Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 261 of 362
Found at i:88186091 original size:17 final size:18
Alignment explanation
Indices: 88186071--88186111 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
88186061 ATATAATTTT
*
88186071 AAAATATAT-AATACATC
1 AAAATATATAAAAACATC
88186088 AAAA-ATATCAAAAACATC
1 AAAATATAT-AAAAACATC
88186106 AAAATA
1 AAAATA
88186112 AATATTTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 4 0.20
17 4 0.20
18 11 0.55
19 1 0.05
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAATATATAAAAACATC
Found at i:88186236 original size:30 final size:30
Alignment explanation
Indices: 88186192--88186251 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
88186182 ACTTAACAAG
*
88186192 CAAATGCCTATAAAATAATAACCAAATTAA
1 CAAATGCCTATAAAATAATAACAAAATTAA
* * *
88186222 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGCCTATAAAATAATAACAAAATTAA
88186252 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (30 bp):
CAAATGCCTATAAAATAATAACAAAATTAA
Found at i:88186254 original size:12 final size:12
Alignment explanation
Indices: 88186232--88186260 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
88186222 CAAATGTCTT
88186232 TAAAA-TAATAA
1 TAAAATTAATAA
88186243 TAAAATTAATAA
1 TAAAATTAATAA
88186255 TAAAAT
1 TAAAAT
88186261 AAGTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:88186867 original size:19 final size:19
Alignment explanation
Indices: 88186843--88186881 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
88186833 AGAAGAAAAG
88186843 ACCCTTTAGAACAATCGTT
1 ACCCTTTAGAACAATCGTT
88186862 ACCCTTTAGAACAATCGTT
1 ACCCTTTAGAACAATCGTT
88186881 A
1 A
88186882 AACCTTGCTA
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:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (19 bp):
ACCCTTTAGAACAATCGTT
Found at i:88188875 original size:15 final size:15
Alignment explanation
Indices: 88188834--88188885 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
88188824 GTTATATTAT
*
88188834 AAGTTAAATAATAATA
1 AAGTTAAA-AATAAGA
*
88188850 AAGTAAATAAAATAAGTA
1 AAGT-TA-AAAATAAG-A
88188868 AAGTTAAAAATAAGA
1 AAGTTAAAAATAAGA
88188883 AAG
1 AAG
88188886 CATAAAGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
15 4 0.13
16 12 0.40
17 7 0.23
18 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (15 bp):
AAGTTAAAAATAAGA
Found at i:88192449 original size:47 final size:47
Alignment explanation
Indices: 88192387--88192512 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 47
88192377 CTTTACATAA
* * * * *
88192387 TGATGCCATAGCCCAGCTATGATCTTACAC-GTAATCACATATCTCAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGT-AGCACATATCACAC
* * *
88192434 TGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
* *
88192481 CGATGCCATATCCCAGATATGGTCTTATACAG
1 TGATGCCATATCCCAGATATGGTCTTACACAG
88192513 AAATCACTTG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 66 0.97
48 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
Found at i:88192571 original size:31 final size:31
Alignment explanation
Indices: 88192536--88192743 Score: 299
Period size: 31 Copynumber: 6.7 Consensus size: 31
88192526 CTTGTCACTT
* *
88192536 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** *
88192567 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
88192598 GTAGCTGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
88192629 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
88192660 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
88192691 GTAGCTGAAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
88192722 GTAGCTGAAGCTACCACTTTTC
1 GTAGCCGAAGCTACCACTTTTC
88192744 GGTTGTCATT
Statistics
Matches: 161, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 161 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:88192818 original size:50 final size:51
Alignment explanation
Indices: 88192722--88192850 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
88192712 CACTGATCAG
* * * **
88192722 GTAGCTGAAGCTACCACTTTTCGGTTGTCATTTGCCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGCCATTGATCAGATAAGT
88192773 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTG-CCATTGATCAGATAAGT
88192823 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
88192851 TTCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 47 0.66
51 24 0.34
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGCCATTGATCAGATAAGT
Found at i:88195499 original size:24 final size:24
Alignment explanation
Indices: 88195464--88195528 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 24
88195454 ATCACAAAAC
88195464 ACAAAGTGCAAATAATGATAAGCA
1 ACAAAGTGCAAATAATGATAAGCA
*
88195488 ACTAAGTGCAAAATAATAATGATAAGCA
1 ACAAAGTGC---A-AATAATGATAAGCA
*
88195516 CCAAAGTGCAAAT
1 ACAAAGTGCAAAT
88195529 TTTTACAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
24 11 0.32
25 1 0.03
27 1 0.03
28 21 0.62
ACGTcount: A:0.52, C:0.14, G:0.15, T:0.18
Consensus pattern (24 bp):
ACAAAGTGCAAATAATGATAAGCA
Found at i:88195510 original size:28 final size:28
Alignment explanation
Indices: 88195474--88195527 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
88195464 ACAAAGTGCA
*
88195474 AATAATGATAAGCAACTAAGTGCAAAAT
1 AATAATGATAAGCAACAAAGTGCAAAAT
*
88195502 AATAATGATAAGCACCAAAGTGCAAA
1 AATAATGATAAGCAACAAAGTGCAAA
88195528 TTTTTACAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.54, C:0.13, G:0.15, T:0.19
Consensus pattern (28 bp):
AATAATGATAAGCAACAAAGTGCAAAAT
Found at i:88196786 original size:44 final size:44
Alignment explanation
Indices: 88196736--88196823 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
88196726 CATTCCTTTC
88196736 TACTACCACTATGTATCTTCTAACTTTCTAAATTCCTACTTCTA
1 TACTACCACTATGTATCTTCTAACTTTCTAAATTCCTACTTCTA
*
88196780 TACTACCACTATGTATCTTTTAACTTTCTAAATTCCTACTTCTA
1 TACTACCACTATGTATCTTCTAACTTTCTAAATTCCTACTTCTA
88196824 CCATAACAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.02, T:0.44
Consensus pattern (44 bp):
TACTACCACTATGTATCTTCTAACTTTCTAAATTCCTACTTCTA
Found at i:88201178 original size:10 final size:10
Alignment explanation
Indices: 88201163--88201222 Score: 88
Period size: 10 Copynumber: 6.0 Consensus size: 10
88201153 TAATTTTAGG
88201163 ATTTAT-TTT
1 ATTTATCTTT
88201172 CATTTATCTTT
1 -ATTTATCTTT
88201183 ATTTATCTTT
1 ATTTATCTTT
88201193 ATTTATCTTT
1 ATTTATCTTT
88201203 ATTTAT-TTGT
1 ATTTATCTT-T
88201213 ATTTATCTTT
1 ATTTATCTTT
88201223 TAGAATTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
9 2 0.04
10 40 0.85
11 5 0.11
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:88201207 original size:14 final size:15
Alignment explanation
Indices: 88201164--88201222 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
88201154 AATTTTAGGA
88201164 TTTATTT-TCATTTAT
1 TTTATTTATC-TTTAT
88201179 CTTTATTTATCTTTA-
1 -TTTATTTATCTTTAT
*
88201194 TTTATCTT-TATTTAT
1 TTTAT-TTATCTTTAT
88201209 TTGTATTTATCTTT
1 TT-TATTTATCTTT
88201223 TAGAATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 10 0.28
15 6 0.17
16 18 0.50
17 2 0.06
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTATCTTTAT
Found at i:88202744 original size:13 final size:13
Alignment explanation
Indices: 88202726--88202755 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
88202716 TTCCTGTAAA
88202726 CATTTCATACAAC
1 CATTTCATACAAC
*
88202739 CATTTCATATAAC
1 CATTTCATACAAC
88202752 CATT
1 CATT
88202756 CCATCTTACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (13 bp):
CATTTCATACAAC
Found at i:88202916 original size:46 final size:46
Alignment explanation
Indices: 88202841--88203098 Score: 374
Period size: 46 Copynumber: 5.6 Consensus size: 46
88202831 GATGTCATAA
* * *
88202841 TATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTC-ATTTCATGTCATGTTGCCATGG
* **
88202887 TATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATGG
*
88202934 TATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGG
* *
88202980 TATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGG
* * *
88203026 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGG
*
88203072 TATCTTTCAACCATGGTCTTACACATT
1 TATCTTTCAACCATGGTCTTACTCATT
88203099 CCATATCAGA
Statistics
Matches: 197, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
46 158 0.80
47 39 0.20
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGG
Found at i:88209945 original size:11 final size:11
Alignment explanation
Indices: 88209929--88209953 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
88209919 TTATATATAC
88209929 TAATAAAATAA
1 TAATAAAATAA
88209940 TAATAAAATAA
1 TAATAAAATAA
88209951 TAA
1 TAA
88209954 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:88212579 original size:19 final size:19
Alignment explanation
Indices: 88212555--88212592 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
88212545 TACAAATATA
88212555 ATTAATAAAATTATTATTT
1 ATTAATAAAATTATTATTT
*
88212574 ATTAATAAACTTATTATTT
1 ATTAATAAAATTATTATTT
88212593 TAACATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTAATAAAATTATTATTT
Found at i:88212600 original size:19 final size:19
Alignment explanation
Indices: 88212558--88212601 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
88212548 AAATATAATT
*
88212558 AATAAAATTATTATTTATT
1 AATAAAATTATTATTTATA
*
88212577 AATAAACTTATTATTT-TA
1 AATAAAATTATTATTTATA
88212595 ACATAAA
1 A-ATAAA
88212602 TAAAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
AATAAAATTATTATTTATA
Found at i:88223357 original size:9 final size:9
Alignment explanation
Indices: 88223340--88223376 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
88223330 TGAGTTTTCG
88223340 AATTCGAAT
1 AATTCGAAT
*
88223349 AACTCGAAT
1 AATTCGAAT
88223358 AATTCGAAT
1 AATTCGAAT
88223367 AATTCGAAT
1 AATTCGAAT
88223376 A
1 A
88223377 TCAAACTATA
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:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:88223452 original size:21 final size:21
Alignment explanation
Indices: 88223410--88223452 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
88223400 TTACCCCAAA
* *
88223410 CTCTCAAACCTTTTGACTTTT
1 CTCTCAAAACTTATGACTTTT
88223431 CTCTCAAAACTTAT-ACTCTTT
1 CTCTCAAAACTTATGACT-TTT
88223452 C
1 C
88223453 CCACTTTCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.23, C:0.30, G:0.02, T:0.44
Consensus pattern (21 bp):
CTCTCAAAACTTATGACTTTT
Found at i:88223618 original size:19 final size:20
Alignment explanation
Indices: 88223578--88223618 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
88223568 CAAAAACCCT
*
88223578 CAAAACTTTTTATTTCCCCC
1 CAAAACTTTTTATCTCCCCC
88223598 CAAAA-TTTTTA-CTCCCTCC
1 CAAAACTTTTTATCTCCC-CC
88223617 CA
1 CA
88223619 CTTTCCCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.37
Consensus pattern (20 bp):
CAAAACTTTTTATCTCCCCC
Found at i:88223624 original size:30 final size:31
Alignment explanation
Indices: 88223590--88223649 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
88223580 AAACTTTTTA
*
88223590 TTTCCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTCCCCCCAAAACTTTTACTCCCTTCCCAC
*
88223620 TTTCCCCCTAAAACTTTTACTCCCTTCCCA
1 TTTCCCCCCAAAACTTTTACTCCCTTCCCA
88223650 TCCCACCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.45, G:0.00, T:0.35
Consensus pattern (31 bp):
TTTCCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:88223922 original size:41 final size:41
Alignment explanation
Indices: 88223877--88223974 Score: 187
Period size: 41 Copynumber: 2.4 Consensus size: 41
88223867 ATATATACTA
88223877 TTTATATTATTAAATTAAATTAAATTTCACATTTTATATTT
1 TTTATATTATTAAATTAAATTAAATTTCACATTTTATATTT
88223918 TTTATATTATTAAATTAAATTAAATTTCACATTTTATATTT
1 TTTATATTATTAAATTAAATTAAATTTCACATTTTATATTT
*
88223959 TTTATATTATTGAATT
1 TTTATATTATTAAATT
88223975 GTTTAGTCAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (41 bp):
TTTATATTATTAAATTAAATTAAATTTCACATTTTATATTT
Found at i:88224446 original size:20 final size:20
Alignment explanation
Indices: 88224421--88224460 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
88224411 GATAAAATAT
88224421 GATTCACCAACTTGATTAAC
1 GATTCACCAACTTGATTAAC
88224441 GATTCACCAACTTGATTAAC
1 GATTCACCAACTTGATTAAC
88224461 TCGAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (20 bp):
GATTCACCAACTTGATTAAC
Found at i:88224808 original size:22 final size:24
Alignment explanation
Indices: 88224762--88224808 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
88224752 AGGTTATATA
*
88224762 TTATTTTTATAATATTATATATTT
1 TTATTTTTATAATATTACATATTT
*
88224786 TTATTTTTATTA-ATT-CATATTT
1 TTATTTTTATAATATTACATATTT
88224808 T
1 T
88224809 AATAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 3 0.14
24 11 0.52
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (24 bp):
TTATTTTTATAATATTACATATTT
Found at i:88224935 original size:26 final size:25
Alignment explanation
Indices: 88224850--88224936 Score: 70
Period size: 26 Copynumber: 3.4 Consensus size: 25
88224840 AATATATTAT
88224850 TTTATTAAATTATATTTAATACA-AA
1 TTTATTAAATTATATTTAATA-ATAA
* * * * *
88224875 TTATGTTAAAATATGATTAAATTATTTA
1 TT-TATTAAATTAT-ATTTAA-TAATAA
88224903 TTT-TTAAATTATATTTAATAATAA
1 TTTATTAAATTATATTTAATAATAA
88224927 TCTTATTAAA
1 T-TTATTAAA
88224937 ATTTAATAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
24 5 0.11
25 9 0.19
26 22 0.47
27 6 0.13
28 5 0.11
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
TTTATTAAATTATATTTAATAATAA
Found at i:88224936 original size:52 final size:53
Alignment explanation
Indices: 88224775--88224938 Score: 145
Period size: 52 Copynumber: 2.9 Consensus size: 53
88224765 TTTTTATAAT
* * * * * *
88224775 ATTATATATTTTTATTTTTATTAATTCATATTTTAATAATATTTCTATTAAGAATGTT
1 ATTAAATATATTTATTTTTA--AATT-ATA-TTTAATAATAATTATATTAA-AATATG
*
88224833 ATTAAATAATATATTATTTTATTAAATTATATTTAATACA-AATTATGTTAAAATATG
1 ATTAAAT-ATAT-TTA-TTT-TTAAATTATATTTAATA-ATAATTATATTAAAATATG
88224890 ATTAAAT-TATTTATTTTTAAATTATATTTAATAATAATCT-TATTAAAAT
1 ATTAAATATATTTATTTTTAAATTATATTTAATAATAAT-TATATTAAAAT
88224939 TTAATAACAA
Statistics
Matches: 91, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
51 1 0.01
52 28 0.31
53 4 0.04
54 3 0.03
55 3 0.03
57 11 0.12
58 21 0.23
59 7 0.08
60 7 0.08
61 3 0.03
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (53 bp):
ATTAAATATATTTATTTTTAAATTATATTTAATAATAATTATATTAAAATATG
Found at i:88225131 original size:16 final size:16
Alignment explanation
Indices: 88225107--88225141 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
88225097 ATTACTGATA
*
88225107 ACAGCTCTATTCTATT
1 ACAGCTCTATTCCATT
*
88225123 ACAGTTCTATTCCATT
1 ACAGCTCTATTCCATT
88225139 ACA
1 ACA
88225142 ACCCTATCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.40
Consensus pattern (16 bp):
ACAGCTCTATTCCATT
Found at i:88231443 original size:39 final size:39
Alignment explanation
Indices: 88231389--88231467 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
88231379 TCACCGTTCA
**
88231389 TGGAATTAGAATTCTGAATTTTTTGTATGATTTCTCCAT
1 TGGAATTAGAATTCTGAATTTTGCGTATGATTTCTCCAT
88231428 TGGAATTAGAATTCTGAATTTTGCGTATGATTTCTCCAT
1 TGGAATTAGAATTCTGAATTTTGCGTATGATTTCTCCAT
88231467 T
1 T
88231468 CCCGATGGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.47
Consensus pattern (39 bp):
TGGAATTAGAATTCTGAATTTTGCGTATGATTTCTCCAT
Found at i:88237177 original size:49 final size:49
Alignment explanation
Indices: 88237068--88237526 Score: 358
Period size: 49 Copynumber: 9.7 Consensus size: 49
88237058 AGGGTACGAT
* * * * * *
88237068 GCCGATGCCATGTTCCAAACATGGTCTTACACTGG--CTCACACATCTAA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATATCGAG
* ** *
88237116 GTCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCGAG
* * *
88237165 GCCGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCTG-T
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATC-GAG
* * *
88237214 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCGAG
* * * * * *
88237263 GTCGATGCCATGT-CTAGACAGGTCTTATACTAGCTCTCATCTATCGGG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCGAG
* * * * * * *
88237311 GTCGATGCCATGTCCTAGATAGGTCTTACACT-G---ACACATGTC-AA
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCGAG
* * * *
88237355 GCCGATGCCATGTCCCAGACAGGTTTTATACTAGCT-TGCATATCTCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCT-CATATATCGAG
* * * * * * * * *
88237404 GCTGATG-CATGTGCTAGACATGTCTTATACTGGCTCT--TGTCTCAAT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCGAG
* *
88237450 GCCGATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATA-AT-GCG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCGAG
* *
88237496 GCCGATG-CATGTCACAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACT
88237527 AACGCACATA
Statistics
Matches: 332, Mismatches: 66, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
44 27 0.08
45 6 0.02
46 69 0.21
47 12 0.04
48 91 0.27
49 126 0.38
50 1 0.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCGAG
Found at i:88237308 original size:146 final size:144
Alignment explanation
Indices: 88237068--88237526 Score: 431
Period size: 141 Copynumber: 3.2 Consensus size: 144
88237058 AGGGTACGAT
* * * * * * *
88237068 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGC--TCACACATCTAAGTCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGACTTTCATATATCGAGGTCGATGCCATGTCC
* * * *
88237131 CAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCATGTCCCAGATAGGTCTTACAC
65 TAGACAGGTCTTATACTAGCTCTCATATATCGAGGCCGATGCCATGTCCCAGATAGGTCTTACAC
88237196 TGGCTCTCATCTATCTG
130 TGGCTCTCAT-TATC-G
*
88237213 TGTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGTCGATGCCATGT-C
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGTCGATGCCATGTCC
* * * *
88237277 TAGACAGGTCTTATACTAGCTCTCATCTATCGGGGTCGATGCCATGTCCTAGATAGGTCTTACAC
65 TAGACAGGTCTTATACTAGCTCTCATATATCGAGGCCGATGCCATGTCCCAGATAGGTCTTACAC
* * * *
88237342 T-G-ACACA-TGTCAA
130 TGGCTCTCATTATC-G
* * * * *
88237355 GCCGATGCCATGTCCCAGACAGGTTTTATACT-AGCTTGCATATCTCGAGG-CTGATG-CATGTG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCGAGGTC-GATGCCATGTC
* * * * * * * *
88237417 CTAGACATGTCTTATACTGGCTCT--TGTCTCAATGCCGATG-CATGTCCCAGACATGTCTTACA
64 CTAGACAGGTCTTATACTAGCTCTCATATATCGAGGCCGATGCCATGTCCCAGATAGGTCTTACA
*
88237479 CTGGCTCTCATAATGCG
129 CTGGCTCTCATTAT-CG
* *
88237496 GCCGATG-CATGTCACAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACT
88237527 AACGCACATA
Statistics
Matches: 258, Mismatches: 46, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
138 21 0.08
139 11 0.04
140 30 0.12
141 77 0.30
142 4 0.02
144 3 0.01
145 14 0.05
146 77 0.30
147 21 0.08
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (144 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGTCGATGCCATGTCCT
AGACAGGTCTTATACTAGCTCTCATATATCGAGGCCGATGCCATGTCCCAGATAGGTCTTACACT
GGCTCTCATTATCG
Found at i:88237343 original size:97 final size:98
Alignment explanation
Indices: 88237068--88237526 Score: 394
Period size: 97 Copynumber: 4.8 Consensus size: 98
88237058 AGGGTACGAT
* * * * ***
88237068 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA-C-ATCTAAGTCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATCTATCGGGGTCGATGCCATGTCC
*
88237131 CAGACAGGTCTTACACTAACTTTCATATATCGAG
65 CAGACAGGTCTTACACTGACTTTCATATATCGAG
* * * *
88237165 GCCGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCTGTGTCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGGGGTCGATGCCATGTCCC
88237230 AGACAGGTCTTACACTGACTTTCATATATCGAG
66 AGACAGGTCTTACACTGACTTTCATATATCGAG
* * * *
88237263 GTCGATGCCATGT-CTAGACAGGTCTTATACTAGCTCTCATCTATCGGGGTCGATGCCATGTCCT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGGGGTCGATGCCATGTCCC
* * * *
88237327 AGATAGGTCTTACACTGA----CACATGTC-AA
66 AGACAGGTCTTACACTGACTTTCATATATCGAG
* * * * * *
88237355 GCCGATGCCATGTCCCAGACAGGTTTTATACTAGCT-TGCATATCTCGAGG-CTGATG-CATGTG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-CATCTATCGGGGTC-GATGCCATGTC
* * * * * * * * *
88237417 CTAGACATGTCTTATACTGGC--TCTTGTCTCAAT
64 CCAGACAGGTCTTACACTGACTTTCATATATCGAG
* * * * * *
88237450 GCCGATG-CATGTCCCAGACATGTCTTACACTGGCTCTCAT-AAT-GCGGCCGATG-CATGTCAC
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGGGGTCGATGCCATGTCCC
*
88237511 AGACATGTCTTACACT
66 AGACAGGTCTTACACT
88237527 AACGCACATA
Statistics
Matches: 306, Mismatches: 46, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
92 63 0.21
93 41 0.13
94 31 0.10
95 9 0.03
96 18 0.06
97 80 0.26
98 64 0.21
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (98 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGGGGTCGATGCCATGTCCC
AGACAGGTCTTACACTGACTTTCATATATCGAG
Found at i:88237429 original size:92 final size:95
Alignment explanation
Indices: 88237117--88237526 Score: 306
Period size: 92 Copynumber: 4.3 Consensus size: 95
88237107 CACATCTAAG
* * * ** * *
88237117 TCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCATGTCCCA
1 TCGATGCCATGTCCTAGACAGGTCTTACACTGAC--ACAT-GCTCAATGCCGATGCCATGTCCCA
* * * * *
88237182 GATAGGTCTTACACTGGCTCTCATCTATCTGTG-
63 GACAGGTCTTATACTAGCTCTCATATATC-GGGC
* * ** * * * *
88237215 TCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGTCGATGCCATGT-CTA
1 TCGATGCCATGTCCTAGACAGGTCTTACACTGAC--ACAT-GCTCAATGCCGATGCCATGTCCCA
* *
88237279 GACAGGTCTTATACTAGCTCTCATCTATCGGGG
63 GACAGGTCTTATACTAGCTCTCATATATCGGGC
*
88237312 TCGATGCCATGTCCTAGATAGGTCTTACACTGACACATG-TCAA-GCCGATGCCATGTCCCAGAC
1 TCGATGCCATGTCCTAGACAGGTCTTACACTGACACATGCTCAATGCCGATGCCATGTCCCAGAC
* *
88237375 AGGTTTTATACTAGCT-TGCATATCTCGAGGC
66 AGGTCTTATACTAGCTCT-CATATATCG-GGC
* * * * * *
88237406 T-GATG-CATGTGCTAGACATGTCTTATACTGGCTCTTGTCTCAATGCCGATG-CATGTCCCAGA
1 TCGATGCCATGTCCTAGACAGGTCTTACACTGACACATG-CTCAATGCCGATGCCATGTCCCAGA
* * *
88237468 CATGTCTTACACTGGCTCTCATA-AT-GCGGC
65 CAGGTCTTATACTAGCTCTCATATATCG-GGC
*
88237498 -CGATG-CATGTCAC-AGACATGTCTTACACT
1 TCGATGCCATGTC-CTAGACAGGTCTTACACT
88237527 AACGCACATA
Statistics
Matches: 269, Mismatches: 33, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
92 66 0.25
93 36 0.13
94 35 0.13
95 11 0.04
96 2 0.01
97 60 0.22
98 59 0.22
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (95 bp):
TCGATGCCATGTCCTAGACAGGTCTTACACTGACACATGCTCAATGCCGATGCCATGTCCCAGAC
AGGTCTTATACTAGCTCTCATATATCGGGC
Found at i:88237469 original size:46 final size:45
Alignment explanation
Indices: 88237351--88237522 Score: 148
Period size: 46 Copynumber: 3.7 Consensus size: 45
88237341 CTGACACATG
* * * *
88237351 TCAAGCCGATGCCATGTCCCAGACAGGTTTTATACTAGCTTGCATATC
1 TCAAGCCGATG-CATGTCCCAGACATGTCTTATACTGGC-T-CTTATC
* * * * *
88237399 TCGAGGCTGATGCATGTGCTAGACATGTCTTATACTGGCTCTTGTC
1 TC-AAGCCGATGCATGTCCCAGACATGTCTTATACTGGCTCTTATC
* * *
88237445 TCAATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAA
1 TCAA-GCCGATGCATGTCCCAGACATGTCTTATACTGGCTCTTAT-C
* *
88237492 TGC-GGCCGATGCATGTCACAGACATGTCTTA
1 T-CAAGCCGATGCATGTCCCAGACATGTCTTA
88237523 CACTAACGCA
Statistics
Matches: 101, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 66 0.65
47 2 0.02
48 25 0.25
49 7 0.07
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.30
Consensus pattern (45 bp):
TCAAGCCGATGCATGTCCCAGACATGTCTTATACTGGCTCTTATC
Found at i:88237500 original size:141 final size:142
Alignment explanation
Indices: 88237068--88237526 Score: 409
Period size: 146 Copynumber: 3.2 Consensus size: 142
88237058 AGGGTACGAT
* * * * * * *
88237068 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGC-T-CACACATCTAAGTCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGACTTGCATATATCGAGGTCGATGCCATGT-C
* * * * * *
88237131 CAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCATGTCCCAGATAGGTCTTACAC
64 TAGACAGGTCTTATACTAGCTCT-ATCTATCAAGGCCGATGCCATGTCCCAGATAGGTCTTACAC
*
88237196 TGGCTCTCATCTATCTG
128 TGGCTCTCA--TATCAG
* *
88237213 TGTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGTCGATGCCATGTCT
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTGCATATATCGAGGTCGATGCCATGTCT
** * *
88237278 AGACAGGTCTTATACTAGCTCTCATCTATCGGGGTCGATGCCATGTCCTAGATAGGTCTTACACT
65 AGACAGGTCTTATACTAGCTCT-ATCTATCAAGGCCGATGCCATGTCCCAGATAGGTCTTACACT
* * * *
88237343 -G-ACACATGTCAA
129 GGCTCTCATATCAG
* * *
88237355 GCCGATGCCATGTCCCAGACAGGTTTTATACT-AGCTTGCATATCTCGAGG-CTGATG-CATGTG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTGCATATATCGAGGTC-GATGCCATGT-
* * * * * * *
88237417 CTAGACATGTCTTATACTGGCTCT-TGTCTCAATGCCGATG-CATGTCCCAGACATGTCTTACAC
63 CTAGACAGGTCTTATACTAGCTCTATCTATCAAGGCCGATGCCATGTCCCAGATAGGTCTTACAC
88237480 TGGCTCTCATAATGC-G
128 TGGCTCTCAT-AT-CAG
* *
88237496 GCCGATG-CATGTCACAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACT
88237527 AACGCACATA
Statistics
Matches: 259, Mismatches: 45, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
138 21 0.08
139 11 0.04
140 31 0.12
141 77 0.30
142 4 0.02
144 3 0.01
145 14 0.05
146 78 0.30
147 20 0.08
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (142 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTGCATATATCGAGGTCGATGCCATGTCTA
GACAGGTCTTATACTAGCTCTATCTATCAAGGCCGATGCCATGTCCCAGATAGGTCTTACACTGG
CTCTCATATCAG
Found at i:88238213 original size:20 final size:20
Alignment explanation
Indices: 88238188--88238226 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
88238178 AAAATTTCAA
88238188 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
88238208 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
88238227 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:88239810 original size:212 final size:212
Alignment explanation
Indices: 88239443--88239867 Score: 796
Period size: 212 Copynumber: 2.0 Consensus size: 212
88239433 ACCACTTGAA
88239443 TACGGAAGGACATTTGGGATTATCATACACCAAATAGGGTGCCAAAGCCATGTCCTAGACATGGT
1 TACGGAAGGACATTTGGGATTATCATACACCAAATAGGGTGCCAAAGCCATGTCCTAGACATGGT
*
88239508 GTCACATGGAACTACACATTGATGCCATATCCCAGATATGGTCTTATACAAAGTCTCGATTTAGT
66 GTCACATGGAACTACACATTGATGCCATATCCCAGATATGGTCTTATACAAAGTCTCGATTCAGT
* * *
88239573 GTCGACGCCATGTCCTAGACATGGTCTTATATGGGACCTCATATCGATGCCATGTCCCAAACATG
131 GTCGACGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATCGATGCAATGTCCCAAACATG
88239638 GTCTTATACGAAATCAC
196 GTCTTATACGAAATCAC
88239655 TACGGAAGGACATTTGGGATTATCATACACCAAATAGGGTGCCAAAGCCATGTCCTAGACATGGT
1 TACGGAAGGACATTTGGGATTATCATACACCAAATAGGGTGCCAAAGCCATGTCCTAGACATGGT
88239720 GTCACATGGAACTACACATTGATGCCATATCCCAGATATGGTCTTATACAAAGTCTCGATTCAGT
66 GTCACATGGAACTACACATTGATGCCATATCCCAGATATGGTCTTATACAAAGTCTCGATTCAGT
**
88239785 GTCGACGTTATGTCCCAGACATGGTCTTATACGGGACCTCATATCGATGCAATGTCCCAAACATG
131 GTCGACGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATCGATGCAATGTCCCAAACATG
88239850 GTCTTATACGAAATCAC
196 GTCTTATACGAAATCAC
88239867 T
1 T
88239868 TAACGATACC
Statistics
Matches: 207, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
212 207 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (212 bp):
TACGGAAGGACATTTGGGATTATCATACACCAAATAGGGTGCCAAAGCCATGTCCTAGACATGGT
GTCACATGGAACTACACATTGATGCCATATCCCAGATATGGTCTTATACAAAGTCTCGATTCAGT
GTCGACGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATCGATGCAATGTCCCAAACATG
GTCTTATACGAAATCAC
Found at i:88241680 original size:37 final size:37
Alignment explanation
Indices: 88241627--88241717 Score: 137
Period size: 37 Copynumber: 2.5 Consensus size: 37
88241617 AGGAGTTATG
* *
88241627 ATCTTAAATCAACTAACTTAAAGATGAATAGGTTGCA
1 ATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGCA
* **
88241664 ATCTTAAATCGGCTAACTCAAAGATGAATAGGTTGTG
1 ATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGCA
88241701 ATCTTAAATCAGCTAAC
1 ATCTTAAATCAGCTAAC
88241718 CCTTATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (37 bp):
ATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGCA
Found at i:88247100 original size:91 final size:91
Alignment explanation
Indices: 88246982--88247391 Score: 291
Period size: 91 Copynumber: 4.5 Consensus size: 91
88246972 CTTGAAAACT
* * * * *
88246982 TCAATTTACAACATTTAAACACTTCAATTTGCAGCCCTTCAACACTTCAATTTGCAGCACTTTAA
1 TCAATTCACAACATTAAAACAC-TCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAA
* *
88247047 CA-TCTCAATTAACAACATTTATACTCC
65 CACT-TCAATTAACAACATTTAAACACC
** * *
88247074 TCAATT-ACAGTGA-TAAAACATCTCAATTTCCAGCAAC-TAAACACTTCAATTTGCAGTACTTA
1 TCAATTCACA-ACATTAAAACA-CTCAATTTGCAGC-ACTTAAACACTTCAATTTGCAGCACTTA
* *
88247136 AACACTTCAATTTACAACATTTAAACACT
63 AACACTTCAATTAACAACATTTAAACACC
* * ** *
88247165 TCAATTCACAACATTCAAACACTCCAATTTGCAGCACTTTAACACTTCAATTTATAGCATTTAAA
1 TCAATTCACAACATTAAAACACT-CAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAA
** * *
88247230 CACTTCAATTTGC-TCACTTT-AACATC
65 CACTTCAATTAACAACA-TTTAAACACC
* * * * * * *
88247256 TCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAAATTCCAGCAAC-T
1 TCAATTCACAACATTAAAACA-CTCAATTTGCAGC-ACTTAAACACT-TCAATTTGCAGC-ACTT
** * * *
88247317 AAACACTTCAATTTGCAATACTTAAAACACT
62 AAACACTTCAATTAACAACA-TTTAAACACC
* * * *
88247348 TCAATTTACAACATTTAAACACTTCAATTTACAGCATTTAAACA
1 TCAATTCACAACATTAAAACAC-TCAATTTGCAGCACTTAAACA
88247392 GCAGCAACCA
Statistics
Matches: 257, Mismatches: 43, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
89 1 0.00
90 37 0.14
91 110 0.43
92 96 0.37
93 13 0.05
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (91 bp):
TCAATTCACAACATTAAAACACTCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAAC
ACTTCAATTAACAACATTTAAACACC
Found at i:88247261 original size:160 final size:158
Alignment explanation
Indices: 88246939--88247239 Score: 419
Period size: 160 Copynumber: 1.9 Consensus size: 158
88246929 AGATAAACTA
88246939 AATTTCAGCAACTAAACAATTCAATTTGCAGTACTTGAAAACTTCAATTTACAACATTTAAACAC
1 AATTTCAGCAACTAAACAATTCAATTTGCAGTACTTGAAAACTTCAATTTACAACATTTAAACAC
** * * * *
88247004 TTCAATTTGCAGCCCTTCAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTAT
66 TTCAATTCACAGACATTCAACACTCCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTAA
* *
88247069 ACTCCTCAATTACAGTGATAAAACATCTC
131 ACACCTCAATTACA-TCATAAAACATCTC
*
88247098 AATTTCCAGCAACTAAACACTTCAATTTGCAGTACTT-AAACACTTCAATTTACAACATTTAAAC
1 AATTT-CAGCAACTAAACAATTCAATTTGCAGTACTTGAAA-ACTTCAATTTACAACATTTAAAC
* * *
88247162 ACTTCAATTCACA-ACATTCAAACACTCCAATTTGCAGCACTTTAACA-CTTCAATTTATAGCAT
64 ACTTCAATTCACAGACATTC-AACACTCCAATTTGCAGCACTTTAACATC-TCAATTAACAACAT
*
88247225 TTAAACACTTCAATT
127 TTAAACACCTCAATT
88247240 TGCTCACTTT
Statistics
Matches: 126, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
159 13 0.10
160 113 0.90
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.32
Consensus pattern (158 bp):
AATTTCAGCAACTAAACAATTCAATTTGCAGTACTTGAAAACTTCAATTTACAACATTTAAACAC
TTCAATTCACAGACATTCAACACTCCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTAA
ACACCTCAATTACATCATAAAACATCTC
Found at i:88247389 original size:23 final size:23
Alignment explanation
Indices: 88246951--88247391 Score: 278
Period size: 23 Copynumber: 19.3 Consensus size: 23
88246941 TTTCAGCAAC
* * *
88246951 TAAACAATTCAATTTGCAGTACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
88246975 GAAA-ACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
* **
88246997 TAAACACTTCAATTTGCAGCCCT
1 TAAACACTTCAATTTACAGCATT
* *
88247020 TCAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
88247044 T-AACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* * * *
88247066 TATACTCCTCAA-TTACAGTGA-T
1 TAAACACTTCAATTTACAG-CATT
* * **
88247088 AAAACA-TCTCAATTTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* * *
88247111 TAAACACTTCAATTTGCAGTACT
1 TAAACACTTCAATTTACAGCATT
*
88247134 TAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
* *
88247157 TAAACACTTCAATTCACAACATT
1 TAAACACTTCAATTTACAGCATT
* * *
88247180 CAAACACTCCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
*
88247204 T-AACACTTCAATTTATAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
88247226 TAAACACTTCAATTTGC-TCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
88247249 T-AACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* *
88247271 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * **
88247293 AAAACA-TCTCAAATTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* **
88247316 TAAACACTTCAATTTGCAATACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
88247340 AAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
88247363 TAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
88247386 TAAACA
1 TAAACA
88247392 GCAGCAACCA
Statistics
Matches: 319, Mismatches: 75, Indels: 47
0.72 0.17 0.11
Matches are distributed among these distances:
21 1 0.00
22 56 0.18
23 235 0.74
24 27 0.08
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (23 bp):
TAAACACTTCAATTTACAGCATT
Found at i:88250576 original size:15 final size:15
Alignment explanation
Indices: 88250556--88250621 Score: 100
Period size: 15 Copynumber: 4.5 Consensus size: 15
88250546 GGACTAAAAT
88250556 CATAAATATTAATTA
1 CATAAATATTAATTA
88250571 CATAAATATTAATTA
1 CATAAATATTAATTA
*
88250586 CA-AACT-TATAATTA
1 CATAAATAT-TAATTA
88250600 CATAAATATTAATTA
1 CATAAATATTAATTA
88250615 CATAAAT
1 CATAAAT
88250622 GGAATTAACA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 1 0.02
14 11 0.24
15 33 0.72
16 1 0.02
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (15 bp):
CATAAATATTAATTA
Found at i:88251163 original size:13 final size:13
Alignment explanation
Indices: 88251090--88251163 Score: 58
Period size: 13 Copynumber: 5.7 Consensus size: 13
88251080 CTCAAAATTT
*
88251090 TCAAAAGCACCTC
1 TCAAAAGCACTTC
*
88251103 TTAAAAGCACTTC
1 TCAAAAGCACTTC
* *
88251116 TAAAAAGCACTTT
1 TCAAAAGCACTTC
* * *
88251129 TCCACAGCACATC
1 TCAAAAGCACTTC
* *
88251142 TCAAGAGCACTTT
1 TCAAAAGCACTTC
*
88251155 TTAAAAGCA
1 TCAAAAGCA
88251164 ATGAAAAACT
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.24
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:88251163 original size:26 final size:26
Alignment explanation
Indices: 88251092--88251163 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 26
88251082 CAAAATTTTC
* * *
88251092 AAAAGCACCTCTTAAAAGCACTTCTA
1 AAAAGCACTTTTTAAAAGCACATCTA
** * *
88251118 AAAAGCACTTTTCCACAGCACATCTC
1 AAAAGCACTTTTTAAAAGCACATCTA
*
88251144 AAGAGCACTTTTTAAAAGCA
1 AAAAGCACTTTTTAAAAGCA
88251164 ATGAAAAACT
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.24
Consensus pattern (26 bp):
AAAAGCACTTTTTAAAAGCACATCTA
Found at i:88252518 original size:19 final size:19
Alignment explanation
Indices: 88252490--88252529 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
88252480 GGAAAAAAAA
88252490 TTAGGGATTTGGGGAAATT
1 TTAGGGATTTGGGGAAATT
*
88252509 TTAGGTATTTGGGGAAATT
1 TTAGGGATTTGGGGAAATT
88252528 TT
1 TT
88252530 TTAGGGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (19 bp):
TTAGGGATTTGGGGAAATT
Found at i:88253391 original size:14 final size:14
Alignment explanation
Indices: 88253368--88253421 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
88253358 CTCAAACACC
88253368 AACCATTAAACCATA
1 AACCA-TAAACCATA
88253383 AACCATAAACCATA
1 AACCATAAACCATA
* *
88253397 ATCCCTAAACCTATA
1 AACCATAAACC-ATA
*
88253412 ATCCATAAAC
1 AACCATAAAC
88253422 TTTAAAATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
14 18 0.51
15 17 0.49
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (14 bp):
AACCATAAACCATA
Found at i:88253414 original size:15 final size:14
Alignment explanation
Indices: 88253374--88253421 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
88253364 CACCAACCAT
*
88253374 TAAACCATAAACCA
1 TAAACCATAATCCA
*
88253388 TAAACCATAATCCC
1 TAAACCATAATCCA
88253402 TAAACCTATAATCCA
1 TAAACC-ATAATCCA
88253417 TAAAC
1 TAAAC
88253422 TTTAAAATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:88254065 original size:40 final size:40
Alignment explanation
Indices: 88253902--88254065 Score: 125
Period size: 40 Copynumber: 4.2 Consensus size: 40
88253892 TTTCAACGGT
* * * * * * *
88253902 GTTTTTCAAAAAGCGCCACTAATGGTCGACCTATAGTGGT
1 GTTTTTCAAAAAGCACCGCTAATGCTCAATCTATAGCGGC
* *** * *
88253942 GTTTTTTAAAAAGTGTCGTTAAT-CTCGATCTATAGCGGC
1 GTTTTTCAAAAAGCACCGCTAATGCTCAATCTATAGCGGC
*** * **
88253981 G-TTTTCAAAAAGCGTTGCTAATGCTCTATCTATAGCATC
1 GTTTTTCAAAAAGCACCGCTAATGCTCAATCTATAGCGGC
* *
88254020 ATTTTTCAAAAAGCACCGCTAATGCTCAATTTATAGCGGC
1 GTTTTTCAAAAAGCACCGCTAATGCTCAATCTATAGCGGC
88254060 GTTTTT
1 GTTTTT
88254066 TATCCAAACG
Statistics
Matches: 97, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
38 17 0.18
39 26 0.27
40 54 0.56
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (40 bp):
GTTTTTCAAAAAGCACCGCTAATGCTCAATCTATAGCGGC
Found at i:88255598 original size:12 final size:12
Alignment explanation
Indices: 88255581--88255605 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88255571 TTCAAGTTAT
88255581 AATATATATATA
1 AATATATATATA
88255593 AATATATATATA
1 AATATATATATA
88255605 A
1 A
88255606 TTAAAAGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATATATATATA
Found at i:88257122 original size:19 final size:20
Alignment explanation
Indices: 88257090--88257137 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
88257080 TTAACTAAGT
**
88257090 TTAATTAATTTAATCATAC-
1 TTAATTAACCTAATCATACA
* *
88257109 TTAATTAACCTAATCCTTCA
1 TTAATTAACCTAATCATACA
88257129 TTAATTAAC
1 TTAATTAAC
88257138 ATATAAGTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAATTAACCTAATCATACA
Found at i:88265716 original size:5 final size:6
Alignment explanation
Indices: 88265699--88265732 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
88265689 GCTATTGGCC
88265699 TCTTTT TCTTTT TCTTTT TCTTATT T-TTTT TCTT
1 TCTTTT TCTTTT TCTTTT TCTT-TT TCTTTT TCTT
88265733 GAAGTTCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 3 0.12
6 20 0.77
7 3 0.12
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TCTTTT
Found at i:88268023 original size:16 final size:18
Alignment explanation
Indices: 88267993--88268025 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88267983 ATATTTATAT
88267993 TAAAATATAATAAAATAC
1 TAAAATATAATAAAATAC
88268011 TAAAATA-AA-AAAATA
1 TAAAATATAATAAAATA
88268026 ATATAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAAATATAATAAAATAC
Found at i:88268144 original size:26 final size:27
Alignment explanation
Indices: 88268109--88268160 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
88268099 TATTATTACT
*
88268109 TTTTTTTAAAATAAT-AAAATATACAA
1 TTTTATTAAAATAATAAAAATATACAA
88268135 TTTTATTAAAATAATAAAAATATACA
1 TTTTATTAAAATAATAAAAATATACA
88268161 TTTAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (27 bp):
TTTTATTAAAATAATAAAAATATACAA
Found at i:88268175 original size:27 final size:26
Alignment explanation
Indices: 88268115--88268168 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
88268105 TACTTTTTTT
* *
88268115 TAAAATAATAAAATATACAATTTTAT
1 TAAAATAATAAAATATACAATTTAAA
88268141 TAAAATAATAAAAATATAC-ATTTAAA
1 TAAAATAAT-AAAATATACAATTTAAA
88268167 TA
1 TA
88268169 TATATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (26 bp):
TAAAATAATAAAATATACAATTTAAA
Found at i:88268217 original size:21 final size:22
Alignment explanation
Indices: 88268191--88268235 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
88268181 TAAATAACAA
88268191 TATATTAA-ATT-ATATATATAT
1 TATATTAATATTAATATAT-TAT
88268212 TATATTAATATTAATATATTAT
1 TATATTAATATTAATATATTAT
88268234 TA
1 TA
88268236 AAATGTATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.36
22 8 0.36
23 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATATTAATATTAATATATTAT
Found at i:88268377 original size:21 final size:20
Alignment explanation
Indices: 88268352--88268393 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
88268342 AAATAATAAA
*
88268352 ATATATTTTTTATTAATATTT
1 ATATATTTTATATTAA-ATTT
88268373 ATATATTTTATATTAAATTT
1 ATATATTTTATATTAAATTT
88268393 A
1 A
88268394 AATAAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATATTTTATATTAAATTT
Found at i:88277240 original size:18 final size:18
Alignment explanation
Indices: 88277213--88277249 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
88277203 TTGATTTTCG
*
88277213 AATTCAAATAAATCGAAT
1 AATTCAAATAAACCGAAT
*
88277231 AATTCGAATAAACCGAAT
1 AATTCAAATAAACCGAAT
88277249 A
1 A
88277250 CCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.24
Consensus pattern (18 bp):
AATTCAAATAAACCGAAT
Found at i:88277322 original size:19 final size:21
Alignment explanation
Indices: 88277285--88277328 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
88277275 ACCCCAAACT
*
88277285 CCCAAACCTCTTTACTTTCCA
1 CCCAAAACTCTTTACTTTCCA
*
88277306 CCCAAAACT-TTTA-TTTCCT
1 CCCAAAACTCTTTACTTTCCA
88277325 CCCA
1 CCCA
88277329 CTTTCCCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.25, C:0.41, G:0.00, T:0.34
Consensus pattern (21 bp):
CCCAAAACTCTTTACTTTCCA
Found at i:88279387 original size:18 final size:18
Alignment explanation
Indices: 88279362--88279412 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
88279352 AAATGACAAA
*
88279362 AAATGAGAAATGAATATG
1 AAATGAGAAATGAATACG
*
88279380 AGATGAGAAATGAAATACG
1 AAATGAGAAATG-AATACG
88279399 AAATGATGAAATGA
1 AAATGA-GAAATGA
88279413 GATGTGAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 11 0.39
19 11 0.39
20 6 0.21
ACGTcount: A:0.55, C:0.02, G:0.24, T:0.20
Consensus pattern (18 bp):
AAATGAGAAATGAATACG
Found at i:88282240 original size:18 final size:19
Alignment explanation
Indices: 88282217--88282286 Score: 74
Period size: 18 Copynumber: 3.7 Consensus size: 19
88282207 ACATTAGGCA
88282217 TAATTTTA-GTAAAATGTG
1 TAATTTTATGTAAAATGTG
*
88282235 TAATTTTATGTAATTAA-GTAT
1 TAATTTTATGTAA--AATGT-G
*
88282256 TAAATTTA-GTAAAATGTG
1 TAATTTTATGTAAAATGTG
88282274 TAATTTTATGTAA
1 TAATTTTATGTAA
88282287 TTAAGTATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
18 17 0.40
19 10 0.24
20 6 0.14
21 9 0.21
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (19 bp):
TAATTTTATGTAAAATGTG
Found at i:88282273 original size:39 final size:39
Alignment explanation
Indices: 88282221--88282302 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
88282211 TAGGCATAAT
88282221 TTTAGTAAAATGTGTAATTTTATGTAATTAAGTATTAAA
1 TTTAGTAAAATGTGTAATTTTATGTAATTAAGTATTAAA
*
88282260 TTTAGTAAAATGTGTAATTTTATGTAATTAAGTATTAAT
1 TTTAGTAAAATGTGTAATTTTATGTAATTAAGTATTAAA
88282299 TTTA
1 TTTA
88282303 CATAATTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (39 bp):
TTTAGTAAAATGTGTAATTTTATGTAATTAAGTATTAAA
Found at i:88282298 original size:21 final size:21
Alignment explanation
Indices: 88282235--88282302 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
88282225 GTAAAATGTG
88282235 TAATTTTATGTAATTAAGTAT
1 TAATTTTATGTAATTAAGTAT
* *
88282256 TAAATTTA-GTAA--AATGT-G
1 TAATTTTATGTAATTAA-GTAT
88282274 TAATTTTATGTAATTAAGTAT
1 TAATTTTATGTAATTAAGTAT
88282295 TAATTTTA
1 TAATTTTA
88282303 CATAATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
18 9 0.24
19 6 0.16
20 6 0.16
21 17 0.45
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (21 bp):
TAATTTTATGTAATTAAGTAT
Found at i:88283227 original size:19 final size:19
Alignment explanation
Indices: 88283203--88283242 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
88283193 AAAATCATTC
88283203 ATGTTATTCATGCATTAAA
1 ATGTTATTCATGCATTAAA
88283222 ATGTTATTCATGCATTAAA
1 ATGTTATTCATGCATTAAA
88283241 AT
1 AT
88283243 ATGTTTGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (19 bp):
ATGTTATTCATGCATTAAA
Found at i:88286234 original size:44 final size:44
Alignment explanation
Indices: 88286171--88286261 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
88286161 AACTCTATTT
88286171 TTAGTTTCCCACTTAAACTCTAATTAGTATAAGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAGTATAAGTTATTTTAATA
* * * *
88286215 TTAGTTTCCCACTTAAACTCTGATTATTTTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAGTATAAGTTATTTTAATA
88286259 TTA
1 TTA
88286262 TTTGACCTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.48
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTAATTAGTATAAGTTATTTTAATA
Found at i:88287897 original size:43 final size:42
Alignment explanation
Indices: 88287871--88287982 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 42
88287861 TATGAGATTT
88287871 CGAACTTGTTGAGTGGTCCAAGTTCGTGAGATATATGGCATC
1 CGAACTTGTTGAGTGGTCCAAGTTCGTGAGATATATGGCATC
* * * * * **
88287913 CGAGCTTGTTGAGTGGTCCGAGTTCATTATG-GATGCGAGCATC
1 CGAACTTGTTGAGTGGTCCAAGTTCGTGA-GATATATG-GCATC
* *
88287956 CGAACTCGTTGAGTGGTCCGAGTTCGT
1 CGAACTTGTTGAGTGGTCCAAGTTCGT
88287983 TGTGGATGCG
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 28 0.48
43 30 0.52
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (42 bp):
CGAACTTGTTGAGTGGTCCAAGTTCGTGAGATATATGGCATC
Found at i:88287989 original size:43 final size:43
Alignment explanation
Indices: 88287908--88287993 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
88287898 GAGATATATG
* *
88287908 GCATCCGAGCTTGTTGAGTGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAACTCGTTGAGTGGTCCGAGTTCATTATGGATGCGA
* *
88287951 GCATCCGAACTCGTTGAGTGGTCCGAGTTCGTTGTGGATGCGA
1 GCATCCGAACTCGTTGAGTGGTCCGAGTTCATTATGGATGCGA
88287994 TGCCTGTGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.29
Consensus pattern (43 bp):
GCATCCGAACTCGTTGAGTGGTCCGAGTTCATTATGGATGCGA
Found at i:88292595 original size:17 final size:16
Alignment explanation
Indices: 88292548--88292595 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
88292538 GGCCTAAAAT
*
88292548 ATTTGAATAGATTATTG
1 ATTTG-ATAGATTATTA
*
88292565 ATTTGATAAAATTAGTTA
1 ATTTGAT-AGATTA-TTA
88292583 ATTTGATAGATTA
1 ATTTGATAGATTA
88292596 ACTAATTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 2 0.08
17 15 0.58
18 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.46
Consensus pattern (16 bp):
ATTTGATAGATTATTA
Found at i:88293603 original size:13 final size:13
Alignment explanation
Indices: 88293585--88293630 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
88293575 TTCTTTCGAA
88293585 TCTTTTTTTTCTT
1 TCTTTTTTTTCTT
*
88293598 TCTTTTTTTTTGTGT
1 TC-TTTTTTTTCT-T
*
88293613 TGTTTTTTTTCTT
1 TCTTTTTTTTCTT
88293626 TCTTT
1 TCTTT
88293631 ATATATACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 7 0.26
14 18 0.67
15 2 0.07
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.83
Consensus pattern (13 bp):
TCTTTTTTTTCTT
Found at i:88293693 original size:17 final size:17
Alignment explanation
Indices: 88293671--88293703 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
88293661 CAGCCACCGT
*
88293671 GGGCGGTGGCCGACGAC
1 GGGCGGCGGCCGACGAC
88293688 GGGCGGCGGCCGACGA
1 GGGCGGCGGCCGACGA
88293704 TCGACCGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.30, G:0.55, T:0.03
Consensus pattern (17 bp):
GGGCGGCGGCCGACGAC
Found at i:88294136 original size:19 final size:19
Alignment explanation
Indices: 88294056--88294140 Score: 75
Period size: 19 Copynumber: 4.3 Consensus size: 19
88294046 TAATATTTTC
*
88294056 TTTTATTGTAGATATTATTA
1 TTTTA-TGTACATATTATTA
88294076 TTATTAT-TACATACTT-TTA
1 TT-TTATGTACATA-TTATTA
* * *
88294095 TTATATGCATATATATATGTA
1 TTTTATGTACATAT-TAT-TA
88294116 TTTTATGTACATATTATTA
1 TTTTATGTACATATTATTA
88294135 TTTTAT
1 TTTTAT
88294141 ATTATTATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
19 23 0.44
20 9 0.17
21 16 0.31
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.58
Consensus pattern (19 bp):
TTTTATGTACATATTATTA
Found at i:88294855 original size:21 final size:21
Alignment explanation
Indices: 88294829--88294874 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
88294819 AGGGTGGATT
*
88294829 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACGAGCATCTGTTC
88294850 AGCTCTTACGAGCATCTGTTC
1 AGCTCTTACGAGCATCTGTTC
88294871 AGCT
1 AGCT
88294875 TTTGAGCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.35
Consensus pattern (21 bp):
AGCTCTTACGAGCATCTGTTC
Found at i:88295094 original size:14 final size:14
Alignment explanation
Indices: 88295075--88295105 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
88295065 TGACAGAGAG
88295075 TTTTTCTTGGATGA
1 TTTTTCTTGGATGA
*
88295089 TTTTTCTTGTATGA
1 TTTTTCTTGGATGA
88295103 TTT
1 TTT
88295106 ATTATAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.06, G:0.16, T:0.65
Consensus pattern (14 bp):
TTTTTCTTGGATGA
Found at i:88296434 original size:44 final size:43
Alignment explanation
Indices: 88296366--88296451 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 43
88296356 CTCTATTTTT
88296366 AGTTTCTCACTTAAACTCTAATTAGTGTAGGTTATTTTAATATC
1 AGTTTCTCACTTAAACTCTAATTAGTGTAGG-TATTTTAATATC
*
88296410 AGTTTC-CAACTTAAACTCTGATTAGTGTAGGTATTTTAATAT
1 AGTTTCTC-ACTTAAACTCTAATTAGTGTAGGTATTTTAATAT
88296452 TATTTGACCT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
43 12 0.30
44 28 0.70
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (43 bp):
AGTTTCTCACTTAAACTCTAATTAGTGTAGGTATTTTAATATC
Found at i:88296561 original size:22 final size:22
Alignment explanation
Indices: 88296505--88296554 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 22
88296495 TCCTAGAAAG
*
88296505 ATAACCCATTACACATTTAGGT
1 ATAACCCTTTACACATTTAGGT
88296527 ATAACCCTTTACACATTTAGGT
1 ATAACCCTTTACACATTTAGGT
88296549 ACTAAC
1 A-TAAC
88296555 TTTTACAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (22 bp):
ATAACCCTTTACACATTTAGGT
Found at i:88319172 original size:41 final size:41
Alignment explanation
Indices: 88319111--88319193 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
88319101 AAGTAATTTT
* *
88319111 ACAGATCCATTAACTGAAATCAGCCCCTAATATTCCATAGA
1 ACAGATCCATTAACTAAAATCAACCCCTAATATTCCATAGA
*
88319152 ACAGATCCATTAACTAAAATCAACCCTTAATATTCCATAGA
1 ACAGATCCATTAACTAAAATCAACCCCTAATATTCCATAGA
88319193 A
1 A
88319194 TAGACACCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.25
Consensus pattern (41 bp):
ACAGATCCATTAACTAAAATCAACCCCTAATATTCCATAGA
Found at i:88321872 original size:94 final size:92
Alignment explanation
Indices: 88321764--88321939 Score: 253
Period size: 94 Copynumber: 1.9 Consensus size: 92
88321754 GTAGTTAAGC
* * *
88321764 TTTTTTTTTACTCAATTGAGCATTTGAACTTTCAAAATGCATCAAAAAAACCTTCAAACTTTTTA
1 TTTTTTTTTACTCAATTGAGCACTTAAACTTTCAAAATGCATCAAAAAAACCCTCAAACTTTTTA
88321829 AAAAAAAGCAATTAAGCCCTTGCTCCTT
66 AAAAAAA-CAATTAAGCCCTTGCTCCTT
* * * *
88321857 TTTTTTTTTCACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCTCAAATTTTTT
1 TTTTTTTTT-ACTCAATTGAGCACTTAAACTTTCAAAATGCATCAAAAAAACCCTCAAACTTTTT
**
88321922 TCAAAAAACAATTAAGCC
65 AAAAAAAACAATTAAGCC
88321940 ACCGCTCTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 19 0.26
94 54 0.74
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.36
Consensus pattern (92 bp):
TTTTTTTTTACTCAATTGAGCACTTAAACTTTCAAAATGCATCAAAAAAACCCTCAAACTTTTTA
AAAAAAACAATTAAGCCCTTGCTCCTT
Found at i:88322019 original size:19 final size:18
Alignment explanation
Indices: 88321986--88322040 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
88321976 AATAAAAGAA
*
88321986 TAAATTTTAGA-AAAATTAT
1 TAAATTTTA-ATAAAAAT-T
88322005 TAAATTTTAATAAAAATT
1 TAAATTTTAATAAAAATT
* *
88322023 TAAAATTTATTAAAAATT
1 TAAATTTTAATAAAAATT
88322041 AGATTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 18 0.56
19 14 0.44
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TAAATTTTAATAAAAATT
Found at i:88322068 original size:10 final size:10
Alignment explanation
Indices: 88322049--88322099 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
88322039 TTAGATTTTT
88322049 TTAT-AAAAA
1 TTATAAAAAA
*
88322058 TTGTAAAAAA
1 TTATAAAAAA
88322068 -TA-AAAAAA
1 TTATAAAAAA
88322076 TTTATAAAAAA
1 -TTATAAAAAA
*
88322087 TCATAAAAAA
1 TTATAAAAAA
88322097 TTA
1 TTA
88322100 ACAACCCTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
8 6 0.18
9 4 0.12
10 18 0.53
11 6 0.18
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:88322235 original size:9 final size:9
Alignment explanation
Indices: 88322221--88322406 Score: 54
Period size: 9 Copynumber: 21.1 Consensus size: 9
88322211 TTTTGGTATA
88322221 ATAATTTTT
1 ATAATTTTT
88322230 ATAATTTTT
1 ATAATTTTT
*
88322239 AT-ATTTCT
1 ATAATTTTT
*
88322247 AT-GTATTTT
1 ATAAT-TTTT
88322256 ATAATTTTT
1 ATAATTTTT
88322265 -TACGATTTTT
1 ATA--ATTTTT
*
88322275 ATAAAATTTT
1 AT-AATTTTT
*
88322285 A-CATTTTT
1 ATAATTTTT
*
88322293 -TATTTTTT
1 ATAATTTTT
*
88322301 A-AGAATTTT
1 ATA-ATTTTT
* *
88322310 AT-ATATAT
1 ATAATTTTT
*
88322318 AT-TTTTTT
1 ATAATTTTT
88322326 ATAATTTTT
1 ATAATTTTT
*
88322335 A-ATATTTTA
1 ATA-ATTTTT
*
88322344 ATATTTTATT
1 ATAATTT-TT
* *
88322354 A-AAATTTA
1 ATAATTTTT
*
88322362 ATAATATTT
1 ATAATTTTT
**
88322371 ATAGCTTTT
1 ATAATTTTT
*
88322380 ATTGA-TTTT
1 A-TAATTTTT
*
88322389 A-ATTTTTT
1 ATAATTTTT
88322397 ATAATTTTT
1 ATAATTTTT
88322406 A
1 A
88322407 ATAAAAGCAT
Statistics
Matches: 124, Mismatches: 35, Indels: 36
0.64 0.18 0.18
Matches are distributed among these distances:
8 39 0.31
9 66 0.53
10 17 0.14
11 1 0.01
12 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:88322276 original size:19 final size:19
Alignment explanation
Indices: 88322252--88322312 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
88322242 TTTCTATGTA
88322252 TTTTATAATTTTTTACGAT
1 TTTTATAATTTTTTACGAT
**
88322271 TTTTATAAAATTTTAC-AT
1 TTTTATAATTTTTTACGAT
* *
88322289 TTTT-T-ATTTTTTAAGAA
1 TTTTATAATTTTTTACGAT
88322306 TTTTATA
1 TTTTATA
88322313 TATATATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 6 0.18
17 6 0.18
18 7 0.21
19 14 0.42
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAT
Found at i:88322333 original size:35 final size:32
Alignment explanation
Indices: 88322252--88322342 Score: 76
Period size: 35 Copynumber: 2.7 Consensus size: 32
88322242 TTTCTATGTA
*
88322252 TTTTATAATTTTTTACGATTTTTATAAAATTT
1 TTTTATAATTTTTTAAGATTTTTATAAAATTT
* * *
88322284 TACATTTTTTATTTTTTAAGAATTTTATATATATATTT
1 T---TTTATAATTTTTTAAG-ATTTT-TATA-AAATTT
*
88322322 TTTTATAA-TTTTTAATATTTT
1 TTTTATAATTTTTTAAGATTTT
88322343 AATATTTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
32 1 0.02
33 5 0.11
34 7 0.15
35 18 0.39
36 5 0.11
37 4 0.09
38 6 0.13
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (32 bp):
TTTTATAATTTTTTAAGATTTTTATAAAATTT
Found at i:88322334 original size:25 final size:23
Alignment explanation
Indices: 88322293--88322339 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
88322283 TTACATTTTT
88322293 TATTTTTTAAGAATTTTATATATA
1 TATTTTTTAAGAATTTTA-ATATA
* *
88322317 TATTTTTTTATAATTTTTAATAT
1 TATTTTTTAAGAA-TTTTAATAT
88322340 TTTAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TATTTTTTAAGAATTTTAATATA
Found at i:88322342 original size:51 final size:51
Alignment explanation
Indices: 88322270--88322368 Score: 114
Period size: 51 Copynumber: 1.9 Consensus size: 51
88322260 TTTTTTACGA
* *
88322270 TTTTTATAAAATTTTACATTTT-TTATTTT-TTAAGAATTTTATATATATATT
1 TTTTTATAAAATTTTACATTTTAATATTTTATTAA-AATTTAATA-ATATATT
* *
88322321 TTTTTAT-AATTTTTAATATTTTAATATTTTATTAAAATTTAATAATAT
1 TTTTTATAAAATTTT-ACATTTTAATATTTTATTAAAATTTAATAATAT
88322369 TTATAGCTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
50 6 0.15
51 17 0.41
52 14 0.34
53 4 0.10
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (51 bp):
TTTTTATAAAATTTTACATTTTAATATTTTATTAAAATTTAATAATATATT
Found at i:88322359 original size:28 final size:29
Alignment explanation
Indices: 88322316--88322370 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
88322306 TTTTATATAT
* * *
88322316 ATATTTTTTTATAATTT-TTAATATTTTA
1 ATATTTTATTAAAATTTAATAATATTTTA
88322344 ATATTTTATTAAAATTTAATAATATTT
1 ATATTTTATTAAAATTTAATAATATTT
88322371 ATAGCTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
ATATTTTATTAAAATTTAATAATATTTTA
Found at i:88325136 original size:16 final size:15
Alignment explanation
Indices: 88325115--88325157 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
88325105 CTTAAAAGTT
88325115 TACTATTATAGCGAAA
1 TACTATTATAGC-AAA
*
88325131 TACTATTATAACAAA
1 TACTATTATAGCAAA
88325146 TGACTATTATAG
1 T-ACTATTATAG
88325158 AGAGAGCTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (15 bp):
TACTATTATAGCAAA
Found at i:88325617 original size:21 final size:20
Alignment explanation
Indices: 88325584--88325622 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
88325574 AACAAAATTG
*
88325584 AGCAATTGAAATGGTATAGA
1 AGCAATTGAAATGCTATAGA
*
88325604 AGCATATTGTAATGCTATA
1 AGCA-ATTGAAATGCTATA
88325623 AATCTCTATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (20 bp):
AGCAATTGAAATGCTATAGA
Found at i:88331022 original size:35 final size:35
Alignment explanation
Indices: 88330975--88331050 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
88330965 CATACTTCTA
*
88330975 ATTTT-TCATTAGAACAATATTTTGATTTTTTAGT
1 ATTTTATCATTAGAACAATATTTTGATTTTTTAGG
* * *
88331009 ATTTTATCTTTAGAATAATTTTTTGATTTTTTAGG
1 ATTTTATCATTAGAACAATATTTTGATTTTTTAGG
88331044 ATTTTAT
1 ATTTTAT
88331051 TATTTTATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 5 0.14
35 32 0.86
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (35 bp):
ATTTTATCATTAGAACAATATTTTGATTTTTTAGG
Found at i:88333774 original size:21 final size:21
Alignment explanation
Indices: 88333748--88333788 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
88333738 AGCAAGCTAT
88333748 TCTTCGGCAAGGGAGATTGTG
1 TCTTCGGCAAGGGAGATTGTG
88333769 TCTTCGGCAAGGGAGATTGT
1 TCTTCGGCAAGGGAGATTGT
88333789 ATCAGACTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.37, T:0.29
Consensus pattern (21 bp):
TCTTCGGCAAGGGAGATTGTG
Found at i:88339882 original size:21 final size:21
Alignment explanation
Indices: 88339857--88339898 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
88339847 AACTTACCCC
88339857 TTCTTGTTTATCTGTACAAGT
1 TTCTTGTTTATCTGTACAAGT
88339878 TTCTTGTTTATCTGTACAAGT
1 TTCTTGTTTATCTGTACAAGT
88339899 AATCCCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.52
Consensus pattern (21 bp):
TTCTTGTTTATCTGTACAAGT
Found at i:88342554 original size:21 final size:22
Alignment explanation
Indices: 88342528--88342568 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
88342518 TGTATTTTTG
88342528 TGTTTAATGG-TAGA-AAATGCA
1 TGTTT-ATGGTTAGAGAAATGCA
88342549 TGTTTATGGTTAGAGAAATG
1 TGTTTATGGTTAGAGAAATG
88342569 ACTTTTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.37
Consensus pattern (22 bp):
TGTTTATGGTTAGAGAAATGCA
Found at i:88343192 original size:48 final size:48
Alignment explanation
Indices: 88343136--88343278 Score: 223
Period size: 48 Copynumber: 3.0 Consensus size: 48
88343126 CATTAGGGTT
* * *
88343136 ATATGAGATCCCATGTAAGACCATGGCTGGGACATGACATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA
*
88343184 ATATGAGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCA
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA
* * *
88343232 ATATGACATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
88343279 TTACTATGTG
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA
Found at i:88346707 original size:34 final size:34
Alignment explanation
Indices: 88346667--88346737 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
88346657 ACTTTTTATG
88346667 CTAGGCTCCCAATCTTTTACTCTTCATCTGAAAC
1 CTAGGCTCCCAATCTTTTACTCTTCATCTGAAAC
*
88346701 CTAGGCTCCCAATCTTTTACTTTTCATCTGAAAC
1 CTAGGCTCCCAATCTTTTACTCTTCATCTGAAAC
88346735 CTA
1 CTA
88346738 CAATATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.24, C:0.31, G:0.08, T:0.37
Consensus pattern (34 bp):
CTAGGCTCCCAATCTTTTACTCTTCATCTGAAAC
Found at i:88347670 original size:22 final size:22
Alignment explanation
Indices: 88347628--88347669 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
88347618 TAAAATTACA
88347628 AAAAAAATTTAAAATAATTTTC
1 AAAAAAATTTAAAATAATTTTC
88347650 AAAAAAA-TTAAAATAATTTT
1 AAAAAAATTTAAAATAATTTT
88347670 TAGAGTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAAAAATTTAAAATAATTTTC
Found at i:88356808 original size:34 final size:34
Alignment explanation
Indices: 88356769--88356840 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
88356759 CTTCCAAAGT
88356769 ATGTTTAGGGCCTCGAAGGCTTGAATTAGGGATA
1 ATGTTTAGGGCCTCGAAGGCTTGAATTAGGGATA
*
88356803 ATGTTTAGGGCCTCGAAGGCTTGTATTAGGGATA
1 ATGTTTAGGGCCTCGAAGGCTTGAATTAGGGATA
88356837 ATGT
1 ATGT
88356841 GATTGTCTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.25, C:0.11, G:0.32, T:0.32
Consensus pattern (34 bp):
ATGTTTAGGGCCTCGAAGGCTTGAATTAGGGATA
Found at i:88360401 original size:62 final size:62
Alignment explanation
Indices: 88360326--88360450 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
88360316 GTCTGAGGAT
88360326 CATGTACATATTAATCACTATGAGTAATGTTGTGACAATTGCATAATAATCCAAGAAACATA
1 CATGTACATATTAATCACTATGAGTAATGTTGTGACAATTGCATAATAATCCAAGAAACATA
88360388 CATGTACATATTAATCACTATGAGTAATGTTGTGACAATTGCATAATAATCCAAGAAACATA
1 CATGTACATATTAATCACTATGAGTAATGTTGTGACAATTGCATAATAATCCAAGAAACATA
88360450 C
1 C
88360451 TCATAGCGGG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (62 bp):
CATGTACATATTAATCACTATGAGTAATGTTGTGACAATTGCATAATAATCCAAGAAACATA
Found at i:88365824 original size:15 final size:16
Alignment explanation
Indices: 88365804--88365841 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
88365794 ATTAAGTACT
88365804 AATTTTTT-AGTCTTA
1 AATTTTTTAAGTCTTA
* *
88365819 AATTTTTTAAGTGTTC
1 AATTTTTTAAGTCTTA
88365835 AATTTTT
1 AATTTTT
88365842 ATTAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (16 bp):
AATTTTTTAAGTCTTA
Found at i:88366531 original size:17 final size:18
Alignment explanation
Indices: 88366500--88366533 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
88366490 TTTGTCTTTT
*
88366500 AATACTTTTACATAAAAA
1 AATACTTTTAAATAAAAA
88366518 AATA-TTTTAAATAAAA
1 AATACTTTTAAATAAAA
88366534 CAACTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
AATACTTTTAAATAAAAA
Found at i:88370102 original size:3 final size:3
Alignment explanation
Indices: 88370094--88370130 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
88370084 TTTTTAAAGC
88370094 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
88370131 GATATTTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:88371814 original size:31 final size:27
Alignment explanation
Indices: 88371779--88371853 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 27
88371769 TTAATTTATA
88371779 TAAAAATTATAAAATAAAATAAAATTATTTT
1 TAAAAATTATAAAATAAAA-AAAA-TA--TT
* *
88371810 TAAAAATTAGAAAATTAAAAAAATATT
1 TAAAAATTATAAAATAAAAAAAATATT
*
88371837 TACAAATTAT-AAATAAA
1 TAAAAATTATAAAATAAA
88371854 TATTTAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.15
27 10 0.26
29 2 0.05
30 4 0.10
31 17 0.44
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (27 bp):
TAAAAATTATAAAATAAAAAAAATATT
Found at i:88371845 original size:19 final size:21
Alignment explanation
Indices: 88371821--88371872 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
88371811 AAAAATTAGA
88371821 AAATTA-AAA-AAATATTTAC
1 AAATTATAAATAAATATTTAC
88371840 AAATTATAAATAAATATTTA-
1 AAATTATAAATAAATATTTAC
*
88371860 ATATATATAAATA
1 AAAT-TATAAATA
88371873 CATAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 6 0.21
20 6 0.21
21 17 0.59
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTATAAATAAATATTTAC
Found at i:88373503 original size:14 final size:14
Alignment explanation
Indices: 88373484--88373519 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
88373474 TTGTTTAATT
88373484 GAAAATGATTTCCG
1 GAAAATGATTTCCG
* *
88373498 GAAAATAATTTCTG
1 GAAAATGATTTCCG
88373512 GAAAATGA
1 GAAAATGA
88373520 CTTACTTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.28
Consensus pattern (14 bp):
GAAAATGATTTCCG
Found at i:88375501 original size:5 final size:5
Alignment explanation
Indices: 88375482--88375515 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
88375472 TTTGTGTGTT
88375482 TTTTA TTTT- TATTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTT
88375516 TTCACAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 25 0.93
6 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:88379934 original size:5 final size:5
Alignment explanation
Indices: 88379924--88379961 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
88379914 AATTTGTGTG
*
88379924 TTATT TTATT TTTTCT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
88379962 TTTCACACTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:88382677 original size:12 final size:13
Alignment explanation
Indices: 88382650--88382676 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88382640 TTAGTTTAGT
88382650 AATGTTTTTTAAA
1 AATGTTTTTTAAA
88382663 AATGTTTTTTAAA
1 AATGTTTTTTAAA
88382676 A
1 A
88382677 TTACTGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (13 bp):
AATGTTTTTTAAA
Found at i:88384519 original size:20 final size:19
Alignment explanation
Indices: 88384496--88384540 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
88384486 ATGAACTAAA
88384496 ATGAAAATTTGTAAAATTTG
1 ATGAAAATTT-TAAAATTTG
* *
88384516 ATGAAAAATTTTGAAATTTT
1 ATG-AAAATTTTAAAATTTG
88384536 ATGAA
1 ATGAA
88384541 TACATGTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 13 0.59
21 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (19 bp):
ATGAAAATTTTAAAATTTG
Found at i:88386026 original size:19 final size:18
Alignment explanation
Indices: 88385987--88386029 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
88385977 CTTTATTATG
*
88385987 TTTTTGTATTTTAGCATA
1 TTTTTGTATTGTAGCATA
88386005 TTTTATGTATTGTAGC-TGA
1 TTTT-TGTATTGTAGCAT-A
88386024 TTTTTG
1 TTTTTG
88386030 AATCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (18 bp):
TTTTTGTATTGTAGCATA
Found at i:88386233 original size:68 final size:64
Alignment explanation
Indices: 88386123--88386273 Score: 162
Period size: 68 Copynumber: 2.3 Consensus size: 64
88386113 ATACAGATGG
* * * *
88386123 TATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACGAGACA
1 TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAG-ACAAGAGAGCTACG-G-CA
88386187 TTA
63 -TA
* * *
88386190 TGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCACATGGATGATACTGA-GTGCACACCATGTAGACAAGAGAGCTACGGCAT
88386254 A
64 A
*
88386255 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCACATG
88386274 CGTGGTTCCA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 17 0.23
65 3 0.04
66 1 0.01
67 3 0.04
68 48 0.66
69 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAGACAAGAGAGCTACGGCATA
Found at i:88396186 original size:50 final size:50
Alignment explanation
Indices: 88396127--88396230 Score: 129
Period size: 50 Copynumber: 2.1 Consensus size: 50
88396117 ATACGTGTAT
** * * * *
88396127 GCTCATACGAGCT-ATGAATCGGTATGCTCTCATAAGTTGTAAATCGGTAA
1 GCTCATACGAGCTGA-GAATCAATAAGCTCTCACAAGCTGCAAATCGGTAA
*
88396177 GCTCATACGAGCTGAGAATCAATAAGCTCTCACGAGCTGCAAATCGGTAA
1 GCTCATACGAGCTGAGAATCAATAAGCTCTCACAAGCTGCAAATCGGTAA
88396227 GCTC
1 GCTC
88396231 TCACAAGCTA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
50 45 0.98
51 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (50 bp):
GCTCATACGAGCTGAGAATCAATAAGCTCTCACAAGCTGCAAATCGGTAA
Found at i:88396196 original size:25 final size:25
Alignment explanation
Indices: 88396127--88396276 Score: 91
Period size: 25 Copynumber: 6.0 Consensus size: 25
88396117 ATACGTGTAT
*
88396127 GCTCATACGAGCT-ATGAATCGGTAT
1 GCTCATACGAGCTGA-GAATCGGTAA
*
88396152 GCTCTCATA--AGTTGTA-AATCGGTAA
1 G--CTCATACGAGCTG-AGAATCGGTAA
**
88396177 GCTCATACGAGCTGAGAATCAATAA
1 GCTCATACGAGCTGAGAATCGGTAA
88396202 GCTC-TCACGAGCTGCA-AATCGGTAA
1 GCTCAT-ACGAGCTG-AGAATCGGTAA
* * *
88396227 GCTC-TCACAAGCT-ACAAATTGGTAA
1 GCTCAT-ACGAGCTGA-GAATCGGTAA
* *
88396252 GCTCATACGAACTGAGAATTGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
88396277 CCCTAATAAC
Statistics
Matches: 100, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
23 7 0.07
24 2 0.02
25 81 0.81
26 3 0.03
27 7 0.07
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGGTAA
Found at i:88402806 original size:22 final size:22
Alignment explanation
Indices: 88402779--88402855 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
88402769 CATGCATATG
88402779 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
88402801 TGTGATGAATG-TGAACAT-GCACATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
88402826 TGTGATAAGGCCGAATGACCAA
1 TGTGATAAGGCCGAATGGCCAA
88402848 TGTGATAA
1 TGTGATAA
88402856 ATGTGAACAT
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 16 0.37
23 10 0.23
24 9 0.21
25 8 0.19
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.23
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:88402821 original size:47 final size:47
Alignment explanation
Indices: 88402752--88402943 Score: 278
Period size: 47 Copynumber: 4.1 Consensus size: 47
88402742 AGCCAAGGCA
*
88402752 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
88402799 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGACC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
88402846 AATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * * *
88402893 AATGTGATGAACGTGGAA-GTGTATATATGTGATAAAGCCGAATGGCT
1 AATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCC
88402940 AATG
1 AATG
88402944 CGAAATGTGT
Statistics
Matches: 130, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 127 0.98
48 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:88402900 original size:22 final size:22
Alignment explanation
Indices: 88402779--88402900 Score: 58
Period size: 22 Copynumber: 5.3 Consensus size: 22
88402769 CATGCATATG
*
88402779 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
88402801 TGTGATGAATGTG-A-ACAT-GCACATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
* *
88402826 TGTGATAAGGCCGAATGACCAA
1 TGTGATAAGGCAGAATGGCCAA
*
88402848 TGTGATAAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
88402873 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
88402895 TGTGAT
1 TGTGAT
88402901 GAACGTGGAA
Statistics
Matches: 75, Mismatches: 7, Indels: 36
0.64 0.06 0.31
Matches are distributed among these distances:
22 22 0.29
23 19 0.25
24 18 0.24
25 16 0.21
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:88402975 original size:46 final size:46
Alignment explanation
Indices: 88402917--88403007 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
88402907 GGAAGTGTAT
* *
88402917 ATATGTGATAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGATAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
88402963 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGATAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
88403008 AGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.27
Consensus pattern (46 bp):
ATATGTGATAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:88404774 original size:40 final size:40
Alignment explanation
Indices: 88404714--88405125 Score: 761
Period size: 40 Copynumber: 10.3 Consensus size: 40
88404704 ATTCGAATGA
88404714 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
**
88404754 TATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
88404794 TATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
88404834 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
88404874 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
88404914 CATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
88404954 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
88404994 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
88405034 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
88405074 TATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
88405114 TATCCGGGCTAA
1 TATCCGGGCTAA
88405126 ACCTTGAAGG
Statistics
Matches: 362, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 362 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
Found at i:88404947 original size:23 final size:23
Alignment explanation
Indices: 88404841--88404947 Score: 67
Period size: 23 Copynumber: 5.2 Consensus size: 23
88404831 ATGTATCCGG
88404841 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
* * * *
88404864 GCT-AGT---G-A-TGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGT
88404881 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
* * *
88404904 GCT-AGT---G-A-TGCATCCGG
1 GCTAAGTCCCGAAGAGCATTCGT
88404921 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
88404944 GCTA
1 GCTA
88404948 GTGATGTATC
Statistics
Matches: 58, Mismatches: 14, Indels: 24
0.60 0.15 0.25
Matches are distributed among these distances:
17 17 0.29
18 8 0.14
19 2 0.03
21 2 0.03
22 8 0.14
23 21 0.36
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (23 bp):
GCTAAGTCCCGAAGAGCATTCGT
Found at i:88405262 original size:57 final size:57
Alignment explanation
Indices: 88405153--88405263 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 57
88405143 GCTGGAATCA
* *
88405153 TGAGGCACTGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAAATCAGTAGT
* * * **
88405210 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCACTATGTGTGTGAAATCAGT
1 TGAGGCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAAATCAGT
88405264 CAGTGGGCAC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAAATCAGTAGT
Found at i:88413197 original size:47 final size:47
Alignment explanation
Indices: 88413132--88413328 Score: 286
Period size: 47 Copynumber: 4.2 Consensus size: 47
88413122 CATGGAAACA
* * ** *
88413132 TGTGATATGTGATTTCTGTATAAGACCATAGCTGGCCTATGGCATCGG
1 TGTGATATGTG-CTTCTGTATAAGACCATATCTGGGATATGGCATCAG
*
88413180 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCGTCAG
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
* *
88413227 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGAATCAA
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
* **
88413274 TGTGATATGTGCTTCTGTGTAAGACCATATCCAGGATATGGCATCAG
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
88413321 TGTGATAT
1 TGTGATAT
88413329 ATGATCCATG
Statistics
Matches: 135, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 124 0.92
48 11 0.08
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (47 bp):
TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
Found at i:88418232 original size:47 final size:47
Alignment explanation
Indices: 88418167--88418363 Score: 295
Period size: 47 Copynumber: 4.2 Consensus size: 47
88418157 CATGGAAACA
* * ** *
88418167 TGTGATATGTGATTTCTGTATAAGACCATAGCTGGCCTATGGCATCGG
1 TGTGATATGTG-CTTCTGTATAAGACCATATCTGGGATATGGCATCAG
*
88418215 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCGTCAG
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
* *
88418262 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGAATCAA
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
* *
88418309 TGTGATATGTGCTTCTGTGTAAGACCATATCTAGGATATGGCATCAG
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
88418356 TGTGATAT
1 TGTGATAT
88418364 ATGATCCATG
Statistics
Matches: 136, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
47 125 0.92
48 11 0.08
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (47 bp):
TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
Found at i:88432170 original size:19 final size:19
Alignment explanation
Indices: 88432113--88432171 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
88432103 GCTTATGCGC
*
88432113 CAAGATGCACC-TCGTGTGT
1 CAAGATGC-CCTTTGTGTGT
* *
88432132 CAAGATGCCCTTTATATGT
1 CAAGATGCCCTTTGTGTGT
* *
88432151 CAATATGCGCTTTGTGTGT
1 CAAGATGCCCTTTGTGTGT
88432170 CA
1 CA
88432172 GGACGCACTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
18 2 0.06
19 30 0.94
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (19 bp):
CAAGATGCCCTTTGTGTGT
Found at i:88435887 original size:10 final size:10
Alignment explanation
Indices: 88435872--88435911 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
88435862 GGGTATTTTA
88435872 TATTTAAAAT
1 TATTTAAAAT
*
88435882 TATTTAAAAA
1 TATTTAAAAT
* *
88435892 AATATAAAAT
1 TATTTAAAAT
88435902 TATTTAAAAT
1 TATTTAAAAT
88435912 AATAAATAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TATTTAAAAT
Done.