Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 242 of 318
Found at i:76809407 original size:16 final size:16
Alignment explanation
Indices: 76809354--76809409 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
76809344 AGTAAAATGG
*
76809354 TATGTATATAA-TTTA
1 TATGTATTTAATTTTA
*
76809369 TATGATAATTTAATTTCA
1 TATG-T-ATTTAATTTTA
* *
76809387 CATGTATTTATTTTTA
1 TATGTATTTAATTTTA
76809403 TATGTAT
1 TATGTAT
76809410 GATTTTTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 4 0.12
16 16 0.50
17 6 0.19
18 6 0.19
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (16 bp):
TATGTATTTAATTTTA
Found at i:76835581 original size:18 final size:19
Alignment explanation
Indices: 76835548--76835583 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
76835538 AGACTCCAGG
*
76835548 TCTGATTCTTTTCAATCAC
1 TCTGATTCTCTTCAATCAC
76835567 TCTGATT-TCTTCAATCA
1 TCTGATTCTCTTCAATCA
76835584 TTGCTTGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.22, C:0.25, G:0.06, T:0.47
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAC
Found at i:76841466 original size:11 final size:11
Alignment explanation
Indices: 76841450--76841484 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
76841440 TATCCTACTC
76841450 TTATTAAATTG
1 TTATTAAATTG
76841461 TTATTAAATTG
1 TTATTAAATTG
* *
76841472 TTGTTAAAATG
1 TTATTAAATTG
76841483 TT
1 TT
76841485 TCATGGTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (11 bp):
TTATTAAATTG
Found at i:76842333 original size:2 final size:2
Alignment explanation
Indices: 76842326--76842350 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
76842316 TCAAAATTCA
76842326 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
76842351 AGTTCATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:76847037 original size:19 final size:18
Alignment explanation
Indices: 76847002--76847037 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
76846992 GAAGCAAGCA
*
76847002 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
76847020 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
76847038 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:76853034 original size:22 final size:20
Alignment explanation
Indices: 76853002--76853050 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
76852992 GAATTATTAG
*
76853002 AAAAAAATTGAT-TCTCATAA
1 AAAAAAATTGATGTATC-TAA
76853022 AAAAAATATTTGATGTATCTAA
1 AAAAAA-A-TTGATGTATCTAA
76853044 AAAAAAA
1 AAAAAAA
76853051 GATTAAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.24
21 2 0.08
22 14 0.56
23 3 0.12
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (20 bp):
AAAAAAATTGATGTATCTAA
Found at i:76853353 original size:23 final size:23
Alignment explanation
Indices: 76853327--76853372 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
76853317 AATTATAAAT
76853327 TTAAATTCGTAAGAAAAATCATA
1 TTAAATTCGTAAGAAAAATCATA
76853350 TTAAATTCGTAAGAAAAATCATA
1 TTAAATTCGTAAGAAAAATCATA
76853373 CTTTTAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (23 bp):
TTAAATTCGTAAGAAAAATCATA
Found at i:76860505 original size:47 final size:47
Alignment explanation
Indices: 76860424--76860688 Score: 161
Period size: 47 Copynumber: 5.6 Consensus size: 47
76860414 GGTACGATGC
* * *
76860424 CGATGCCATGTTCCAAACATGGTCTTACAATGGCTCACACATCTAAGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCACACATCTAAGT
* * ***
76860472 CGATGTCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCACA-C-ATCTAAGT
* * * * *
76860521 CGATGCCATGTCCCAGATAGGGCTTGCACT-G---ACACATGTCAAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCACACATCT-AAGT
* * * * **
76860565 CGATGCCATGTCCCAAACATGTTTTACACTAGCT--TTCATCTTAA-T
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCACACATC-TAAGT
* * * * *
76860610 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GGC
1 -C-GATGCCATGTCCCAGACA-GGTCTTACACTGGCTCACA-CATCTAAGT
*
76860660 CGATG-CATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
76860689 AGCATACATC
Statistics
Matches: 164, Mismatches: 39, Indels: 30
0.70 0.17 0.13
Matches are distributed among these distances:
43 2 0.01
44 26 0.16
45 3 0.02
46 16 0.10
47 48 0.29
48 34 0.21
49 32 0.20
50 1 0.01
51 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCACACATCTAAGT
Found at i:76863344 original size:39 final size:40
Alignment explanation
Indices: 76863245--76863388 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
76863235 TTGAATGTGT
* * * *
76863245 CCGGGCTAAGTCCTGAAGGC-TTTGTGCTA-AGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAA
* *
76863285 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATC
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-A
*
76863325 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
*
76863364 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
76863389 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
39 34 0.39
40 43 0.49
41 10 0.11
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
Found at i:76863402 original size:40 final size:39
Alignment explanation
Indices: 76863297--76863395 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
76863287 GGACTAAGAT
** * *
76863297 CCGAAGGCATTTGTGCGAGATACTA-ATCCCGGGCTAAGC
1 CCGAAGGCATTTGAACGAGTTACTATA-ACCGGGCTAAGC
** *
76863336 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAG-C
76863376 CCGAAGGCATTTGAACGAGT
1 CCGAAGGCATTTGAACGAGT
76863396 AGCTATATCC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 33 0.62
40 20 0.38
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAGC
Found at i:76867386 original size:27 final size:27
Alignment explanation
Indices: 76867353--76867559 Score: 315
Period size: 27 Copynumber: 7.6 Consensus size: 27
76867343 TAAATTGTGC
*
76867353 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
76867380 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
76867408 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
76867435 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
76867463 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
76867490 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
76867518 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
76867545 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
76867560 GACTTAATAT
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
27 91 0.54
28 77 0.46
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:76867417 original size:55 final size:55
Alignment explanation
Indices: 76867353--76867559 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
76867343 TAAATTGTGC
76867353 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
76867408 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
76867463 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
76867518 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
76867560 GACTTAATAT
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:76870069 original size:54 final size:54
Alignment explanation
Indices: 76870011--76870124 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
76870001 ATTACTGAAA
* *
76870011 TACCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCAAATTATAAAATTACCAAAGTACCCTCAATTTATAGAATTACTGTTT
** * * **** *
76870065 TACCCTTGATTTATAGAATTACCGTTTTACCCTCAATTTATAGAATTATTGTTT
1 TACCCTCAAATTATAAAATTACCAAAGTACCCTCAATTTATAGAATTACTGTTT
76870119 TACCCT
1 TACCCT
76870125 TGATTTACAG
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (54 bp):
TACCCTCAAATTATAAAATTACCAAAGTACCCTCAATTTATAGAATTACTGTTT
Found at i:76870168 original size:27 final size:27
Alignment explanation
Indices: 76870038--76870168 Score: 190
Period size: 27 Copynumber: 4.9 Consensus size: 27
76870028 ATTACCAAAG
76870038 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
76870065 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
76870092 TACCCTCAATTTATAGAATTATTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
76870119 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
76870146 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
76870169 AAAATACCAT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:76870176 original size:27 final size:27
Alignment explanation
Indices: 76870146--76870420 Score: 202
Period size: 27 Copynumber: 10.2 Consensus size: 27
76870136 ATTACTGTTT
* *
76870146 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
76870173 TACCATCGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
76870200 TACTCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * * *
76870227 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * *
76870253 TACCCTTGGTTTGTAAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
76870280 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
76870307 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * **
76870334 TACCACT-GGTTTGTGAAATTACTGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* *
76870361 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
76870388 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-GATTTATAAAATTACCA-AAA
76870415 TACCCT
1 TACCCT
76870421 TGACTTTCTA
Statistics
Matches: 199, Mismatches: 39, Indels: 19
0.77 0.15 0.07
Matches are distributed among these distances:
26 28 0.14
27 170 0.85
28 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:76870193 original size:81 final size:81
Alignment explanation
Indices: 76870038--76870193 Score: 177
Period size: 81 Copynumber: 1.9 Consensus size: 81
76870028 ATTACCAAAG
* * * * **** *
76870038 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTATAGAATTACCGTTTTACCCTCAATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCAAAATACCATCAATT
* *
76870103 TATAGAATTATTGTTT
66 TACAAAATTATTGTTT
* * **
76870119 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCATCGGTT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCAAAATACCATCAATT
76870184 TACAAAATTA
66 TACAAAATTA
76870194 CCAAAATACT
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCAAAATACCATCAATT
TACAAAATTATTGTTT
Found at i:76870231 original size:81 final size:80
Alignment explanation
Indices: 76870146--76870418 Score: 282
Period size: 81 Copynumber: 3.4 Consensus size: 80
76870136 ATTACTGTTT
** * * * *
76870146 TACCCTCGATTTACAAAATTACTAAAATACCATCGGTTTACAAAATTACCAAAATACTCTCGATC
1 TACCC-CGATTTACAAAATTACTAAAATACCATCGGTTTGTAAAATTACCGAAATACCCTCAATT
*
76870211 AGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * ** * * *
76870227 TA-CCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATACCATCGGTTTGTAAAATTACCGAAATACCCTCAATT
76870291 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* ** * * *
76870307 TACCCCTAGTTTGTAAAATTACCAAAATACCA-CTGGTTTGTGAAATTACTGAAATACCCTCAAT
1 TACCCCGA-TTTACAAAATTACTAAAATACCATC-GGTTTGTAAAATTACCGAAATACCCTCAAT
76870371 TTGTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
*
76870388 TACCCCTGATTTACAAAGTTAC-AGAAATACC
1 TACCCC-GATTTACAAAATTACTA-AAATACC
76870419 CTTGACTTTC
Statistics
Matches: 162, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
79 2 0.01
80 64 0.40
81 95 0.59
82 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
TACCCCGATTTACAAAATTACTAAAATACCATCGGTTTGTAAAATTACCGAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:76870319 original size:54 final size:53
Alignment explanation
Indices: 76870212--76870392 Score: 229
Period size: 54 Copynumber: 3.4 Consensus size: 53
76870202 CTCTCGATCA
* * * *
76870212 GTAAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTT
1 GTAAAATTACCAAAATACCCTAGTTTGTAAAATTACTAAAATACCCCTAGTTT
* * *
76870265 GTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTT
1 GTAAAATTACCAAAATACCCT-AGTTTGTAAAATTACTAAAATACCCCTAGTTT
* * * *
76870319 GTAAAATTACCAAAATACCACTGGTTTGTGAAATTACTGAAATA-CCCTCAATTT
1 GTAAAATTACCAAAATACC-CTAGTTTGTAAAATTACTAAAATACCCCT-AGTTT
76870373 GTAAAATTACCAAAATACCC
1 GTAAAATTACCAAAATACCC
76870393 CTGATTTACA
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
53 25 0.23
54 84 0.76
55 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (53 bp):
GTAAAATTACCAAAATACCCTAGTTTGTAAAATTACTAAAATACCCCTAGTTT
Found at i:76870476 original size:57 final size:55
Alignment explanation
Indices: 76870125--76870479 Score: 181
Period size: 54 Copynumber: 6.5 Consensus size: 55
76870115 GTTTTACCCT
* *** * *
76870125 TGATTTACAGAATTACTGTTTTACCCTCG-ATTTAC-AAAATTACTAAAATACCA-
1 TGATTTACAAAATTACTGAAATACCCTTGAATTT-CTAAAATTACCAAAATACCAC
* ** * * ***
76870178 TCGGTTTACAAAATTACCAAAATACTCTCG-ATCAGTAAAATTACCAAAATACC-C
1 T-GATTTACAAAATTACTGAAATACCCTTGAATTTCTAAAATTACCAAAATACCAC
* ** * * * * *
76870232 T-AGTCTGTAAAATTGCTAAAATACCCTTG-GTTTGTAAAATTACCGAAATACC-C
1 TGA-TTTACAAAATTACTGAAATACCCTTGAATTTCTAAAATTACCAAAATACCAC
* ** ** * * *
76870285 TCAATTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCAC
1 T-GATTTACAAAATTACTGAAATACCCTTGAATTTCTAAAATTACCAAAATACCAC
* *** * * *
76870340 TGGTTTGTGAAATTACTGAAATACCC-TCAATTTGTAAAATTACCAAAATACCCC
1 TGATTTACAAAATTACTGAAATACCCTTGAATTTCTAAAATTACCAAAATACCAC
* * * *** *
76870394 TGATTTACAAAGTTACAGAAATACCCTTGACTTTCTAAAAATTATGGAAATACCAT
1 TGATTTACAAAATTACTGAAATACCCTTGAATTTCT-AAAATTACCAAAATACCAC
*
76870450 TGGTTTAACAAAATTACTGAAATACCCTTG
1 TGATTT-ACAAAATTACTGAAATACCCTTG
76870480 GTTTGTAGAT
Statistics
Matches: 237, Mismatches: 53, Indels: 20
0.76 0.17 0.06
Matches are distributed among these distances:
53 42 0.18
54 146 0.62
55 9 0.04
56 19 0.08
57 21 0.09
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (55 bp):
TGATTTACAAAATTACTGAAATACCCTTGAATTTCTAAAATTACCAAAATACCAC
Found at i:76870628 original size:27 final size:27
Alignment explanation
Indices: 76870537--76870628 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
76870527 ACCCCTATTA
*
76870537 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
76870564 GGTAAAGA-GACCGTAAAGCCCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
76870591 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
76870618 GGTAAAATGAC
1 GGTAAAATGAC
76870629 GAATGTGCCC
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
27 57 0.97
28 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:76871509 original size:54 final size:51
Alignment explanation
Indices: 76871427--76871564 Score: 219
Period size: 54 Copynumber: 2.7 Consensus size: 51
76871417 GAGGAAGTGC
76871427 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
76871479 AAAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 --AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
76871532 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
76871565 AGGCCTCCAG
Statistics
Matches: 83, Mismatches: 0, Indels: 7
0.92 0.00 0.08
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 10 0.12
53 15 0.18
54 36 0.43
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:76871526 original size:25 final size:26
Alignment explanation
Indices: 76871427--76871564 Score: 185
Period size: 26 Copynumber: 5.3 Consensus size: 26
76871417 GAGGAAGTGC
76871427 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
76871453 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
76871479 AAAAAAGGGCTTATGCCCCAGTTTATTG
1 --AAAAGGGCTTATGCCCCAGTTTATTG
**
76871507 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
76871532 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
76871555 AAAAGAGGCT
1 AAAAG-GGCT
76871565 AGGCCTCCAG
Statistics
Matches: 101, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 31 0.31
26 34 0.34
28 24 0.24
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:76871846 original size:31 final size:31
Alignment explanation
Indices: 76871770--76871848 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
76871760 CGTTTACAGT
* *
76871770 AAAGGCTTCAGCCCAATGATATGATTTATGA
1 AAAGGCTTCAGCCTAGTGATATGATTTATGA
*
76871801 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCAGCCTAGTGATATGATTTATGA
76871832 AAAGGCTTCAGCCTAGT
1 AAAGGCTTCAGCCTAGT
76871849 AACCATTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCAGCCTAGTGATATGATTTATGA
Found at i:76878085 original size:31 final size:31
Alignment explanation
Indices: 76878050--76878113 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
76878040 TTATGTAATG
76878050 CTCCTACTAATTTTCAGCGTTGCATGTTGGC
1 CTCCTACTAATTTTCAGCGTTGCATGTTGGC
*
76878081 CTCCTACTACTTTTCAGCGTTGCATGTTGGC
1 CTCCTACTAATTTTCAGCGTTGCATGTTGGC
76878112 CT
1 CT
76878114 TTTTGATGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.14, C:0.28, G:0.19, T:0.39
Consensus pattern (31 bp):
CTCCTACTAATTTTCAGCGTTGCATGTTGGC
Found at i:76880504 original size:6 final size:7
Alignment explanation
Indices: 76880483--76880507 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
76880473 TGATTAAATT
76880483 AAATAAA
1 AAATAAA
76880490 AAATAAA
1 AAATAAA
76880497 AAATAAA
1 AAATAAA
76880504 AAAT
1 AAAT
76880508 TATATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:76880971 original size:14 final size:14
Alignment explanation
Indices: 76880952--76880982 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
76880942 ACCTCGTTTG
76880952 ATCCCTCATCAATC
1 ATCCCTCATCAATC
*
76880966 ATCCCTCATCCATC
1 ATCCCTCATCAATC
76880980 ATC
1 ATC
76880983 ATTCTCTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.45, G:0.00, T:0.29
Consensus pattern (14 bp):
ATCCCTCATCAATC
Found at i:76898035 original size:41 final size:43
Alignment explanation
Indices: 76897928--76898082 Score: 161
Period size: 43 Copynumber: 3.7 Consensus size: 43
76897918 ATATCGTACA
** ** **
76897928 ATGCCAACATCCCAGACATGGTCTTACATATAATCTCATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCG
* * * *
76897971 ATACCACTGTCCCAGACAAGGTCTTACACG-AATTAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCG
* *
76898012 ATGCCGATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCG
* * *
76898055 ATGCCAACGTTCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
76898083 TGAGAACACA
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
41 28 0.31
42 13 0.14
43 49 0.54
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCG
Found at i:76916067 original size:22 final size:22
Alignment explanation
Indices: 76916008--76916089 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 22
76915998 TTTGAGCTAA
* *
76916008 TGAACAGTAAGCTTTATTGAGC
1 TGAACAGTAAGCTCTATCGAGC
* *
76916030 TGAAACGGTAAACTCTATCGAGC
1 TG-AACAGTAAGCTCTATCGAGC
* *
76916053 TGAACAGTAAGCTCTATCAAGG
1 TGAACAGTAAGCTCTATCGAGC
*
76916075 TGGAACGGTAAGCTC
1 T-GAACAGTAAGCTC
76916090 CAATGAGCTA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 19 0.39
23 30 0.61
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:76916098 original size:45 final size:45
Alignment explanation
Indices: 76916008--76916098 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 45
76915998 TTTGAGCTAA
* ** *
76916008 TGAACAGTAAGCTTTATTGAGCTGAAACGGTAAACTCTATCGAGC
1 TGAACAGTAAGCTCTATCAAGCTGAAACGGTAAACTCAATCGAGC
* * *
76916053 TGAACAGTAAGCTCTATCAAGGTGGAACGGTAAGCTCCAAT-GAGC
1 TGAACAGTAAGCTCTATCAAGCTGAAACGGTAAACT-CAATCGAGC
76916098 T
1 T
76916099 AAAAACAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
45 35 0.92
46 3 0.08
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (45 bp):
TGAACAGTAAGCTCTATCAAGCTGAAACGGTAAACTCAATCGAGC
Found at i:76920341 original size:244 final size:245
Alignment explanation
Indices: 76919810--76920531 Score: 1428
Period size: 244 Copynumber: 3.0 Consensus size: 245
76919800 TCTACCATAA
76919810 AATTTTAAGAATTTATGGATTAGCCAATAAGTACAATTTATTTTTCAAAGTTACCCATATTCTGC
1 AATTTTAAGAATTTATGGATTAGCCAATAAGTACAATTTATTTTTCAAAGTTACCCATATTCTGC
76919875 TGTTTGACAGCTTCGACCTTTCTTTACTAAAAATTTATTATCTCCTCATACGGGATTCAAATGAT
66 TGTTTGACAGCTTCGACCTTTCTTTACTAAAAATTTATTATCTCCTCATACGGGATTCAAATGAT
76919940 GTTTCCATTTATTTTTTAAAAAAATAAACTAATTAATTATTTTAAGCATATAAATTATAACCCAC
131 GTTTCCATTTATTTTTTAAAAAAATAAACTAATTAATTATTTTAAGCATATAAATTATAACCCAC
76920005 AATTATTTCTGTACAATTTTTAATGATTTTCCCAAATCTGTACAATTTTT
196 AATTATTTCTGTACAATTTTTAATGATTTTCCCAAATCTGTACAATTTTT
76920055 AATTTTAAGAATTTATGGATTAGCCAATAAGTACAATTTATTTTTCAAAGTTACCCATATTCTGC
1 AATTTTAAGAATTTATGGATTAGCCAATAAGTACAATTTATTTTTCAAAGTTACCCATATTCTGC
76920120 TGTTTGACAGCTTCGACCTTTCTTTACTAAAAATTTATTATCTCCTCATACGGGATTCAAATGAT
66 TGTTTGACAGCTTCGACCTTTCTTTACTAAAAATTTATTATCTCCTCATACGGGATTCAAATGAT
76920185 GTTTCCATTTA-TTTTTAAAAAAATAAACTAATTAATTATTTTAAGCATATAAATTATAACCCAC
131 GTTTCCATTTATTTTTTAAAAAAATAAACTAATTAATTATTTTAAGCATATAAATTATAACCCAC
76920249 AATTATTTCTGTACAATTTTTAATGATTTTCCCAAATCTGTACAATTTTT
196 AATTATTTCTGTACAATTTTTAATGATTTTCCCAAATCTGTACAATTTTT
*
76920299 AATTTTAAGAATTTATGGATTAGCCAATAAGTACAATTTATTTTTCAAAGTTACCCCTATTCTGC
1 AATTTTAAGAATTTATGGATTAGCCAATAAGTACAATTTATTTTTCAAAGTTACCCATATTCTGC
76920364 TGTTTGACAGCTTCGACCTTTCTTTACTAAAAATTTATTATCTCCTCATACGGGATTCAAATGAT
66 TGTTTGACAGCTTCGACCTTTCTTTACTAAAAATTTATTATCTCCTCATACGGGATTCAAATGAT
76920429 GTTTCCATTTATTTTTTAAAAAAATAAACTAATTAATTATTTTAAGCATATAAATTATAACCCAC
131 GTTTCCATTTATTTTTTAAAAAAATAAACTAATTAATTATTTTAAGCATATAAATTATAACCCAC
76920494 AATTATTTCTGTACAATTTTTAATGATTTTCCCAAATC
196 AATTATTTCTGTACAATTTTTAATGATTTTCCCAAATC
76920532 AGAACGAGGG
Statistics
Matches: 475, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
244 243 0.51
245 232 0.49
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (245 bp):
AATTTTAAGAATTTATGGATTAGCCAATAAGTACAATTTATTTTTCAAAGTTACCCATATTCTGC
TGTTTGACAGCTTCGACCTTTCTTTACTAAAAATTTATTATCTCCTCATACGGGATTCAAATGAT
GTTTCCATTTATTTTTTAAAAAAATAAACTAATTAATTATTTTAAGCATATAAATTATAACCCAC
AATTATTTCTGTACAATTTTTAATGATTTTCCCAAATCTGTACAATTTTT
Found at i:76921037 original size:28 final size:28
Alignment explanation
Indices: 76920995--76921069 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
76920985 ATCTTCGATG
76920995 TCTCGCACACTAAGTGCCATACTCAATA
1 TCTCGCACACTAAGTGCCATACTCAATA
* * *
76921023 TCTCGCACACCAAGTTCCATTCTCAATA
1 TCTCGCACACTAAGTGCCATACTCAATA
*
76921051 TTTCGCACACTAAGTGCCA
1 TCTCGCACACTAAGTGCCA
76921070 CATATATATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (28 bp):
TCTCGCACACTAAGTGCCATACTCAATA
Found at i:76949261 original size:24 final size:24
Alignment explanation
Indices: 76949233--76949280 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
76949223 CAACCGTCGC
* *
76949233 CCCTCCCTTGGCCCTTTCGTCCCT
1 CCCTCCCTTGGCCCATTCATCCCT
76949257 CCCTCCCTTGGCCCATTCATCCCT
1 CCCTCCCTTGGCCCATTCATCCCT
76949281 TTCCTTCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.04, C:0.54, G:0.10, T:0.31
Consensus pattern (24 bp):
CCCTCCCTTGGCCCATTCATCCCT
Found at i:76949664 original size:40 final size:38
Alignment explanation
Indices: 76949603--76949691 Score: 92
Period size: 40 Copynumber: 2.3 Consensus size: 38
76949593 TCTTTATTTA
*
76949603 ATTAATTATTTATTTAATTC-TTATCTATTA-TAGTTATT
1 ATTAGTTATTTATTTAATTCTTTAT-TATTAGTA-TTATT
* *
76949641 ATTAGTTATATTATTTTATTTCTTTATTATTAGTATTTTT
1 ATTAGTTAT-TTA-TTTAATTCTTTATTATTAGTATTATT
*
76949681 ATAAGTTATTT
1 ATTAGTTATTT
76949692 GTTCATTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
38 8 0.19
39 5 0.12
40 24 0.56
41 6 0.14
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.63
Consensus pattern (38 bp):
ATTAGTTATTTATTTAATTCTTTATTATTAGTATTATT
Found at i:76951335 original size:6 final size:6
Alignment explanation
Indices: 76951324--76951382 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
76951314 ATTGAGTTCA
* * * *
76951324 TTTATT TTTA-- TTT-TT TTTAGT TTTAGT TTTATT TCTATT TTTATG
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
76951369 TTTATT GTTATT TT
1 TTTATT TTTATT TT
76951383 CTTAGACTTC
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
4 3 0.07
5 3 0.07
6 36 0.86
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:76951365 original size:12 final size:11
Alignment explanation
Indices: 76951324--76951382 Score: 59
Period size: 12 Copynumber: 5.3 Consensus size: 11
76951314 ATTGAGTTCA
76951324 TTTATTTTTA-
1 TTTATTTTTAT
76951334 TTT-TTTTTAGT
1 TTTATTTTTA-T
*
76951345 TTTAGTTTTAT
1 TTTATTTTTAT
76951356 TTCTATTTTTAT
1 TT-TATTTTTAT
*
76951368 GTTTATTGTTAT
1 -TTTATTTTTAT
76951380 TTT
1 TTT
76951383 CTTAGACTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
9 6 0.15
10 3 0.07
11 9 0.22
12 21 0.51
13 2 0.05
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:76951380 original size:18 final size:17
Alignment explanation
Indices: 76951324--76951382 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
76951314 ATTGAGTTCA
76951324 TTTATTTTTAT-TTT-T
1 TTTATTTTTATGTTTAT
*
76951339 TTTAGTTTTA-GTTTTAT
1 TTTATTTTTATG-TTTAT
76951356 TTCTATTTTTATGTTTAT
1 TT-TATTTTTATGTTTAT
76951374 TGTTATTTT
1 T-TTATTTT
76951383 CTTAGACTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 9 0.25
16 3 0.08
17 3 0.08
18 19 0.53
19 2 0.06
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (17 bp):
TTTATTTTTATGTTTAT
Found at i:76953961 original size:131 final size:130
Alignment explanation
Indices: 76953791--76954138 Score: 358
Period size: 131 Copynumber: 2.7 Consensus size: 130
76953781 AATCATTGAA
* ** * * * * * *
76953791 CAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCTCGAATTG-TCAAATGCCGAATGTT
1 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCGCGAATTGCT-AAATACCGAATCTT
* * * * *
76953855 GCCTTCGTTTTAAATAATTTTTAGAAGATATGAATGAAGTTTTGAAAG-GATACTCGATTACTTT
65 GCCTTCGTTTTAAAGAA-TTTTAAAAGACATGAATGAA-ATTTCAAAGTGATACTCGATTACTTT
76953919 AAG
128 AAG
* *
76953922 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCTAAGTATCGAATCTT
1 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATT-CGCGAATTGCTAAATACCGAATCTT
* * * * * * * *
76953987 GTCTTCGTTTTGAAGAATTTTAAAAGACGTGAGTGAAATTTCAAAGTGCTATTCGATTATTTTGA
65 GCCTTCGTTTTAAAGAATTTTAAAAGACATGAATGAAATTTCAAAGTGATACTCGATTACTTTAA
76954052 G
130 G
* * * * *
76954053 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGTGAATTGCCAAACATCGAATCTC
1 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATT-CGCGAATTGCTAAATACCGAATCTT
* *
76954118 GTCTTCGTTTTGAAGAATTTT
65 GCCTTCGTTTTAAAGAATTTT
76954139 TGAATGAATA
Statistics
Matches: 185, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
130 7 0.04
131 145 0.78
132 32 0.17
133 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (130 bp):
CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCGCGAATTGCTAAATACCGAATCTTG
CCTTCGTTTTAAAGAATTTTAAAAGACATGAATGAAATTTCAAAGTGATACTCGATTACTTTAAG
Found at i:76954478 original size:2 final size:2
Alignment explanation
Indices: 76954471--76954496 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
76954461 AAACAAAAAG
76954471 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
76954497 GAAACAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76969549 original size:16 final size:16
Alignment explanation
Indices: 76969524--76969556 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
76969514 TTATTTATAT
*
76969524 TTATTCATATAATAAA
1 TTATTAATATAATAAA
76969540 TTATTAATATAATAAA
1 TTATTAATATAATAAA
76969556 T
1 T
76969557 ATAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATTAATATAATAAA
Found at i:76969632 original size:13 final size:15
Alignment explanation
Indices: 76969602--76969636 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
76969592 ATTTTACTTT
76969602 AATAATAAATTTTAA
1 AATAATAAATTTTAA
76969617 AATAATAAA-TTT-A
1 AATAATAAATTTTAA
76969630 AATAATA
1 AATAATA
76969637 TTATTCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.40
14 3 0.15
15 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAATAAATTTTAA
Found at i:76969689 original size:15 final size:15
Alignment explanation
Indices: 76969669--76969725 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
76969659 ATTCAATATT
76969669 AATATTTTAATAATA
1 AATATTTTAATAATA
*
76969684 AATATTTATTGCAATTATA
1 AATA-TT-TT--AATAATA
*
76969703 AATATATTAATAATA
1 AATATTTTAATAATA
76969718 AATATTTT
1 AATATTTT
76969726 GTACTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:76970867 original size:23 final size:21
Alignment explanation
Indices: 76970837--76970878 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
76970827 GTTCATATAT
76970837 TCCATAATAAATAATTAAATTTA
1 TCCATAATAAA-AA-TAAATTTA
76970860 TCCATAATAAAAATAAATT
1 TCCATAATAAAAATAAATT
76970879 GACGCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 2 0.11
23 11 0.58
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.36
Consensus pattern (21 bp):
TCCATAATAAAAATAAATTTA
Found at i:76971150 original size:29 final size:30
Alignment explanation
Indices: 76971118--76971185 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
76971108 TTGACTATAT
*
76971118 AAAAATATATAAA-ATTATT-AAATATTAA
1 AAAAATATATAAATATTATTAAAAAATTAA
*
76971146 AAAAATAATATAAATATTTTTAAAAAATTAA
1 AAAAAT-ATATAAATATTATTAAAAAATTAA
76971177 AAATAATAT
1 AAA-AATAT
76971186 GGAGGGCCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 6 0.18
29 7 0.21
30 5 0.15
31 13 0.38
32 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (30 bp):
AAAAATATATAAATATTATTAAAAAATTAA
Found at i:76986192 original size:15 final size:15
Alignment explanation
Indices: 76986174--76986226 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
76986164 AATAGAGAGA
76986174 GAAAAAAAAGAAAAT
1 GAAAAAAAAGAAAAT
*
76986189 GAAAAAAAAGAAAGT
1 GAAAAAAAAGAAAAT
* * *
76986204 TAAAAGAAATAAAA-
1 GAAAAAAAAGAAAAT
76986218 GAAAAAAAA
1 GAAAAAAAA
76986227 CTAAATTGCT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 7 0.23
15 24 0.77
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (15 bp):
GAAAAAAAAGAAAAT
Found at i:76988723 original size:27 final size:27
Alignment explanation
Indices: 76988690--76988744 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
76988680 TGAAAGTACA
76988690 CAAATTCTAGTAGTTGAACTAGGCACT
1 CAAATTCTAGTAGTTGAACTAGGCACT
76988717 CAAATTCTAGTAGTTGAACTAGGCACT
1 CAAATTCTAGTAGTTGAACTAGGCACT
76988744 C
1 C
76988745 TCCACTCGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (27 bp):
CAAATTCTAGTAGTTGAACTAGGCACT
Found at i:76997000 original size:25 final size:25
Alignment explanation
Indices: 76996966--76997015 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
76996956 TTTAAACATT
*
76996966 TTAATTCATATTATAACACCGCTTA
1 TTAATTCATATTATAACACCCCTTA
76996991 TTAATTCATATTATAACACCCCTTA
1 TTAATTCATATTATAACACCCCTTA
76997016 GCCGTATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (25 bp):
TTAATTCATATTATAACACCCCTTA
Found at i:76999128 original size:28 final size:28
Alignment explanation
Indices: 76999088--76999156 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
76999078 TAGTAAGTTT
*
76999088 GCACACTTAGTGCT-TAATAATCAAACTC
1 GCACACTTAGTGCTAT-ACAATCAAACTC
*
76999116 GCACACTTAGTGCTATACAATTAAACTC
1 GCACACTTAGTGCTATACAATCAAACTC
76999144 GCACACTTAGTGC
1 GCACACTTAGTGC
76999157 CAATCTCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (28 bp):
GCACACTTAGTGCTATACAATCAAACTC
Found at i:77005683 original size:17 final size:17
Alignment explanation
Indices: 77005658--77005691 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
77005648 GGTCGAACTA
* *
77005658 GGCCGTGTGGGCTCCAC
1 GGCCATGTGGGCCCCAC
77005675 GGCCATGTGGGCCCCAC
1 GGCCATGTGGGCCCCAC
77005692 TCGAGTAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.38, G:0.38, T:0.15
Consensus pattern (17 bp):
GGCCATGTGGGCCCCAC
Found at i:77005930 original size:27 final size:27
Alignment explanation
Indices: 77005900--77005952 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
77005890 GAGCCCTAAC
77005900 TGATAAAATGACTATGATGCCCCTATG
1 TGATAAAATGACTATGATGCCCCTATG
* *
77005927 TGATAAAATGACTGTTATGCCCCTAT
1 TGATAAAATGACTATGATGCCCCTAT
77005953 AAGATGTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (27 bp):
TGATAAAATGACTATGATGCCCCTATG
Found at i:77010696 original size:40 final size:40
Alignment explanation
Indices: 77010638--77010745 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 40
77010628 GTGTGCTAGA
* * * *
77010638 TCGGCTATACATGACACTTAGTGTGCGATTCGATATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGATTCGAGATAGCC
* ** *
77010678 TCGGCTATATATGGCACTTACTGTGTAATTTGAGATAGCC
1 TCGGCTATATATGGCACTTAGTGTGCGATTCGAGATAGCC
* * *
77010718 TCGACTATGTACGGCACTTAGTGTGCGA
1 TCGGCTATATATGGCACTTAGTGTGCGA
77010746 GATATCGAGT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTGCGATTCGAGATAGCC
Found at i:77024408 original size:43 final size:43
Alignment explanation
Indices: 77024360--77024464 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 43
77024350 TGGCCCAACT
*
77024360 ATGGTCTTGCACGA-AATCAAATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACAC-ATAATCAAATAACGATGCCAATGTCCCAGAC
* * * * *
77024403 CTGGTCTTACACATAATCACATAATGATGCCAATTTCCTAGAC
1 ATGGTCTTACACATAATCAAATAACGATGCCAATGTCCCAGAC
77024446 ATGGTCTTACACATAATCA
1 ATGGTCTTACACATAATCA
77024465 TATCTCGTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 53 0.98
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACATAATCAAATAACGATGCCAATGTCCCAGAC
Found at i:77028297 original size:43 final size:42
Alignment explanation
Indices: 77028246--77028344 Score: 130
Period size: 42 Copynumber: 2.3 Consensus size: 42
77028236 TCCCAAACAT
*
77028246 GGTCTTACATGTAATCAA-ATATCGATG-CAACTGTCCCAGATAG
1 GGTCTTACACGTAAT-AATATA-CGATGCCAA-TGTCCCAGATAG
* *
77028289 GGTCTTACACGGAATAATATACGATGCCAATGTCCCAGATAT
1 GGTCTTACACGTAATAATATACGATGCCAATGTCCCAGATAG
77028331 GGTCTTACACGTAA
1 GGTCTTACACGTAA
77028345 ATCTCAAGTC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
42 31 0.62
43 19 0.38
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGTAATAATATACGATGCCAATGTCCCAGATAG
Found at i:77033485 original size:46 final size:46
Alignment explanation
Indices: 77033431--77033655 Score: 171
Period size: 47 Copynumber: 4.8 Consensus size: 46
77033421 AATATTTAGG
*
77033431 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGA-A
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-ACA
* * *
77033477 CGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTACCTA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTA-C-A
* * *
77033522 GGCATCCGAACTCATTGAGTTGAGTCCGAG-T---TTGTGAAATGTACCTA
1 --CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTA-C-A
* *
77033569 GGCATCCTAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGA-A
1 --CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-ACA
** * *
77033617 CGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
77033656 GTGGGTTACA
Statistics
Matches: 148, Mismatches: 18, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 1 0.01
45 3 0.02
46 63 0.43
47 64 0.43
48 2 0.01
50 4 0.03
51 5 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTACA
Found at i:77033546 original size:47 final size:47
Alignment explanation
Indices: 77033479--77033601 Score: 210
Period size: 47 Copynumber: 2.6 Consensus size: 47
77033469 GATGTGAACG
* *
77033479 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTACCTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAAATGTACCTAGGCA
*
77033526 TCCGAACTCATTGAGTTGAGTCCGAGTTTGTGAAATGTACCTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAAATGTACCTAGGCA
*
77033573 TCCTAACTCATTGAGTTGAGTCCGAGTTC
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC
77033602 ACTTATGGAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (47 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAAATGTACCTAGGCA
Found at i:77036728 original size:50 final size:50
Alignment explanation
Indices: 77036606--77036852 Score: 271
Period size: 50 Copynumber: 4.8 Consensus size: 50
77036596 TAATAACATA
* * ** * *
77036606 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGGTG
* *
77036657 CCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTG
* * *
77036707 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTG
* *
77036757 CCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG-TG
* * *
77036813 CCAATGCCATGTCCCAGGCATGGTCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
77036853 TTACCCAAAT
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.55
51 31 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.23
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTG
Found at i:77036790 original size:100 final size:104
Alignment explanation
Indices: 77036606--77036852 Score: 342
Period size: 100 Copynumber: 2.4 Consensus size: 104
77036596 TAATAACATA
**
77036606 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGTCC
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATGTCC
* *
77036671 CAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG-TG
65 CAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGGATG
* *
77036707 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATGTCC
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATGTCC
77036771 CAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATG
65 CAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGGATG
* * *
77036813 CCAATGCCATGTCCCAGGCATGGTCTTACATGGGATCTCT
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
77036853 TTACCCAAAT
Statistics
Matches: 130, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 34 0.26
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (104 bp):
CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGTCCC
AGACATGGTCTTACAGGGGACCTCTCAATCTTAAGGATG
Found at i:77036968 original size:13 final size:13
Alignment explanation
Indices: 77036947--77036978 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
77036937 GCTTGGATCA
*
77036947 TCATCAAATAAAT
1 TCATAAAATAAAT
77036960 TCATAAAATAAAT
1 TCATAAAATAAAT
77036973 TCATAA
1 TCATAA
77036979 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:77037224 original size:30 final size:30
Alignment explanation
Indices: 77037190--77037247 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
77037180 CCTCGACTCT
**
77037190 AACTTTTTGAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
77037220 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
77037248 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:77037827 original size:16 final size:16
Alignment explanation
Indices: 77037808--77037840 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
77037798 TTCTATTCTG
*
77037808 TTTCTTTTCTTTCTTT
1 TTTCTATTCTTTCTTT
77037824 TTTCTATTCTTTCTTT
1 TTTCTATTCTTTCTTT
77037840 T
1 T
77037841 GTTTTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTATTCTTTCTTT
Found at i:77037862 original size:5 final size:5
Alignment explanation
Indices: 77037849--77037920 Score: 62
Period size: 5 Copynumber: 14.4 Consensus size: 5
77037839 TTGTTTTATG
77037849 TATATA TATAA TATAA TATAA TAT-A T-TAA TGATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
77037897 CATAA TCATTAC TATAA TATAA TA
1 TATAA T-A-TAA TATAA TATAA TA
77037921 ATATTTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 34 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:77037874 original size:19 final size:19
Alignment explanation
Indices: 77037850--77037892 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
77037840 TGTTTTATGT
77037850 ATATATATAAT-ATAATATA
1 ATATAT-TAATGATAATATA
77037869 ATATATTAATGATAATATA
1 ATATATTAATGATAATATA
77037888 ATATA
1 ATATA
77037893 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATTAATGATAATATA
Found at i:77037902 original size:24 final size:24
Alignment explanation
Indices: 77037856--77037921 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
77037846 ATGTATATAT
* * *
77037856 ATAATATAATATAATATATTAATG
1 ATAATATAATATAATAAAATAATC
77037880 ATAATATAATATAA-AAACATAATC
1 ATAATATAATATAATAAA-ATAATC
*
77037904 ATTACTATAATATAATAA
1 A-TAATATAATATAATAA
77037922 TATTTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.06
24 19 0.54
25 12 0.34
26 2 0.06
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (24 bp):
ATAATATAATATAATAAAATAATC
Found at i:77039700 original size:30 final size:29
Alignment explanation
Indices: 77039664--77039720 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
77039654 ATATTATCGT
*
77039664 ATCTTGGGTTTCTTTATTCTGGGTTTCTCA
1 ATCTTGGATTTCTTTATTC-GGGTTTCTCA
*
77039694 ATCTTGGATTTCTTTATTCGGTTTTCT
1 ATCTTGGATTTCTTTATTCGGGTTTCT
77039721 TATTATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.11, C:0.16, G:0.18, T:0.56
Consensus pattern (29 bp):
ATCTTGGATTTCTTTATTCGGGTTTCTCA
Found at i:77042501 original size:46 final size:46
Alignment explanation
Indices: 77042434--77042697 Score: 252
Period size: 46 Copynumber: 5.7 Consensus size: 46
77042424 TTGGGCATCG
*
77042434 GAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCC
1 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCC
* * *
77042480 GAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTGGGCATCC
1 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAC---G--TCC
*
77042527 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCC
* * * * * * * * *
77042573 GAACTCATTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCTGAGTTCACT--TATGGATGCGA-ACGTCC
*
77042620 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCC
* * *
77042666 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 GAACTCGTTGAGTTGAGTCTGAGTTCACTTAT
77042698 AGGTGGGTTA
Statistics
Matches: 173, Mismatches: 31, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
42 3 0.02
43 4 0.02
45 4 0.02
46 90 0.52
47 62 0.36
48 4 0.02
50 4 0.02
51 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCC
Found at i:77042542 original size:47 final size:46
Alignment explanation
Indices: 77042477--77042645 Score: 202
Period size: 47 Copynumber: 3.6 Consensus size: 46
77042467 GATGCGAACG
77042477 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTGGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACT-GGCA
* * *
77042524 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA-T-G--
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTGGCA
* * *
77042570 TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACT-GGCA
77042617 TCCGAACTCGTTGAGTTGAGTCTGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTC
77042646 ACTTATGGAT
Statistics
Matches: 102, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 27 0.26
47 56 0.55
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTGGCA
Found at i:77042584 original size:93 final size:93
Alignment explanation
Indices: 77042425--77042692 Score: 455
Period size: 93 Copynumber: 2.9 Consensus size: 93
77042415 TTCAGATATT
* *
77042425 TGGGCATCGGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTG
1 TGGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTG
* *
77042490 AGTTGAGTCTGAGTTCGTGAGATGTAAC
66 AGTTGAGTCCGAGTTCGTGAAATGTAAC
* *
77042518 TGGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCATTG
1 TGGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTG
77042583 AGTTGAGTCCGAGTTCGTGAAATGTAAC
66 AGTTGAGTCCGAGTTCGTGAAATGTAAC
* * *
77042611 TAGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTG
1 TGGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTG
77042676 AGTTGAGTCCGAGTTCG
66 AGTTGAGTCCGAGTTCG
77042693 CTTATAGGTG
Statistics
Matches: 164, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 164 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
TGGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTG
AGTTGAGTCCGAGTTCGTGAAATGTAAC
Found at i:77046515 original size:24 final size:25
Alignment explanation
Indices: 77046479--77046556 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 25
77046469 AGACCAGTAT
* *
77046479 GCTCTTACGAGCTGTA-AACGGTAA
1 GCTCTTACAAGCTGAATAACGGTAA
* *
77046503 GCTCTTTCAAGCTGAATAATGGTAA
1 GCTCTTACAAGCTGAATAACGGTAA
* * * * *
77046528 GCTCCTCCGAGTTGAATAACAGTAA
1 GCTCTTACAAGCTGAATAACGGTAA
77046553 GCTC
1 GCTC
77046557 ATGCGAGCTA
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
24 13 0.30
25 30 0.70
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (25 bp):
GCTCTTACAAGCTGAATAACGGTAA
Found at i:77046563 original size:25 final size:25
Alignment explanation
Indices: 77046515--77046563 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
77046505 TCTTTCAAGC
** *
77046515 TGAATAATGGTAAGCTCCTCCGAGT
1 TGAATAACAGTAAGCTCATCCGAGT
*
77046540 TGAATAACAGTAAGCTCATGCGAG
1 TGAATAACAGTAAGCTCATCCGAG
77046564 CTAAGTATCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (25 bp):
TGAATAACAGTAAGCTCATCCGAGT
Found at i:77048561 original size:22 final size:22
Alignment explanation
Indices: 77048536--77048581 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
77048526 CTATAGATGA
77048536 AAGAAAGAAAATGAAGTAATAT
1 AAGAAAGAAAATGAAGTAATAT
77048558 AAGAAAGAAAATGAAGTAATAT
1 AAGAAAGAAAATGAAGTAATAT
77048580 AA
1 AA
77048582 CATAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.17, T:0.17
Consensus pattern (22 bp):
AAGAAAGAAAATGAAGTAATAT
Found at i:77048590 original size:22 final size:22
Alignment explanation
Indices: 77048539--77048591 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
77048529 TAGATGAAAG
*
77048539 AAAGAAAATGAAGTAATATAAG
1 AAAGAAAATGAAGTAATATAAC
77048561 AAAGAAAATGAAGTAATATAAC
1 AAAGAAAATGAAGTAATATAAC
77048583 ATAA-AAAAT
1 A-AAGAAAAT
77048592 TAAAAGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.66, C:0.02, G:0.13, T:0.19
Consensus pattern (22 bp):
AAAGAAAATGAAGTAATATAAC
Found at i:77051270 original size:20 final size:20
Alignment explanation
Indices: 77051220--77051273 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
77051210 CATAGCGTAC
*
77051220 CCACACGGGCATGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
*
77051240 CCACATGGGCGTGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
77051260 CCACACGGGCGTGT
1 CCACACGGGCGTGT
77051274 GACCCCTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.37, G:0.30, T:0.13
Consensus pattern (20 bp):
CCACACGGGCGTGTCCCAAG
Found at i:77052656 original size:35 final size:36
Alignment explanation
Indices: 77052599--77052670 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 36
77052589 CTTGGCCCAT
* * *
77052599 TGCAGTAACAGTAAGTAGTGCAGTAACAAT-AACAG
1 TGCAATAACAGTAAATAATGCAGTAACAATAAACAG
* *
77052634 TGCAATAATAGTAAATAATGCAGTAACAGTAAACAG
1 TGCAATAACAGTAAATAATGCAGTAACAATAAACAG
77052670 T
1 T
77052671 ATGCAAGTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
35 25 0.81
36 6 0.19
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.22
Consensus pattern (36 bp):
TGCAATAACAGTAAATAATGCAGTAACAATAAACAG
Found at i:77052666 original size:18 final size:18
Alignment explanation
Indices: 77052599--77052666 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
77052589 CTTGGCCCAT
*
77052599 TGCAGTAACAGTAAGTAG
1 TGCAGTAACAGTAAATAG
* *
77052617 TGCAGTAACAAT-AACAG
1 TGCAGTAACAGTAAATAG
* * *
77052634 TGCAATAATAGTAAATAA
1 TGCAGTAACAGTAAATAG
77052652 TGCAGTAACAGTAAA
1 TGCAGTAACAGTAAA
77052667 CAGTATGCAA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
17 12 0.31
18 27 0.69
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (18 bp):
TGCAGTAACAGTAAATAG
Found at i:77053131 original size:81 final size:81
Alignment explanation
Indices: 77053013--77053211 Score: 290
Period size: 81 Copynumber: 2.5 Consensus size: 81
77053003 CTTACTATAA
* * *
77053013 AAGGGCAAAACATTCATTTTACCACATAAGGGCAAAACAGTAATTTTACCTCATAAGGGAAAAAT
1 AAGGGCAAAACAGTCATTTTACCACATAAGGGAAAAACAGTAATTTTACCTCATAAGGGAAAAAC
* *
77053078 AGTTATTTTACCACAT
66 AATCATTTTACCACAT
* ** *
77053094 AAGGGCAAAACAGTCATTTTACCACATAAGGGTAAAACAGTCCTTTTACCTCATAAGGGCAAAAC
1 AAGGGCAAAACAGTCATTTTACCACATAAGGGAAAAACAGTAATTTTACCTCATAAGGGAAAAAC
*
77053159 AATCATTTTACCTCAT
66 AATCATTTTACCACAT
* *
77053175 AAGGGCAAAACTGTCATTTTACCCCATAAGGGAAAAA
1 AAGGGCAAAACAGTCATTTTACCACATAAGGGAAAAA
77053212 TAATCACTTT
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 106 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.25
Consensus pattern (81 bp):
AAGGGCAAAACAGTCATTTTACCACATAAGGGAAAAACAGTAATTTTACCTCATAAGGGAAAAAC
AATCATTTTACCACAT
Found at i:77053224 original size:27 final size:27
Alignment explanation
Indices: 77052981--77053211 Score: 246
Period size: 27 Copynumber: 8.6 Consensus size: 27
77052971 AAACATACAT
* * * *
77052981 CACATAGGGGTAAAATAGTCATCTTAC
1 CACATAAGGGAAAAACAGTCATTTTAC
* * * * *
77053008 TATAAAAGGGCAAAACATTCATTTTAC
1 CACATAAGGGAAAAACAGTCATTTTAC
* *
77053035 CACATAAGGGCAAAACAGTAATTTTAC
1 CACATAAGGGAAAAACAGTCATTTTAC
* * *
77053062 CTCATAAGGGAAAAATAGTTATTTTAC
1 CACATAAGGGAAAAACAGTCATTTTAC
*
77053089 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGAAAAACAGTCATTTTAC
* *
77053116 CACATAAGGGTAAAACAGTCCTTTTAC
1 CACATAAGGGAAAAACAGTCATTTTAC
* * *
77053143 CTCATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGAAAAACAGTCATTTTAC
* * *
77053170 CTCATAAGGGCAAAACTGTCATTTTAC
1 CACATAAGGGAAAAACAGTCATTTTAC
*
77053197 CCCATAAGGGAAAAA
1 CACATAAGGGAAAAA
77053212 TAATCACTTT
Statistics
Matches: 173, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 173 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (27 bp):
CACATAAGGGAAAAACAGTCATTTTAC
Found at i:77053485 original size:18 final size:17
Alignment explanation
Indices: 77053453--77053486 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
77053443 TACCAATGTG
*
77053453 GGGCCCATGTGCCCATA
1 GGGCCCATCTGCCCATA
77053470 GGGCCCATACTGCCCAT
1 GGGCCCAT-CTGCCCAT
77053487 TTCAGCCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.18, C:0.38, G:0.26, T:0.18
Consensus pattern (17 bp):
GGGCCCATCTGCCCATA
Found at i:77054090 original size:21 final size:21
Alignment explanation
Indices: 77054066--77054105 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
77054056 GGAACCAGTT
*
77054066 AAGAGAAAGGGGAG-AAGAGAA
1 AAGA-AAAAGGGAGCAAGAGAA
77054087 AAGAAAAAGGGAGCAAGAG
1 AAGAAAAAGGGAGCAAGAG
77054106 GCAAGGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.57, C:0.03, G:0.40, T:0.00
Consensus pattern (21 bp):
AAGAAAAAGGGAGCAAGAGAA
Found at i:77063380 original size:14 final size:15
Alignment explanation
Indices: 77063361--77063390 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
77063351 ATTTATTATA
77063361 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
77063375 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
77063390 T
1 T
77063391 CTAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:77065150 original size:42 final size:43
Alignment explanation
Indices: 77065054--77065217 Score: 165
Period size: 43 Copynumber: 3.9 Consensus size: 43
77065044 AATGTGATAT
* * * * *
77065054 TCGGGCCTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTG-A-AATAATA
*
77065097 TCGGGCTTCGGGCCTAGCAGGCT-TAATGCCGGTGAGATAATA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* * *
77065139 TCGGGCTTCGGGCCTAGTAGCCTATAATGCCGGTGAAATGATA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
** * *
77065182 TCGGGCTTCAAGCCTAGCAGGCGA-AATGCCAGTGAA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
77065218 TGAGTTCAGA
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 37 0.36
43 48 0.47
44 18 0.17
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (43 bp):
TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
Found at i:77088946 original size:41 final size:41
Alignment explanation
Indices: 77088883--77089025 Score: 148
Period size: 41 Copynumber: 3.5 Consensus size: 41
77088873 TAAAATTTGT
*
77088883 TAGGC-ATGAAGCCT-AGTATAATACACCGGCACAGAGCCTGC
1 TAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCCTGC
* * *
77088924 TAGGCAATAAACCTGAGT-TAATACACTGGCATAAAGCCTGC
1 TAGGCAATAAGCCTGA-TATAATACACCGGCACAAAGCCTGC
* * * *
77088965 TAGACATTAAGCCTGATATCATACATCGGCATCAAAGCCTGC
1 TAGGCAATAAGCCTGATATAATACACCGGCA-CAAAGCCTGC
*
77089007 TAGGTAATAAGCCTGATAT
1 TAGGCAATAAGCCTGATAT
77089026 TATATCACTA
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
40 1 0.01
41 53 0.63
42 30 0.36
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.22
Consensus pattern (41 bp):
TAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGC
Found at i:77090500 original size:20 final size:20
Alignment explanation
Indices: 77090463--77090501 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
77090453 CCACCACATG
* *
77090463 CCTTCCAATTATCTCCATTC
1 CCTTCCAAATATCGCCATTC
*
77090483 CCTTCCAAATCTCGCCATT
1 CCTTCCAAATATCGCCATT
77090502 TGTCTCGTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.41, G:0.03, T:0.36
Consensus pattern (20 bp):
CCTTCCAAATATCGCCATTC
Found at i:77100628 original size:67 final size:65
Alignment explanation
Indices: 77100544--77100697 Score: 175
Period size: 64 Copynumber: 2.3 Consensus size: 65
77100534 CTAGCCAGTT
* * * * *
77100544 TATCTCGTACCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATAGTG---TACACATAGAACCACCCATGCGACCTAGCTACA
77100609 T-A
63 TCA
* * *
77100611 TATCCCGTAGCTCTCTTGTCTACATAGTGTACACATAGTATCACCCATGCGACCTAGCTACATCA
1 TATCTCGTAGCTCTCTTGTCTACATAGTGTACACATAGAACCACCCATGCGACCTAGCTACATCA
77100676 TAATGTCTCGTAGCTCTCTTGT
1 T-A--TCTCGTAGCTCTCTTGT
77100698 ACACATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 29 0.39
65 2 0.03
66 1 0.01
67 26 0.35
68 16 0.22
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.32
Consensus pattern (65 bp):
TATCTCGTAGCTCTCTTGTCTACATAGTGTACACATAGAACCACCCATGCGACCTAGCTACATCA
Found at i:77101241 original size:30 final size:30
Alignment explanation
Indices: 77101207--77101267 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
77101197 TCCTTAACTC
77101207 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
77101237 AAACTTTTGCATATTTACACTTTTGGCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
77101267 A
1 A
77101268 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:77102338 original size:21 final size:21
Alignment explanation
Indices: 77102299--77102337 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
77102289 GGACTAAGCC
77102299 GAAAACCTTAGAAAGTTTTGG
1 GAAAACCTTAGAAAGTTTTGG
*
77102320 GAAAA-CTTAGAAAATTTT
1 GAAAACCTTAGAAAGTTTT
77102338 TCCATGACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.31
Consensus pattern (21 bp):
GAAAACCTTAGAAAGTTTTGG
Found at i:77104160 original size:49 final size:49
Alignment explanation
Indices: 77104107--77104414 Score: 259
Period size: 49 Copynumber: 6.5 Consensus size: 49
77104097 AAGTCAATGT
77104107 CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCCGATGC
1 CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCCGATGC
* * * * *
77104156 CATGTCCCAGACAGGTCTTACATTGGA-TCTCATCTATC-GGTGTCGATGC
1 CATGTCCCAGACAGGTCTTACACT-GACTTTCATATATCAAG-GCCGATGC
* *
77104205 CATGTCCCAGACAGGTCTTACACTGA----CACATGTCAA-GCCGATGC
1 CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCCGATGC
* * * * *
77104249 CGTGTCCCAGATAGGTTTTACACT-AGCTTGCATATCTCAAGGCCGATG-
1 CATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCAAGGCCGATGC
* * * * *
77104297 CATGTCCCAGACATGTCTTACACTAACTCTT-ATCT-T-AATGCTGATGC
1 CATGTCCCAGACAGGTCTTACACTGACT-TTCATATATCAAGGCCGATGC
* * * **
77104344 CATGTCCCAGACATGGTCTTACATTGGCTCTCATA-AT-GTGGCCGATG-
1 CATGTCCCAGACA-GGTCTTACACTGACTTTCATATATCAAGGCCGATGC
*
77104391 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACAGGTCTTACACT
77104415 AGCACACATC
Statistics
Matches: 208, Mismatches: 36, Indels: 33
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.00
44 28 0.13
45 5 0.02
46 17 0.08
47 28 0.13
48 56 0.27
49 71 0.34
50 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCCGATGC
Found at i:77104397 original size:142 final size:144
Alignment explanation
Indices: 77104049--77104417 Score: 387
Period size: 142 Copynumber: 2.6 Consensus size: 144
77104039 ATAGGGTACG
* * * * * *
77104049 ATGCTGATGCCATGTTCTAAACATGGTCTTACATTGGCTCATACATCTAAGTCAATGTCATGTCC
1 ATGCTGATGCCATGTCCCAGACATGGTCTTACATTGGCTCATA-ATCT-AGCCGATGCCATGTCC
*
77104114 CAGACAGGTCTTACACT-GACTTTCATATATCAAGGCCGATGCCATGTCCCAGACAGGTCTTACA
64 CAGACAGGTCTTACACTAG-CTTGCATATATCAAGGCCGATGCCATGTCCCAGACAGGTCTTACA
* * *
77104178 TTGGATCTCATCTATCG
128 CTGAATCTCATCTATCA
* * * * * * *
77104195 GTG-TCGATGCCATGTCCCAGACA-GGTCTTACACTGACACAT-GTCAAGCCGATGCCGTGTCCC
1 ATGCT-GATGCCATGTCCCAGACATGGTCTTACATTGGCTCATAATCTAGCCGATGCCATGTCCC
* * * *
77104257 AGATAGGTTTTACACTAGCTTGCATATCTCAAGGCCGATG-CATGTCCCAGACATGTCTTACACT
65 AGACAGGTCTTACACTAGCTTGCATATATCAAGGCCGATGCCATGTCCCAGACAGGTCTTACACT
*
77104321 -AACTCTTATCT-T-A
130 GAA-TCTCATCTATCA
* *
77104334 ATGCTGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCCGATG-CATGTCC
1 ATGCTGATGCCATGTCCCAGACATGGTCTTACATTGG--CTCATAATCTAGCCGATGCCATGTCC
*
77104398 CAGACATGTCTTACACTAGC
64 CAGACAGGTCTTACACTAGC
77104418 ACACATCCAT
Statistics
Matches: 181, Mismatches: 34, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
139 20 0.11
140 14 0.08
141 29 0.16
142 74 0.41
143 11 0.06
145 16 0.09
146 17 0.09
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (144 bp):
ATGCTGATGCCATGTCCCAGACATGGTCTTACATTGGCTCATAATCTAGCCGATGCCATGTCCCA
GACAGGTCTTACACTAGCTTGCATATATCAAGGCCGATGCCATGTCCCAGACAGGTCTTACACTG
AATCTCATCTATCA
Found at i:77108795 original size:24 final size:23
Alignment explanation
Indices: 77108762--77108819 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
77108752 AGTTGAAAAG
77108762 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
77108786 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
77108808 TATATATAATAA
1 TATA-ATAATAA
77108820 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:77109172 original size:49 final size:48
Alignment explanation
Indices: 77109090--77109247 Score: 264
Period size: 49 Copynumber: 3.2 Consensus size: 48
77109080 CTTACTTTGA
*
77109090 GAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
77109137 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
*
77109186 GAATGTGAAAGTATGTATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
77109235 GAATGTGATAAGT
1 GAATGTGA-AAGT
77109248 CCCGAAGGGC
Statistics
Matches: 105, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
47 13 0.12
49 88 0.84
50 4 0.04
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (48 bp):
GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
Found at i:77109421 original size:37 final size:37
Alignment explanation
Indices: 77109365--77109443 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
77109355 CCGAGATCTA
* * *
77109365 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
77109402 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
77109439 AAGAC
1 AAGAC
77109444 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:77112567 original size:25 final size:25
Alignment explanation
Indices: 77112539--77112588 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
77112529 ATAAAAACTG
*
77112539 ACATTCATATTCGTTTTATGCCAAC
1 ACATTCATATTCGTTTTACGCCAAC
*
77112564 ACATTCATATTCTTTTTACGCCAAC
1 ACATTCATATTCGTTTTACGCCAAC
77112589 TGTAACACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.06, T:0.40
Consensus pattern (25 bp):
ACATTCATATTCGTTTTACGCCAAC
Found at i:77113243 original size:18 final size:18
Alignment explanation
Indices: 77113210--77113261 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
77113200 GGCTTTAACC
77113210 CATTA-CAGAA-TAAGAAA
1 CATTATCAGAACT-AGAAA
*
77113227 CATTATCAGAACTAGAAT
1 CATTATCAGAACTAGAAA
**
77113245 CAAAATCAGAACTAGAA
1 CATTATCAGAACTAGAA
77113262 TTAGGTGACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.17
18 24 0.80
19 1 0.03
ACGTcount: A:0.54, C:0.15, G:0.12, T:0.19
Consensus pattern (18 bp):
CATTATCAGAACTAGAAA
Found at i:77113279 original size:6 final size:6
Alignment explanation
Indices: 77113270--77113350 Score: 58
Period size: 6 Copynumber: 13.0 Consensus size: 6
77113260 AATTAGGTGA
* * *
77113270 CAGAAT CAGAAT CAAAAT CAGTAT CAGGTAA- CAGAAT CAAAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
* *
77113319 CAGTAT CAGGTAA- CAGAAT CAAAAAT CAGAAT
1 CAGAAT CA-G-AAT CAGAAT C-AGAAT CAGAAT
77113351 ATGAATGCAA
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
5 4 0.07
6 41 0.71
7 11 0.19
8 2 0.03
ACGTcount: A:0.51, C:0.16, G:0.15, T:0.19
Consensus pattern (6 bp):
CAGAAT
Found at i:77113283 original size:31 final size:31
Alignment explanation
Indices: 77113240--77113350 Score: 152
Period size: 31 Copynumber: 3.5 Consensus size: 31
77113230 TATCAGAACT
* * *
77113240 AGAATCAAAATCAGAA-CTAGAATTAGGTGAC
1 AGAATCAAAATCAGAATC-AGTATCAGGTAAC
* *
77113271 AGAATCAGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
77113302 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
77113333 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
77113351 ATGAATGCAA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
31 59 0.83
32 12 0.17
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:77113530 original size:27 final size:26
Alignment explanation
Indices: 77113487--77113588 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
77113477 GCTCAGTTAT
** *
77113487 CAGATATTGTGATAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
77113514 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
77113540 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
*
77113568 CAGATATTGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
77113589 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:77113614 original size:54 final size:54
Alignment explanation
Indices: 77113505--77113606 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
77113495 GTGATAGAGT
* * ** *
77113505 CACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTGTGGCAAAGCCACCAGAACAGATATACGTGGCAAAGC
**
77113559 CACCAGAAACAGATATTGTGGCAAAGCCA-CTTAACAGA-ATACGTGGCA
1 CACCAGAAACAGATATTGTGGCAAAGCCACCAGAACAGATATACGTGGCA
77113607 CAAAGCCATC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 8 0.19
53 7 0.17
54 27 0.64
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (54 bp):
CACCAGAAACAGATATTGTGGCAAAGCCACCAGAACAGATATACGTGGCAAAGC
Found at i:77113777 original size:22 final size:22
Alignment explanation
Indices: 77113747--77113811 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
77113737 GCAAATACGT
77113747 TTGGCACACAGCCATAATCAGG
1 TTGGCACACAGCCATAATCAGG
* *
77113769 TTGGTACACAGCCAT-ATGTAGG
1 TTGGCACACAGCCATAAT-CAGG
* *
77113791 TTGACACAAAGCCATAATCAG
1 TTGGCACACAGCCATAATCAG
77113812 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (22 bp):
TTGGCACACAGCCATAATCAGG
Found at i:77114833 original size:27 final size:27
Alignment explanation
Indices: 77114238--77114830 Score: 747
Period size: 27 Copynumber: 22.0 Consensus size: 27
77114228 GGGGTAAAAT
* * *
77114238 GGTAATTTTACCCTACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
77114264 GGTAATTCCACCCTGCAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
77114291 AGTAATTCTACCCTACAGGAGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
77114318 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
77114345 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
77114372 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
77114399 GAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
77114426 GATGATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
77114453 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
77114480 GGTGATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
77114507 GGTGATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
77114534 GGTGATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
77114561 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
77114588 GGTAATTCTACTTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
77114615 AGTAATTCTACCCTACAGGGATATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
77114642 GGTAATTCTACCTTATAAGGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
77114669 AGTAATTCTAACTTAAAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
77114696 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
77114723 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
77114750 GATATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
77114777 AGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
77114804 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
77114831 AATCATTTTG
Statistics
Matches: 502, Mismatches: 64, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
26 14 0.03
27 488 0.97
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:77114879 original size:27 final size:27
Alignment explanation
Indices: 77114835--77114907 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
77114825 TATTTCAATC
*
77114835 ATTTTGTAAATCGAGGGTAAAATGGTA
1 ATTTTATAAATCGAGGGTAAAATGGTA
***
77114862 ATTTTATAAATC-AGGGGTACTTTGGTA
1 ATTTTATAAATCGA-GGGTAAAATGGTA
* *
77114889 ATTTTACAAGTCGAGGGTA
1 ATTTTATAAATCGAGGGTA
77114908 TTTCAATAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
26 1 0.03
27 36 0.95
28 1 0.03
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.36
Consensus pattern (27 bp):
ATTTTATAAATCGAGGGTAAAATGGTA
Found at i:77115015 original size:81 final size:81
Alignment explanation
Indices: 77114860--77115054 Score: 207
Period size: 81 Copynumber: 2.4 Consensus size: 81
77114850 GGTAAAATGG
* * ** *
77114860 TAATTTTATAAATCAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAG
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTCAATAATTTTACAA
*
77114925 GTCAAGGGTATTTCAA
66 CTCAAGGGTATTTCAA
* **
77114941 TAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACC-AGGGGTATTTTGATAATTTTGTA
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCGA-GGGTATTTCAATAA-TTT-TA
* ***
77115005 -AACT-AGGGGTATTTTGG
63 CAACTCAAGGGTATTTCAA
* *
77115022 TAATTTTACAAACCAGTGGTATTTTGGTAATTT
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTT
77115055 GGTAAACTAA
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
80 1 0.01
81 87 0.92
82 5 0.05
83 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTCAATAATTTTACAA
CTCAAGGGTATTTCAA
Found at i:77115061 original size:27 final size:27
Alignment explanation
Indices: 77114857--77115054 Score: 182
Period size: 27 Copynumber: 7.3 Consensus size: 27
77114847 GAGGGTAAAA
* * *
77114857 TGGTAATTTTATAAATCAGGGGTACTT
1 TGGTAATTTTACAAACCAGGGGTATTT
**
77114884 TGGTAATTTTACAAGTC-GAGGGTATTT
1 TGGTAATTTTACAAACCAG-GGGTATTT
*** *** *
77114911 CAATAATTTTACAGGTCAAGGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
*** * *
77114938 CAATAATTTCACAAATCAGGGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
77114965 TGGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
* ** *
77114992 TGATAATTTTGTAAACTAGGGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
*
77115019 TGGTAATTTTACAAACCAGTGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
77115046 TGGTAATTT
1 TGGTAATTT
77115055 GGTAAACTAA
Statistics
Matches: 143, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TGGTAATTTTACAAACCAGGGGTATTT
Found at i:77119991 original size:49 final size:49
Alignment explanation
Indices: 77119926--77120058 Score: 164
Period size: 49 Copynumber: 2.7 Consensus size: 49
77119916 ATACATCTAA
* * * *
77119926 GTCAATGTCATGTCCCAGATAGGTCTTACACTGACTTTCA-CATATCGAG-
1 GTCAATGCCATGTCCCAGACAAGTCTTACACTGACTCTCATC-TATCG-GT
*
77119975 G-CTAATGCCATGTCCCAGACAAGTCTTACACTGGCTCTCATCTATCGGT
1 GTC-AATGCCATGTCCCAGACAAGTCTTACACTGACTCTCATCTATCGGT
*
77120024 GTCGATGCCATGTCCCAGACAAGTCTTACACTGAC
1 GTCAATGCCATGTCCCAGACAAGTCTTACACTGAC
77120059 ACATGTCAAG
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
48 2 0.03
49 69 0.95
50 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
GTCAATGCCATGTCCCAGACAAGTCTTACACTGACTCTCATCTATCGGT
Found at i:77120223 original size:47 final size:47
Alignment explanation
Indices: 77120116--77120244 Score: 145
Period size: 47 Copynumber: 2.7 Consensus size: 47
77120106 CATATCTCGA
* * * **
77120116 GGCCGATGCATATCCTAGACATGTCTTACACTAGCTCTCGTCTTAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATAAT
* * *
77120163 -GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GT
1 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATAAT
*
77120210 GGCCGATGCATGTCCCAAACATGTCTTACACTAGC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
77120245 ACACATCCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
46 18 0.26
47 26 0.38
48 24 0.35
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATAAT
Found at i:77123286 original size:47 final size:47
Alignment explanation
Indices: 77123230--77123645 Score: 724
Period size: 47 Copynumber: 8.8 Consensus size: 47
77123220 GATTTAGGAT
77123230 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* *
77123277 CCGATGTGATGAATGTGAAAGTTTATATATGTGATAAGGCCTAATAG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
77123324 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
77123371 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
77123418 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
77123465 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
77123514 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* * * *
77123561 CCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* * * *
77123608 CCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
77123646 TCCCGAGGGC
Statistics
Matches: 353, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 306 0.87
49 47 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
Found at i:77123537 original size:190 final size:188
Alignment explanation
Indices: 77123230--77123645 Score: 733
Period size: 190 Copynumber: 2.2 Consensus size: 188
77123220 GATTTAGGAT
77123230 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
77123295 AAGTTTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
66 AAGTTTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
* *
77123360 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
131 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGG
77123418 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
77123483 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
66 AAGT-T-TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
77123548 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
129 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGG
* * * *
77123608 CCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
77123646 TCCCGAGGGC
Statistics
Matches: 217, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
188 69 0.32
189 1 0.00
190 147 0.68
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (188 bp):
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
AAGTTTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGG
Found at i:77123819 original size:37 final size:37
Alignment explanation
Indices: 77123763--77123841 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
77123753 CCGAGCTCTA
* * * *
77123763 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
*
77123800 AAGACCCAATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
77123837 AAGAC
1 AAGAC
77123842 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:77128086 original size:19 final size:20
Alignment explanation
Indices: 77128064--77128110 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
77128054 CTTTATGTTC
77128064 TTTTTAATTTTATAA-GTGA
1 TTTTTAATTTTATAATGTGA
* *
77128083 TTTTT-ATATTATAATGTTA
1 TTTTTAATTTTATAATGTGA
*
77128102 TTATTAATT
1 TTTTTAATT
77128111 GAAAAAGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 8 0.36
19 12 0.55
20 2 0.09
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
TTTTTAATTTTATAATGTGA
Found at i:77128144 original size:23 final size:23
Alignment explanation
Indices: 77128118--77128162 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
77128108 ATTGAAAAAG
*
77128118 ATAAAATAA-AGAAATAAAGGTTA
1 ATAAAATAATA-AAACAAAGGTTA
77128141 ATAAAATAATAAAACAAAGGTT
1 ATAAAATAATAAAACAAAGGTT
77128163 TTCTTCTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.22
Consensus pattern (23 bp):
ATAAAATAATAAAACAAAGGTTA
Found at i:77129050 original size:25 final size:25
Alignment explanation
Indices: 77129022--77129089 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
77129012 CTCGTATGAG
* *
77129022 CTTACCATTATTCAGCTCGCACGAC
1 CTTACCGTTATTCAGCTCGCAAGAC
* * *
77129047 CTTACCGTTATTCAGCTTGGAAGAG
1 CTTACCGTTATTCAGCTCGCAAGAC
77129072 CTTACCGTTATTCAGCTC
1 CTTACCGTTATTCAGCTC
77129090 AAAAAAGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.32
Consensus pattern (25 bp):
CTTACCGTTATTCAGCTCGCAAGAC
Found at i:77136213 original size:15 final size:17
Alignment explanation
Indices: 77136183--77136214 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
77136173 TTGATACTTG
77136183 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
77136200 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
77136215 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:77136527 original size:158 final size:158
Alignment explanation
Indices: 77136239--77136555 Score: 526
Period size: 158 Copynumber: 2.0 Consensus size: 158
77136229 AAATATGTTA
* * * *
77136239 AGTGTTGGTAATGAATGATATGATTTAGCCTTGTTTATGGATGTTTTCGTTGCTTAAACATGTTA
1 AGTGTTGGTAATGAATGATATGATTTAGCCTTGTTTATGAATGTTTTCATTGCTAAAACATGTCA
* ** * * *
77136304 TGGATTATTGCATTGAATTTGTGTGTATGTAGGTGTAAAAGAGGGTGACAAATGGCTTGGTAAAT
66 TGGATTATTGCATTGAATTTGTGAGTATACAGGGGTAAAAGAGGGTGACAAATGGCTCGATAAAT
*
77136369 AGCCTTTATTTTGTCCACACGAGCAGAC
131 AGCCTTTATTTTGTCCACACAAGCAGAC
77136397 AGTGTTGGTAATGAATGATATGATTTAGCCTTGTTTATGAATGTTTTCATTGCTAAAACATGTCA
1 AGTGTTGGTAATGAATGATATGATTTAGCCTTGTTTATGAATGTTTTCATTGCTAAAACATGTCA
77136462 TGGATTATTGCATTGAATTTGTGAGTATACAGGGGTAAAAGAGGGTGACAAATGGCTCGATAAAT
66 TGGATTATTGCATTGAATTTGTGAGTATACAGGGGTAAAAGAGGGTGACAAATGGCTCGATAAAT
*
77136527 AGCCTTTATTTTGTCCACACAAGTAGAC
131 AGCCTTTATTTTGTCCACACAAGCAGAC
77136555 A
1 A
77136556 CACGGTCGTG
Statistics
Matches: 147, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
158 147 1.00
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.36
Consensus pattern (158 bp):
AGTGTTGGTAATGAATGATATGATTTAGCCTTGTTTATGAATGTTTTCATTGCTAAAACATGTCA
TGGATTATTGCATTGAATTTGTGAGTATACAGGGGTAAAAGAGGGTGACAAATGGCTCGATAAAT
AGCCTTTATTTTGTCCACACAAGCAGAC
Found at i:77138217 original size:21 final size:22
Alignment explanation
Indices: 77138167--77138219 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
77138157 CAGGGCTGAT
* *
77138167 ATGCCCGTGTGATCCAAGGGGC
1 ATGCCCGTGTGACCCAAGGGAC
* *
77138189 ACGCCCGTGTGACCCTA-GGAC
1 ATGCCCGTGTGACCCAAGGGAC
77138210 ATGCCCGTGT
1 ATGCCCGTGT
77138220 TGCAGGCCGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.17, C:0.32, G:0.32, T:0.19
Consensus pattern (22 bp):
ATGCCCGTGTGACCCAAGGGAC
Found at i:77139735 original size:58 final size:57
Alignment explanation
Indices: 77139599--77139737 Score: 145
Period size: 57 Copynumber: 2.4 Consensus size: 57
77139589 GTATAAAATA
** ** * *
77139599 GGATTACCAGTCCAGGCTAAATCCTTTTTATGACATATGCTCTAAAAAGCTTGATCT
1 GGATTACCAGTCCAGGCTAAATCCAATCAATAACATATGCTCGAAAAAGCTTGATCT
* * * * * *
77139656 GGATTACCCGCCCGGGCTAAATCCAATCAATAACATATGCTCG-AGAGGACTTATATCT
1 GGATTACCAGTCCAGGCTAAATCCAATCAATAACATATGCTCGAAAAAG-CTT-GATCT
77139714 GGATTACCAGTCCAGGCTAAATCC
1 GGATTACCAGTCCAGGCTAAATCC
77139738 TTTTTTTAAT
Statistics
Matches: 65, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
56 3 0.05
57 37 0.57
58 25 0.38
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (57 bp):
GGATTACCAGTCCAGGCTAAATCCAATCAATAACATATGCTCGAAAAAGCTTGATCT
Found at i:77140795 original size:15 final size:17
Alignment explanation
Indices: 77140769--77140802 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
77140759 TATTTAATTA
77140769 TTTATCATCTTT-TAAT
1 TTTATCATCTTTCTAAT
77140785 TTTATCA-CTTTCTAAT
1 TTTATCATCTTTCTAAT
77140801 TT
1 TT
77140803 AGTCCTTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATCATCTTTCTAAT
Found at i:77141218 original size:25 final size:25
Alignment explanation
Indices: 77141178--77141283 Score: 117
Period size: 25 Copynumber: 4.2 Consensus size: 25
77141168 TAGATCATAT
*
77141178 GAGCTTACAGTTATTCAGCTCGGAG
1 GAGCTTACCGTTATTCAGCTCGGAG
* **
77141203 GAGCTTACCGTGATTCAGCTCACATG
1 GAGCTTACCGTTATTCAGCTCGGA-G
* * *
77141229 G-GGTCATCGTTATTCAGCT-GAGAG
1 GAGCTTACCGTTATTCAGCTCG-GAG
77141253 GAGCTTACCGTTATTCAGCTCGGAG
1 GAGCTTACCGTTATTCAGCTCGGAG
77141278 GAGCTT
1 GAGCTT
77141284 TCTGTTTATA
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
24 2 0.03
25 59 0.92
26 3 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (25 bp):
GAGCTTACCGTTATTCAGCTCGGAG
Found at i:77150072 original size:11 final size:11
Alignment explanation
Indices: 77150058--77150133 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
77150048 CAATATTATT
77150058 ATGATATGCAC
1 ATGATATGCAC
*
77150069 ATGATATG--T
1 ATGATATGCAC
77150078 ATGATATGCAC
1 ATGATATGCAC
*
77150089 ATGATATGTAC
1 ATGATATGCAC
77150100 --GATATGCAC
1 ATGATATGCAC
*
77150109 ATGATATG--T
1 ATGATATGCAC
77150118 ATGATATGCAC
1 ATGATATGCAC
77150129 ATGAT
1 ATGAT
77150134 GTATTCATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:77150082 original size:20 final size:20
Alignment explanation
Indices: 77150057--77150133 Score: 145
Period size: 20 Copynumber: 3.9 Consensus size: 20
77150047 ACAATATTAT
77150057 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
77150077 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
77150097 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
77150117 TATGATATGCACATGAT
1 TATGATATGCACATGAT
77150134 GTATTCATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:77150083 original size:9 final size:9
Alignment explanation
Indices: 77150069--77150125 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
77150059 TGATATGCAC
77150069 ATGATATGT
1 ATGATATGT
*
77150078 ATGATATGCAC
1 ATGATATG--T
77150089 ATGATATGT
1 ATGATATGT
* *
77150098 ACGATATGCAC
1 ATGATATG--T
77150109 ATGATATGT
1 ATGATATGT
77150118 ATGATATG
1 ATGATATG
77150126 CACATGATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:77150212 original size:26 final size:26
Alignment explanation
Indices: 77150183--77150255 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
77150173 GAGGAAGGGC
77150183 AAAAGGGCTTATGCCCCAGTTTAACG
1 AAAAGGGCTTATGCCCCAGTTTAACG
* *
77150209 AAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTAACG
*
77150235 AAAAGGGGTTATGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
77150256 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTAACG
Found at i:77150515 original size:31 final size:33
Alignment explanation
Indices: 77150477--77150597 Score: 129
Period size: 38 Copynumber: 3.4 Consensus size: 33
77150467 CGTTTATAGT
77150477 AAAGGCTTCGGCCC-A-GAAATATGAAATATGA
1 AAAGGCTTCGGCCCTATGAAATATGAAATATGA
*
77150508 AAAGGCTTCGACCCAGTCTTATGAAATATGAAATATGA
1 AAAGGCTTCG-GCC---C-TATGAAATATGAAATATGA
77150546 AAAGGCTTCGGCCCAGTGTTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCC-----TATGAAATATGAAATATGA
77150584 AAAGGCTTCGGCCC
1 AAAGGCTTCGGCCC
77150598 AGTATACGCT
Statistics
Matches: 77, Mismatches: 2, Indels: 15
0.82 0.02 0.16
Matches are distributed among these distances:
31 10 0.13
32 2 0.03
34 1 0.01
35 1 0.01
37 3 0.04
38 60 0.78
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (33 bp):
AAAGGCTTCGGCCCTATGAAATATGAAATATGA
Found at i:77150543 original size:38 final size:38
Alignment explanation
Indices: 77150492--77150600 Score: 200
Period size: 38 Copynumber: 2.9 Consensus size: 38
77150482 CTTCGGCCCA
*
77150492 GAAATATGAAATATGAAAAGGCTTCGACCCAGTCTTAT
1 GAAATATGAAATATGAAAAGGCTTCGGCCCAGTCTTAT
*
77150530 GAAATATGAAATATGAAAAGGCTTCGGCCCAGTGTTAT
1 GAAATATGAAATATGAAAAGGCTTCGGCCCAGTCTTAT
77150568 GAAATATGAAATATGAAAAGGCTTCGGCCCAGT
1 GAAATATGAAATATGAAAAGGCTTCGGCCCAGT
77150601 ATACGCTGAG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 69 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.25
Consensus pattern (38 bp):
GAAATATGAAATATGAAAAGGCTTCGGCCCAGTCTTAT
Done.