Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 141 of 325
Found at i:43031417 original size:43 final size:43
Alignment explanation
Indices: 43031360--43031464 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 43
43031350 TACTGAGATG
* * *
43031360 TGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTTATA
1 TGATTACGTATAAGACCATGTCTGGGACAGTAGCATCGATATA
* * * * *
43031403 TGATTTCGTATAAGACCCTGTCTTGGACAGTGGCATCGATATG
1 TGATTACGTATAAGACCATGTCTGGGACAGTAGCATCGATATA
* * *
43031446 TGATAACATGTAAGACCAT
1 TGATTACGTATAAGACCAT
43031465 ATTTGGGATA
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
TGATTACGTATAAGACCATGTCTGGGACAGTAGCATCGATATA
Found at i:43035361 original size:22 final size:22
Alignment explanation
Indices: 43035336--43035402 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
43035326 AATGTATTTA
43035336 TAAAGGTTATAATGGTAATTAG
1 TAAAGGTTATAATGGTAATTAG
** *
43035358 TAAA--TT-GCATGTGTATTTA-
1 TAAAGGTTATAATG-GTAATTAG
43035377 TAAAGGTTATAATGGTAATTAG
1 TAAAGGTTATAATGGTAATTAG
43035399 TAAA
1 TAAA
43035403 TTGCATGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
19 7 0.21
20 8 0.24
21 8 0.24
22 11 0.32
ACGTcount: A:0.40, C:0.01, G:0.19, T:0.39
Consensus pattern (22 bp):
TAAAGGTTATAATGGTAATTAG
Found at i:43035385 original size:41 final size:41
Alignment explanation
Indices: 43035328--43035410 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
43035318 GAAAGTTAAA
43035328 TGTATTTATAAAGGTTATAATGGTAATTAGTAAATTGCATG
1 TGTATTTATAAAGGTTATAATGGTAATTAGTAAATTGCATG
43035369 TGTATTTATAAAGGTTATAATGGTAATTAGTAAATTGCATG
1 TGTATTTATAAAGGTTATAATGGTAATTAGTAAATTGCATG
43035410 T
1 T
43035411 AAATTAACTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.42
Consensus pattern (41 bp):
TGTATTTATAAAGGTTATAATGGTAATTAGTAAATTGCATG
Found at i:43036278 original size:40 final size:40
Alignment explanation
Indices: 43036200--43036286 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
43036190 GTTTGGTAGA
* *
43036200 AAGTGTGCGAGTTGTAATAACTTCAGCTACAAATGGCACT
1 AAGTGTGCGAATTGGAATAACTTCAGCTACAAATGGCACT
* * * *
43036240 AATTGTGCGAATTGGAATAGCTTCGGCTACATGA-GGCACT
1 AAGTGTGCGAATTGGAATAACTTCAGCTACA-AATGGCACT
43036280 AAGTGTG
1 AAGTGTG
43036287 TGATACTGAG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (40 bp):
AAGTGTGCGAATTGGAATAACTTCAGCTACAAATGGCACT
Found at i:43040203 original size:27 final size:27
Alignment explanation
Indices: 43040127--43040216 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
43040117 TTTAGTTTAC
* *
43040127 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
43040154 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
43040181 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
43040208 TAAAATTAC
1 TAAAATTAC
43040217 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:43040226 original size:54 final size:54
Alignment explanation
Indices: 43040127--43040233 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
43040117 TTTAGTTTAC
* * *
43040127 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
43040181 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
43040234 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:43040252 original size:27 final size:26
Alignment explanation
Indices: 43040222--43040431 Score: 253
Period size: 27 Copynumber: 7.8 Consensus size: 26
43040212 ATTACCAAAG
*
43040222 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
*
43040249 TACCC-CGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
*
43040275 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTA-CGTTT
*
43040302 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
43040329 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTAC-GTTT
* *
43040356 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTAC-GTTT
* *
43040383 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTAC-GTTT
*
43040410 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
43040432 TAAAATACCC
Statistics
Matches: 166, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
26 26 0.16
27 139 0.84
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.39
Consensus pattern (26 bp):
TACCCTCGATTTACAGAATTACGTTT
Found at i:43040440 original size:27 final size:27
Alignment explanation
Indices: 43040329--43040578 Score: 118
Period size: 27 Copynumber: 9.2 Consensus size: 27
43040319 ATTACCGTTT
* ***
43040329 TACCCTCGATTTACAGAATTAC-AGTTT
1 TACCCTCGATTTACAAAATTACTA-AAA
* * ***
43040356 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
43040383 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
43040410 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* *** **
43040437 TACCCT-TAGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* ** *
43040464 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
43040491 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
43040518 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * *
43040547 TACCAT-GGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
43040573 TACCCT
1 TACCCT
43040579 TGGTTTGTAG
Statistics
Matches: 184, Mismatches: 27, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
26 18 0.10
27 143 0.78
28 7 0.04
29 16 0.09
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:43040441 original size:81 final size:81
Alignment explanation
Indices: 43040168--43040442 Score: 218
Period size: 81 Copynumber: 3.4 Consensus size: 81
43040158 AATACTGAAA
** * * * * * *** *
43040168 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
43040233 TACAGAATTA-TCGTTT
66 TACAGAATTACT-GTTT
* ***** * * *
43040249 TACCC-CGATTTACATAATTACCGTTTTACCC-CTGATTTACATAATTA-TCGTTTTACCCTCGA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTC-GATTTATAAAATTACT-ATTTTACCCTCGA
* *
43040311 CTTACAGAATTACCGTTT
64 TTTACAGAATTACTGTTT
* *** * *
43040329 TACCCTCGATTTACAGAATTAC-AGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGAT
1 TACCCTCGATTTACAAAATTACTA-AAATACCCTCGATTTATAAAATTACTATTTTACCCTCGAT
*
43040393 TTACAGAATTACTATTT
65 TTACAGAATTACTGTTT
43040410 TACCCTCGATTTACAAAATTACTAAAATACCCT
1 TACCCTCGATTTACAAAATTACTAAAATACCCT
43040443 TAGTTTGTGA
Statistics
Matches: 153, Mismatches: 33, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
79 1 0.01
80 56 0.37
81 93 0.61
82 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
TACAGAATTACTGTTT
Found at i:43040584 original size:27 final size:27
Alignment explanation
Indices: 43040383--43040580 Score: 127
Period size: 27 Copynumber: 7.3 Consensus size: 27
43040373 ATTACTATTT
* **
43040383 TACCCTTGATTTACAGAATTACT-ATTT
1 TACCCTTGATTTACAAAATTACTGA-AA
* *
43040410 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
*** *
43040437 TACCCTT-AGTTTGTGAAATTACCGAAA
1 TACCCTTGA-TTTACAAAATTACTGAAA
** ** **
43040464 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
* * *
43040491 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
43040518 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACT-GAAA
* *
43040547 TA-CCATGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
43040573 TACCCTTG
1 TACCCTTG
43040581 GTTTGTAGAT
Statistics
Matches: 134, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
26 14 0.10
27 98 0.73
28 10 0.07
29 12 0.09
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTGAAA
Found at i:43040702 original size:27 final size:27
Alignment explanation
Indices: 43040625--43040702 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
43040615 AAATGACTAA
*
43040625 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTATAT-GGTAAAATGACCGT
* * *
43040652 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTATATGGTAAAATGACCGT
43040679 AATACCCCTATATGGTAAAATGAC
1 AATACCCCTATATGGTAAAATGAC
43040703 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (27 bp):
AATACCCCTATATGGTAAAATGACCGT
Found at i:43041966 original size:9 final size:9
Alignment explanation
Indices: 43041954--43042030 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
43041944 TTTGATAAAC
43041954 ATGATATGT
1 ATGATATGT
*
43041963 ATGATATGCAC
1 ATGATATG--T
43041974 ATGATATGT
1 ATGATATGT
*
43041983 ATGATATGCAC
1 ATGATATG--T
*
43041994 ATGACATGT
1 ATGATATGT
*
43042003 ATGATATGCAC
1 ATGATATG--T
*
43042014 ATCATATGT
1 ATGATATGT
43042023 ATGATATG
1 ATGATATG
43042031 CACACGAGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:43041977 original size:20 final size:20
Alignment explanation
Indices: 43041952--43042034 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
43041942 ATTTTGATAA
43041952 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
43041972 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
43041992 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
43042012 ACATCATATGTATGATATGC
1 ACATGATATGTATGATATGC
43042032 ACA
1 ACA
43042035 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:43041979 original size:11 final size:11
Alignment explanation
Indices: 43041963--43042034 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
43041953 CATGATATGT
43041963 ATGATATGCAC
1 ATGATATGCAC
*
43041974 ATGATATG--T
1 ATGATATGCAC
43041983 ATGATATGCAC
1 ATGATATGCAC
* *
43041994 ATGACATG--T
1 ATGATATGCAC
43042003 ATGATATGCAC
1 ATGATATGCAC
* *
43042014 ATCATATG--T
1 ATGATATGCAC
43042023 ATGATATGCAC
1 ATGATATGCAC
43042034 A
1 A
43042035 CGAGATGTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
9 22 0.49
11 23 0.51
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:43042144 original size:24 final size:23
Alignment explanation
Indices: 43042088--43042253 Score: 219
Period size: 24 Copynumber: 7.0 Consensus size: 23
43042078 GAGGAACTGA
43042088 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
43042111 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
43042134 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
43042158 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
43042182 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
43042206 AAAAGGGCTT-TGCCCTAGTTGTT
1 AAAAGGGCTTATGCCCCAGTT-AT
*
43042229 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43042253 A
1 A
43042254 TGATAAAGCA
Statistics
Matches: 128, Mismatches: 9, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
23 59 0.46
24 64 0.50
25 5 0.04
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:43042204 original size:71 final size:70
Alignment explanation
Indices: 43042088--43042252 Score: 251
Period size: 71 Copynumber: 2.3 Consensus size: 70
43042078 GAGGAACTGA
43042088 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTT-TGCCCCA
43042153 GTTATC
65 GTTATC
* *
43042159 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCTAG
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGCCCCAG
* *
43042224 TTGTT
66 TTATC
*
43042229 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43042253 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
70 20 0.23
71 67 0.77
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (70 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGCCCCAG
TTATC
Found at i:43042232 original size:23 final size:24
Alignment explanation
Indices: 43042088--43042252 Score: 239
Period size: 23 Copynumber: 7.0 Consensus size: 24
43042078 GAGGAACTGA
43042088 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
43042112 -AAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
43042135 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
43042159 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
43042183 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
43042206 AAAAGGGCTT-TGCCCTAGTTGTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
43042229 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43042253 ATGATAAAGC
Statistics
Matches: 129, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
23 62 0.48
24 61 0.47
25 6 0.05
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:43052130 original size:38 final size:38
Alignment explanation
Indices: 43052088--43052180 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
43052078 TAAAGACCCG
* *
43052088 CAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCCCA
1 CAGGCTTCGTGCTGGTAAAATATCAGGGATAAATCCCA
** *
43052126 CAGGCTTCGTGCTGGTATTATATCAGGGATAAATCCCG
1 CAGGCTTCGTGCTGGTAAAATATCAGGGATAAATCCCA
* * *
43052164 TAGGCCTAGTGCTGGTA
1 CAGGCTTCGTGCTGGTA
43052181 TTATATTTGG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTAAAATATCAGGGATAAATCCCA
Found at i:43052523 original size:43 final size:43
Alignment explanation
Indices: 43052192--43052508 Score: 544
Period size: 43 Copynumber: 7.4 Consensus size: 43
43052182 TATATTTGGT
*
43052192 CCTTCGTGCCTAGGAGGCTTCGTGCCGGTGATGTGTATTCGGG
1 CCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGG
* *
43052235 CCTTCGTGTCTAGCAGGCTTCGTGCCGGTGATGTATATTCGGG
1 CCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGG
*
43052278 CCTTCGTGCCTAGCAGGCTTCGTGCCGGTAATGTGTATTCGGG
1 CCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGG
* *
43052321 CCTTCGTGCATAGCAGGCTTCGTGTCGGTGATGTGTATTCGGG
1 CCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGG
* *
43052364 CCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTATATTCGGG
1 CCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGG
* *
43052407 CCTTTGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTTGGG
1 CCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGG
43052450 CCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGG
1 CCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGG
43052493 CCTTCGTGCCTAGCAG
1 CCTTCGTGCCTAGCAG
43052509 ACGTAATGCC
Statistics
Matches: 255, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 255 1.00
ACGTcount: A:0.11, C:0.24, G:0.34, T:0.32
Consensus pattern (43 bp):
CCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGG
Found at i:43057632 original size:40 final size:40
Alignment explanation
Indices: 43057547--43057624 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
43057537 TGATTAAGTT
*
43057547 TGGCAGTAAGTGTGCGAGTTGGAATAACTTCGGCTACAAA
1 TGGCACTAAGTGTGCGAGTTGGAATAACTTCGGCTACAAA
* *
43057587 TGGCACTAATTGTGCGAGTTGGAATAGCTTCGGCTACA
1 TGGCACTAAGTGTGCGAGTTGGAATAACTTCGGCTACA
43057625 TGAGGCACGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (40 bp):
TGGCACTAAGTGTGCGAGTTGGAATAACTTCGGCTACAAA
Found at i:43058303 original size:21 final size:20
Alignment explanation
Indices: 43058261--43058305 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
43058251 TAAGTAAGAA
*
43058261 ATGTGATGTTTATAATGTTC
1 ATGTGATGTTTAAAATGTTC
43058281 ATGTGATAGTTTAAATATG-TC
1 ATGTGAT-GTTTAAA-ATGTTC
43058302 ATGT
1 ATGT
43058306 TGAATTGGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 12 0.55
22 3 0.14
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (20 bp):
ATGTGATGTTTAAAATGTTC
Found at i:43065218 original size:19 final size:19
Alignment explanation
Indices: 43065194--43065232 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
43065184 GTTCGATACC
43065194 TATGTGGTAGATGATTCTA
1 TATGTGGTAGATGATTCTA
43065213 TATGTGGTAGATGATTCTA
1 TATGTGGTAGATGATTCTA
43065232 T
1 T
43065233 GTGTATGAAC
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:0.26, C:0.05, G:0.26, T:0.44
Consensus pattern (19 bp):
TATGTGGTAGATGATTCTA
Found at i:43067838 original size:10 final size:10
Alignment explanation
Indices: 43067823--43067858 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
43067813 CACCGGTCAG
*
43067823 ACAGAACATT
1 ACAGAACAAT
43067833 ACAGAACAAT
1 ACAGAACAAT
43067843 ACAGAACAAT
1 ACAGAACAAT
43067853 ACAGAA
1 ACAGAA
43067859 TCACTGGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.58, C:0.19, G:0.11, T:0.11
Consensus pattern (10 bp):
ACAGAACAAT
Found at i:43080475 original size:40 final size:40
Alignment explanation
Indices: 43080397--43080620 Score: 256
Period size: 40 Copynumber: 5.5 Consensus size: 40
43080387 ACCCAAGTAT
* *
43080397 CTTCGGGATTTAGCC-GGATATAG-CAACTTGCACAAATGC
1 CTTCGGGACTTAGCCTGGATATAGTC-ACTAGCACAAATGC
* **
43080436 CTTCGGGTCTTAGCCTGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
**
43080476 CTTCGGGACTTAGCCTGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
* *
43080516 CTTCGGGACTTAGCCTGGGTATAG-CAACTACTCGGACAAATGC
1 CTTCGGGACTTAGCCTGGATATAGTC-ACTA---GCACAAATGC
* * * *
43080559 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATAC
1 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
*
43080599 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCTGGATAT
43080621 CATCCGAATA
Statistics
Matches: 162, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 14 0.09
40 115 0.71
41 1 0.01
43 32 0.20
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
Found at i:43080581 original size:83 final size:80
Alignment explanation
Indices: 43080397--43080620 Score: 265
Period size: 83 Copynumber: 2.8 Consensus size: 80
43080387 ACCCAAGTAT
* *
43080397 CTTCGGGATTTAG-CCGGATATAG-CAACTTGCACAAATGCCTTCGGGTCTTAGCCTGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTTGCACAAATGCCTTCGGGACTTAGCCTGGATATAG
**
43080460 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
* * ** *
43080476 CTTCGGGACTTAGCCTGGATATAGTCACTAGCATGAATGCCTTCGGGACTTAGCCTGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTTGCACAAATGCCTTCGGGACTTAGCCTGGATATAGT
*
43080540 CAACTACTCGGACAAATGC
66 C-ACTA---GCACAAATGC
* * *
43080559 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATACCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTTGCACAAATGCCTTCGGGACTTAGCCTGGATAT
43080621 CATCCGAATA
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
79 13 0.11
80 46 0.38
81 1 0.01
83 61 0.50
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTTGCACAAATGCCTTCGGGACTTAGCCTGGATATAGT
CACTAGCACAAATGC
Found at i:43090671 original size:39 final size:40
Alignment explanation
Indices: 43090499--43090675 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
43090489 ACCAAGGCCA
* * * * * *
43090499 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * *
43090538 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCAC-AATTGCCTT
*
43090578 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * * * *
43090618 CGGGTCTTAACCCGGATATAATTTC-AGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
*
43090657 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
43090676 CATTCAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 39 0.33
40 77 0.65
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
Found at i:43098597 original size:40 final size:40
Alignment explanation
Indices: 43098538--43098706 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
43098528 CGGGACTTTA
* * *
43098538 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
43098578 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
43098618 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
43098658 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
43098698 CCCGGATAT
1 CCCGGATAT
43098707 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:43101724 original size:47 final size:47
Alignment explanation
Indices: 43101670--43101907 Score: 386
Period size: 47 Copynumber: 5.1 Consensus size: 47
43101660 GATTTTATGA
** * * *
43101670 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
43101717 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
43101764 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
43101811 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* ** *
43101858 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
43101905 GAT
1 GAT
43101908 AAACGTGGAA
Statistics
Matches: 180, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 180 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:43101766 original size:22 final size:22
Alignment explanation
Indices: 43101739--43101860 Score: 72
Period size: 22 Copynumber: 5.3 Consensus size: 22
43101729 CATGCATATG
43101739 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
43101761 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
43101786 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
43101808 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
43101833 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
43101855 TGTGAT
1 TGTGAT
43101861 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 28
0.65 0.11 0.25
Matches are distributed among these distances:
22 22 0.30
23 18 0.24
24 18 0.24
25 16 0.22
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:43101926 original size:94 final size:94
Alignment explanation
Indices: 43101670--43101953 Score: 356
Period size: 94 Copynumber: 3.0 Consensus size: 94
43101660 GATTTTATGA
** * * ** * *
43101670 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
*
43101735 TATGTGTGATAAGGCCGAATGGCCAATGT
66 TATATGTGATAAGGCCGAATGGCCAATGT
* * *
43101764 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
43101829 TATATGTGATAAGGCCGAATGGCCAATGT
66 TATATGTGATAAGGCCGAATGGCCAATGT
* * * * *
43101858 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGTGATAAACGTGGAA-GTGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGT-GAACATGC
** *
43101922 ATATATGTGGCGAA-GCCGAATGGCTAATGT
65 ATATATGT-GATAAGGCCGAATGGCCAATGT
43101952 GA
1 GA
43101954 GATATGTATG
Statistics
Matches: 171, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
94 165 0.96
95 6 0.04
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (94 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
TATATGTGATAAGGCCGAATGGCCAATGT
Found at i:43101926 original size:141 final size:141
Alignment explanation
Indices: 43101670--43101953 Score: 401
Period size: 141 Copynumber: 2.0 Consensus size: 141
43101660 GATTTTATGA
** * *
43101670 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* * * *
43101735 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGT-GATAAGGCCG
66 TATGTGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCATATATGTGGAGAA-GCCG
43101799 AATGGCCAATGT
130 AATGGCCAATGT
*
43101811 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* * * * *
43101876 TATGTGTGATAAGGTAGAATGGCTAATGTGATAAACGTGGAA-GTGTATATATGTGGCGAAGCCG
66 TATGTGTGATAAGGCAGAATGGCCAATGTGATAAACGT-GAACATGCATATATGTGGAGAAGCCG
*
43101940 AATGGCTAATGT
130 AATGGCCAATGT
43101952 GA
1 GA
43101954 GATATGTATG
Statistics
Matches: 126, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
141 120 0.95
142 6 0.05
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (141 bp):
GATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
TATGTGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCATATATGTGGAGAAGCCGA
ATGGCCAATGT
Found at i:43112527 original size:40 final size:39
Alignment explanation
Indices: 43112359--43112529 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
43112349 AGAAATTGAA
* *
43112359 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
43112399 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
43112439 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
43112479 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
43112519 TGATATCCGGG
1 TGATATCCGGG
43112530 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:43114217 original size:39 final size:39
Alignment explanation
Indices: 43114174--43114289 Score: 178
Period size: 39 Copynumber: 3.0 Consensus size: 39
43114164 CCAGACATAT
* * *
43114174 TTCCAGCACGTAGCCTGCGGACCTTAAGTCTGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
*
43114213 TTCCAGCACATAGCCTGCGGAGCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
* *
43114252 TTCTAGCACATAGCCTGCAGACCTTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATA
43114290 CTTCATCACT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
Found at i:43114219 original size:78 final size:78
Alignment explanation
Indices: 43114130--43114281 Score: 182
Period size: 78 Copynumber: 1.9 Consensus size: 78
43114120 TTAAACCCGG
* * * * *
43114130 TATAATACCAGCTCGA-AGCCTGCGG-GACTTTAGCCCAGACATATTTCCAGCACGTAGCCTGCG
1 TATAATACCAGCAC-ATAGCCTGCGGAG-CTTAAGCCCAGACATAATTCCAGCACATAGCCTGCA
43114193 GACCTTAAGTCTGGT
64 GACCTTAAGTCTGGT
* * * * *
43114208 TATAATTCCAGCACATAGCCTGCGGAGCTTAAGTCCGGATATAATTCTAGCACATAGCCTGCAGA
1 TATAATACCAGCACATAGCCTGCGGAGCTTAAGCCCAGACATAATTCCAGCACATAGCCTGCAGA
43114273 CCTTAAGTC
66 CCTTAAGTC
43114282 CGGATATACT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
77 1 0.02
78 60 0.97
79 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (78 bp):
TATAATACCAGCACATAGCCTGCGGAGCTTAAGCCCAGACATAATTCCAGCACATAGCCTGCAGA
CCTTAAGTCTGGT
Found at i:43118504 original size:50 final size:50
Alignment explanation
Indices: 43118384--43118622 Score: 241
Period size: 50 Copynumber: 4.8 Consensus size: 50
43118374 AGGTGCCGAC
* * * * * * * *
43118384 GCCATGTCCCAGACATGGTCTTACATTGGCTCACACA--TCAAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCAAT
** * * * * *
43118432 GCCATGTCCTTGACATGGTCTTATAGTGGCTCTCATCTATCG-GTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG-GCCAAT
** * *
43118482 GCCATGTCCCAGACATTTTCTTACACTAGCTCTAATATCTTGAGGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCAAT
* * *
43118532 GCCATGTTCCAGTCATGGTCTTACACTAGCTCTCATATCTCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCAAT
*
43118582 GCCATGTCCCAGACATGGTCTTACACTAGCCCTCATATCTC
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
43118623 CCTAGCCTAA
Statistics
Matches: 155, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
48 30 0.19
50 124 0.80
51 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCAAT
Found at i:43124341 original size:20 final size:19
Alignment explanation
Indices: 43124318--43124355 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
43124308 CATTTTCCAA
43124318 ATCATAAAACATTATAACAC
1 ATCATAAAACA-TATAACAC
*
43124338 ATCATAAACCATATAACA
1 ATCATAAAACATATAACA
43124356 TATTTCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (19 bp):
ATCATAAAACATATAACAC
Found at i:43124346 original size:19 final size:20
Alignment explanation
Indices: 43124318--43124355 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
43124308 CATTTTCCAA
43124318 ATCATAAAA-CATTATAACAC
1 ATCATAAAACCA-TATAACAC
43124338 ATCAT-AAACCATATAACA
1 ATCATAAAACCATATAACA
43124356 TATTTCCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (20 bp):
ATCATAAAACCATATAACAC
Found at i:43131509 original size:40 final size:40
Alignment explanation
Indices: 43131464--43131593 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
43131454 CGGAATACAA
43131464 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** * *
43131504 CCGGATAGAATGACTCGTACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
43131544 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
43131584 CCGGATATAA
1 CCGGATATAA
43131594 TTTCCAGCAA
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 3 0.04
40 71 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:43162227 original size:47 final size:49
Alignment explanation
Indices: 43162109--43162246 Score: 235
Period size: 51 Copynumber: 2.8 Consensus size: 49
43162099 GTATAAGATA
43162109 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-G-ATG
*
43162160 TATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAA-G-TG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGATG
43162207 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
43162247 AAAATATATG
Statistics
Matches: 85, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
47 41 0.48
49 1 0.01
51 43 0.51
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.31
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGATG
Found at i:43162324 original size:48 final size:48
Alignment explanation
Indices: 43162264--43162393 Score: 206
Period size: 48 Copynumber: 2.7 Consensus size: 48
43162254 ATGTGTGATG
*
43162264 TGTATATGTGGTAAAGCCGAAGGGCTAATGTGAAACATATATAAGATA
1 TGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATATATAAGATA
* * * **
43162312 TGTGTATGTGGTAAAGCCGAATGGCTAATGTAAAATATATATGTGATA
1 TGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATATATAAGATA
43162360 TGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 TGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
43162394 TGTTGTAATA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (48 bp):
TGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATATATAAGATA
Found at i:43162487 original size:37 final size:37
Alignment explanation
Indices: 43162433--43162523 Score: 146
Period size: 37 Copynumber: 2.4 Consensus size: 37
43162423 AACTTGGAAA
*
43162433 TATGTTCCGGGTGAGACCCGATGACCACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACCACGTGTGGAGAT
*
43162471 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACCACGTGTGGAGAT
*
43162508 TATGTTCGGGTAAGAC
1 TATGTCCGGGTAAGAC
43162524 TTCGTAATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACCACGTGTGGAGAT
Found at i:43165933 original size:10 final size:11
Alignment explanation
Indices: 43165918--43166014 Score: 60
Period size: 10 Copynumber: 8.5 Consensus size: 11
43165908 CGTCTCCATC
43165918 TCTTTTC-CTT
1 TCTTTTCTCTT
43165928 TCTTTTCTCTT
1 TCTTTTCTCTT
43165939 TACTTCACTTCTC-T
1 T-CTT---TTCTCTT
*
43165953 TCTCTTCTCTT
1 TCTTTTCTCTT
43165964 CTCTTTTCTTCTT
1 -TCTTTTC-TCTT
43165977 TGCTTTTCT-TT
1 T-CTTTTCTCTT
* *
43165988 TCTTTTTTCTC
1 TCTTTTCTCTT
43165999 TCTTCTT-TCTT
1 TCTT-TTCTCTT
43166010 T-TTTT
1 TCTTTT
43166015 GACAATCATA
Statistics
Matches: 71, Mismatches: 5, Indels: 23
0.72 0.05 0.23
Matches are distributed among these distances:
9 2 0.03
10 20 0.28
11 17 0.24
12 13 0.18
13 12 0.17
14 2 0.03
15 5 0.07
ACGTcount: A:0.02, C:0.28, G:0.01, T:0.69
Consensus pattern (11 bp):
TCTTTTCTCTT
Found at i:43165934 original size:5 final size:5
Alignment explanation
Indices: 43165918--43166011 Score: 52
Period size: 5 Copynumber: 19.2 Consensus size: 5
43165908 CGTCTCCATC
* * * * * * *
43165918 TCTTT TCCTT TCTTT TCTCTT TACTTC ACTTC TCTTC TCTTC TCTTC TCTTT
1 TCTTT TCTTT TCTTT TCT-TT T-CTTT TCTTT TCTTT TCTTT TCTTT TCTTT
* * *
43165970 TC--T TCTTT GCTTT TCTTT TCTTT T-TTC TCTCT TC-TT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
43166012 TTTGACAATC
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
3 3 0.04
4 6 0.08
5 56 0.79
6 4 0.06
7 2 0.03
ACGTcount: A:0.02, C:0.29, G:0.01, T:0.68
Consensus pattern (5 bp):
TCTTT
Found at i:43165974 original size:25 final size:24
Alignment explanation
Indices: 43165946--43166008 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
43165936 CTTTACTTCA
43165946 CTTCTCTTCTCTTCTCTTCTCTTTT
1 CTTCTCTTCT-TTCTCTTCTCTTTT
*
43165971 CTTCT-TTGCTTT-TCTTTTCTTTT
1 CTTCTCTT-CTTTCTCTTCTCTTTT
*
43165994 TTCTCTCTTCTTTCT
1 CT-TCTCTTCTTTCT
43166009 TTTTTTGACA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
23 11 0.34
24 11 0.34
25 10 0.31
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.68
Consensus pattern (24 bp):
CTTCTCTTCTTTCTCTTCTCTTTT
Found at i:43165975 original size:15 final size:15
Alignment explanation
Indices: 43165916--43165975 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
43165906 GTCGTCTCCA
*
43165916 TCTCTTTTCCTTTCTTT
1 TCTCTTTT-C-TTCTCT
* *
43165933 TCTCTTTACTTCACT
1 TCTCTTTTCTTCTCT
*
43165948 TCTCTTCTCTTCTCT
1 TCTCTTTTCTTCTCT
43165963 TCTCTTTTCTTCT
1 TCTCTTTTCTTCT
43165976 TTGCTTTTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
15 28 0.78
16 1 0.03
17 7 0.19
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.63
Consensus pattern (15 bp):
TCTCTTTTCTTCTCT
Found at i:43166006 original size:19 final size:17
Alignment explanation
Indices: 43165960--43166013 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
43165950 TCTTCTCTTC
*
43165960 TCTTCTCTTTTCTTCTTT
1 TCTTTTCTTTTCTT-TTT
*
43165978 GCTTTTCTTTTCTTTTT
1 TCTTTTCTTTTCTTTTT
43165995 TCTCTCTTC-TTTCTTTTT
1 TCT-T-TTCTTTTCTTTTT
43166013 T
1 T
43166014 TGACAATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 5 0.16
18 23 0.74
19 3 0.10
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (17 bp):
TCTTTTCTTTTCTTTTT
Found at i:43169023 original size:31 final size:31
Alignment explanation
Indices: 43168985--43169063 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
43168975 TTTAACGGTT
43168985 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
43169016 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
43169047 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
43169064 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:43169134 original size:42 final size:42
Alignment explanation
Indices: 43169087--43169178 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
43169077 TGGCCCATAG
* ** *
43169087 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
43169129 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
43169171 GCCCATTT
1 GCCCATTT
43169179 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:43169395 original size:26 final size:26
Alignment explanation
Indices: 43169311--43169446 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
43169301 CTGGAGGCCT
43169311 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
43169335 AGCCCTTTTCGGTAAACTAGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
43169360 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
43169386 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
43169412 AGCCCTTTTCAATAAATTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
43169438 AGCCCTTTT
1 AGCCCTTTT
43169447 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 31 0.32
26 57 0.58
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:43169435 original size:52 final size:51
Alignment explanation
Indices: 43169311--43169446 Score: 215
Period size: 52 Copynumber: 2.7 Consensus size: 51
43169301 CTGGAGGCCT
43169311 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTAGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCAA
*
43169360 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCA-A
*
43169412 AGCCCTTTTCAATAAATTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
43169447 GCACTTCCTC
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 10 0.12
51 24 0.30
52 35 0.43
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCAA
Found at i:43170348 original size:27 final size:27
Alignment explanation
Indices: 43170248--43170331 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
43170238 GGGCATATTC
* *
43170248 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
43170275 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
43170302 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
43170329 GTC
1 GTC
43170332 TTTTTACCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:43170423 original size:27 final size:27
Alignment explanation
Indices: 43170390--43170663 Score: 189
Period size: 27 Copynumber: 10.1 Consensus size: 27
43170380 TTGGTAAATC
43170390 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** *
43170417 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACCAAGGGTATTTC-AGTAA-TTT
* * *
43170445 TAGAAAGTCAAGGGTATTTCTA-TAACTT
1 TACAAA-CCAAGGGTATTTC-AGTAATTT
** * * **
43170473 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
*** *
43170500 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* **
43170527 CACAAACC-AGTGGTATTTTGGTAATTT
1 TACAAACCAAG-GGTATTTCAGTAATTT
* * **
43170554 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* *
43170581 TACAAGTCGAA-GGTATTTCAGTAATTT
1 TACAA-ACCAAGGGTATTTCAGTAATTT
* * *
43170608 TACAAATCGAGGGTATTTCAGTATTTT
1 TACAAACCAAGGGTATTTCAGTAATTT
*
43170635 TACAAACTAAGGGTATTTC-GATAATTT
1 TACAAACCAAGGGTATTTCAG-TAATTT
43170662 TA
1 TA
43170664 GTAAACTAAA
Statistics
Matches: 197, Mismatches: 41, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
26 4 0.02
27 160 0.81
28 17 0.09
29 16 0.08
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:43170576 original size:81 final size:81
Alignment explanation
Indices: 43170481--43170663 Score: 242
Period size: 81 Copynumber: 2.3 Consensus size: 81
43170471 TTTGTAAATC
* * *
43170481 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CCAGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTCACAAATCCAG-GGTATTT
**
43170545 TGGTAATTTTACAAACT
65 CAGTAATTTTACAAACT
* * *
43170562 AGGGGTATTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTC
1 AGGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTCACAAATCCAGGGTATTTC
*
43170627 AGTATTTTTACAAACT
66 AGTAATTTTACAAACT
* * *
43170643 AAGGGTATTTCGATAATTTTA
1 AGGGGTATTTTGGTAATTTTA
43170664 GTAAACTAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 86 0.97
82 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTCACAAATCCAGGGTATTTC
AGTAATTTTACAAACT
Found at i:43183452 original size:15 final size:15
Alignment explanation
Indices: 43183432--43183500 Score: 72
Period size: 15 Copynumber: 4.7 Consensus size: 15
43183422 TATCGTATCT
43183432 TGGATTTCTTTATTC
1 TGGATTTCTTTATTC
43183447 TGGATTTCTTTATTC
1 TGGATTTCTTTATTC
*
43183462 TGGGTTT-TTCTA-TC
1 TGGATTTCTT-TATTC
*
43183476 TTGGATTTTTTTATTC
1 -TGGATTTCTTTATTC
*
43183492 -GGTTTTCTT
1 TGGATTTCTT
43183501 GTTATCTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
14 11 0.24
15 31 0.67
16 4 0.09
ACGTcount: A:0.10, C:0.12, G:0.16, T:0.62
Consensus pattern (15 bp):
TGGATTTCTTTATTC
Found at i:43186270 original size:80 final size:80
Alignment explanation
Indices: 43186186--43186334 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
43186176 TATGGTAACC
* * * *
43186186 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
43186250 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
43186266 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
43186331 CCGG
66 CCGG
43186335 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:43186276 original size:40 final size:38
Alignment explanation
Indices: 43186227--43186334 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
43186217 ATCACGATTT
*
43186227 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
43186267 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
43186307 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
43186335 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:43194389 original size:80 final size:80
Alignment explanation
Indices: 43194305--43194453 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
43194295 TATGGTAACC
* * * *
43194305 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
43194369 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
43194385 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
43194450 CCGG
66 CCGG
43194454 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:43194395 original size:40 final size:38
Alignment explanation
Indices: 43194346--43194453 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
43194336 ATCACGATTT
*
43194346 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
43194386 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
43194426 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
43194454 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:43198277 original size:11 final size:11
Alignment explanation
Indices: 43198261--43198286 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43198251 TTTTCTCAAT
43198261 TTAATCTAACA
1 TTAATCTAACA
43198272 TTAATCTAACA
1 TTAATCTAACA
43198283 TTAA
1 TTAA
43198287 ACCTTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (11 bp):
TTAATCTAACA
Found at i:43202730 original size:93 final size:92
Alignment explanation
Indices: 43202572--43202742 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
43202562 CGCCCATAAG
*
43202572 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43202637 CGAGCTCGGATGCCTAGTTACATCTCA
66 CGAGCTCGGATGCCTAGTTACATCTCA
*
43202664 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
43202729 ACGAGTTCGGATGC
65 ACGAGCTCGGATGC
43202743 TCAAATATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 28 0.37
93 47 0.63
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCA
Found at i:43202732 original size:46 final size:46
Alignment explanation
Indices: 43202565--43202744 Score: 215
Period size: 45 Copynumber: 3.9 Consensus size: 46
43202555 TGTAACCCGC
*
43202565 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
43202610 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
43202660 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
43202703 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
43202745 AAATATCCCA
Statistics
Matches: 115, Mismatches: 12, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 37 0.32
46 37 0.32
47 31 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:43202758 original size:46 final size:45
Alignment explanation
Indices: 43202573--43202758 Score: 148
Period size: 46 Copynumber: 4.0 Consensus size: 45
43202563 GCCCATAAGC
* * * * *
43202573 GAACTCGGACTCAACTCAACGAGCTCGG-CGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC--CAGT
* * *
43202618 GAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTACATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACATCCCAGT
* * *
43202665 GAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC--CAGT
*
43202711 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAATATCCCAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-AACATCCCAGT
43202757 GA
1 GA
43202759 CATGTCACTT
Statistics
Matches: 113, Mismatches: 16, Indels: 23
0.74 0.11 0.15
Matches are distributed among these distances:
43 4 0.04
45 30 0.27
46 39 0.35
47 30 0.27
48 6 0.05
50 4 0.04
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCCCAGT
Found at i:43205175 original size:14 final size:15
Alignment explanation
Indices: 43205107--43205185 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
43205097 CAAAGATAAC
*
43205107 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
43205121 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
43205136 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
43205151 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
43205166 AA-AGATCCAGGATA
1 AAGAAATCCAGAATA
43205180 AAGAAA
1 AAGAAA
43205186 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 21 0.40
15 31 0.58
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:43205185 original size:29 final size:30
Alignment explanation
Indices: 43205108--43205194 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 30
43205098 AAAGATAACA
*
43205108 AGAAAACC-GAATAAAGAAATCCAAGATAG
1 AGAAACCCAGAATAAAGAAATCCAAGATAG
43205137 AGAAACCCAGAATAAAGAAATCC-AGAATA-
1 AGAAACCCAGAATAAAGAAATCCAAG-ATAG
* * *
43205166 A-AAGATCCAGGATAAAGAAACCCAAGATA
1 AGAA-ACCCAGAATAAAGAAATCCAAGATA
43205195 CGATACTATG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
28 2 0.04
29 29 0.58
30 19 0.38
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:43208208 original size:93 final size:93
Alignment explanation
Indices: 43208096--43208267 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
43208086 CCGCCCATAA
* *
43208096 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43208161 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
43208189 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
43208254 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
43208268 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:43208263 original size:46 final size:46
Alignment explanation
Indices: 43208096--43208263 Score: 207
Period size: 46 Copynumber: 3.6 Consensus size: 46
43208086 CCGCCCATAA
* *
43208096 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGT
* * * *
43208142 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CATCCATAAGT
*
43208189 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGT
*
43208235 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
43208264 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 11, Indels: 14
0.81 0.09 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 61 0.59
47 31 0.30
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGT
Found at i:43208282 original size:46 final size:45
Alignment explanation
Indices: 43208139--43208282 Score: 139
Period size: 46 Copynumber: 3.1 Consensus size: 45
43208129 CGCATCCATA
* * *
43208139 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
43208187 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
43208232 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
43208278 AGTGA
1 AGTGA
43208283 CATGTCACTT
Statistics
Matches: 77, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.48
47 30 0.39
48 5 0.06
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:43212951 original size:47 final size:46
Alignment explanation
Indices: 43212898--43213089 Score: 260
Period size: 47 Copynumber: 4.1 Consensus size: 46
43212888 TTAGGATTTT
* *
43212898 ATGTGATGAATGTGA-ATGTCTATATATGAGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGACATG-C-ATATATGTGATAAGGCCGAATGGCCA
43212945 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTG-ACATGCATATATGTGATAAGGCCGAATGGCCA
*
43212992 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGA-CATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
43213039 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTG-ACATGCATATATGTGATAAGGCCGAATGGCCA
43213086 ATGT
1 ATGT
43213090 AAAATATGTA
Statistics
Matches: 132, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
46 1 0.01
47 125 0.95
48 3 0.02
49 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.28
Consensus pattern (46 bp):
ATGTGATGAATGTGACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:43213047 original size:25 final size:25
Alignment explanation
Indices: 43212972--43213047 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
43212962 ATGCATATAT
43212972 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
43212997 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
43213019 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
43213044 GTGA
1 GTGA
43213048 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:43213158 original size:50 final size:50
Alignment explanation
Indices: 43213062--43213194 Score: 200
Period size: 50 Copynumber: 2.7 Consensus size: 50
43213052 GAACATGCAT
* *
43213062 ATATGTGGTAAAGCCGAATGGCTAATGT-AAA-ATATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATAAGATATGC
*
43213110 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATAAGATATGT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATAAGATATGC
*
43213160 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
43213195 GTAGGCGATG
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
47 1 0.01
48 26 0.34
49 3 0.04
50 46 0.60
51 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (50 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATAAGATATGC
Found at i:43213212 original size:50 final size:50
Alignment explanation
Indices: 43213056--43213218 Score: 183
Period size: 50 Copynumber: 3.3 Consensus size: 50
43213046 GAATATGAAC
* *
43213056 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
* *
43213106 ATGC--ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATAAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGAT
* * *
43213156 AT--GTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
43213204 GTGCGTATATTGTGG
1 ATGCGTATA-TGTGG
43213219 CCGAACGACC
Statistics
Matches: 95, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
47 1 0.01
48 36 0.38
49 4 0.04
50 48 0.51
51 6 0.06
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (50 bp):
ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
Found at i:43214442 original size:27 final size:27
Alignment explanation
Indices: 43214406--43214764 Score: 377
Period size: 27 Copynumber: 13.3 Consensus size: 27
43214396 GGCCGAAATG
* *
43214406 ATGACCAAAATACCCCCATAAGGTAAA
1 ATGACTAAAATACCCCTATAAGGTAAA
* * *
43214433 ATGACCAAAATACCCCCATAGGGTAAA
1 ATGACTAAAATACCCCTATAAGGTAAA
* *
43214460 ATGA-TCGAAATACCCCCAT-AGGATAAA
1 ATGACT-AAAATACCCCTATAAGG-TAAA
*
43214487 ATGACCAAAATACCCCTAT-AGGATAAA
1 ATGACTAAAATACCCCTATAAGG-TAAA
* * *
43214514 ACGA-TCGAAATA-CCCTCATAGGGTAAA
1 ATGACT-AAAATACCCCT-ATAAGGTAAA
* *
43214541 ATGACTGAAATACCCCTATAGGGTAAA
1 ATGACTAAAATACCCCTATAAGGTAAA
* * *
43214568 ATGATTGAAATACCCCTATAAGATAAA
1 ATGACTAAAATACCCCTATAAGGTAAA
*
43214595 ATGACCAAAATACCCCTATAAGGTAAA
1 ATGACTAAAATACCCCTATAAGGTAAA
43214622 ATGACTAAAATACCCCTATAAGGTAAA
1 ATGACTAAAATACCCCTATAAGGTAAA
** * *
43214649 ATGACTGTAATACCCTTATAGGGTAAA
1 ATGACTAAAATACCCCTATAAGGTAAA
** * *
43214676 ATGACTGTAATACCCCTGTAGGGTAAA
1 ATGACTAAAATACCCCTATAAGGTAAA
*
43214703 ATGACTATAATACCCCTATAAGGTAAA
1 ATGACTAAAATACCCCTATAAGGTAAA
* * *
43214730 ATGACTACAATACCTCTGTAAGGTAAA
1 ATGACTAAAATACCCCTATAAGGTAAA
43214757 ATGACTAA
1 ATGACTAA
43214765 TTTGCCCTAC
Statistics
Matches: 291, Mismatches: 33, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
26 6 0.02
27 278 0.96
28 7 0.02
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (27 bp):
ATGACTAAAATACCCCTATAAGGTAAA
Found at i:43215168 original size:18 final size:18
Alignment explanation
Indices: 43215145--43215199 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
43215135 GGACTTGCAT
*
43215145 ACTATTTACTGCTACTGC
1 ACTATTTACTGTTACTGC
*
43215163 ACTATTTGCTGTTACTGC
1 ACTATTTACTGTTACTGC
* *
43215181 ACTGTATACTGTTACTGC
1 ACTATTTACTGTTACTGC
43215199 A
1 A
43215200 AAGGGCCAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (18 bp):
ACTATTTACTGTTACTGC
Found at i:43217482 original size:21 final size:21
Alignment explanation
Indices: 43217458--43217527 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
43217448 CGATCTGCAC
43217458 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* *
43217479 TCA-TGATATATGTGGCATCTGAACT
1 TCATTGA-GT-TGTGG--TCTG-AGT
43217504 T-ATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
43217524 TCAT
1 TCAT
43217528 GAAATATGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
20 6 0.16
21 10 0.26
22 5 0.13
23 5 0.13
24 6 0.16
25 6 0.16
ACGTcount: A:0.20, C:0.11, G:0.27, T:0.41
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:43217514 original size:45 final size:45
Alignment explanation
Indices: 43217450--43217537 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
43217440 GAACTATCCG
* *
43217450 ATCTGCACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAAATATGTGGC
*
43217495 ATCTGAACTTATTGAGTTGTGGTCTGAGTTCATGAAATATGTG
1 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAAATATGTG
43217538 ACACATGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAAATATGTGGC
Found at i:43222260 original size:21 final size:21
Alignment explanation
Indices: 43222236--43222306 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 21
43222226 AACTATGTGA
43222236 TCTGAACTCATTGAGTTATGG
1 TCTGAACTCATTGAGTTATGG
**
43222257 TCTGAGTTCA-TGA-TATATGTGG
1 TCTGAACTCATTGAGT-TA--TGG
43222279 CATCTGAACTCATTGAGTTATGG
1 --TCTGAACTCATTGAGTTATGG
43222302 TCTGA
1 TCTGA
43222307 GTTCATGATA
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
19 1 0.03
20 5 0.13
21 13 0.33
22 3 0.08
23 3 0.08
24 8 0.21
25 5 0.13
26 1 0.03
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (21 bp):
TCTGAACTCATTGAGTTATGG
Found at i:43222284 original size:24 final size:22
Alignment explanation
Indices: 43222254--43222322 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 22
43222244 CATTGAGTTA
43222254 TGGTCTGAGTTCATGATATATG
1 TGGTCTGAGTTCATGATATATG
**
43222276 TGGCATCTGAACTCATTGAGT-TA--
1 TGG--TCTGAGTTCA-TGA-TATATG
43222299 TGGTCTGAGTTCATGATATATG
1 TGGTCTGAGTTCATGATATATG
43222321 TG
1 TG
43222323 ACACATGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 1 0.03
20 5 0.14
21 8 0.22
22 5 0.14
23 3 0.08
24 8 0.22
25 5 0.14
26 1 0.03
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (22 bp):
TGGTCTGAGTTCATGATATATG
Found at i:43222291 original size:45 final size:45
Alignment explanation
Indices: 43222235--43222322 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
43222225 GAACTATGTG
43222235 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGGC
43222280 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTG
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTG
43222323 ACACATGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGGC
Found at i:43225345 original size:29 final size:28
Alignment explanation
Indices: 43225257--43225358 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 28
43225247 TACTCAATCA
* *
43225257 CGCACACTTAGTGCCACGT-GATTCAAGCC
1 CGCACACTTAGTG-C-CGTACATTCAAGCT
* * * *
43225286 CGCACACATAGTGCCATATAGTCCCAA-CT
1 CGCACACTTAGTGCCGTACA-T-TCAAGCT
43225315 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCGTACATT-CAAGCT
*
43225344 CGCACACTCAGTGCC
1 CGCACACTTAGTGCC
43225359 AATCTCGTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
27 2 0.03
28 6 0.10
29 47 0.81
30 3 0.05
ACGTcount: A:0.26, C:0.35, G:0.18, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCGTACATTCAAGCT
Found at i:43238968 original size:80 final size:80
Alignment explanation
Indices: 43238884--43239032 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
43238874 TATGGTAACC
* * * *
43238884 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
43238948 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
43238964 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
43239029 CCGG
66 CCGG
43239033 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:43238974 original size:40 final size:38
Alignment explanation
Indices: 43238925--43239032 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
43238915 ATCACGATTT
*
43238925 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
43238965 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
43239005 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
43239033 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:43242198 original size:51 final size:50
Alignment explanation
Indices: 43242123--43242250 Score: 150
Period size: 50 Copynumber: 2.6 Consensus size: 50
43242113 TGAGGTCGCA
* * *
43242123 TGTGTAG-ACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCATACCAGAT-ACTTAGATCACG
** * ** *
43242173 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCATACCAGATACTTAGATCACG
*
43242223 TGTGTAGTACTAAGTGCAGGCAACTACG
1 TGTGTAGTACTAAGTGCAGGCTACTACG
43242251 TGTACCGGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
50 42 0.63
51 25 0.37
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCATACCAGATACTTAGATCACG
Found at i:43249366 original size:14 final size:15
Alignment explanation
Indices: 43249349--43249377 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43249339 TCACGAAAAT
43249349 TTCACACAT-ATAAA
1 TTCACACATAATAAA
43249363 TTCACACATAATAAA
1 TTCACACATAATAAA
43249378 CATAGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:43250447 original size:31 final size:31
Alignment explanation
Indices: 43250406--43250469 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
43250396 CCTTTTCATA
*
43250406 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
43250437 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
43250468 TT
1 TT
43250470 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:43250712 original size:24 final size:24
Alignment explanation
Indices: 43250661--43250803 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
43250651 GCTTTATCAT
*
43250661 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
43250686 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
43250710 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
43250733 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
43250757 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
43250781 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
43250804 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:43250740 original size:47 final size:48
Alignment explanation
Indices: 43250661--43250802 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
43250651 GCTTTATCAT
* *
43250661 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
43250710 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
43250757 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
43250803 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:43250761 original size:71 final size:72
Alignment explanation
Indices: 43250660--43250803 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
43250650 TGCTTTATCA
*
43250660 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
43250725 GCCCTTT
66 GCCCTTT
* * **
43250732 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
43250795 AGCCCTTT
65 AGCCCTTT
43250803 T
1 T
43250804 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:43250878 original size:20 final size:20
Alignment explanation
Indices: 43250853--43250913 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
43250843 TTATGATTAC
43250853 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
43250873 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
43250893 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
43250913 A
1 A
43250914 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:43250988 original size:25 final size:25
Alignment explanation
Indices: 43250956--43251003 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43250946 ATACATAAAC
* * *
43250956 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43250981 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43251004 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:43252243 original size:27 final size:27
Alignment explanation
Indices: 43252223--43252832 Score: 668
Period size: 27 Copynumber: 22.7 Consensus size: 27
43252213 AGGGTATTTT
*
43252223 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43252250 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
43252277 AGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
43252304 -GATATTTATGTAAATCGAGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * * *
43252331 GGTAATTATGTAAAT-TAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
43252357 GGTAATTCTATAAAT-GAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43252383 AGTAATTCTGTAAA-CTAAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* * *
43252410 GGTAATTCTATAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
43252437 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
43252464 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* *
43252491 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
43252518 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
43252545 -GATAATTCTGTAAATCGA-GGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * **
43252571 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
43252598 GGTAATTTTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43252625 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43252652 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
43252679 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43252706 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
43252733 AGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
43252760 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43252787 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
43252814 GGTAATTCTATAAATCGAG
1 AGTAATTCTGTAAATCGAG
43252833 AGTACTTTGG
Statistics
Matches: 504, Mismatches: 59, Indels: 40
0.84 0.10 0.07
Matches are distributed among these distances:
26 73 0.14
27 424 0.84
28 7 0.01
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:43255972 original size:24 final size:24
Alignment explanation
Indices: 43255921--43256087 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
43255911 GCTTTATCAT
* *
43255921 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
43255946 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
43255970 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
43255993 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
43256017 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
43256041 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
43256065 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
43256088 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 100 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:43256021 original size:71 final size:71
Alignment explanation
Indices: 43255920--43256087 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
43255910 TGCTTTATCA
*
43255920 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
43255984 AGCCCTTT
64 AGCCCTTT
* * **
43255992 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
43256057 CCCTTT
66 CCCTTT
43256063 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
43256088 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 53 0.60
72 36 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:43256159 original size:20 final size:20
Alignment explanation
Indices: 43256136--43256196 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
43256126 TTATGATTAC
43256136 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
43256156 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
43256176 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
43256196 A
1 A
43256197 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:43256271 original size:25 final size:25
Alignment explanation
Indices: 43256239--43256286 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43256229 ATACATAAAC
* * *
43256239 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43256264 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43256287 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:43257534 original size:27 final size:27
Alignment explanation
Indices: 43257514--43258123 Score: 659
Period size: 27 Copynumber: 22.6 Consensus size: 27
43257504 AGGGTATTTT
*
43257514 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43257541 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43257568 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
43257595 -GATATTTATGTAAATCG-GGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * ** *
43257621 GGTAATTATGTAAATTAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
43257648 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43257675 AGTAATTCTGTAAA-CTGAGCGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
43257702 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
43257729 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
43257756 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* *
43257783 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43257810 AGTAATTCTGTAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
43257837 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
43257864 -GATAATT-T-TACAATTCGAGGGTAAAAC
1 AG-TAATTCTGTA-AA-TCGAGGGTAAAAC
* *
43257891 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43257918 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
43257945 AATAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
43257972 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43257999 AGTAATTCTGTAAA-CTAAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
43258026 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
43258053 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
43258080 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
43258107 GGTAATTCTATAAATCG
1 AGTAATTCTGTAAATCG
43258124 GGAGTACTTT
Statistics
Matches: 503, Mismatches: 57, Indels: 46
0.83 0.09 0.08
Matches are distributed among these distances:
25 2 0.00
26 31 0.06
27 457 0.91
28 11 0.02
29 2 0.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:43260096 original size:42 final size:42
Alignment explanation
Indices: 43260041--43260157 Score: 144
Period size: 43 Copynumber: 2.8 Consensus size: 42
43260031 TAGGGTAACT
*
43260041 AAGATTACATGTAAGACCATATCTGGGATATGGCATCGATAT
1 AAGATTACATGTAAGACCATATCTGGGATATGGCATCGATAC
* * * * * *
43260083 GAGATTTCGTGTAAGACCATAGCTAGGCTATTGGCATCGATAC
1 AAGATTACATGTAAGACCATATCTGGGATA-TGGCATCGATAC
* *
43260126 AAGATTACATTTAAAACCATATCTGGGATATG
1 AAGATTACATGTAAGACCATATCTGGGATATG
43260158 ACATTGGTAT
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.29
Consensus pattern (42 bp):
AAGATTACATGTAAGACCATATCTGGGATATGGCATCGATAC
Found at i:43266649 original size:27 final size:27
Alignment explanation
Indices: 43266592--43266694 Score: 93
Period size: 27 Copynumber: 3.8 Consensus size: 27
43266582 GACCCTAATT
** * *
43266592 TGTAAAATTACCGAAATAATCTC-GATT
1 TGTAAAATTACCGAAATACCCCCAG-TA
43266619 TGTAAAATTACCGAAATACCCCCAGTA
1 TGTAAAATTACCGAAATACCCCCAGTA
* **
43266646 TGTAAAATTATCGAAATACCCTTA-TA
1 TGTAAAATTACCGAAATACCCCCAGTA
* *
43266672 GTATAAAATTACCAAAATACCCC
1 -TGTAAAATTACCGAAATACCCC
43266695 TGTAGGGTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.03
27 60 0.95
28 1 0.02
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCCCAGTA
Found at i:43266705 original size:27 final size:27
Alignment explanation
Indices: 43266619--43266707 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
43266609 AATCTCGATT
*
43266619 TGTAAAATTACCGAAATACCCCCAGTA-
1 TGTAAAATTACCGAAATA-CCCCTGTAG
* * *
43266646 TGTAAAATTATCGAAATACCCTTATAG
1 TGTAAAATTACCGAAATACCCCTGTAG
* *
43266673 TATAAAATTACCAAAATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCCTGTAG
*
43266700 GGTAAAAT
1 TGTAAAAT
43266708 GACTGTTTTG
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
26 5 0.10
27 45 0.90
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCCTGTAG
Found at i:43268103 original size:16 final size:17
Alignment explanation
Indices: 43268071--43268103 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
43268061 AAATAAGAAG
43268071 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
43268089 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
43268104 CTTCACTGTG
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:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:43275432 original size:49 final size:49
Alignment explanation
Indices: 43275363--43275576 Score: 338
Period size: 49 Copynumber: 4.4 Consensus size: 49
43275353 TTTACCACAT
43275363 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
43275412 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
43275461 ATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTGATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * * *
43275510 ATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
43275559 ATATATATACATTTTCAC
1 ATATATATACACTTTCAC
43275577 GAATCTTGAT
Statistics
Matches: 151, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 151 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:43279609 original size:40 final size:40
Alignment explanation
Indices: 43279413--43279596 Score: 307
Period size: 40 Copynumber: 4.6 Consensus size: 40
43279403 CCAGCATGAT
* * * *
43279413 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
43279453 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
43279493 TGCTCCTCAGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
43279533 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
43279573 TGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
43279597 TAACCACAAG
Statistics
Matches: 136, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 7 0.05
40 129 0.95
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:43279609 original size:80 final size:80
Alignment explanation
Indices: 43279445--43279621 Score: 270
Period size: 80 Copynumber: 2.2 Consensus size: 80
43279435 ATGCATCACT
43279445 AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCAGAACTTAG
1 AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCAGAACTTAG
* * *
43279510 TCCGGATACATCACT
66 TCCGGATAAACCACA
* *
43279525 AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCAGAACTTAG
43279590 -CCGGATATAACCACA
66 TCCGGATA-AACCACA
43279605 AGCAC-AATTGC-CTTCGG
1 AGCACGAA-TGCTCTTCGG
43279622 GTCTTAACCC
Statistics
Matches: 90, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
79 15 0.17
80 75 0.83
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (80 bp):
AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCAGAACTTAG
TCCGGATAAACCACA
Found at i:43279639 original size:40 final size:40
Alignment explanation
Indices: 43279525--43279713 Score: 150
Period size: 40 Copynumber: 4.7 Consensus size: 40
43279515 ATACATCACT
* ** * * * *
43279525 AGCACGAATGCTCTTCGGAACTTAGTCCGGATA-CATCACT
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* **
43279565 AGCACGAATGCTCTTCGGAACTTAG-CCGGATATAACCACA
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* * * * *
43279605 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAACAACTC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCAC-A
** *
43279646 A-CACAAATGCCTTCGGGTCTTAGCCCGGATATATTCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
* *
43279685 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
43279714 GTATCATTCA
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 18 0.14
40 106 0.85
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
Found at i:43279655 original size:120 final size:119
Alignment explanation
Indices: 43279413--43279710 Score: 309
Period size: 120 Copynumber: 2.5 Consensus size: 119
43279403 CCAGCATGAT
* *
43279413 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATA
* * * ** * *
43279478 CATCACTAGCACGAATGCTCCTCAGAACTTAGTCCGGATACATCACTAGCACGAA
65 AACCACAAGCACGAATGCTCCTCAGAACTTAACCCGGATACAACACTAGCACAAA
* *
43279533 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATA-
* * ** * *
43279598 AACCACAAGCAC-AATTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAAA
65 AACCACAAGCACGAA-TGCTCCTCAGAACTTAACCCGGATACAAC-ACT-AGCACAAA
* * ** *
43279653 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAATGC-CTTCGGGACTTAGCC
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGAACTTAGCC
43279711 CGGGTATCAT
Statistics
Matches: 149, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
119 58 0.39
120 90 0.60
121 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (119 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAA
ACCACAAGCACGAATGCTCCTCAGAACTTAACCCGGATACAACACTAGCACAAA
Found at i:43281761 original size:49 final size:49
Alignment explanation
Indices: 43281692--43281904 Score: 338
Period size: 49 Copynumber: 4.4 Consensus size: 49
43281682 TTTACCACAT
43281692 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
43281741 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
43281790 ATATATATATACTTTCACATTCATCACATCGGCCATTAGGCC-TATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * * *
43281838 ATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
43281887 ATATATATACATTTTCAC
1 ATATATATACACTTTCAC
43281905 GAATCTTGAT
Statistics
Matches: 150, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
48 43 0.29
49 107 0.71
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:43281886 original size:97 final size:98
Alignment explanation
Indices: 43281687--43281904 Score: 348
Period size: 97 Copynumber: 2.2 Consensus size: 98
43281677 TCGGCTTTAC
43281687 CACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACA
1 CACATATATATAT--ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACA
*
43281752 CTTTCACATTCACCACATCGGCCATTAGGCCTTAT
64 CTTTCACATTCACCACATCGGCCATTAGGCCTCAT
*
43281787 CACATATATATATACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATACATACATT
1 CACATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACT
* * *
43281851 TTCGCATTCATCGCATCGGCCATTAGGCCTCAT
66 TTCACATTCACCACATCGGCCATTAGGCCTCAT
* *
43281884 CACATATATATACATTTTCAC
1 CACATATATATATACTTTCAC
43281905 GAATCTTGAT
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
97 66 0.59
98 32 0.29
100 13 0.12
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (98 bp):
CACATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACT
TTCACATTCACCACATCGGCCATTAGGCCTCAT
Found at i:43285405 original size:28 final size:28
Alignment explanation
Indices: 43285355--43285419 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
43285345 GCATCTGATA
* * *
43285355 CTGATTCTG-TATTGGGCTTAAGCCTAC
1 CTGATTCTGTTAATGGGCTAAAGCCCAC
43285382 CTGATTCTGTTAATGGGCTAAAGCCCAC
1 CTGATTCTGTTAATGGGCTAAAGCCCAC
*
43285410 CTGATACTGT
1 CTGATTCTGT
43285420 GTCTGTGATG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 9 0.27
28 24 0.73
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (28 bp):
CTGATTCTGTTAATGGGCTAAAGCCCAC
Found at i:43291707 original size:64 final size:66
Alignment explanation
Indices: 43291602--43291755 Score: 177
Period size: 67 Copynumber: 2.3 Consensus size: 66
43291592 CATCATGTGT
* * * * *
43291602 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
43291665 TGTAG
62 TGTAG
* * *
43291670 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
43291735 AG
65 AG
43291737 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
43291756 AATTGGCTGG
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 24 0.32
65 3 0.04
66 4 0.05
67 30 0.41
68 13 0.18
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:43295848 original size:303 final size:300
Alignment explanation
Indices: 43295332--43295895 Score: 871
Period size: 303 Copynumber: 1.9 Consensus size: 300
43295322 CGGAACAGTG
* *
43295332 GTTTCGAGACCACAAATTCGATGTAGAAAAATTTATTTTTATTATATTTTTATGGTCCACAATTT
1 GTTTCGAGACCACAAATTCGACGTAGAAAAATTTATTTTTATTATATTTTTATGGTCCAAAATTT
* * * *
43295397 TATGGATGATTTCGTGAAAATTTCATTCGAAAATTTTGACGTTTGGGCACTCAATTTAGTCAAAA
66 CAGGGATGACTTCATGAAAATTTCATTCGAAAATTTTGACGTTTGGGCACTCAATTTAGTCAAAA
* *
43295462 GGACTAAATTGTAAAAAGTGAAAAAGTTGAGTTCTACATGCTAGAGGTGTCTAATTACTATGAAA
131 GGACTAAATTCTAAAAAGTGAAAAAGTTGAGTTCTACATGCTAGAGGTGTCAAATTACTATGAAA
* * * *
43295527 TTTTAAATTGGTGGTCCTTAAATGGTAATTAGACCATTGGTTAAGCTGTTGGACAAAAATTGACA
196 TTTTAAATTGGAGGTCCTTAAATGGTAAATAGACCATTGGTTAA-CTGTTAGACAAAAATAGACA
43295592 TGGTTTGTAACATCCCAAATTAGGGCCTAGTCATAATAGTA
260 TGGTTTGTAACATCCCAAATTAGGGCCTAGTCATAATAGTA
*
43295633 GTTTCGAGACCACAAATTCGACGTAAGAAAAA-TTATTTTTTATTATATTTTTATGGTCTAAAAT
1 GTTTCGAGACCACAAATTCGACGT-AGAAAAATTTA-TTTTTATTATATTTTTATGGTCCAAAAT
* *
43295697 TTCAGGGGATGACTTCATGAAAATTTCATTTGAAAATTTTGACGTTTGGGCATTCAATTTAGTCA
64 TTCA-GGGATGACTTCATGAAAATTTCATTCGAAAATTTTGACGTTTGGGCACTCAATTTAGTCA
* * *
43295762 AAAGGACTAAATTCTAAAAAGT-ACAAAAGTTGAGTTCTACATGTTAGAGGTGTCAAATTATTTT
128 AAAGGACTAAATTCTAAAAAGTGA-AAAAGTTGAGTTCTACATGCTAGAGGTGTCAAATTACTAT
* * * *
43295826 GAAATTTTAAATTTGAGGTCCTTAAATGGTAAATAGAGCATTGGTTAATTTTTAGACAAAAATAG
192 GAAATTTTAAATTGGAGGTCCTTAAATGGTAAATAGACCATTGGTTAACTGTTAGACAAAAATAG
43295891 ACATG
257 ACATG
43295896 AAATGGGTTA
Statistics
Matches: 237, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
301 26 0.11
302 55 0.23
303 156 0.66
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (300 bp):
GTTTCGAGACCACAAATTCGACGTAGAAAAATTTATTTTTATTATATTTTTATGGTCCAAAATTT
CAGGGATGACTTCATGAAAATTTCATTCGAAAATTTTGACGTTTGGGCACTCAATTTAGTCAAAA
GGACTAAATTCTAAAAAGTGAAAAAGTTGAGTTCTACATGCTAGAGGTGTCAAATTACTATGAAA
TTTTAAATTGGAGGTCCTTAAATGGTAAATAGACCATTGGTTAACTGTTAGACAAAAATAGACAT
GGTTTGTAACATCCCAAATTAGGGCCTAGTCATAATAGTA
Found at i:43302108 original size:46 final size:46
Alignment explanation
Indices: 43302055--43302149 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
43302045 CTAAATAATT
* *
43302055 CATTTCAAAATTTCAATAATCACAACATAATCCATCATTAAGCATG
1 CATTTCAAAATTTCAATAATCACAACATAATCCACCATGAAGCATG
43302101 CATTTCAAAATTTCAATAATCACAACATAATCCACCATGAAGCATG
1 CATTTCAAAATTTCAATAATCACAACATAATCCACCATGAAGCATG
43302147 CAT
1 CAT
43302150 ATCGTCCCTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.28
Consensus pattern (46 bp):
CATTTCAAAATTTCAATAATCACAACATAATCCACCATGAAGCATG
Found at i:43302298 original size:30 final size:29
Alignment explanation
Indices: 43302264--43302330 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 29
43302254 GCTACAGGGG
*
43302264 TCACACGTCCATGTGGCCAGGCCTTGTGAC
1 TCACACGT-CATGTGGCCAGGCCTTGTGAA
43302294 TCACACAGTCATGTGGCCAGGCCTTGTGAA
1 TCACAC-GTCATGTGGCCAGGCCTTGTGAA
43302324 TCACACG
1 TCACACG
43302331 GATATGACAC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 1 0.03
30 32 0.91
31 2 0.06
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.22
Consensus pattern (29 bp):
TCACACGTCATGTGGCCAGGCCTTGTGAA
Found at i:43302678 original size:10 final size:11
Alignment explanation
Indices: 43302643--43302681 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
43302633 TTTAACCTAT
*
43302643 TCAAAACATGA
1 TCAAAACATGC
43302654 TC-AAACATGC
1 TCAAAACATGC
43302664 TCAAAACATGC
1 TCAAAACATGC
43302675 -CAAAACA
1 TCAAAACA
43302682 ATCATCCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.51, C:0.26, G:0.08, T:0.15
Consensus pattern (11 bp):
TCAAAACATGC
Found at i:43307489 original size:40 final size:40
Alignment explanation
Indices: 43307422--43307642 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
43307412 TATTCGAATG
* *
43307422 ATATCC-GGTTAAGTCCCG-AGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
43307460 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
43307500 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
43307540 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
43307580 ATATCCGGGCTAAGACCC-AAGGCATCTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
43307619 ATATCC-GGCTAAATCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCA
43307643 CTTGAGTTTG
Statistics
Matches: 166, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
38 15 0.09
39 37 0.22
40 114 0.69
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:43316916 original size:46 final size:46
Alignment explanation
Indices: 43316849--43317026 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
43316839 TGTAACCTGC
*
43316849 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTCCTCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGTCCTCAT
* * *
43316895 CCATAAGTGAAATCGGACTCAACTCAACGAGTTCGGATG-CCT-AGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGTCCTCA--T
* * * ** * *
43316941 ACATCTCA-CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGTCCTCAT
* *
43316988 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATG
43317027 CTCAACCATC
Statistics
Matches: 104, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
44 1 0.01
45 5 0.05
46 65 0.62
47 29 0.28
48 3 0.03
49 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGTCCTCAT
Found at i:43316968 original size:93 final size:93
Alignment explanation
Indices: 43316856--43317027 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
43316846 TGCCCATAAG
**** *
43316856 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTCCTCATCCATAAGTGAAATCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATCCGCATCCATAAGTGAAATCGGACTCAACTCA
43316921 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
43316949 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATCCGCATCCATAAGTGAAATCGGACTCAACTCA
43317014 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
43317028 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATCCGCATCCATAAGTGAAATCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:43324555 original size:46 final size:46
Alignment explanation
Indices: 43324389--43324562 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
43324379 TGTAACCCGC
* * *
43324389 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGC-GTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
43324434 CCATAAGTGAACT-GGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
43324483 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
43324526 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43324563 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 23 0.21
45 14 0.13
46 34 0.31
47 26 0.24
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:43325016 original size:30 final size:30
Alignment explanation
Indices: 43324982--43325041 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
43324972 ATTTAATACG
43324982 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
43325012 AACTTTTGCATAATTACATTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
43325042 GGCTCGGGAT
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:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:43326215 original size:40 final size:40
Alignment explanation
Indices: 43326160--43326383 Score: 317
Period size: 40 Copynumber: 5.6 Consensus size: 40
43326150 TATTCGAATG
* * *
43326160 ATATCCGGGTTAAGTCCCGAGGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
43326200 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
43326240 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
43326280 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * * *
43326320 ATATCCGGGCTAAGACCCAAAGGCATCTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
43326360 ATATCC-GGCTAAATCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCA
43326384 CTTGAGTTTG
Statistics
Matches: 167, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 15 0.09
40 149 0.89
41 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:43330265 original size:27 final size:27
Alignment explanation
Indices: 43330224--43330340 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
43330214 AAGTGGATTT
*
43330224 GTAGAATTACTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTATAGG
* *
43330251 ATAGAATTACCGAAATACCCTTATAGG
1 GTAGAATTACCGAAATACCCCTATAGG
*
43330278 GTAGAAATACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTATAGG
* * *
43330305 GTAGAATT-CTGAGATACCCTTAT-GG
1 GTAGAATTACCGAAATACCCCTATAGG
*
43330330 GTAAAATTACC
1 GTAGAATTACC
43330341 ATTTTGCCCC
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
25 9 0.12
26 13 0.17
27 55 0.71
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTATAGG
Found at i:43334604 original size:27 final size:28
Alignment explanation
Indices: 43334548--43334617 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
43334538 AAATTTGTAC
43334548 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
43334576 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
43334603 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43334618 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Done.