAAAAAAATACGAACATAGGGCCGA
66 A-T-GAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGA
*
48005346 AATAAGGGTTTTTTTAAATTTATT
129 AATAA-GGATTTTTT-AATTTATT
* *
48005370 TAAAAAACACACTAAATTAATACATTTCAAATATAATATACTAAAATAATGTAAAATAAAAAAAT
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAAT
* **
48005435 -TAGAAAATAGTATATTTTTTAAAAGTAATAAAATCCGGG-AAAAAATA-GAAACTTAGGGCCGA
66 AT-GAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACG-AACAAAGGGCCGA
*
48005497 AATAAGGGTTTTTTTTTAAATTTATT
129 AATAA-GG--ATTTTTT-AATTTATT
* *
48005523 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAAAAAAAA
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAAT
* * * *
48005588 ATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGTAAAAAATACGAACATAGGGCCGA
66 A-T-GAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGA
*
48005653 AATAAGAGTTTTTTTAATTTATT
129 AATAAG-GATTTTTTAATTTATT
48005676 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAAT--T---A-
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAAT
** * * * *
48005735 A--AAAATGGTATATGTTTTAAAAGTAATAAAATCTGGGAAAAAAATACGAACATAGGGCCAAAA
66 ATGAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAA
*
48005798 TAAGGGTTTTTTTAAAATTTATT
131 TAA-GGATTTTTT--AATTTATT
* *
48005821 T-AAAAACACACTAAATTAATACATTTCAAATATAATGTAATAAAATAAT-TAAAA-ATTAAAA-
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAAT
* * * * * * * *
48005882 ATTAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGAGAAAAAAATACGAAAAAATGACCAAA
66 A-TGAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAA
** * ** ****** *
48005947 ATACGAACAATTGGTGCCGCCTC
130 ATA--AGGATTTTTTAATTTATT
*** **** * * **** * * ** * ** **** *
48005970 TGCCACGGGCACCAAAGGTGCCGCCTGTGGCAGGCCCTCCTTCAGTATGTTTTTTTTTAACTGTC
1 TAAAAAACACACTAAA-TTAATACAT-T-TCA---AAT--AT-A--ATGTACTAAAATAA-TGTA
*** ** ** * ***** * ** * * *
48006035 TTTTTTTGTATTATTTTGGTAA-ATA--ATAAAAAAGTAATAAAATCCAGAAAAAAAATACGAAG
54 AAATAATAAAATATGAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAAC
48006097 AAAGGGCCGAAATAAGGATTTTTTTAATTTATT
119 AAAGGGCCGAAATAAGGA-TTTTTTAATTTATT
48006130 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAAT-TAAAAT--T---A-
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAAT
* *
48006188 A--AAAATAATATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAATGGCCGAAA
66 ATGAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAA
*
48006251 TAAGGATTTTTTTATTTATT
131 TAAGGATTTTTTAATTTATT
* * * * * *
48006271 TAAAAAACAAAGTAAATTAATACATTTCAAACATGATGTACTAAAATAATATAAAAT-ATTAAA-
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAAT
** *
48006334 AT---AAT-ATAT-TTTTATTGGAAGTAATAAAATCCGGG-AAAAAATACGAACAAAAGGCCGAA
66 ATGAAAATAATATATTTT-TTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAA
48006393 ATAAGGATTTTTTAATTTATT
130 ATAAGGATTTTTTAATTTATT
* *
48006414 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAATTAATGTAAAATAAAAAAAT
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAAT
* * *
48006479 A-AAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAA
66 ATGAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAA
*
48006543 TAATGATTTTTTTAAAATTTATT
131 TAAGGA-TTTTTT--AATTTATT
* * * * *
48006566 TAAAAAACACAGTAAATTAATATATTTCAAACATGATGTACTAATATAATGTAAAATAATAAAAT
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAAT
* * * *
48006631 ACT-AAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGAAAAAAATATGAACAAAGAGCTG
66 A-TGAAAATAATATA-TTTT-TTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCG
48006695 AAATAAGGATTTTTTTAATTTATT
128 AAATAAGGA-TTTTTTAATTTATT
* *
48006719 TAAAAAATACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATATAAAAT--T---A-
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAAT
* * * * *
48006778 A--AAAATAGTATATTTTTTAAAAGTAATAAAATCAGGG-AAAAAATATGAATATAGGGCCGAAA
66 ATGAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAA
*
48006840 TAAGGGTTTTTTTAAATTTATT
131 TAA-GGATTTTTT-AATTTATT
* *
48006862 TAAAAAACACATTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAAAAAAAT
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAAT
* * *
48006927 -TAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGG-AAAAAATACGAACATAGGGCCGAA
66 AT-GAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAA
* *
48006990 ACAAGGGTTTTTTAATTTATT
130 ATAAGGATTTTTTAATTTATT
* *
48007011 TTAAAAACAGAAC-AAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAA-AAAA
1 TAAAAAACA-CACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAA
* * *
48007074 TA-G----T-A-A-ATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATATGAACATAGGGCCGAA
65 TATGAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAA
*
48007131 ATAAGGGTTTTTTTAAATTTATT
130 ATAA-GGATTTTTT-AATTTATT
*
48007154 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGCAAAATTAA-AAAA
1 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAA-TAATAAAA
* * *
48007218 T-TAAAAAATAATATATTTTTTAAAAGTAATAAAATCTGAGAAAAAAATACGAACAA
65 TAT-GAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAA
48007274 TTGGTGCCGC
Statistics
Matches: 2267, Mismatches: 269, Indels: 247
0.81 0.10 0.09
Matches are distributed among these distances:
139 3 0.00
140 29 0.01
141 87 0.04
142 93 0.04
143 313 0.14
144 132 0.06
145 69 0.03
146 37 0.02
147 16 0.01
148 114 0.05
149 164 0.07
150 88 0.04
151 192 0.08
152 278 0.12
153 268 0.12
154 42 0.02
155 107 0.05
156 102 0.04
157 34 0.01
158 21 0.01
159 6 0.00
160 12 0.01
161 48 0.02
162 1 0.00
163 4 0.00
164 6 0.00
165 1 0.00
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (150 bp):
TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAATAAAAT
ATGAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAA
TAAGGATTTTTTAATTTATT
Found at i:48006758 original size:292 final size:291
Alignment explanation
Indices: 48004464--48007273 Score: 2704
Period size: 292 Copynumber: 9.4 Consensus size: 291
48004454 TTACTTTCAA
*
48004464 TAAAAACACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
1 TAAAAA-ACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
* *
48004529 TTAGAAAATAATATATTTTTTAAAAGTAATAAAATCC--GAGAAAAATACGAACAAATG-GCCGA
65 TTATAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAA-GAGCCGA
*
48004591 AATAAGGA-TTTTTTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAATATACT
129 AATAAGGATTTTTTTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAAT-GA-T
*
48004655 AAAATAATGTAAAATTAAAAAATTTAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAA
192 --AA-AA--T--AA-T-AAAAA-TAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGG-AA
* *
48004720 AAAAATACCAACAAAGGGCTGAAATAAGGATTTATTTTTTAAATTTATT
246 AAAAATACGAACAAAGGGCCGAAATAAGGA--T-TTTTTTAAATTTATT
* *
48004769 TTAAAAACACAGTAAATTAATACATTTCAAACATGATGTACTAAAATAATGTAAAATAATAAAA-
1 TAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
* *
48004833 TATGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGAGTCG
66 TAT-AAAATAATATA-TTTT-TTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGAGCCG
48004898 AAATAAGGA-TTTTTTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAATGTAC
128 AAATAAGGATTTTTTTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAATG-A-
* * *
48004962 TAAAATAATGTAAATTAAAAAATTTAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAGAAA
191 T--AA-AA--T-AA-T-AAAAA-TAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAA
*
48005027 AAAATACGAACAAAAGGCCGAAATAAGGATTTTTTTTAAATTTATT
247 AAAATACGAACAAAGGGCCGAAATAAGGA-TTTTTTTAAATTTATT
* * * *
48005073 TCAAAAACAC--------AATACATTTCATATATAATGTACTAAAATAATGTAAAATAAAAAAAT
1 TAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
* * * *
48005130 TA-AAAAGTAGTATATTTTTTAAAAGTAATAAAATCCGGGATAAAAAATACGAACATAGGGCAGA
66 TATAAAA-TAATATATTTTTTAAAAGTAATAAAATCCGGGA-AAAAAATACGAACAAAGAGCCGA
* * *
48005194 AATAAGGGTTTTTTTTAACTTATTTAAAAAATACACTAAATTAATACATTTCAAATATAATGTAC
129 AATAA-GGATTTTTTTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAATG-A-
* *
48005259 TAAAATAATGTAAAATAAAAAAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAA-TCCGGA
191 T--AA-AA--T--AAT---AAAAA-TAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGA
* *
48005323 AAAAAATACGAACATAGGGCCGAAATAAGGGTTTTTTTAAATTTATT
245 AAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTTAAATTTATT
* * * *
48005370 TAAAAAACACACTAAATTAATACATTTCAAATATAATATACTAAAATAATGTAAAATAAAAAAAT
1 TAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
* * ** *
48005435 TAGAAAATAGTATATTTTTTAAAAGTAATAAAATCCGGG-AAAAAATA-GAAACTTAGGGCCGAA
66 TATAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACG-AACAAAGAGCCGAA
*
48005498 ATAAGGGTTTTTTTTTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAATGTA
130 ATAA-GG-ATTTTTTT-AATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAATG-A
*
48005563 CTAAAATAATGTAAAATAAAAAAAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGG
191 -T--AA-AA--T--AAT----AAAAA-TAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGG
* *
48005628 GTAAAAAATACGAACATAGGGCCGAAATAA-GAGTTTTTTT-AATTTATT
243 GAAAAAAATACGAACAAAGGGCCGAAATAAGGA-TTTTTTTAAATTTATT
* *
48005676 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAAT--T---A-
1 TAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
** * * * * *
48005735 -A-AAAATGGTATATGTTTTAAAAGTAATAAAATCTGGGAAAAAAATACGAACATAGGGCCAAAA
66 TATAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGAGCCGAAA
*
48005798 TAAGGGTTTTTTTAAAATTTATTT-AAAAACACACTAAATTAATACATTTCAAATATAATGTAAT
131 TAAGGATTTTTTT--AATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAATG--AT
*
48005862 AAAATAATTAAAAATTAAAAATTAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGAGAAAAA
192 AAAATAA-TAAAAA-T----A--AAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAA
* * * * ** * ** ****** * *
48005927 AATACGAAAAAATGACCAAAATACGAACAATTGGTGCCGCCTCTG
249 AATACGAACAAAGGGCCGAAATA--AGGATTTTTTTAAATTTATT
** **** ** **** * * ** * ** ****
48005972 CCACGGGCACCA--AAGGTGCCGCCTGTGGCAGGCCCTCCTTCAGTATGTTTTTTTTTAACTGT-
1 TAAAAAACA-CAGTAAATTAATACAT-T-TCA-----AACAT-A--ATGTACTAAAATAA-TGTA
*** ** *** **** * ** * *
48006034 CTTTTTTTGTATTATTTTGGTAA-ATA--ATAAAAAAGTAATAAAATCCAGAAAAAAAATACGAA
54 AAATAATAAAATTA-TAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAA
* *
48006096 GAAAGGGCCGAAATAAGGATTTTTTTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAA
118 CAAAGAGCCGAAATAAGGATTTTTTTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAA
* *
48006161 TATAATGTACTAAAATAATTAAAATTAAAAAATAATATATTTTTTAAAAGTAATAAAATTCGGGA
183 TATAATG-A-TAAAATAA-TAAAAATAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGA
*
48006226 AAAAAATACGAACAAATGGCCGAAATAAGGATTTTTTT--ATTTATT
245 AAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTTAAATTTATT
* * * *
48006271 TAAAAAACAAAGTAAATTAATACATTTCAAACATGATGTACTAAAATAATATAAAAT-ATTAAA-
1 TAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
**
48006334 -AT--AAT-ATAT-TTTTATTGGAAGTAATAAAATCCGGG-AAAAAATACGAACAAA-AGGCCGA
66 TATAAAATAATATATTTT-TTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGA-GCCGA
48006392 AATAAGGA-TTTTTTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACT
129 AATAAGGATTTTTTTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAATG-A-T
48006456 AAATTAATGTAAAATAAAAAAATAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAA
192 -AA--AA--T--AAT--AAAAATAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAA
*
48006521 AAATACGAACAAAGGGCCGAAATAATGATTTTTTTAAAATTTATT
248 AAATACGAACAAAGGGCCGAAATAAGGATTTTTTT-AAATTTATT
* * *
48006566 TAAAAAACACAGTAAATTAATATATTTCAAACATGATGTACTAATATAATGTAAAATAATAAAA-
1 TAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
* * *
48006630 TACTAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGAAAAAAATATGAACAAAGAGCTG
66 TA-TAAAATAATATA-TTTT-TTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGAGCCG
*
48006695 AAATAAGGATTTTTTTAATTTATTTAAAAAATACACTAAATTAATACATTTCAAATATAATGTAC
128 AAATAAGGATTTTTTTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAATG-A-
48006760 TAAAATAATATAAAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAA-TCAGGG-AAAAAATA
191 TAAAATAATA-AAAA-TAAAAAATAGTATATTTTTTAAAAGTAATAAAATTC-GGGAAAAAAATA
* * * *
48006823 TGAATATAGGGCCGAAATAAGGGTTTTTTTAAATTTATT
253 CGAACAAAGGGCCGAAATAAGGATTTTTTTAAATTTATT
* * *
48006862 TAAAAAACACATTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATAAAAAAAT
1 TAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
* * * * *
48006927 TAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGG-AAAAAATACGAACATAGGGCCGAAA
66 TATAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGAGCCGAAA
* * * *
48006991 CAAGG-GTTTTTTAATTTATTTTAAAAACAGAAC-AAATTAATACATTTCAAATATAATGTACTA
131 TAAGGATTTTTTTAATTTATTTAAAAAACA-CACTAAATTAATACATTTCAAATATAATG-A-TA
* * *
48007054 AAATAATGTAAAATAAAAAATAGTAAATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATATGAA
193 AAATAAT-AAAAATAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAA
* *
48007119 CATAGGGCCGAAATAAGGGTTTTTTTAAATTTATT
257 CAAAGGGCCGAAATAAGGATTTTTTTAAATTTATT
* * *
48007154 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGCAAAATTAA-AAAA
1 TAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA-TAATAAAA
* * *
48007218 TTAAAAAATAATATATTTTTTAAAAGTAATAAAATCTGAGAAAAAAATACGAACAA
65 TTATAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAA
48007274 TTGGTGCCGC
Statistics
Matches: 2171, Mismatches: 225, Indels: 230
0.83 0.09 0.09
Matches are distributed among these distances:
283 1 0.00
284 59 0.03
285 31 0.01
286 16 0.01
287 10 0.00
289 6 0.00
290 12 0.01
291 39 0.02
292 283 0.13
293 103 0.05
294 42 0.02
295 107 0.05
296 140 0.06
297 182 0.08
298 123 0.06
299 69 0.03
300 10 0.00
301 10 0.00
302 4 0.00
303 115 0.05
304 128 0.06
305 219 0.10
306 160 0.07
307 90 0.04
308 93 0.04
309 11 0.01
310 51 0.02
311 52 0.02
312 1 0.00
313 3 0.00
314 1 0.00
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (291 bp):
TAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
TATAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGAGCCGAAA
TAAGGATTTTTTTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAATGATAAAA
TAATAAAAATAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAA
GGGCCGAAATAAGGATTTTTTTAAATTTATT
Found at i:48008061 original size:11 final size:11
Alignment explanation
Indices: 48008045--48008089 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
48008035 ATTAATCCTT
48008045 TCTCAATTTCC
1 TCTCAATTTCC
*
48008056 TCTCAATTTTC
1 TCTCAATTTCC
* *
48008067 TCTCAAATTGC
1 TCTCAATTTCC
48008078 TCTCAATTTCC
1 TCTCAATTTCC
48008089 T
1 T
48008090 TCCAAATTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.20, C:0.31, G:0.02, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:48008072 original size:22 final size:22
Alignment explanation
Indices: 48008045--48008105 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
48008035 ATTAATCCTT
*
48008045 TCTCAATTTCCTCTCAATTTTC
1 TCTCAAATTCCTCTCAATTTTC
* *
48008067 TCTCAAATTGCTCTCAATTTCC
1 TCTCAAATTCCTCTCAATTTTC
*
48008089 T-TCCAAATTTCTCTCAA
1 TCT-CAAATTCCTCTCAA
48008106 ATCCATATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.44
Consensus pattern (22 bp):
TCTCAAATTCCTCTCAATTTTC
Found at i:48008082 original size:33 final size:33
Alignment explanation
Indices: 48008045--48008107 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
48008035 ATTAATCCTT
*
48008045 TCTCAATTTCC-TCTCAATTTTCTCTCAAATTGC
1 TCTCAATTTCCTTC-CAAATTTCTCTCAAATTGC
48008078 TCTCAATTTCCTTCCAAATTTCTCTCAAAT
1 TCTCAATTTCCTTCCAAATTTCTCTCAAAT
48008108 CCATATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (33 bp):
TCTCAATTTCCTTCCAAATTTCTCTCAAATTGC
Found at i:48008123 original size:51 final size:51
Alignment explanation
Indices: 48008067--48008166 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 51
48008057 CTCAATTTTC
48008067 TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAA
* ** * *
48008118 TCTCAATTTGCTCTCAATTTCCTTTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTT
48008167 TTAATTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.46
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAA
Found at i:48008153 original size:22 final size:22
Alignment explanation
Indices: 48008040--48008153 Score: 59
Period size: 22 Copynumber: 4.8 Consensus size: 22
48008030 CACAAATTAA
*
48008040 TCCTTTCTCAATTTCCTCTCAATT
1 TCCTTT-TAAATTT-CTCTCAATT
* * * *
48008064 TTCTCTCAAATTGCTCTCAATT
1 TCCTTTTAAATTTCTCTCAATT
** *
48008086 TCCTTCCAAATTTCTCTCAA-A
1 TCCTTTTAAATTTCTCTCAATT
48008107 TCCATATTTAATCTCAATTTGCTCTCAATT
1 TCC-T-TTT-A----AATTT-CTCTCAATT
48008137 TCCTTTTAAATTTCTCT
1 TCCTTTTAAATTTCTCT
48008154 TAAATCCCTA
Statistics
Matches: 68, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
21 3 0.04
22 30 0.44
23 10 0.15
24 5 0.07
27 1 0.01
28 8 0.12
29 8 0.12
30 3 0.04
ACGTcount: A:0.23, C:0.28, G:0.02, T:0.47
Consensus pattern (22 bp):
TCCTTTTAAATTTCTCTCAATT
Found at i:48010434 original size:49 final size:49
Alignment explanation
Indices: 48010381--48010501 Score: 224
Period size: 49 Copynumber: 2.5 Consensus size: 49
48010371 GTTTATATTA
*
48010381 ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTAATATTATTTG
*
48010430 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTAATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTAATATTATTTG
48010479 ATGTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
48010502 AATATTCTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTAATATTATTTG
Found at i:48015001 original size:127 final size:126
Alignment explanation
Indices: 48014825--48015055 Score: 354
Period size: 127 Copynumber: 1.8 Consensus size: 126
48014815 ACTGAGAGTT
* * * *
48014825 GATGCGACCTGCTCTTCTACAATTCATAGAGATAAGATCTTATGTTAATCCGCTCCACTGCAACT
1 GATGCGACCTGCTCTTCTACAATTCAGAGAGATAAGATATGATGTTAATCCGCTCAACTGCAACT
* *
48014890 TCAGAAAGATAGGATTATTTTCTTCAATTTGTTTCACTGCAACTTCAGGGAGATAAGACTG
66 TCAGAAAGATAGAATTATTTTCTTCAATTTGTTTAACTGCAACTTCAGGGAGATAAGACTG
* * *
48014951 GATGCGATCTGCTCTTCTGCAACTTCAGAGAGATAAGATATGATTTTAATCCGCTCAACTGCAAC
1 GATGCGACCTGCTCTTCTACAA-TTCAGAGAGATAAGATATGATGTTAATCCGCTCAACTGCAAC
**
48015016 TTCAGGGAGATAGAATTATTTTCTTCAATTTGTTTAACTG
65 TTCAGAAAGATAGAATTATTTTCTTCAATTTGTTTAACTG
48015056 TAATGTCGAA
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
126 20 0.22
127 73 0.78
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (126 bp):
GATGCGACCTGCTCTTCTACAATTCAGAGAGATAAGATATGATGTTAATCCGCTCAACTGCAACT
TCAGAAAGATAGAATTATTTTCTTCAATTTGTTTAACTGCAACTTCAGGGAGATAAGACTG
Found at i:48015511 original size:45 final size:45
Alignment explanation
Indices: 48015461--48015599 Score: 131
Period size: 45 Copynumber: 3.1 Consensus size: 45
48015451 TGATCTGCTT
* *
48015461 CGCTGCCAGTACAGAAAGACAAGATCTGCCATTTTCAACCTACTC
1 CGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
* * * * * * * *
48015506 CGCTG-CTGCT-CAGGGAGACAAG-GCTGGTATCTTCGATCTACTT
1 CGCTGCCAG-TACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
* *
48015549 CGCTGTCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
1 CGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
*
48015594 CACTGC
1 CGCTGC
48015600 TGCTCAGGGA
Statistics
Matches: 69, Mismatches: 21, Indels: 8
0.70 0.21 0.08
Matches are distributed among these distances:
43 20 0.29
44 24 0.35
45 25 0.36
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (45 bp):
CGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
Found at i:48015526 original size:44 final size:44
Alignment explanation
Indices: 48015477--48015611 Score: 141
Period size: 44 Copynumber: 3.1 Consensus size: 44
48015467 CAGTACAGAA
*
48015477 AGACAAGATCTGCCATTTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGACAAGATCTGCTATTTTCAACCTACTCCGCTGCTGCTCAGGG
* * * * * * *
48015521 AGACAAG-GCTGGTATCTTCGATCTACTTCGCTG-T-CAATACAGGA
1 AGACAAGATCTGCTATTTTCAACCTACTCCGCTGCTGC--T-CAGGG
*
48015565 AGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGG
1 AGACAAGATCTGCTATTTTCAACCTACTCCGCTGCTGCTCAGGG
48015609 AGA
1 AGA
48015612 TAAGGCTGAA
Statistics
Matches: 69, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 20 0.29
44 25 0.36
45 20 0.29
46 1 0.01
47 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (44 bp):
AGACAAGATCTGCTATTTTCAACCTACTCCGCTGCTGCTCAGGG
Found at i:48015552 original size:88 final size:88
Alignment explanation
Indices: 48015447--48015619 Score: 274
Period size: 88 Copynumber: 2.0 Consensus size: 88
48015437 AAGACTAGTG
* * * *
48015447 TCTTTGATCTGCTTCGCTGCCAGTACAGAAAGACAAGATCTGCCATTTTCAACCTACTCCGCTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGAAAGACAAGATCTGCCATTTTCAACCTACTCCACTGC
48015512 TGCTCAGGGAGACAAGGCTGGTA
66 TGCTCAGGGAGACAAGGCTGGTA
* * *
48015535 TCTTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGAAAGACAAGATCTGCCATTTTCAACCTACTCCACTGC
*
48015600 TGCTCAGGGAGATAAGGCTG
66 TGCTCAGGGAGACAAGGCTG
48015620 AAGTTTCACC
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (88 bp):
TCTTCGATCTACTTCGCTGCCAATACAGAAAGACAAGATCTGCCATTTTCAACCTACTCCACTGC
TGCTCAGGGAGACAAGGCTGGTA
Found at i:48016873 original size:7 final size:8
Alignment explanation
Indices: 48016855--48016907 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
48016845 ATTTTTACTC
48016855 TTTTCATTT
1 TTTTCA-TT
48016864 TTTTCA-T
1 TTTTCATT
48016871 TTTT-ATT
1 TTTTCATT
*
48016878 TTTTTATT
1 TTTTCATT
48016886 TTTTCATT
1 TTTTCATT
48016894 TCATTTCATT
1 T--TTTCATT
48016904 TTTT
1 TTTT
48016908 TTACGACTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
6 1 0.03
7 10 0.26
8 14 0.36
9 6 0.15
10 8 0.21
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTCATT
Found at i:48016901 original size:32 final size:32
Alignment explanation
Indices: 48016846--48016906 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
48016836 AGCCTCTCCA
*
48016846 TTTTTACTCTTTTCATTTTTTTCATTTTTATT
1 TTTTTACTCTTTTCATTTATTTCATTTTTATT
*
48016878 TTTTTA-TTTTTTCATTTCATTTCATTTTT
1 TTTTTACTCTTTTCATTT-ATTTCATTTTT
48016907 TTTACGACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.75
Consensus pattern (32 bp):
TTTTTACTCTTTTCATTTATTTCATTTTTATT
Found at i:48016909 original size:22 final size:21
Alignment explanation
Indices: 48016861--48016909 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
48016851 ACTCTTTTCA
*
48016861 TTTTTTTCATTTTTATTTTTT
1 TTTTTTTCATTTTCATTTTTT
**
48016882 TATTTTTTCA-TTTCATTTCAT
1 T-TTTTTTCATTTTCATTTTTT
48016903 TTTTTTT
1 TTTTTTT
48016910 ACGACTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 10 0.42
22 8 0.33
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTTCATTTTCATTTTTT
Found at i:48023573 original size:9 final size:9
Alignment explanation
Indices: 48023529--48023575 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
48023519 TATATATATG
48023529 TATATAAAA
1 TATATAAAA
*
48023538 AATATGAAAA
1 TATAT-AAAA
*
48023548 TATA-ATAA
1 TATATAAAA
48023556 TA-ATAAAA
1 TATATAAAA
48023564 TATATAAAA
1 TATATAAAA
48023573 TAT
1 TAT
48023576 GTATATGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
7 1 0.03
8 10 0.32
9 13 0.42
10 7 0.23
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (9 bp):
TATATAAAA
Found at i:48023718 original size:30 final size:30
Alignment explanation
Indices: 48023654--48023720 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
48023644 ATGTAGGTAT
* *
48023654 AATAATAATAATAATAATATATAATATAAT
1 AATAATAATAATAATAATATAAAATATAAC
*
48023684 AATAATTATAATAATAATA-ACAAATGAT-AC
1 AATAATAATAATAATAATATA-AAAT-ATAAC
48023714 AATAATA
1 AATAATA
48023721 GTGAAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 28 0.90
31 2 0.06
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (30 bp):
AATAATAATAATAATAATATAAAATATAAC
Found at i:48023718 original size:33 final size:33
Alignment explanation
Indices: 48023652--48023720 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
48023642 ATATGTAGGT
* * *
48023652 ATAATAATAATAATAATAATATATAATATAATA
1 ATAATAATAATAATAATAACAAATAATACAATA
* *
48023685 ATAATTATAATAATAATAACAAATGATACAATA
1 ATAATAATAATAATAATAACAAATAATACAATA
48023718 ATA
1 ATA
48023721 GTGAAAAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (33 bp):
ATAATAATAATAATAATAACAAATAATACAATA
Found at i:48023720 original size:3 final size:3
Alignment explanation
Indices: 48023652--48023703 Score: 79
Period size: 3 Copynumber: 17.3 Consensus size: 3
48023642 ATATGTAGGT
*
48023652 ATA ATA ATA ATA ATA ATA ATA TATA AT- ATA ATA ATA ATT ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
48023697 ATA ATA A
1 ATA ATA A
48023704 CAAATGATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:48025821 original size:22 final size:22
Alignment explanation
Indices: 48025796--48025837 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
48025786 TAATTAGATA
48025796 AATT-AATAAATATAAGTTTTTT
1 AATTAAATAAATATAA-TTTTTT
48025818 AATTAAATAAATATAATTTT
1 AATTAAATAAATATAATTTT
48025838 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AATTAAATAAATATAATTTTTT
Found at i:48025844 original size:21 final size:22
Alignment explanation
Indices: 48025800--48025847 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
48025790 TAGATAAATT
48025800 AATAAATATAAGTTTTTTAATTA
1 AATAAATATAAGTTTTTT-ATTA
48025823 AATAAATATAA-TTTTATT-TTA
1 AATAAATATAAGTTTT-TTATTA
48025844 AATA
1 AATA
48025848 TGATAATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.29
22 4 0.17
23 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AATAAATATAAGTTTTTTATTA
Found at i:48031768 original size:21 final size:21
Alignment explanation
Indices: 48031742--48031784 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
48031732 TGCTTGTTTG
*
48031742 GTGAGAAATTTGAGAGAAAAT
1 GTGAGAAATTTAAGAGAAAAT
* *
48031763 GTGAGAGATTTAAGGGAAAAT
1 GTGAGAAATTTAAGAGAAAAT
48031784 G
1 G
48031785 ATAAAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (21 bp):
GTGAGAAATTTAAGAGAAAAT
Found at i:48036137 original size:46 final size:46
Alignment explanation
Indices: 48036070--48036414 Score: 563
Period size: 46 Copynumber: 7.6 Consensus size: 46
48036060 TTTGAGTACT
48036070 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
48036116 TCTGAGCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
48036162 TCTGATCAAGTAACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
48036208 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAACTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
48036254 TCTGATCAAGTAACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
48036300 TCTGATCAAATGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
48036345 TTTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
48036390 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
48036415 ATCATATGTA
Statistics
Matches: 281, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
43 12 0.04
44 5 0.02
45 61 0.22
46 203 0.72
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:48038439 original size:103 final size:103
Alignment explanation
Indices: 48038307--48038512 Score: 412
Period size: 103 Copynumber: 2.0 Consensus size: 103
48038297 ATAGTACAAG
48038307 CCTAAAGATAAGGTAGGTAATTTCTCTAAAACACATTTCTTTCCAGATATAATTATTATAATTTG
1 CCTAAAGATAAGGTAGGTAATTTCTCTAAAACACATTTCTTTCCAGATATAATTATTATAATTTG
48038372 CAAATACTCAATATTTTTCTCATTTTTAATCTCAATAT
66 CAAATACTCAATATTTTTCTCATTTTTAATCTCAATAT
48038410 CCTAAAGATAAGGTAGGTAATTTCTCTAAAACACATTTCTTTCCAGATATAATTATTATAATTTG
1 CCTAAAGATAAGGTAGGTAATTTCTCTAAAACACATTTCTTTCCAGATATAATTATTATAATTTG
48038475 CAAATACTCAATATTTTTCTCATTTTTAATCTCAATAT
66 CAAATACTCAATATTTTTCTCATTTTTAATCTCAATAT
48038513 GATATCCATT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.42
Consensus pattern (103 bp):
CCTAAAGATAAGGTAGGTAATTTCTCTAAAACACATTTCTTTCCAGATATAATTATTATAATTTG
CAAATACTCAATATTTTTCTCATTTTTAATCTCAATAT
Found at i:48048746 original size:9 final size:9
Alignment explanation
Indices: 48048732--48048768 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
48048722 TATAGTTTGA
48048732 TATTCGAAT
1 TATTCGAAT
48048741 TATTCGAAT
1 TATTCGAAT
*
48048750 TATTCGAGT
1 TATTCGAAT
48048759 TATTCGAAT
1 TATTCGAAT
48048768 T
1 T
48048769 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:48050177 original size:19 final size:19
Alignment explanation
Indices: 48050153--48050191 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
48050143 ACACTGTTAA
48050153 AATTCTCTGTTACATTGCT
1 AATTCTCTGTTACATTGCT
48050172 AATTCTCTGTTACATTGCT
1 AATTCTCTGTTACATTGCT
48050191 A
1 A
48050192 TTAAGTGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (19 bp):
AATTCTCTGTTACATTGCT
Found at i:48052712 original size:15 final size:15
Alignment explanation
Indices: 48052689--48052725 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
48052679 TTCTTCTCAA
*
48052689 AAGCATTCCTAAATT
1 AAGCGTTCCTAAATT
48052704 AAGCGTTCCTAAATT
1 AAGCGTTCCTAAATT
48052719 AAGCGTT
1 AAGCGTT
48052726 AATCTGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (15 bp):
AAGCGTTCCTAAATT
Found at i:48053450 original size:9 final size:9
Alignment explanation
Indices: 48053428--48053465 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
48053418 TTTTTAAACC
48053428 TTTAAAAT-
1 TTTAAAATA
48053436 TTTAAAATA
1 TTTAAAATA
48053445 TTTAAAAAATA
1 TTT--AAAATA
48053456 TTTAAAATA
1 TTTAAAATA
48053465 T
1 T
48053466 AAATATGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.30
9 10 0.37
11 9 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TTTAAAATA
Found at i:48055258 original size:16 final size:15
Alignment explanation
Indices: 48055237--48055266 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
48055227 CAAACATGCT
48055237 TTAACACATTATCAAA
1 TTAACACATT-TCAAA
48055253 TTAACACATTTCAA
1 TTAACACATTTCAA
48055267 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAACACATTTCAAA
Found at i:48059665 original size:5 final size:5
Alignment explanation
Indices: 48059657--48059683 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
48059647 CTTTTTAACC
48059657 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
48059684 AAATAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:48061545 original size:21 final size:19
Alignment explanation
Indices: 48061513--48061554 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 19
48061503 ATTCATTTTC
48061513 TATTTATTGTAAATTGGAAAA
1 TATTTATTGTAAA-T-GAAAA
48061534 TATTT-TTGGTAAATGAAAA
1 TATTTATT-GTAAATGAAAA
48061553 TA
1 TA
48061555 GAAATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.35
20 3 0.15
21 10 0.50
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (19 bp):
TATTTATTGTAAATGAAAA
Found at i:48062579 original size:15 final size:15
Alignment explanation
Indices: 48062559--48062593 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
48062549 TATATATGCC
48062559 ACAATAATAAATACA
1 ACAATAATAAATACA
*
48062574 ACAATAATAAATATA
1 ACAATAATAAATACA
48062589 ACAAT
1 ACAAT
48062594 GGCATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
ACAATAATAAATACA
Found at i:48062642 original size:23 final size:22
Alignment explanation
Indices: 48062610--48062652 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
48062600 GAAATAATGT
*
48062610 ATATAAATAAATAAATGAAACTA
1 ATATAAATAAAAAAAT-AAACTA
*
48062633 ATATACATAAAAAAATAAAC
1 ATATAAATAAAAAAATAAAC
48062653 AATGACATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.23
Consensus pattern (22 bp):
ATATAAATAAAAAAATAAACTA
Found at i:48063047 original size:23 final size:22
Alignment explanation
Indices: 48063013--48063056 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
48063003 ATACATGTAA
48063013 AATATATCAAAAATAATTAAAT
1 AATATATCAAAAATAATTAAAT
*
48063035 AATATTATCAAAATTAATTAAA
1 AATA-TATCAAAAATAATTAAA
48063057 AAAATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (22 bp):
AATATATCAAAAATAATTAAAT
Found at i:48064935 original size:15 final size:15
Alignment explanation
Indices: 48064884--48064936 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
48064874 TAATAAATAT
48064884 ATTTATATTATTTTTA
1 ATTTATA-TATTTTTA
*
48064900 ATTTA-ATATTTAATA
1 ATTTATATATTT-TTA
*
48064915 ATTTTATATATTTTTT
1 A-TTTATATATTTTTA
48064931 ATTTAT
1 ATTTAT
48064937 TAAATTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 5 0.16
15 9 0.29
16 11 0.35
17 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTATATATTTTTA
Found at i:48065053 original size:16 final size:17
Alignment explanation
Indices: 48065021--48065053 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
48065011 TGTTATAAAT
48065021 TTACATAATGCATAAAAA
1 TTACATAAT-CATAAAAA
48065039 TTACATAAT-ATAAAA
1 TTACATAATCATAAAA
48065054 CAAGCCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (17 bp):
TTACATAATCATAAAAA
Found at i:48065484 original size:20 final size:19
Alignment explanation
Indices: 48065456--48065508 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
48065446 ATCAAATTGT
*
48065456 AATATTAAATAATTTATCAA
1 AATAATAAATAATTTAT-AA
* *
48065476 AATAATAAATTATTTTATTA
1 AATAATAAA-TAATTTATAA
48065496 AAT-ATAAATAATT
1 AATAATAAATAATT
48065509 AAATATGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 4 0.14
19 5 0.18
20 12 0.43
21 7 0.25
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AATAATAAATAATTTATAA
Found at i:48065555 original size:31 final size:29
Alignment explanation
Indices: 48065486--48065566 Score: 74
Period size: 31 Copynumber: 2.7 Consensus size: 29
48065476 AATAATAAAT
*
48065486 TATTTTATTAA-ATATAAATAATTAAATATG
1 TATTTTAATAATAT-TAAA-AATTAAATATG
*
48065516 TATGTTTAATAATATTAAAAATTATAATATT
1 TAT-TTTAATAATATTAAAAATTA-AATATG
* *
48065547 TGATTTTAATATTTTTAAAA
1 T-ATTTTAATAATATTAAAA
48065567 TTTTCAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
30 8 0.19
31 31 0.72
32 4 0.09
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
TATTTTAATAATATTAAAAATTAAATATG
Found at i:48068223 original size:13 final size:12
Alignment explanation
Indices: 48068187--48068236 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
48068177 CACTCAAAAT
48068187 TTTCAAAAGCAC
1 TTTCAAAAGCAC
* *
48068199 TTCTCCACAGCAC
1 TT-TCAAAAGCAC
48068212 TGTTCAAAAGCAC
1 T-TTCAAAAGCAC
48068225 TTTTCAAAAGCA
1 -TTTCAAAAGCA
48068237 ATGAAGAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 2 0.06
13 27 0.87
14 2 0.06
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (12 bp):
TTTCAAAAGCAC
Found at i:48076024 original size:13 final size:14
Alignment explanation
Indices: 48076006--48076034 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
48075996 GATGCTTATG
48076006 TTTAATTCA-TGAT
1 TTTAATTCATTGAT
48076019 TTTAATTCATTGAT
1 TTTAATTCATTGAT
48076033 TT
1 TT
48076035 CATTGTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTAATTCATTGAT
Found at i:48083813 original size:16 final size:16
Alignment explanation
Indices: 48083792--48083822 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
48083782 CACATTAAAC
48083792 TTATATTAAAAAACAT
1 TTATATTAAAAAACAT
48083808 TTATATTAAAAAACA
1 TTATATTAAAAAACA
48083823 CTACCACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
TTATATTAAAAAACAT
Found at i:48088738 original size:17 final size:17
Alignment explanation
Indices: 48088702--48088740 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
48088692 ATCATCATGC
*
48088702 TAAAATAAATTTTTTAT
1 TAAAATAAATTTTGTAT
48088719 TAAAATAATATTTTGT-T
1 TAAAATAA-ATTTTGTAT
48088736 TAAAA
1 TAAAA
48088741 GAATTCTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TAAAATAAATTTTGTAT
Found at i:48089105 original size:13 final size:14
Alignment explanation
Indices: 48089080--48089116 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
48089070 TGATTTATGT
48089080 AAATATGTTGAAAA
1 AAATATGTTGAAAA
48089094 AAATAT-TTG-AAA
1 AAATATGTTGAAAA
*
48089106 AATTATGTTGA
1 AAATATGTTGA
48089117 TTTTCTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
12 8 0.40
13 6 0.30
14 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (14 bp):
AAATATGTTGAAAA
Found at i:48092439 original size:37 final size:37
Alignment explanation
Indices: 48092387--48092499 Score: 105
Period size: 37 Copynumber: 3.1 Consensus size: 37
48092377 ATTTCAAAAA
*
48092387 TAATA-TTATTTTAATAGATTAATATTAAATTTAAT-T
1 TAATACTTATCTTAATAGATTAATATT-AATTTAATAT
*
48092423 TAATACTTATCTTAATAGTATT-TTATTAATTTAATAT
1 TAATACTTATCTTAATAG-ATTAATATTAATTTAATAT
48092460 TAA-AGCGATTATCTTAAT--ATTAA-ATTTAATTTAATAT
1 TAATA-C--TTATCTTAATAGATTAATA-TTAATTTAATAT
48092497 TAA
1 TAA
48092500 AGTGATTAAG
Statistics
Matches: 66, Mismatches: 3, Indels: 15
0.79 0.04 0.18
Matches are distributed among these distances:
36 18 0.27
37 35 0.53
38 3 0.05
39 10 0.15
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (37 bp):
TAATACTTATCTTAATAGATTAATATTAATTTAATAT
Found at i:48094297 original size:20 final size:20
Alignment explanation
Indices: 48094261--48094298 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48094251 GACATTCTTG
*
48094261 ATATGTTGCTGAAACAAAAA
1 ATATGTTGCTCAAACAAAAA
48094281 ATAT-TTGCTCAATACAAA
1 ATATGTTGCTCAA-ACAAA
48094299 GATAGTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (20 bp):
ATATGTTGCTCAAACAAAAA
Found at i:48099279 original size:43 final size:42
Alignment explanation
Indices: 48099124--48099280 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 42
48099114 GGCCCATACA
* *
48099124 ATGCCACCGTCCCAGACGTGGTCTTACATGTA-ATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATA-CACA-ATCG
**
48099167 ATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAT-CA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTATACACAAT-CG
* *
48099208 ATGCCAATGTCCCAGACATGGTCTTACACGTATACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAA-TCG
*
48099251 ATGCCAACGTCCCAAACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
48099281 AAAATACATA
Statistics
Matches: 94, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
40 2 0.02
41 29 0.31
42 6 0.06
43 55 0.59
44 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAATCG
Found at i:48106710 original size:43 final size:42
Alignment explanation
Indices: 48106555--48106711 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 42
48106545 GGCCCATACA
* *
48106555 ATGCCACCGTCCCAGACGTGGTCTTACATGTA-ATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATA-CACA-ATCG
**
48106598 ATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAT-CA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTATACACAAT-CG
* *
48106639 ATGCCAATGTCCCAGACATGGTCTTACACGTATACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAA-TCG
*
48106682 ATGCCAACGTCCCAAACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
48106712 AAAATACATA
Statistics
Matches: 94, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
40 2 0.02
41 29 0.31
42 6 0.06
43 55 0.59
44 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAATCG
Found at i:48108459 original size:15 final size:15
Alignment explanation
Indices: 48108439--48108474 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
48108429 TAAATATAAG
*
48108439 TATTTTGTTATGCAA
1 TATTTTGTTAAGCAA
48108454 TATTTTGTTAAGCAA
1 TATTTTGTTAAGCAA
48108469 T-TTTTG
1 TATTTTG
48108475 ATGATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.56
Consensus pattern (15 bp):
TATTTTGTTAAGCAA
Found at i:48123912 original size:21 final size:22
Alignment explanation
Indices: 48123888--48123936 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
48123878 ACTAGATAAA
48123888 TTGTAGAAGTGG-AAAACATCG
1 TTGTAGAAGTGGAAAAACATCG
*
48123909 TTGTAAAAGTGGAAAAACATCG
1 TTGTAGAAGTGGAAAAACATCG
48123931 TTGTAG
1 TTGTAG
48123937 TGTTTGTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.27
Consensus pattern (22 bp):
TTGTAGAAGTGGAAAAACATCG
Found at i:48126802 original size:4 final size:4
Alignment explanation
Indices: 48126795--48126824 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
48126785 CAAAATAAAT
48126795 ATTA ATTA ATTA ATTA ATTA ATTAA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATT-A ATTA A
48126825 CTAAATTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:48130271 original size:11 final size:11
Alignment explanation
Indices: 48130241--48130273 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
48130231 AATTTTCCTA
48130241 GGATGTGAATT
1 GGATGTGAATT
48130252 GGATG-GAATT
1 GGATGTGAATT
48130262 GGATGTGAATT
1 GGATGTGAATT
48130273 G
1 G
48130274 TATTAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.33
Consensus pattern (11 bp):
GGATGTGAATT
Found at i:48130727 original size:26 final size:26
Alignment explanation
Indices: 48130698--48130778 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 26
48130688 ATACCGCAGT
*
48130698 TCTTTGTGAGCGTC-TCG-TTATATGGC
1 TCTTTGTGAGCGTCAT-GATTA-AAGGC
* *
48130724 TCTTTGTAAGCTTCATGATTAAAGGC
1 TCTTTGTGAGCGTCATGATTAAAGGC
* * * *
48130750 TCTTTGTGAGCTTCCTAATTAATGGC
1 TCTTTGTGAGCGTCATGATTAAAGGC
48130776 TCT
1 TCT
48130779 CCGAAGCTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 42 0.91
27 4 0.09
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (26 bp):
TCTTTGTGAGCGTCATGATTAAAGGC
Found at i:48137496 original size:26 final size:25
Alignment explanation
Indices: 48137455--48137608 Score: 127
Period size: 26 Copynumber: 6.1 Consensus size: 25
48137445 ATACCACAAT
48137455 TCTTTGTGAG-TGTCCCGTTATATGGC
1 TCTTTGTGAGCT-TCCCGTTA-ATGGC
*
48137481 TCTTTGTGAGCTTCCCGATTAAAGGC
1 TCTTTGTGAGCTTCCCG-TTAATGGC
**
48137507 TCTTTGTGAGCTTCTTGATTAATGGC
1 TCTTTGTGAGCTTCCCG-TTAATGGC
** * *
48137533 TCTCCG-AAGCTTCCCGATAATGGC
1 TCTTTGTGAGCTTCCCGTTAATGGC
** * *
48137557 TCGCT-TGAACTTCCCGATATATGGC
1 TCTTTGTGAGCTTCCCGTTA-ATGGC
*
48137582 TATTTG-GAGCTTCCCGTTAATGGC
1 TCTTTGTGAGCTTCCCGTTAATGGC
48137606 TCT
1 TCT
48137609 CTGAAGCTAC
Statistics
Matches: 103, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
24 28 0.27
25 25 0.24
26 46 0.45
27 4 0.04
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (25 bp):
TCTTTGTGAGCTTCCCGTTAATGGC
Found at i:48137555 original size:24 final size:24
Alignment explanation
Indices: 48137489--48137616 Score: 105
Period size: 24 Copynumber: 5.2 Consensus size: 24
48137479 GCTCTTTGTG
* * *
48137489 AGCTTCCCGATTAAAGGCTCTTTGTG
1 AGCTTCCCGA-TAATGGCTCTCTG-A
** *
48137515 AGCTTCTTGATTAATGGCTCTCCGA
1 AGCTTCCCGA-TAATGGCTCTCTGA
*
48137540 AGCTTCCCGATAATGGCTCGCTTGA
1 AGCTTCCCGATAATGGCTCTC-TGA
* * *
48137565 A-CTTCCCGATATATGGCTATTTGG
1 AGCTTCCCGATA-ATGGCTCTCTGA
*
48137589 AGCTTCCCGTTAATGGCTCTCTGA
1 AGCTTCCCGATAATGGCTCTCTGA
48137613 AGCT
1 AGCT
48137617 ACCTGTTATT
Statistics
Matches: 81, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
24 36 0.44
25 26 0.32
26 19 0.23
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.34
Consensus pattern (24 bp):
AGCTTCCCGATAATGGCTCTCTGA
Found at i:48137606 original size:73 final size:72
Alignment explanation
Indices: 48137525--48137672 Score: 174
Period size: 73 Copynumber: 2.0 Consensus size: 72
48137515 AGCTTCTTGA
* *
48137525 TTAATGGCTCTCCGAAGCTTCCCGATAATGGCTCGCTTGA-ACTTCCCGATATATGGCTATT-TG
1 TTAATGGCTCTCCGAAGCTACCCGATAATGGCTCGCATGATA-TTCCCGAT-TATGGCTATTAT-
*
48137588 GAGCTTCCCG
63 GAGCTTACCG
* * * * * *
48137598 TTAATGGCTCTCTGAAGCTACCTGTTATTGGTTCGCATGATATTCCCGATTATGGCTCTTATGAG
1 TTAATGGCTCTCCGAAGCTACCCGATAATGGCTCGCATGATATTCCCGATTATGGCTATTATGAG
48137663 CTTACCG
66 CTTACCG
48137670 TTA
1 TTA
48137673 GACAGCCCAG
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
72 21 0.33
73 42 0.66
74 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (72 bp):
TTAATGGCTCTCCGAAGCTACCCGATAATGGCTCGCATGATATTCCCGATTATGGCTATTATGAG
CTTACCG
Found at i:48137624 original size:24 final size:24
Alignment explanation
Indices: 48137467--48137616 Score: 104
Period size: 24 Copynumber: 6.0 Consensus size: 24
48137457 TTTGTGAGTG
* *
48137467 TCCCGTTATATGGCTCTTTGTGAGCT
1 TCCCGTTA-ATGGCTCTCTG-AAGCT
* * *
48137493 TCCCGATTAAAGGCTCTTTGTGAGCT
1 TCCCG-TTAATGGCTCTCTG-AAGCT
** *
48137519 TCTTGATTAATGGCTCTCCGAAGCT
1 TCCCG-TTAATGGCTCTCTGAAGCT
* *
48137544 TCCCGATAATGGCTCGCTTGAA-CT
1 TCCCGTTAATGGCTCTC-TGAAGCT
* * * *
48137568 TCCCGATATATGGCTATTTGGAGCT
1 TCCCGTTA-ATGGCTCTCTGAAGCT
48137593 TCCCGTTAATGGCTCTCTGAAGCT
1 TCCCGTTAATGGCTCTCTGAAGCT
48137617 ACCTGTTATT
Statistics
Matches: 100, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
24 36 0.36
25 25 0.25
26 36 0.36
27 3 0.03
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (24 bp):
TCCCGTTAATGGCTCTCTGAAGCT
Found at i:48138468 original size:13 final size:13
Alignment explanation
Indices: 48138450--48138490 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
48138440 AAGTCTAGTA
48138450 TATATATTAAGTC
1 TATATATTAAGTC
48138463 TATATATTAAGTC
1 TATATATTAAGTC
48138476 TATATATTAAGTC
1 TATATATTAAGTC
48138489 TA
1 TA
48138491 GTATGCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (13 bp):
TATATATTAAGTC
Found at i:48154846 original size:32 final size:32
Alignment explanation
Indices: 48154800--48154872 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
48154790 TGCATGTGTG
48154800 TAACTCTTCATCTTCAAGTCTCTTCACATTTC
1 TAACTCTTCATCTTCAAGTCTCTTCACATTTC
* *
48154832 TAACACTTCATCTTCAAGTTTCTTCACATTTC
1 TAACTCTTCATCTTCAAGTCTCTTCACATTTC
48154864 TAACTCTTC
1 TAACTCTTC
48154873 TTAATTTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.23, C:0.30, G:0.03, T:0.44
Consensus pattern (32 bp):
TAACTCTTCATCTTCAAGTCTCTTCACATTTC
Found at i:48156900 original size:28 final size:28
Alignment explanation
Indices: 48156756--48156900 Score: 177
Period size: 28 Copynumber: 5.2 Consensus size: 28
48156746 CTATTCAGTA
* *
48156756 ACAGT-ACAATGCGGGTCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
**
48156783 ACAACAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* * *
48156811 ACAGCAACAATGTGGGGCTTAGCCCAAA
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
48156839 ATAGTAACAATGTGGGTCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
48156867 ATAGTAACAATGTGGGCCTTAGCCCTAA-
1 ACAGTAACAATGTGGGCCTTAGCCC-AAT
48156895 ACAGTA
1 ACAGTA
48156901 TCAGTACCGT
Statistics
Matches: 103, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
27 3 0.03
28 98 0.95
29 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:48157240 original size:27 final size:26
Alignment explanation
Indices: 48157210--48157914 Score: 337
Period size: 27 Copynumber: 26.2 Consensus size: 26
48157200 GGTATAATAG
*
48157210 TCATCTTACCTTATGGGGGTATTTCGA
1 TCATTTTACCTT-TGGGGGTATTTCGA
* *
48157237 TCATTTTATCCTATGGGGGTAATTCGA
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* * * *
48157264 TTATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTA-CCTTTGGGGGTATTTCGA
*
48157291 TCATTTTACCCTTTAGGGGTATTTCGA
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* * * *
48157318 TCATTTCACCCTTT-AGGATATTTCAA
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* * *
48157344 TCATTTCACCTTTCGGGGTATTTCGG
1 TCATTTTACCTTTGGGGGTATTTCGA
* * *
48157370 TCATTTTACCCTATGGGGGTAATTCGG
1 TCATTTTA-CCTTTGGGGGTATTTCGA
*
48157397 TCATTTTACGTTTCGGGAGGTATTTC-A
1 TCATTTTACCTTT-GGG-GGTATTTCGA
* *
48157424 TTTATTTTACCCTTTGAGGGTATTTCGA
1 -TCATTTTA-CCTTTGGGGGTATTTCGA
** *
48157452 TCATTTTACCTTTTGAAGGCATTTC-A
1 TCATTTTACC-TTTGGGGGTATTTCGA
* * * *
48157478 GTCATTTTACCCTTAGAGGTATTTCAA
1 -TCATTTTACCTTTGGGGGTATTTCGA
* * * ** * * *
48157505 TCATTTTACCCATCGAGAATTTTTTGG
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* * ** *
48157532 TCATTTTACCCTTCGAGGCCATTTCGG
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* * * *
48157559 TCATTTTACCCTTCGAGGGTATTTTGG
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* *
48157586 TCATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* * * *
48157613 TCATTTTACCATTCGAGGGCATTT-TA
1 TCATTTTACC-TTTGGGGGTATTTCGA
** *
48157639 GTCATTTTACCTTTTTAGAGTATTTCGA
1 -TCATTTTACC-TTTGGGGGTATTTCGA
* * **** * *
48157667 TCATTTTACCCATCGATAATATTTTGG
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* *
48157694 TCATTTTACCCTTCGAGGGTATTTC-A
1 TCATTTTA-CCTTTGGGGGTATTTCGA
*
48157720 GTCATTTTACCCTTTGAGGGTATTTCGA
1 -TCATTTTA-CCTTTGGGGGTATTTCGA
*** *
48157748 TCATTTTACCCTTCAAGGATATTTC-A
1 TCATTTTA-CCTTTGGGGGTATTTCGA
*
48157774 GTCATTTTACCTTTGAGGGTATTTC-A
1 -TCATTTTACCTTTGGGGGTATTTCGA
* *
48157800 GTCATTTTACCCTCTGAGGGTATTTC-A
1 -TCATTTTA-CCTTTGGGGGTATTTCGA
** * *
48157827 GTCATTTTACCCTCCGAGGGTATTTCGG
1 -TCATTTTA-CCTTTGGGGGTATTTCGA
* * *
48157855 TCATTTTACCCTATAGGAGTATTTCGA
1 TCATTTTA-CCTTTGGGGGTATTTCGA
* * *
48157882 TCATTTTACCTGTCGGAGGTATTTCGG
1 TCATTTTACCT-TTGGGGGTATTTCGA
48157909 TCATTT
1 TCATTT
48157915 GCCCACAAAT
Statistics
Matches: 552, Mismatches: 104, Indels: 44
0.79 0.15 0.06
Matches are distributed among these distances:
25 5 0.01
26 86 0.16
27 433 0.78
28 24 0.04
29 4 0.01
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (26 bp):
TCATTTTACCTTTGGGGGTATTTCGA
Found at i:48157447 original size:161 final size:160
Alignment explanation
Indices: 48157209--48157914 Score: 673
Period size: 161 Copynumber: 4.4 Consensus size: 160
48157199 GGGTATAATA
* * * * * *
48157209 GTCATCTTACCTTATGGGGGTATTTCGATCATTTTATCCTAT-GGGGGTAATTCGATTATTTTAC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTA-CCTTTCGGGGGTATTTCGATCATTTTAC
* * * * *
48157273 CCTAT-GGGGGTATTTTGGTCATTTTACCCTTT-AGGGGTATTTC-GATCATTTCACCCTTTAGG
65 CCT-TCGAGGGTATTTCGATCATTTTA-CCTTTGA-GGGCATTTCAG-TCATTTTACCCTTTAGG
* ** **
48157335 ATATTTCAATCATTTCACCTTTCG-GGGTATTTCG
126 ATATTTCAATCATTTTACCCATCGAGAATATTTCG
* * *
48157369 GTCATTTTACCCTATGGGGGTAATTCGGTCATTTTACGTTTCGGGAGGTATTTC-ATTTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTTCGGG-GGTATTTCGA-TCATTTTA
* * *
48157433 CCCTTTGAGGGTATTTCGATCATTTTACCTTTTGAAGGCATTTCAGTCATTTTACCC-TTAGAGG
64 CCCTTCGAGGGTATTTCGATCATTTTACC-TTTGAGGGCATTTCAGTCATTTTACCCTTTAG-GA
* *
48157497 TATTTCAATCATTTTACCCATCGAGAATTTTTTG
127 TATTTCAATCATTTTACCCATCGAGAATATTTCG
* ** * * * *
48157531 GTCATTTTACCCT-TCGAGGCCATTTCGGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTAC
1 GTCATTTTACCCTAT-GGGGGTATTTCGGTCATTTTACCTTTCGGGGGTATTTCGATCATTTTAC
* * *
48157595 CCTTCGAGGGTATTTCGATCATTTTACCATTCGAGGGCATTTTAGTCATTTTACCTTTTTA-GAG
65 CCTTCGAGGGTATTTCGATCATTTTACC-TTTGAGGGCATTTCAGTCATTTTACC-CTTTAGGA-
* * *
48157659 TATTTCGATCATTTTACCCATCGATAATATTTTG
127 TATTTCAATCATTTTACCCATCGAGAATATTTCG
* * *
48157693 GTCATTTTACCCT-TCGAGGGTATTTCAGTCATTTTACCCTTT-GAGGGTATTTCGATCATTTTA
1 GTCATTTTACCCTAT-GGGGGTATTTCGGTCATTTTA-CCTTTCGGGGGTATTTCGATCATTTTA
* * * * *
48157756 CCCTTCAAGGATATTTC-AGTCATTTTACCTTTGAGGGTATTTCAGTCATTTTACCCTCTGAGGG
64 CCCTTCGAGGGTATTTCGA-TCATTTTACCTTTGAGGGCATTTCAGTCATTTTACCCT-TTAGGA
* **
48157820 TATTTCAGTCATTTTACCC-TCCGAGGGTATTTCG
127 TATTTCAATCATTTTACCCAT-CGAGAATATTTCG
* * * * * *
48157854 GTCATTTTACCCTATAGGAGTATTTCGATCATTTTACCTGTCGGAGGTATTTCGGTCATTT
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTTCGGGGGTATTTCGATCATTT
48157915 GCCCACAAAT
Statistics
Matches: 455, Mismatches: 70, Indels: 41
0.80 0.12 0.07
Matches are distributed among these distances:
159 3 0.01
160 49 0.11
161 242 0.53
162 154 0.34
163 7 0.02
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (160 bp):
GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTTCGGGGGTATTTCGATCATTTTACC
CTTCGAGGGTATTTCGATCATTTTACCTTTGAGGGCATTTCAGTCATTTTACCCTTTAGGATATT
TCAATCATTTTACCCATCGAGAATATTTCG
Found at i:48162329 original size:16 final size:16
Alignment explanation
Indices: 48162310--48162364 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
48162300 ATCTTCAAGT
48162310 CTCTTCACATTTCTAA
1 CTCTTCACATTTCTAA
*
48162326 CTCTT--CATCTTCAAA
1 CTCTTCACAT-TTCTAA
* *
48162341 TTTCTTTACATTTCTAA
1 -CTCTTCACATTTCTAA
48162358 CTCTTCA
1 CTCTTCA
48162365 TAATTTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 3 0.10
15 5 0.17
16 14 0.47
17 5 0.17
18 3 0.10
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (16 bp):
CTCTTCACATTTCTAA
Found at i:48162332 original size:32 final size:32
Alignment explanation
Indices: 48162291--48162365 Score: 123
Period size: 32 Copynumber: 2.3 Consensus size: 32
48162281 TGCATGTGTG
*
48162291 TAACTCTTCATCTTCAAGTCTCTTCACATTTC
1 TAACTCTTCATCTTCAAATCTCTTCACATTTC
* *
48162323 TAACTCTTCATCTTCAAATTTCTTTACATTTC
1 TAACTCTTCATCTTCAAATCTCTTCACATTTC
48162355 TAACTCTTCAT
1 TAACTCTTCAT
48162366 AATTTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.24, C:0.28, G:0.01, T:0.47
Consensus pattern (32 bp):
TAACTCTTCATCTTCAAATCTCTTCACATTTC
Found at i:48189656 original size:30 final size:30
Alignment explanation
Indices: 48189562--48189663 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 30
48189552 GATTGTCACC
** * * * *
48189562 ATCCCTTTTCATAGCTCGATTGCTGAAGCT
1 ATCCCTTTTCATAATTTGATAGTTGAAACT
* * * ** *
48189592 ATCCCTTTTCATATTTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATAGTTGAAACT
48189622 ATCCCTTTTCATAATTTGATAGTTGAAACT
1 ATCCCTTTTCATAATTTGATAGTTGAAACT
*
48189652 ATCCCTTGTCAT
1 ATCCCTTTTCAT
48189664 TGATCGATGA
Statistics
Matches: 55, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAGTTGAAACT
Found at i:48193579 original size:11 final size:11
Alignment explanation
Indices: 48193555--48193589 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
48193545 TTCTGTACCC
* *
48193555 TTCTTTTTCCT
1 TTCTTATTCTT
48193566 TTCTTATTCTT
1 TTCTTATTCTT
48193577 TTCTTATTCTT
1 TTCTTATTCTT
48193588 TT
1 TT
48193590 TCCTTTTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (11 bp):
TTCTTATTCTT
Found at i:48198416 original size:58 final size:58
Alignment explanation
Indices: 48198354--48198494 Score: 180
Period size: 59 Copynumber: 2.4 Consensus size: 58
48198344 ATATATTTTT
* * *
48198354 TAATTTGATACTTAAACTTTTCTTTGTCCAATTTGGTACCTAAACTT-ACATTTTTTCC
1 TAATTTGATACCTAATCTTTTCTTTGTCCAATTTGATACCTAAACTTGAC-TTTTTTCC
* *
48198412 TAATTTAATACCTAATCTTTT-TGGTAGTCCAATTTGATACCTAAACTTGACTTTTTTCC
1 TAATTTGATACCTAATCTTTTCT--TTGTCCAATTTGATACCTAAACTTGACTTTTTTCC
*
48198471 TAATTTG-TACCTAATCTCTTCTTT
1 TAATTTGATACCTAATCTTTTCTTT
48198495 TTTTCGATTT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
57 2 0.03
58 30 0.42
59 37 0.52
60 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (58 bp):
TAATTTGATACCTAATCTTTTCTTTGTCCAATTTGATACCTAAACTTGACTTTTTTCC
Done.