Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 170 of 362
Found at i:56113345 original size:43 final size:41
Alignment explanation
Indices: 56113294--56113421 Score: 111
Period size: 43 Copynumber: 3.1 Consensus size: 41
56113284 CTAAGAGCTC
* *
56113294 ATACAATGCCAACGTCCCAGACGTGGTCTTAAATGTAATCAA
1 ATACAATGCCAACGTCCCAGACGTGGTCTT-AACGAAATCAA
*
56113336 ATATCAATGCC-ACTGTCCCAGATAG-GGTCTT-ACGAAATCAA
1 ATA-CAATGCCAAC-GTCCCAGA-CGTGGTCTTAACGAAATCAA
* * * *
56113377 GTACGATGCCAACGTCCCAGGCATGGTCTTACACAGAAA-CAA
1 ATACAATGCCAACGTCCCAGACGTGGTCTTA-AC-GAAATCAA
56113419 ATA
1 ATA
56113422 TCAGATCTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
40 19 0.28
41 12 0.17
42 12 0.17
43 25 0.36
44 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (41 bp):
ATACAATGCCAACGTCCCAGACGTGGTCTTAACGAAATCAA
Found at i:56113405 original size:40 final size:41
Alignment explanation
Indices: 56113297--56113408 Score: 111
Period size: 40 Copynumber: 2.7 Consensus size: 41
56113287 AGAGCTCATA
* * *
56113297 CAATGCCAACGTCCCAGACGTGGTCTTAAATGTAATCAAATAT
1 CAATGCCAACGTCCCAGACATGGTCTT--ACGAAATCAAATAT
* * *
56113340 CAATGCC-ACTGTCCCAGATAGGGTCTTACGAAATCAAGTA-
1 CAATGCCAAC-GTCCCAGACATGGTCTTACGAAATCAAATAT
* *
56113380 CGATGCCAACGTCCCAGGCATGGTCTTAC
1 CAATGCCAACGTCCCAGACATGGTCTTAC
56113409 ACAGAAACAA
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
40 22 0.39
41 12 0.21
42 2 0.04
43 21 0.37
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (41 bp):
CAATGCCAACGTCCCAGACATGGTCTTACGAAATCAAATAT
Found at i:56116154 original size:27 final size:26
Alignment explanation
Indices: 56116087--56116157 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
56116077 CCTTTACAAT
* *
56116087 ATGCTCACACAAGCTATGAAAAGAGT
1 ATGCTCACACAAGCTGTGAAAAGAGC
*
56116113 ATGCTCACACAAGCTGTGAAAATGGGC
1 ATGCTCACACAAGCTGTGAAAA-GAGC
* *
56116140 CTGCTCACACGAGCTGTG
1 ATGCTCACACAAGCTGTG
56116158 GGTTGGAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 21 0.54
27 18 0.46
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (26 bp):
ATGCTCACACAAGCTGTGAAAAGAGC
Found at i:56130368 original size:26 final size:26
Alignment explanation
Indices: 56130326--56130394 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
56130316 TGTTCCAACC
* *
56130326 CACAGCTCGTGTGAGCAGGCCCATTTT
1 CACAGCTTGTGTGAGCAGACCC-TTTT
* *
56130353 CACAGCTTG-GTGAGCATACTCTTTT
1 CACAGCTTGTGTGAGCAGACCCTTTT
*
56130378 CATAGCTTGTGTGAGCA
1 CACAGCTTGTGTGAGCA
56130395 TATTGTAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 12 0.33
26 16 0.44
27 8 0.22
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (26 bp):
CACAGCTTGTGTGAGCAGACCCTTTT
Found at i:56133606 original size:117 final size:119
Alignment explanation
Indices: 56133424--56133646 Score: 294
Period size: 117 Copynumber: 1.9 Consensus size: 119
56133414 GCTACTCGTT
*
56133424 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
56133489 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
* * **
56133543 CAAATGCCTTC-GG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
56133604 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
56133647 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
116 4 0.04
117 66 0.73
118 10 0.11
119 11 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
Found at i:56133646 original size:40 final size:40
Alignment explanation
Indices: 56133405--56133646 Score: 291
Period size: 40 Copynumber: 6.1 Consensus size: 40
56133395 CGGAATTTAA
** *
56133405 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56133445 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56133485 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
56133525 CCGGAT-TAGTAACTCGCACAAATGCCTTC-GG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56133562 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
56133602 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
56133642 CCGGA
1 CCGGA
56133647 CATCATTCAA
Statistics
Matches: 179, Mismatches: 15, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
37 10 0.06
38 26 0.15
39 24 0.13
40 107 0.60
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:56141503 original size:79 final size:79
Alignment explanation
Indices: 56141392--56141615 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 79
56141382 GCTACTCGTT
* * *
56141392 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
56141457 ATTTAGTAACTCGCA
65 AATTAGTAACTCACA
*
56141472 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
56141535 AATTAGTATCTCACA
65 AATTAGTAACTCACA
* * * * *
56141550 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
56141614 GA
64 GA
56141616 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
78 35 0.28
79 57 0.45
80 34 0.27
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCACA
Found at i:56141509 original size:39 final size:40
Alignment explanation
Indices: 56141392--56141615 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
56141382 GCTACTCGTT
* *
56141392 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
56141432 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
56141472 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
56141511 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
56141550 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
56141591 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56141616 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 73 0.45
40 77 0.47
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:56143714 original size:42 final size:42
Alignment explanation
Indices: 56143606--56143724 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
56143596 CATACCAATT
* *
56143606 CCATATCCCAGATATGGTCTTACATCGGATCTCATATCGATG
1 CCATATCCCAGATATGGTCTTACATCGAATCTCATATAGATG
* * *
56143648 CCAATAGCCCAGCTATGGTCTTACAT-GAAGTTTCATATAGATG
1 CC-ATATCCCAGATATGGTCTTACATCGAA-TCTCATATAGATG
*
56143691 TCATATCCCAGATATGGTCTTACA-CGTAATCTCA
1 CCATATCCCAGATATGGTCTTACATCG-AATCTCA
56143725 AATAACCCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACATCGAATCTCATATAGATG
Found at i:56151957 original size:49 final size:50
Alignment explanation
Indices: 56151880--56152057 Score: 223
Period size: 52 Copynumber: 3.5 Consensus size: 50
56151870 ACTAGTGACT
* * *
56151880 CAAGTGTGGTACTATGTGAAGGCTACTTTGAGAAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCA
* *
56151929 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGATTTTTTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAG-CTTTGTCA
* * *
56151981 CAAGAGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTC-A
* **
56152032 CAAGGGTGGTACTATGTTCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
56152058 CGAGTATCCG
Statistics
Matches: 112, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
49 33 0.29
50 4 0.04
51 36 0.32
52 39 0.35
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCA
Found at i:56152056 original size:51 final size:51
Alignment explanation
Indices: 56151875--56152057 Score: 212
Period size: 51 Copynumber: 3.6 Consensus size: 51
56151865 ATGTCACTAG
* *
56151875 TGACT-CAAGTGTGGTACTATGTGAAGGCTACTTTGAGAAG-AGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
* * *
56151924 GGTC-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGATT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTT
** * *
56151975 T-TTTCACAAGAGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTT
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
* **
56152026 TGACTACAAGGGTGGTACTATGTTCAGGCCAC
1 TGACTACAAGTGTGGTACTATGTGAAGGCCAC
56152058 CGAGTATCCG
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
49 35 0.31
50 1 0.01
51 41 0.36
52 36 0.32
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (51 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
Found at i:56155262 original size:27 final size:27
Alignment explanation
Indices: 56155134--56155264 Score: 165
Period size: 27 Copynumber: 4.8 Consensus size: 27
56155124 TGACGATTTT
*
56155134 CCCCTTATAAGGTAAAATGA-TCGAAATA
1 CCCC-TATAAGGTAAAATGACT-GTAATA
*
56155162 CCCCTATAAGGTAAAATAACTGTAATA
1 CCCCTATAAGGTAAAATGACTGTAATA
* *
56155189 CCCCTATATGGTAAAATGACTGTGATA
1 CCCCTATAAGGTAAAATGACTGTAATA
* *
56155216 CCCCTGTAAGGTAAAATGACTGTAACA
1 CCCCTATAAGGTAAAATGACTGTAATA
* *
56155243 CCCATGTAAGGTAAAATGACTG
1 CCCCTATAAGGTAAAATGACTG
56155265 ATTTTCCCTA
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
27 87 0.95
28 5 0.05
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (27 bp):
CCCCTATAAGGTAAAATGACTGTAATA
Found at i:56167756 original size:26 final size:26
Alignment explanation
Indices: 56167727--56167781 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
56167717 ATATGGTGCT
56167727 CCATAGAACCGCACCTCAAACATGCC
1 CCATAGAACCGCACCTCAAACATGCC
*
56167753 CCATAGAACTGCACCTCAAACATGCC
1 CCATAGAACCGCACCTCAAACATGCC
56167779 CCA
1 CCA
56167782 GTCTGTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.42, G:0.11, T:0.13
Consensus pattern (26 bp):
CCATAGAACCGCACCTCAAACATGCC
Found at i:56169766 original size:34 final size:32
Alignment explanation
Indices: 56169719--56169819 Score: 98
Period size: 34 Copynumber: 3.1 Consensus size: 32
56169709 CAGTTTTAGT
*
56169719 TAGGGCCTTAGCCCATATCAGTAACAGTAGCAG
1 TAGGGCCTAAGCCCAT-TCAGTAACAGTAGCAG
* * *
56169752 CCT-GGGCCTGAGCCCATTTCAGTAATAGTATCAG
1 --TAGGGCCTAAGCCCA-TTCAGTAACAGTAGCAG
*
56169786 TAGGGCCTAAGCCCATTACAGTATCAGTA-CAG
1 TAGGGCCTAAGCCCATT-CAGTAACAGTAGCAG
56169818 TA
1 TA
56169820 TGCAATCAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
32 8 0.14
33 21 0.37
34 26 0.46
35 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (32 bp):
TAGGGCCTAAGCCCATTCAGTAACAGTAGCAG
Found at i:56173744 original size:30 final size:30
Alignment explanation
Indices: 56173708--56173768 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56173698 GTCTTAACTC
56173708 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
56173738 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
56173768 A
1 A
56173769 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:56175669 original size:52 final size:51
Alignment explanation
Indices: 56175554--56175731 Score: 209
Period size: 52 Copynumber: 3.5 Consensus size: 51
56175544 ACAAGTGATT
* * * **
56175554 CAAGTATGGTACAATGTGAAGGCCACTTTGAGAAG-AGAT-GGGTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGATTTGGTCA
56175603 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGATTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGATTTGGTCA
* * * * *
56175655 CAAGTGTGGTACTATGTGAAGGCCATTTTGTGAAGAAGGTAGCTTT-GACTG
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGATTTGGTC-A
* *
56175706 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
56175732 CGGGTATCCG
Statistics
Matches: 112, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
49 32 0.29
50 2 0.02
51 36 0.32
52 42 0.38
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.27
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGATTTGGTCA
Found at i:56177356 original size:6 final size:6
Alignment explanation
Indices: 56177345--56177377 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
56177335 TGTGTACCGC
56177345 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
56177378 GGTGTATTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:56177575 original size:18 final size:18
Alignment explanation
Indices: 56177488--56177575 Score: 72
Period size: 18 Copynumber: 4.9 Consensus size: 18
56177478 TAAAGGTACC
*
56177488 GAATAACTGACTATTACT
1 GAATAACTGACTGTTACT
* * *
56177506 GGATAACTAACTGCTACT
1 GAATAACTGACTGTTACT
*
56177524 -AACTAATTGACTGTTACT
1 GAA-TAACTGACTGTTACT
* * *
56177542 AAATAATTTA-TCGTTACT
1 GAATAACTGACT-GTTACT
56177560 GAATAACTGACTGTTA
1 GAATAACTGACTGTTA
56177576 AAGATTGACT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
17 2 0.04
18 49 0.91
19 3 0.06
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
GAATAACTGACTGTTACT
Found at i:56177602 original size:18 final size:18
Alignment explanation
Indices: 56177581--56177637 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
56177571 TGTTAAAGAT
*
56177581 TGACTGAATATTATTGAA
1 TGACTGAATGTTATTGAA
56177599 TGACT-AATTGTTATTGAA
1 TGACTGAA-TGTTATTGAA
* *
56177617 TGATTGAATGTTACTGAA
1 TGACTGAATGTTATTGAA
56177635 TGA
1 TGA
56177638 AACTGATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.06
18 30 0.88
19 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.40
Consensus pattern (18 bp):
TGACTGAATGTTATTGAA
Found at i:56188160 original size:42 final size:44
Alignment explanation
Indices: 56188114--56188208 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
56188104 CCTAGATAGG
*
56188114 GTCTTACACG-AAATCA-AA-TACGATGCCAACGTCCCAGACGTA
1 GTCTTACACGTAAATCATAAGT-CGATGCCAACGTCCCAGAAGTA
* *
56188156 GTCTTACACGTAAATCATAAGTCGATGCCAACGTCCCTGAAGTG
1 GTCTTACACGTAAATCATAAGTCGATGCCAACGTCCCAGAAGTA
56188200 GTCTTACAC
1 GTCTTACAC
56188209 AATAACACAT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 10 0.21
43 6 0.13
44 30 0.64
45 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (44 bp):
GTCTTACACGTAAATCATAAGTCGATGCCAACGTCCCAGAAGTA
Found at i:56188704 original size:21 final size:21
Alignment explanation
Indices: 56188680--56188724 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
56188670 CCGAATTCTC
56188680 ATAGTGTTCATACAAGTCCAT
1 ATAGTGTTCATACAAGTCCAT
56188701 ATAGTGTTCATACAAGTCCAT
1 ATAGTGTTCATACAAGTCCAT
56188722 ATA
1 ATA
56188725 TTTCATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (21 bp):
ATAGTGTTCATACAAGTCCAT
Found at i:56192481 original size:42 final size:41
Alignment explanation
Indices: 56192381--56192537 Score: 120
Period size: 44 Copynumber: 3.7 Consensus size: 41
56192371 ACAATCCAAC
* * * *
56192381 GTCCCAAACGCGGTCTTACATGTAATCAAACATCGATGCCACT
1 GTCCCAAACGTGGTCTTACACGAAATCAAACA-CGATG-CAAT
* * *
56192424 GTCCCAGACAG-GGTCTTACACGAAATCAAATACGATGTCGAT
1 GTCCCAAAC-GTGGTCTTACACGAAATCAAACACGATG-CAAT
* * *
56192466 GTCCCATACGTGGTCTTACACGTAAAAT-AGAAGACGATGCCAAC
1 GTCCCAAACGTGGTCTTACACG--AAATCA-AACACGATG-CAAT
* *
56192510 GTCCCAAATGTGGTCTTACATGAAATCA
1 GTCCCAAACGTGGTCTTACACGAAATCA
56192538 CATTCTATGT
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 30 0.32
43 28 0.30
44 34 0.37
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (41 bp):
GTCCCAAACGTGGTCTTACACGAAATCAAACACGATGCAAT
Found at i:56197404 original size:30 final size:30
Alignment explanation
Indices: 56197370--56197430 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56197360 TCCTTAACTC
56197370 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
56197400 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
56197430 A
1 A
56197431 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:56201842 original size:30 final size:30
Alignment explanation
Indices: 56201808--56201868 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56201798 TCCTTAACTC
56201808 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
56201838 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
56201868 A
1 A
56201869 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:56206182 original size:28 final size:29
Alignment explanation
Indices: 56206146--56206260 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
56206136 GTAAGCATGA
* * *
56206146 ATATGAATGTGA-CTGGGCGTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
56206174 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
56206203 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
** * *
56206232 ATATGGATATGA-TTGGGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
56206260 A
1 A
56206261 GATACAGGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
28 27 0.36
29 49 0.64
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:56213694 original size:39 final size:40
Alignment explanation
Indices: 56213649--56213873 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
56213639 GCTCCTCGTT
* * * *
56213649 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
56213689 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
56213728 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
56213768 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
56213808 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
56213849 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
56213874 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 105 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:56213882 original size:41 final size:41
Alignment explanation
Indices: 56213805--56213882 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
56213795 CTTGTATCTC
* * *
56213805 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
56213846 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
56213883 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:56221257 original size:39 final size:40
Alignment explanation
Indices: 56221212--56221436 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
56221202 GCTCCTCGTT
* * * *
56221212 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
56221252 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
56221291 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
56221331 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
56221371 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
56221412 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
56221437 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 105 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:56221445 original size:41 final size:41
Alignment explanation
Indices: 56221368--56221445 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
56221358 CTTGTATCTC
* * *
56221368 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
56221409 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
56221446 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:56223544 original size:41 final size:42
Alignment explanation
Indices: 56223437--56223546 Score: 123
Period size: 41 Copynumber: 2.6 Consensus size: 42
56223427 CATACCAATT
* * * *
56223437 CCATATCCCAGGTATGGTCTTACATGGGATCCCATATTGATG
1 CCATATCCCAGATATGGTCTTACACGAGATCCCATATCGATG
* * * *
56223479 CCAGTAGCCTAGCTATGGTCTTACACGAG-TCTCATATCGATG
1 CCA-TATCCCAGATATGGTCTTACACGAGATCCCATATCGATG
*
56223521 TCATATCCCAGATATGGTCTTACACG
1 CCATATCCCAGATATGGTCTTACACG
56223547 TAATCTCAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 20 0.36
42 16 0.29
43 20 0.36
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGAGATCCCATATCGATG
Found at i:56225098 original size:24 final size:25
Alignment explanation
Indices: 56225071--56225119 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
56225061 TATATTACAA
*
56225071 ATTTGACT-ATCATAGTACAAAATG
1 ATTTCACTCATCATAGTACAAAATG
* *
56225095 ATTTCACTCGTCGTAGTACAAAATG
1 ATTTCACTCATCATAGTACAAAATG
56225120 GAGAGTTGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (25 bp):
ATTTCACTCATCATAGTACAAAATG
Found at i:56226486 original size:77 final size:77
Alignment explanation
Indices: 56226359--56226512 Score: 263
Period size: 77 Copynumber: 2.0 Consensus size: 77
56226349 GATTACACTA
* *
56226359 GAAGTCCCCACAGTTTTTCTATATGATTATGGCCTTAATCTTATGTGTGGTATATATAGGGCATT
1 GAAGTCCCCAAAGTTTTTCCATATGATTATGGCCTTAATCTTATGTGTGGTATATATAGGGCATT
*
56226424 GTTTGCGGGTAT
66 GCTTGCGGGTAT
* *
56226436 GAAGTTCCCAAAGTTTTTCCATATGATTATGGCCTTAATCTTATGTGTGGTATATATAGGGTATT
1 GAAGTCCCCAAAGTTTTTCCATATGATTATGGCCTTAATCTTATGTGTGGTATATATAGGGCATT
56226501 GCTTGCGGGTAT
66 GCTTGCGGGTAT
56226513 CCAAAAAGCT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.40
Consensus pattern (77 bp):
GAAGTCCCCAAAGTTTTTCCATATGATTATGGCCTTAATCTTATGTGTGGTATATATAGGGCATT
GCTTGCGGGTAT
Found at i:56227478 original size:4 final size:4
Alignment explanation
Indices: 56227469--56227500 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
56227459 ATTATAAATA
56227469 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
56227501 GAAAAAAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:56240929 original size:47 final size:47
Alignment explanation
Indices: 56240840--56241056 Score: 162
Period size: 47 Copynumber: 4.6 Consensus size: 47
56240830 GGGTAAGGTA
* * * * *
56240840 CCGATGCCATGTCCCATACACGGTCTTATATTGGCTCA-CATCTCAAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGACT-ATCATCTCAAG
* **
56240887 CAGATGCCATGTCCCAAACATGGTCTTACACTGACTATCATCTTGTAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGACTATCATC-TCAAG
** * * * *
56240935 CCGATG-CATGTCCCGGACAT-GTCTTACACTGGCTTAT-GTTTCGAGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGAC-TATCATCTC-AAG
* *
56240981 TCGATG-CATGTCCCAAACAT-GTCTTACACT-AGC-ACTCGTCTCAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGA-CTA-TCATCTCAA-G
*
56241027 CCGATGCCATGTCCCAGACATGGTCTTACA
1 CCGATGCCATGTCCCAAACATGGTCTTACA
56241057 TTGGCCCACA
Statistics
Matches: 135, Mismatches: 25, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 53 0.39
47 62 0.46
48 16 0.12
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGACTATCATCTCAAG
Found at i:56241032 original size:46 final size:45
Alignment explanation
Indices: 56240934--56241056 Score: 131
Period size: 46 Copynumber: 2.6 Consensus size: 45
56240924 TCATCTTGTA
* * * *
56240934 GCCGATGCATGTCCCGGACATGTCTTACACTGGCTTATGTTTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TATGTCTCAAG
* * *
56240980 GTCGATGCATGTCCCAAACATGTCTTACACTAGC-ACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTA-T-GTCTCAAG
56241026 GCCGATGCCATGTCCCAGACATGGTCTTACA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACA
56241057 TTGGCCCACA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 1 0.02
45 1 0.02
46 41 0.64
47 13 0.20
48 8 0.12
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATGTCTCAAG
Found at i:56246963 original size:48 final size:48
Alignment explanation
Indices: 56246918--56247065 Score: 215
Period size: 48 Copynumber: 3.1 Consensus size: 48
56246908 TTGATGTACA
*
56246918 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
56246966 AGATATATATATGTGGTAAAGTCGAAAGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
** ** * *
56247014 AGCCATGCATATGTGGTAAAGCCAAATGGCTGATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
56247062 AGAT
1 AGAT
56247066 GTGTATATAT
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (48 bp):
AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:56254878 original size:47 final size:47
Alignment explanation
Indices: 56254788--56254899 Score: 138
Period size: 47 Copynumber: 2.4 Consensus size: 47
56254778 TGTGTAAGGT
*
56254788 GTCGATGCCATGTCCCAGACACGGTCTTACACTGGCTCACATCTCAA
1 GTCGATGCCATGTCCCAGACACGGTCTTACACTGACTCACATCTCAA
* * * *
56254835 GTCGATGCCATGTTCTAGACATGGTCTTACACTGACT-ATCATCTCGTA
1 GTCGATGCCATGTCCCAGACACGGTCTTACACTGACTCA-CATCTC-AA
*
56254883 GCCGATG-CATGTCCCAG
1 GTCGATGCCATGTCCCAG
56254900 GCATGTCTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 47 0.85
48 7 0.13
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACACGGTCTTACACTGACTCACATCTCAA
Found at i:56260803 original size:17 final size:17
Alignment explanation
Indices: 56260781--56260823 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
56260771 ATTTTATTTA
**
56260781 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
56260798 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
56260815 AAAT-TCAAT
1 AAATGTCAAT
56260824 ACAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:56263012 original size:15 final size:16
Alignment explanation
Indices: 56262994--56263024 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
56262984 TTTAATTTTA
56262994 AAAAATTTAAA-AAAT
1 AAAAATTTAAAGAAAT
56263009 AAAAATTTAAAGAAAT
1 AAAAATTTAAAGAAAT
56263025 CATTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAAATTTAAAGAAAT
Found at i:56263649 original size:36 final size:36
Alignment explanation
Indices: 56263584--56263652 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
56263574 GATAAAATGT
* *
56263584 TAAAATTTATAAACATTGAAGGATAAATTTATTGAA
1 TAAAATGTATAAACATTGAAAGATAAATTTATTGAA
* * *
56263620 TAAAATGTATAAATATTGAAAGTTTAATTTATT
1 TAAAATGTATAAACATTGAAAGATAAATTTATT
56263653 ATTAAATGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (36 bp):
TAAAATGTATAAACATTGAAAGATAAATTTATTGAA
Found at i:56265882 original size:31 final size:31
Alignment explanation
Indices: 56265847--56265905 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
56265837 GTCATTAAAC
*
56265847 TATTCAAAAAATTTTATTTAAGTTATTGAAT
1 TATTCAAAAAATTTTAATTAAGTTATTGAAT
* ** *
56265878 TATTCGAAAGTTTTTAATTATGTTATTG
1 TATTCAAAAAATTTTAATTAAGTTATTG
56265906 GACTGATAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (31 bp):
TATTCAAAAAATTTTAATTAAGTTATTGAAT
Found at i:56269021 original size:24 final size:25
Alignment explanation
Indices: 56268970--56269027 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
56268960 GGAAAAGTGC
56268970 AAGAAAAAAAAGATTGAAAAAGAAA
1 AAGAAAAAAAAGATTGAAAAAGAAA
*
56268995 AAGACAAAAAA-ATTGAAAAA-AAGA
1 AAGAAAAAAAAGATTGAAAAAGAA-A
*
56269019 AAGGAAAAA
1 AAGAAAAAA
56269028 GTGTGAGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.07
24 17 0.59
25 10 0.34
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.07
Consensus pattern (25 bp):
AAGAAAAAAAAGATTGAAAAAGAAA
Found at i:56272022 original size:40 final size:40
Alignment explanation
Indices: 56271963--56272213 Score: 321
Period size: 40 Copynumber: 6.3 Consensus size: 40
56271953 CATTTGAATG
*
56271963 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
56272003 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* *
56272043 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
56272083 TTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * *
56272123 TTATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* * *
56272162 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
56272202 ATATCC-GGCTAA
1 ATATCCGGGCTAA
56272214 ATTCCGAAGA
Statistics
Matches: 186, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 42 0.23
40 142 0.76
41 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:56272207 original size:119 final size:120
Alignment explanation
Indices: 56271963--56272213 Score: 407
Period size: 119 Copynumber: 2.1 Consensus size: 120
56271953 CATTTGAATG
*
56271963 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
* *
56272028 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
66 TTTGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
56272083 TTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGA-CCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
* * * *
56272147 TTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
66 TTTGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
56272202 ATATCC-GGCTAA
1 ATATCCGGGCTAA
56272214 ATTCCGAAGA
Statistics
Matches: 120, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
118 5 0.04
119 63 0.52
120 52 0.43
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:56280131 original size:40 final size:40
Alignment explanation
Indices: 56280072--56280282 Score: 259
Period size: 40 Copynumber: 5.3 Consensus size: 40
56280062 CATTTGAATG
* *
56280072 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
56280112 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * *
56280152 ATACCCAGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
56280192 TTATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
56280231 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
56280271 ATATCC-GGCTAA
1 ATATCCGGGCTAA
56280283 ATTCCGAAGA
Statistics
Matches: 144, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
39 42 0.29
40 100 0.69
41 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:56280261 original size:79 final size:80
Alignment explanation
Indices: 56280072--56280282 Score: 327
Period size: 79 Copynumber: 2.7 Consensus size: 80
56280062 CATTTGAATG
*
56280072 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
56280137 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* * *
56280152 ATACCCAGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGA-CCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
56280216 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* * * *
56280231 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCC-GGCTAA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
56280283 ATTCCGAAGA
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
78 6 0.05
79 62 0.52
80 51 0.43
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:56288043 original size:30 final size:30
Alignment explanation
Indices: 56288009--56288069 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
56287999 TTCCCGAGCC
56288009 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
56288039 TAGGGGCAAAATTGTAATTTTGCAAATGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
56288069 T
1 T
56288070 GAGTTAAGGA
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:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:56290088 original size:47 final size:47
Alignment explanation
Indices: 56290026--56290460 Score: 645
Period size: 47 Copynumber: 9.3 Consensus size: 47
56290016 CCTTCGGGAT
* *
56290026 TTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
* * ** * *
56290073 TTATCACATATATACACCTTCACATCCATCACATCAGCCATTAGGTC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
* * * *
56290120 TTATCTCATATACACACTTTCACATTCATCACGTTGGCCACTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
* * * * *
56290167 TTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGTC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
* * * *
56290214 TTATCTCATATACACACTTTCACATTCATCACGTTGGCCACTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
*
56290261 TTATCACATATAGACACTTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
*
56290308 TTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
*
56290355 TTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
*
56290402 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
56290449 TTATCACATATA
1 TTATCACATATA
56290461 CATATCTTGT
Statistics
Matches: 346, Mismatches: 42, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 346 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
Found at i:56298147 original size:19 final size:20
Alignment explanation
Indices: 56298111--56298161 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
56298101 AAATTACAAA
*
56298111 AAAAATTTAAAATAATTT-T
1 AAAAATTCAAAATAATTTAT
56298130 CAAAAATTCAAAAT-ATTTAT
1 -AAAAATTCAAAATAATTTAT
*
56298150 AAAAATCCAAAA
1 AAAAATTCAAAA
56298162 ACAATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:56298154 original size:20 final size:20
Alignment explanation
Indices: 56298110--56298154 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
56298100 AAAATTACAA
*
56298110 AAAAAATTTAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
*
56298130 CAAAAATTCAAAAT-ATTTAT
1 AAAAAATTCAAAATAATTT-T
56298150 AAAAA
1 AAAAA
56298155 TCCAAAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:56298194 original size:19 final size:19
Alignment explanation
Indices: 56298170--56298208 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
56298160 AAACAATTAT
56298170 TTTTAAAAAAT-TATAATAA
1 TTTTAAAAAATCTA-AATAA
*
56298189 TTTTAAGAAATCTAAATAA
1 TTTTAAAAAATCTAAATAA
56298208 T
1 T
56298209 ATATAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (19 bp):
TTTTAAAAAATCTAAATAA
Found at i:56300347 original size:30 final size:30
Alignment explanation
Indices: 56300307--56300368 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
56300297 GGGAAGAGAT
* *
56300307 AACACTAAAATTATCTAAAGAACACCATTG
1 AACACAAAAATTATCGAAAGAACACCATTG
56300337 AACACAAAAATTATCGAAAGAACACCATTG
1 AACACAAAAATTATCGAAAGAACACCATTG
56300367 AA
1 AA
56300369 ATCGATTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.53, C:0.19, G:0.08, T:0.19
Consensus pattern (30 bp):
AACACAAAAATTATCGAAAGAACACCATTG
Found at i:56302611 original size:13 final size:13
Alignment explanation
Indices: 56302593--56302625 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
56302583 CTATATACAA
*
56302593 TCACGAATGTAAC
1 TCACGAATATAAC
56302606 TCACGAATATAAC
1 TCACGAATATAAC
56302619 TCACGAA
1 TCACGAA
56302626 GGTCTCAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.21
Consensus pattern (13 bp):
TCACGAATATAAC
Found at i:56308970 original size:19 final size:20
Alignment explanation
Indices: 56308946--56308983 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56308936 GGTACCACCA
56308946 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
56308965 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
56308984 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:56309319 original size:93 final size:93
Alignment explanation
Indices: 56309212--56309382 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
56309202 ACCCATAAGT
*
56309212 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
56309277 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
56309305 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
56309370 CGAGTTCGGATGC
66 CGAGTTCGGATGC
56309383 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:56309379 original size:46 final size:46
Alignment explanation
Indices: 56309204--56309379 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
56309194 TGTAACCCAC
* * * *
56309204 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGAAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
56309250 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* * *
56309300 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
56309343 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56309380 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 64 0.59
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:56316545 original size:19 final size:20
Alignment explanation
Indices: 56316521--56316558 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56316511 GGTACCACCA
56316521 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
56316540 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
56316559 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:56316892 original size:93 final size:93
Alignment explanation
Indices: 56316785--56316955 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
56316775 CCCCCTAAGT
* *
56316785 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56316850 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
56316878 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56316943 CGAGTTCGGATGC
66 CGAGTTCGGATGC
56316956 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56316952 original size:46 final size:46
Alignment explanation
Indices: 56316780--56316952 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
56316770 GTAACCCCCC
* * * *
56316780 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
56316826 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
56316874 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
56316919 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56316953 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:56319815 original size:21 final size:21
Alignment explanation
Indices: 56319777--56319820 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
56319767 ATGCCCAAAT
*
56319777 ATGTGTTTGTGTATTAAATTGA
1 ATGTGTTGGTGTATTAAA-TGA
56319799 ATGTGTTGGTG-ATTAAATGA
1 ATGTGTTGGTGTATTAAATGA
56319819 AT
1 AT
56319821 TAATTTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 6 0.29
22 10 0.48
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (21 bp):
ATGTGTTGGTGTATTAAATGA
Found at i:56329567 original size:22 final size:22
Alignment explanation
Indices: 56329542--56329585 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
56329532 ACCAAGAGAG
*
56329542 TTGGACCATTAGCCTACTGATT
1 TTGGACCATTAGCCTACCGATT
56329564 TTGGACCATTAGCCTACCGATT
1 TTGGACCATTAGCCTACCGATT
56329586 AGCCTTACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (22 bp):
TTGGACCATTAGCCTACCGATT
Found at i:56338294 original size:40 final size:40
Alignment explanation
Indices: 56338210--56338302 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
56338200 GACTACGTTC
*
56338210 GGCACTAAGTGTGCAGTTCGAAATAGCTTCAGCTAAAAAT
1 GGCACTAAGTGTGCAGTTCGAAATAGCTTCAGCTAAAAAG
* * * * **
56338250 GGCACTAAGTGTGCGAGTT-GGAATAGCTTCGGGTATATGG
1 GGCACTAAGTGTGC-AGTTCGAAATAGCTTCAGCTAAAAAG
56338290 GGCACTAAGTGTG
1 GGCACTAAGTGTG
56338303 TGATACCGAG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 41 0.91
41 4 0.09
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (40 bp):
GGCACTAAGTGTGCAGTTCGAAATAGCTTCAGCTAAAAAG
Found at i:56339464 original size:17 final size:17
Alignment explanation
Indices: 56339442--56339475 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56339432 GCGTGTGACC
*
56339442 TGTATAACTTTGAAAAA
1 TGTATAACTTTCAAAAA
*
56339459 TGTATAAGTTTCAAAAA
1 TGTATAACTTTCAAAAA
56339476 GTTTTGTATG
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:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (17 bp):
TGTATAACTTTCAAAAA
Found at i:56345420 original size:15 final size:15
Alignment explanation
Indices: 56345395--56345459 Score: 66
Period size: 15 Copynumber: 4.4 Consensus size: 15
56345385 GTATCTTGGG
56345395 TTCCTTTATTCTGGAT
1 TTCC-TTATTCTGGAT
56345411 TTCCTTATTCTGGAT
1 TTCCTTATTCTGGAT
56345426 TT-CTCTA-TCTTGGAT
1 TTCCT-TATTC-TGGAT
*
56345441 TTCTTTATTC-GG-T
1 TTCCTTATTCTGGAT
56345454 TTCCTT
1 TTCCTT
56345460 GTTATCTTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
13 6 0.14
14 6 0.14
15 24 0.56
16 7 0.16
ACGTcount: A:0.11, C:0.20, G:0.12, T:0.57
Consensus pattern (15 bp):
TTCCTTATTCTGGAT
Found at i:56347887 original size:46 final size:46
Alignment explanation
Indices: 56347837--56348012 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
56347827 TGGTTGAGCA
*
56347837 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
56347883 TCCGAACTTGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
56347930 TCCGAACTCGTTGAGTAGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
56347976 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56348013 GCGAGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.59
47 26 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:56347993 original size:93 final size:93
Alignment explanation
Indices: 56347834--56348005 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
56347824 GGATGGTTGA
* * * *
56347834 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTAGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
*
56347899 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
56347927 GCATCCGAACTCGTTGAGTAGAGTCCGAGTTCACTCATGGATGCGAACGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTAGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
56347992 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
56348006 CTTATGGGCG
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:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTAGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56351468 original size:40 final size:40
Alignment explanation
Indices: 56351375--56351632 Score: 355
Period size: 40 Copynumber: 6.5 Consensus size: 40
56351365 AAGCCAAGTA
* * *
56351375 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
56351413 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56351453 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
56351493 CCTTCGGGACTTAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
56351533 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
56351573 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATA
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
56351614 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56351633 TTATCATCCA
Statistics
Matches: 202, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
38 12 0.06
39 17 0.08
40 146 0.72
41 23 0.11
42 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56362697 original size:25 final size:25
Alignment explanation
Indices: 56362669--56362730 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
56362659 CAACTCGTAT
* *
56362669 GAGCTTACTGTTATTCAGCTCAGAG
1 GAGCTTACCGTTATTCAGATCAGAG
* *
56362694 GAGCTTACCGTTATTTAGATTAGAG
1 GAGCTTACCGTTATTCAGATCAGAG
*
56362719 AAGCTTACCGTT
1 GAGCTTACCGTT
56362731 TACAGCTCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (25 bp):
GAGCTTACCGTTATTCAGATCAGAG
Found at i:56365740 original size:626 final size:626
Alignment explanation
Indices: 56364549--56365802 Score: 2150
Period size: 626 Copynumber: 2.0 Consensus size: 626
56364539 TACTTACACA
* *
56364549 AATCAAAACAATTTATTTAACTATTCATAATAAAACTATCCATCTGCATAACAGTCACTAAATTA
1 AATCAAAACAATTTATTTAACTATTCATAATAAAACTATCCATCTGCATAACAATCACAAAATTA
* * *
56364614 ATTATAACTCGACTTATAAAACTCAAAATTTAAATCCATAATTTTTCCTGAAATTAGACTCACAT
66 ATTATAACTCGACTTACAAAACTCAAAATTTAAATCCATAAATTTTCCTGAAACTAGACTCACAT
*
56364679 ATCTTCTTACCATAAATTTTCCAGAATTTTTGGTTTGGCCAATTAGTACAGTTTATTCGTTAAAT
131 ATCTTCTTACCATAAATTTTCCAGAATTTTTGGTTTGGCCAATTAGTACAGTTTATTCATTAAAT
* *
56364744 GTTCCCCTATTTTGCAATTTAGTGGACCTGATTTCTCTTCACTAAAAATTTATTATCTCATTATA
196 GTTCCCCTATTTTGCAATTTAGTGGACCTGATCTCTCTTCACTAAAAATTGATTATCTCATTATA
* *
56364809 CAGAAATCGAATAATGTTTATGTTTTTTTTCTAATGAAAATAGACTCACCAAGGAATCTAGATAT
261 CAGAAATCGAATAATGTTTATGTTTTATTTCTAATGAAAATAGACTCACCAAGGAATCTAGACAT
* ** *
56364874 ATAAACTTTGACTTATAATTATTTTTTTTAAATTTCTAGTGATTTTACAAAGTTGGAATAGGGGA
326 ATAAACCTTGACTTATAATTATTTTTTAAAAAGTTCTAGTGATTTTACAAAGTTGGAATAGGGGA
* *
56364939 TCACGAAGTCACTCTAAATTAGTCTTACAGAAATTTAAATATGTCATAATATAGACTTCTTTTGC
391 TCACAAAGTCACTCTAAATTAGTCTTACAGAAATTTAAATATCTCATAATATAGACTTCTTTTGC
* * *
56365004 TTGCTCTGTTTCTTTTCTATAAAAATAGACTCAATAAGATTTAATTCTATATCTCATTAACCATT
456 TTGATCTGTTTCTTTTCTATAAAAATAGACTCAATAAGATTTAATTCTATATCTCATTAACAACT
*
56365069 TAATTACTTTTCTACAATTTTTAAAGATTTTTCAAAACCACGTCACTGCAGCTGTTTCCTAACTG
521 TAATTACTTTTCTAAAATTTTTAAAGATTTTTCAAAACCACGTCACTGCAGCTGTTTCCTAACTG
*
56365134 TTCCATGGCCAACTCTTACTCTTTCATAGTTTCTTTGCATC
586 TTCCATGGCCAACTCTTACCCTTTCATAGTTTCTTTGCATC
*
56365175 AATCAAAACAATTTATTTAACTATTCATAATAAAACTGTCCATCTGCATAACAATCACAAAATTA
1 AATCAAAACAATTTATTTAACTATTCATAATAAAACTATCCATCTGCATAACAATCACAAAATTA
* *
56365240 ATTATAACTCGACTTACAAAACTCAAAATTTAAATTCATAAAATTTTCCTGAAACTAGACTCATA
66 ATTATAACTCGACTTACAAAACTCAAAATTTAAATCCAT-AAATTTTCCTGAAACTAGACTCACA
56365305 TATCTTCTTACCATAAATTTTCCAGAATTTTTGGTTTGGCCAATTAGTACAGTTTATTCATTAAA
130 TATCTTCTTACCATAAATTTTCCAGAATTTTTGGTTTGGCCAATTAGTACAGTTTATTCATTAAA
* *
56365370 TGTTCCCCTATTTTGCAGTTTAGTGGACCTGATCTCTCTTTACTAAAAATTGATTATCTCATTAT
195 TGTTCCCCTATTTTGCAATTTAGTGGACCTGATCTCTCTTCACTAAAAATTGATTATCTCATTAT
* *
56365435 ACAGAAATCGAATAATGTTTCTG-TTTATTTCTAATGAAAATAGACTCACCAAGGAATCTATACA
260 ACAGAAATCGAATAATGTTTATGTTTTATTTCTAATGAAAATAGACTCACCAAGGAATCTAGACA
56365499 TATAAACCTTGACTTATAATTATTTTTTAAAAAGTTCTAGTGATTTTACAAAGTTGGAATAGGGG
325 TATAAACCTTGACTTATAATTATTTTTTAAAAAGTTCTAGTGATTTTACAAAGTTGGAATAGGGG
56365564 ATCACAAAGTCACTCTAAATTAGTCTTACAGAAATTTAAATATCTCATAATATAGACTTCTTTTG
390 ATCACAAAGTCACTCTAAATTAGTCTTACAGAAATTTAAATATCTCATAATATAGACTTCTTTTG
* ** * *
56365629 CTTGATCTGTTTCTTTTTTATAAAAATAGACTCAATAATCTTTAATTCTATATCTCTTTAATAAC
455 CTTGATCTGTTTCTTTTCTATAAAAATAGACTCAATAAGATTTAATTCTATATCTCATTAACAAC
* ** * *
56365694 TTAATTCCTTTTCTAAAATTTTTAGTGATTTTTCAAAACCACGTCACTGCTGTTGTTTCCTAACT
520 TTAATTACTTTTCTAAAATTTTTAAAGATTTTTCAAAACCACGTCACTGCAGCTGTTTCCTAACT
56365759 GTTCCATGGCCAACTCTTACCCTTTCATAGTTTCTTTGCATC
585 GTTCCATGGCCAACTCTTACCCTTTCATAGTTTCTTTGCATC
56365801 AA
1 AA
56365803 ACCTAATTTA
Statistics
Matches: 589, Mismatches: 38, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
626 420 0.71
627 169 0.29
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (626 bp):
AATCAAAACAATTTATTTAACTATTCATAATAAAACTATCCATCTGCATAACAATCACAAAATTA
ATTATAACTCGACTTACAAAACTCAAAATTTAAATCCATAAATTTTCCTGAAACTAGACTCACAT
ATCTTCTTACCATAAATTTTCCAGAATTTTTGGTTTGGCCAATTAGTACAGTTTATTCATTAAAT
GTTCCCCTATTTTGCAATTTAGTGGACCTGATCTCTCTTCACTAAAAATTGATTATCTCATTATA
CAGAAATCGAATAATGTTTATGTTTTATTTCTAATGAAAATAGACTCACCAAGGAATCTAGACAT
ATAAACCTTGACTTATAATTATTTTTTAAAAAGTTCTAGTGATTTTACAAAGTTGGAATAGGGGA
TCACAAAGTCACTCTAAATTAGTCTTACAGAAATTTAAATATCTCATAATATAGACTTCTTTTGC
TTGATCTGTTTCTTTTCTATAAAAATAGACTCAATAAGATTTAATTCTATATCTCATTAACAACT
TAATTACTTTTCTAAAATTTTTAAAGATTTTTCAAAACCACGTCACTGCAGCTGTTTCCTAACTG
TTCCATGGCCAACTCTTACCCTTTCATAGTTTCTTTGCATC
Found at i:56366315 original size:53 final size:54
Alignment explanation
Indices: 56366232--56366454 Score: 229
Period size: 53 Copynumber: 4.2 Consensus size: 54
56366222 AGGATACACG
** * * *
56366232 GGTA-CCTTTCCTT-TTTAACTTACCATTGCCATGTCTTGACATGGTCTTACGT
1 GGTATCCTTTCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACAT
* * *
56366284 GGTATCCTTTCCTTAT-GAACTCACCATTGCCATGCCTTGGCATGGTCTTACAT
1 GGTATCCTTTCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACAT
* ** * *
56366337 GGGAT-CTTTGCCTTATAGTAGTTTATCAATGCCATGTCTTGACATGGTCTTACAT
1 GGTATCCTTT-CCTTATAG-AACTTACCAATGCCATGCCTTGACATGGTCTTACAT
* * * * * *
56366392 GATTTCCTTGCCTTGTAGAACTTACCAATGCCATGCCTTGGCATGGTCTTACTT
1 GGTATCCTTTCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACAT
56366446 GGTATCCTT
1 GGTATCCTT
56366455 AAACCCTAAT
Statistics
Matches: 139, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
52 8 0.06
53 51 0.37
54 39 0.28
55 38 0.27
56 3 0.02
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (54 bp):
GGTATCCTTTCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACAT
Found at i:56368949 original size:46 final size:45
Alignment explanation
Indices: 56368882--56369043 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 45
56368872 TGTAACTCGC
*
56368882 CCATAAATGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
56368928 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-A-T-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
* * *
56368970 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
56369013 CCATAAGTGAACTCAGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
56369044 TTCAGATGCC
Statistics
Matches: 99, Mismatches: 8, Indels: 18
0.79 0.06 0.14
Matches are distributed among these distances:
39 25 0.25
40 1 0.01
41 1 0.01
42 7 0.07
43 7 0.07
44 1 0.01
45 2 0.02
46 55 0.56
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:56368964 original size:20 final size:20
Alignment explanation
Indices: 56368939--56368997 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 20
56368929 CATAAGTGAA
56368939 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
* * *
56368959 CTCGGA-TACATCTC-TCGAA
1 CTCGGACT-CAACTCAACGAG
56368978 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
56368998 TTCAGACATT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.19
Consensus pattern (20 bp):
CTCGGACTCAACTCAACGAG
Found at i:56371437 original size:30 final size:30
Alignment explanation
Indices: 56371393--56371479 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
56371383 CAAAGATAAC
56371393 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
56371422 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * *
56371452 AAG-GATCCAG-ATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
56371480 CGATACTATG
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
28 14 0.29
29 16 0.33
30 19 0.39
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:56371461 original size:14 final size:15
Alignment explanation
Indices: 56371393--56371470 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
56371383 CAAAGATAAC
*
56371393 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
56371407 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
56371422 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
56371437 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
56371452 AAG-GATCCAG-ATA
1 AAGAAATCCAGAATA
56371465 AAGAAA
1 AAGAAA
56371471 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
13 6 0.11
14 16 0.30
15 30 0.57
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:56374588 original size:46 final size:46
Alignment explanation
Indices: 56374416--56374585 Score: 141
Period size: 46 Copynumber: 3.7 Consensus size: 46
56374406 TGTAATTCGC
** * *
56374416 CCATAAGTGAACTCAAACTCAACTCAATAAGCTCGAGCGTTTGCAT
1 CCATAAGTGAACTCAAACTCAACTCAACGAGCTCGAACATTTGCAT
* * * * *
56374462 CCACAAGTGAACTCAAACTCAGCTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCAAACTCAACTCAACGAGCTC-GA--AC-ATTTGCAT
* ** *
56374512 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
1 C-CATAAGTGAACTCAAACTCAACTCAACGAGCTCGAACATTTGCAT
*
56374555 CCATAAGTGAACTCGAACTCAACTCAACGAG
1 CCATAAGTGAACTCAAACTCAACTCAACGAG
56374586 TTCAGATGCC
Statistics
Matches: 96, Mismatches: 19, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 54 0.56
47 24 0.25
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAAACTCAACTCAACGAGCTCGAACATTTGCAT
Found at i:56385526 original size:40 final size:39
Alignment explanation
Indices: 56385442--56385626 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 39
56385432 TTGAATGATG
* * *
56385442 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
56385482 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAAA
* *
56385522 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
* *
56385561 TCCGGGTTAAGTCCCGAAGGCATTTGT-CTGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGATACTA-AA
*
56385602 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
56385627 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 36 0.29
40 77 0.61
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:56385578 original size:79 final size:81
Alignment explanation
Indices: 56385442--56385626 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
56385432 TTGAATGATG
*
56385442 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
56385506 TGTGC-GAGATACTA-A
66 TGT-CTGAGATACTATA
* * * **
56385521 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
56385583 TTTGTCTGAGTTACTATA
64 TTTGTCTGAGATACTATA
* *
56385601 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56385627 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.02
79 56 0.62
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTCTGAGATACTATA
Found at i:56385648 original size:79 final size:79
Alignment explanation
Indices: 56385495--56385659 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
56385485 GGACTAAGAT
* **
56385495 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
56385560 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
56385574 CCGAAGGCATTTGT-CTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 CCGAAGGCATTTGTGC-GAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-
* *
56385636 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
56385653 CCGAAGG
1 CCGAAGG
56385660 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:56404826 original size:28 final size:28
Alignment explanation
Indices: 56404794--56404922 Score: 100
Period size: 28 Copynumber: 4.6 Consensus size: 28
56404784 CAAAGTTTCA
* *
56404794 CACACTCAGTGCCTTCATGGATGTATCG
1 CACACTAAGTGCCATCATGGATGTATCG
* * *
56404822 CACACTAAGTGCCATCCTGGATGTCTTG
1 CACACTAAGTGCCATCATGGATGTATCG
* * * *
56404850 CACACTAAGTTCCATCCTCGAT-AATTCG
1 CACACTAAGTGCCATCATGGATGTA-TCG
* * * *
56404878 CTCACTAAGAGCCATTTC-TGGATTTTTCG
1 CACACTAAGTGCCA--TCATGGATGTATCG
56404907 CACACTAAGTGCCATC
1 CACACTAAGTGCCATC
56404923 CTAGTAACTC
Statistics
Matches: 79, Mismatches: 18, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
27 2 0.03
28 56 0.71
29 19 0.24
30 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (28 bp):
CACACTAAGTGCCATCATGGATGTATCG
Found at i:56404885 original size:56 final size:56
Alignment explanation
Indices: 56404819--56404945 Score: 159
Period size: 56 Copynumber: 2.3 Consensus size: 56
56404809 CATGGATGTA
* * *
56404819 TCGCACACTAAGTGCCA-TCCTGGATGTCTT-GCACACTAAGTTCCATCCTCGATAAT
1 TCGCACACTAAGTGCCATTCCTGGAT-TCTTCGCACACTAAGTGCCATCCTAG-TAAC
* * * *
56404875 TCGCTCACTAAGAGCCATTTCTGGATTTTTCGCACACTAAGTGCCATCCTAGTAAC
1 TCGCACACTAAGTGCCATTCCTGGATTCTTCGCACACTAAGTGCCATCCTAGTAAC
56404931 TCGCACACTAAGTGC
1 TCGCACACTAAGTGC
56404946 TATTTTTCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
56 34 0.57
57 26 0.43
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (56 bp):
TCGCACACTAAGTGCCATTCCTGGATTCTTCGCACACTAAGTGCCATCCTAGTAAC
Found at i:56419895 original size:27 final size:27
Alignment explanation
Indices: 56419864--56420068 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
56419854 ATATTGAGTC
* * *
56419864 CGCACACTCAGTGCTATATCA-TCAACT
1 CGCACACTTAGTGCTACAT-AGTCAAAT
* *
56419891 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56419918 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
56419946 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
56419973 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
56420000 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56420027 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56420054 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56420069 GTACAATTTA
Statistics
Matches: 156, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 131 0.84
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:56428106 original size:27 final size:27
Alignment explanation
Indices: 56428075--56428279 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
56428065 ATATTGAGTC
* * *
56428075 CGCACACTCAGTGCTATATCA-TCAACT
1 CGCACACTTAGTGCTACAT-AGTCAAAT
* *
56428102 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56428129 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
56428157 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
56428184 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
56428211 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56428238 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56428265 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56428280 GTACAATTTA
Statistics
Matches: 156, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 131 0.84
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:56430462 original size:17 final size:19
Alignment explanation
Indices: 56430435--56430470 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
56430425 ATTCTCCCTC
56430435 TTCTATTTTGG-GTTTTTG
1 TTCTATTTTGGTGTTTTTG
56430453 TTCT-TTTTGGTGTTTTTG
1 TTCTATTTTGGTGTTTTTG
56430471 GTATCTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.03, C:0.06, G:0.22, T:0.69
Consensus pattern (19 bp):
TTCTATTTTGGTGTTTTTG
Found at i:56432235 original size:58 final size:58
Alignment explanation
Indices: 56432140--56432270 Score: 208
Period size: 58 Copynumber: 2.3 Consensus size: 58
56432130 ACTGTGATAT
* *
56432140 TGGTTTGTTGGTTGGGTGGGTCGATTTAATCCCCACATAGTGTGTTGGTTGGTATGGG
1 TGGTATGTTGGTTGGGTGGGTCGATTTAATCCCCACATAGTGTGTTGGTTGGTACGGG
* * *
56432198 TGGTGTGTTGGTTGGGTGGGTCGATTTAATCCCCACATGGTGTGTTGGTTTGTACGGG
1 TGGTATGTTGGTTGGGTGGGTCGATTTAATCCCCACATAGTGTGTTGGTTGGTACGGG
*
56432256 TGGTATGCTGGTTGG
1 TGGTATGTTGGTTGG
56432271 ATTGGGTTAG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 67 1.00
ACGTcount: A:0.11, C:0.11, G:0.40, T:0.39
Consensus pattern (58 bp):
TGGTATGTTGGTTGGGTGGGTCGATTTAATCCCCACATAGTGTGTTGGTTGGTACGGG
Found at i:56449741 original size:28 final size:29
Alignment explanation
Indices: 56449709--56449765 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
56449699 GAATTATTTG
*
56449709 CAAAATTCAGTTATGT-TTTTT-TAAATAT
1 CAAAATT-AGTTATCTCTTTTTGTAAATAT
*
56449737 CAAAATTAGTTGTCTCTTTTTGTAAATAT
1 CAAAATTAGTTATCTCTTTTTGTAAATAT
56449766 TTTAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.24
28 12 0.48
29 7 0.28
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (29 bp):
CAAAATTAGTTATCTCTTTTTGTAAATAT
Found at i:56449850 original size:22 final size:19
Alignment explanation
Indices: 56449825--56449866 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
56449815 TGATAATAAC
56449825 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
56449847 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
56449866 T
1 T
56449867 CAGGTTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:56449857 original size:16 final size:15
Alignment explanation
Indices: 56449825--56449863 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
56449815 TGATAATAAC
56449825 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
56449841 TTATTATAATATATAT
1 TAATTATAAT-TATAT
56449857 TAATTAT
1 TAATTAT
56449864 TATCAGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:56450178 original size:14 final size:16
Alignment explanation
Indices: 56450155--56450191 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
56450145 CCCTAGTAGT
56450155 AGCT-CCACA-CTCTA
1 AGCTGCCACACCTCTA
56450169 AG-TGCCACACCTCTA
1 AGCTGCCACACCTCTA
56450184 AGCTGCCA
1 AGCTGCCA
56450192 GCGGCAGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.05
14 7 0.35
15 7 0.35
16 5 0.25
ACGTcount: A:0.27, C:0.41, G:0.14, T:0.19
Consensus pattern (16 bp):
AGCTGCCACACCTCTA
Found at i:56451535 original size:14 final size:13
Alignment explanation
Indices: 56451508--56451533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56451498 AATTCGAGTC
56451508 AAAAAAATATTTT
1 AAAAAAATATTTT
56451521 AAAAAAATATTTT
1 AAAAAAATATTTT
56451534 TAGTGTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAAAATATTTT
Found at i:56451571 original size:15 final size:15
Alignment explanation
Indices: 56451539--56451567 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56451529 ATTTTTAGTG
56451539 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
56451554 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
56451568 ATTTTTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:56485463 original size:39 final size:39
Alignment explanation
Indices: 56485420--56485651 Score: 349
Period size: 39 Copynumber: 6.0 Consensus size: 39
56485410 AAGACACTGA
* *
56485420 AAATGTATCCGGGCTAAAGTCCCGCAAGCTTCGTGCGGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
56485459 AAATGTATCCGGGGTAAAGTCTCGCAGGCTTCGTGCTAG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
56485498 AAATATATCCGGGCTAAAGTCCCGCAGGCTTCATGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
56485537 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
56485576 AAATGTATCC-GGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
56485614 AAATGTATCCGGGTTAAAGTCTCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
56485652 ATAATATAAT
Statistics
Matches: 175, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 38 0.22
39 137 0.78
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:56491322 original size:39 final size:39
Alignment explanation
Indices: 56491248--56491479 Score: 351
Period size: 39 Copynumber: 6.0 Consensus size: 39
56491238 AAGACACTGA
56491248 AAATGTATCCGGGCTAAAGT-CCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
56491286 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
56491325 AAATATATCCAGGCTACAA-TCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTA-AAGTCCCGCAGGCTTCGTGCTGG
* * * *
56491364 AAATATATCCGGGCCAAAGTCCCACAGGCTCCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
56491403 AAATGTATCTGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
56491442 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
56491480 ATAATATAAT
Statistics
Matches: 177, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
38 22 0.12
39 153 0.86
40 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:56499264 original size:44 final size:44
Alignment explanation
Indices: 56499205--56499307 Score: 188
Period size: 44 Copynumber: 2.3 Consensus size: 44
56499195 TTCCGATTTC
56499205 TGTGCGAGTAAGACCATGGCATCGATATGTGATTCTGATATCTG
1 TGTGCGAGTAAGACCATGGCATCGATATGTGATTCTGATATCTG
* *
56499249 TGTGTGAGTAAGACCATGGCATCGATATGTGATTCTGATATTTG
1 TGTGCGAGTAAGACCATGGCATCGATATGTGATTCTGATATCTG
56499293 TGTGCGAGTAAGACC
1 TGTGCGAGTAAGACC
56499308 CTGTCTGAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (44 bp):
TGTGCGAGTAAGACCATGGCATCGATATGTGATTCTGATATCTG
Found at i:56503229 original size:30 final size:30
Alignment explanation
Indices: 56503184--56503243 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
56503174 ATTTAATACG
*
56503184 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
56503214 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
56503244 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:56506411 original size:51 final size:51
Alignment explanation
Indices: 56506326--56506450 Score: 130
Period size: 51 Copynumber: 2.5 Consensus size: 51
56506316 CGGATGCTCG
* * * * *
56506326 GTGGGTTGCACATAATACCACCCTTGTAGTCAAAGCTACCTTCTT-CACAAA
1 GTGGCTTGCACATAGTACCACACTTGTAGCCAAAGCTACATT-TTACACAAA
* *
56506377 GTGGCCTT-CACATAGTACCACACTTGT-GACCAAAGCTATATTTTACACATA
1 GTGG-CTTGCACATAGTACCACACTTGTAG-CCAAAGCTACATTTTACACAAA
*
56506428 GTGGCTTGCACTTAGTACCACAC
1 GTGGCTTGCACATAGTACCACAC
56506451 ATGTCATCGA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
50 6 0.10
51 54 0.87
52 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (51 bp):
GTGGCTTGCACATAGTACCACACTTGTAGCCAAAGCTACATTTTACACAAA
Found at i:56506603 original size:26 final size:26
Alignment explanation
Indices: 56506521--56506605 Score: 66
Period size: 26 Copynumber: 3.3 Consensus size: 26
56506511 AACCATCTGG
* *
56506521 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
* * * **
56506547 TACACA-CGTGGCCTACAGCCATTTTA-
1 TACACATAGTAGCCTGCA--CATAGTAC
*
56506573 AACACATAGTAGCCTGCACATAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
56506599 TACACAT
1 TACACAT
56506606 GTGTTCTCAC
Statistics
Matches: 41, Mismatches: 14, Indels: 8
0.65 0.22 0.13
Matches are distributed among these distances:
25 13 0.32
26 16 0.39
27 12 0.29
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACATAGTAC
Found at i:56512437 original size:12 final size:12
Alignment explanation
Indices: 56512420--56512447 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
56512410 TCTACTCCCA
56512420 CAAGCTGCCAGT
1 CAAGCTGCCAGT
56512432 CAAGCTGCCAGT
1 CAAGCTGCCAGT
56512444 CAAG
1 CAAG
56512448 ACGTAGCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.25, T:0.14
Consensus pattern (12 bp):
CAAGCTGCCAGT
Found at i:56513833 original size:22 final size:22
Alignment explanation
Indices: 56513808--56513867 Score: 57
Period size: 26 Copynumber: 2.5 Consensus size: 22
56513798 ATCAAATTTC
*
56513808 CATGTACATATAATTTACAAAT
1 CATGTACATATAATGTACAAAT
56513830 CATGTATCTATATATAATGTACAAAT
1 CATGTA-C---ATATAATGTACAAAT
* *
56513856 CATTTTCATATA
1 CATGTACATATA
56513868 TCTCATGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 11 0.35
23 1 0.03
25 1 0.03
26 18 0.58
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (22 bp):
CATGTACATATAATGTACAAAT
Found at i:56514092 original size:25 final size:24
Alignment explanation
Indices: 56514064--56514115 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
56514054 TAAATAACGA
** *
56514064 TAAGCTCATACGAGCTGAGTATTGG
1 TAAGCTCATAAAAGCTGA-AATTGG
56514089 TAAGCTCATAAAAGCTGAAATTGG
1 TAAGCTCATAAAAGCTGAAATTGG
56514113 TAA
1 TAA
56514116 CCCTAATGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (24 bp):
TAAGCTCATAAAAGCTGAAATTGG
Found at i:56523282 original size:43 final size:42
Alignment explanation
Indices: 56523127--56523283 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 42
56523117 TAGGATTTTG
* * *
56523127 TGTAAGACCATGTCTGGGACGTTGGCATGGACTTCTGTTTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TTCTG-ATTACA
* * * * *
56523171 TGTAAGACCATGTCTGGGACATCGGCATC-ATATCTGATTTCC
1 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TCTGATTACA
* * *
56523213 TATAAGACC-CTGTCTAGGACAG-TGGCATCGATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TCTGATTACA
*
56523256 TGTAAGATCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
56523284 TGTATATGTT
Statistics
Matches: 89, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
42 27 0.30
43 35 0.39
44 27 0.30
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTCTGATTACA
Found at i:56533180 original size:43 final size:43
Alignment explanation
Indices: 56533115--56533278 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 43
56533105 AGCTCGTACA
* * * * **
56533115 ATGCCAA-CTCCCACACACGGTCTTACATG-TAATCAAATATT
1 ATGCCAATGTCCCAGACACGGTCTTACACGAAAATCAAATACG
* *
56533156 AGTGCCACTGTCCCAGACAGGGTCTTA-ACGAAAATCAAATACG
1 A-TGCCAATGTCCCAGACACGGTCTTACACGAAAATCAAATACG
* *
56533199 ATGCCAATGTCCCAGACATGGTCTTACAC-ATAAATCTCAAAT-CA
1 ATGCCAATGTCCCAGACACGGTCTTACACGA-AAA--TCAAATACG
* *
56533243 ATGCCAATGTCCCAGATATGGTCTTACAC-AAAATCA
1 ATGCCAATGTCCCAGACACGGTCTTACACGAAAATCA
56533279 CATATCGGAA
Statistics
Matches: 104, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
41 4 0.04
42 31 0.30
43 33 0.32
44 30 0.29
45 6 0.06
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACACGGTCTTACACGAAAATCAAATACG
Found at i:56533258 original size:44 final size:44
Alignment explanation
Indices: 56533158--56533277 Score: 158
Period size: 44 Copynumber: 2.8 Consensus size: 44
56533148 CAAATATTAG
* * *
56533158 TGCCACTGTCCCAGACAGGGTCTTA-ACGAAAA--TCAAATACGA
1 TGCCAATGTCCCAGACATGGTCTTACAC-AAAATCTCAAATACAA
56533200 TGCCAATGTCCCAGACATGGTCTTACACATAAATCTCAAAT-CAA
1 TGCCAATGTCCCAGACATGGTCTTACACA-AAATCTCAAATACAA
*
56533244 TGCCAATGTCCCAGATATGGTCTTACACAAAATC
1 TGCCAATGTCCCAGACATGGTCTTACACAAAATC
56533278 ACATATCGGA
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
42 24 0.34
43 10 0.14
44 30 0.43
45 6 0.09
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (44 bp):
TGCCAATGTCCCAGACATGGTCTTACACAAAATCTCAAATACAA
Found at i:56536569 original size:22 final size:22
Alignment explanation
Indices: 56536529--56536571 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
56536519 GACTATGCGA
*
56536529 TTTGAGCTCATGAGTTATGTGG
1 TTTGAGCTCAAGAGTTATGTGG
56536551 TTTGAGCTCAAGA-TATATGTG
1 TTTGAGCTCAAGAGT-TATGTG
56536572 ACACATGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.23, C:0.09, G:0.28, T:0.40
Consensus pattern (22 bp):
TTTGAGCTCAAGAGTTATGTGG
Found at i:56537017 original size:37 final size:37
Alignment explanation
Indices: 56536976--56537049 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
56536966 TACAAAAAAG
*
56536976 TATGTGACTATATTATGTGAGGTACAGGTATGTACAC
1 TATGTGACTATATTACGTGAGGTACAGGTATGTACAC
*
56537013 TATGTGACTATATTACGTGAGGTATAGGTATGTACAC
1 TATGTGACTATATTACGTGAGGTACAGGTATGTACAC
56537050 GAACAAGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (37 bp):
TATGTGACTATATTACGTGAGGTACAGGTATGTACAC
Found at i:56537808 original size:6 final size:6
Alignment explanation
Indices: 56537790--56537902 Score: 56
Period size: 6 Copynumber: 18.3 Consensus size: 6
56537780 AAGAAACATT
* * * *
56537790 ATCAGA A-CTAGA ATCAGA ATAAGA ATCAAA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
56537839 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATC-GA TATCAGGTA A-CAGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA -ATCA-G-A ATCAGA
*
56537889 ATCAAA ATCAGA AT
1 ATCAGA ATCAGA AT
56537903 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 14, Indels: 26
0.67 0.12 0.22
Matches are distributed among these distances:
5 8 0.10
6 59 0.74
7 8 0.10
8 4 0.05
9 1 0.01
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:56537851 original size:25 final size:25
Alignment explanation
Indices: 56537804--56537872 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 25
56537794 GAACTAGAAT
* * * *
56537804 CAGAATAAGAATCAAAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
56537829 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
56537854 CAGAATCAAAATCAGAATC
1 CAGAATCAGAATCAGAATC
56537873 GATATCAGGT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:56537867 original size:31 final size:31
Alignment explanation
Indices: 56537832--56537902 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
56537822 TAGGTGACAG
56537832 AATCAGAATC-AGTATCAGGTAACAGAATCAA
1 AATCAGAATCGA-TATCAGGTAACAGAATCAA
56537863 AATCAGAATCGATATCAGGTAACAGAATCAA
1 AATCAGAATCGATATCAGGTAACAGAATCAA
56537894 AATCAGAAT
1 AATCAGAAT
56537903 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 38 0.97
32 1 0.03
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.20
Consensus pattern (31 bp):
AATCAGAATCGATATCAGGTAACAGAATCAA
Found at i:56537897 original size:25 final size:25
Alignment explanation
Indices: 56537823--56537899 Score: 82
Period size: 31 Copynumber: 2.8 Consensus size: 25
56537813 AATCAAAATT
* *
56537823 AGGTGACAGAATCAGAATCAGTATC
1 AGGTAACAGAATCAAAATCAGTATC
56537848 AGGTAACAGAATCAAAATCAGAATCGATATC
1 AGGTAACAGAATCAAAATC---A--G-TATC
56537879 AGGTAACAGAATCAAAATCAG
1 AGGTAACAGAATCAAAATCAG
56537900 AATGTGAATG
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
25 17 0.39
26 1 0.02
28 2 0.05
30 1 0.02
31 23 0.52
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (25 bp):
AGGTAACAGAATCAAAATCAGTATC
Found at i:56537898 original size:19 final size:19
Alignment explanation
Indices: 56537811--56537899 Score: 51
Period size: 19 Copynumber: 4.7 Consensus size: 19
56537801 AATCAGAATA
* *
56537811 AGAATCAAAATTAGGTGAC
1 AGAATCAAAATCAGGTAAC
* *
56537830 AGAATCAGAATCA-GTATC
1 AGAATCAAAATCAGGTAAC
* *
56537848 AGGTAA-CAGAATCA--AAATC
1 A-G-AATCAAAATCAGGTAA-C
* *
56537867 AGAATCGATATCAGGTAAC
1 AGAATCAAAATCAGGTAAC
56537886 AGAATCAAAATCAG
1 AGAATCAAAATCAG
56537900 AATGTGAATG
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
17 2 0.04
18 11 0.21
19 35 0.67
20 4 0.08
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (19 bp):
AGAATCAAAATCAGGTAAC
Found at i:56538334 original size:27 final size:27
Alignment explanation
Indices: 56538304--56538499 Score: 266
Period size: 27 Copynumber: 7.3 Consensus size: 27
56538294 GGGGCAAAAT
* * * *
56538304 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56538331 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56538358 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56538385 GGTCATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
56538412 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56538439 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56538466 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56538493 AGTAATT
1 GGTAATT
56538500 TCACAATCAA
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:56538795 original size:27 final size:27
Alignment explanation
Indices: 56538504--56538778 Score: 331
Period size: 27 Copynumber: 10.2 Consensus size: 27
56538494 GTAATTTCAC
*
56538504 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56538531 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56538558 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** *** * **
56538585 AATTAAGGGTAAAATAATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56538612 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56538639 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56538666 AA-CTGAGGGTAAAATGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
56538693 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56538720 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
56538747 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56538774 AATCG
1 AATCG
56538779 GGAGTACTTT
Statistics
Matches: 209, Mismatches: 33, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.01
27 204 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:56558385 original size:16 final size:17
Alignment explanation
Indices: 56558364--56558396 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
56558354 ATAATAGGGA
*
56558364 CAAAAGTGT-AATTTTG
1 CAAAAGTATGAATTTTG
56558380 CAAAAGTATGAATTTTG
1 CAAAAGTATGAATTTTG
56558397 GACTGAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.36
Consensus pattern (17 bp):
CAAAAGTATGAATTTTG
Found at i:56562636 original size:47 final size:49
Alignment explanation
Indices: 56562567--56562741 Score: 173
Period size: 49 Copynumber: 3.6 Consensus size: 49
56562557 TATAATGTCG
* *
56562567 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-CATC-AAGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCAAATCGAAGCCA
* * *
56562614 ATGCCATGTCCTAGACATGGTCTTACACT-GACT-ATCGAAATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATC-AAATCGAAGCCA
* ** *
56562663 ACGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATTCG-TTCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCA-A-A-TCGAAGCCA
*
56562713 ATGCTATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
56562742 GACACCTCTA
Statistics
Matches: 108, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
46 4 0.04
47 30 0.28
48 4 0.04
49 35 0.32
50 32 0.30
51 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCAAATCGAAGCCA
Found at i:56563653 original size:24 final size:26
Alignment explanation
Indices: 56563626--56563679 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
56563616 ATAATTGAGG
56563626 ATTTTAATCTA-ACATTTAA-AA-TTT
1 ATTTTAATCTATA-ATTTAACAATTTT
*
56563650 ATTTTAATTTATAATTTAACAATTTT
1 ATTTTAATCTATAATTTAACAATTTT
56563676 ATTT
1 ATTT
56563680 ATAAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 16 0.62
25 3 0.12
26 7 0.27
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTTTAATCTATAATTTAACAATTTT
Found at i:56568910 original size:21 final size:22
Alignment explanation
Indices: 56568877--56568920 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
56568867 ATAAGATAAT
*
56568877 AAACATATTTAA-TAATACATGA
1 AAACATATGTAATTAATA-ATGA
56568899 AAACATA-GTAATTAATAATGA
1 AAACATATGTAATTAATAATGA
56568920 A
1 A
56568921 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACATATGTAATTAATAATGA
Found at i:56569136 original size:8 final size:8
Alignment explanation
Indices: 56569123--56569289 Score: 50
Period size: 8 Copynumber: 21.5 Consensus size: 8
56569113 TAAAATGTAA
56569123 AATAATAT
1 AATAATAT
56569131 AATAATAT
1 AATAATAT
*
56569139 AAAAATAT
1 AATAATAT
56569147 -ATAA-AT
1 AATAATAT
* *
56569153 -ATTATGT
1 AATAATAT
* *
56569160 GATAA-AA
1 AATAATAT
56569167 ACATAATAT
1 A-ATAATAT
56569176 AATAA-AT
1 AATAATAT
*
56569183 AATAA-GT
1 AATAATAT
*
56569190 AATGATAT
1 AATAATAT
* ** *
56569198 -GTGTTAA
1 AATAATAT
56569205 AAT-ATAT
1 AATAATAT
*
56569212 ATTAATAT
1 AATAATAT
* *
56569220 GATAATAG
1 AATAATAT
*
56569228 AAAAATAT
1 AATAATAT
56569236 GAAGTAATAT
1 -AA-TAATAT
56569246 AAT-ATAAT
1 AATAAT-AT
56569254 AA-AATAT
1 AATAATAT
56569261 AAGTAA-AT
1 AA-TAATAT
* *
56569269 AATTATAA
1 AATAATAT
56569277 AATATATAT
1 AATA-ATAT
56569286 AATA
1 AATA
56569290 CGTATATTTA
Statistics
Matches: 114, Mismatches: 30, Indels: 29
0.66 0.17 0.17
Matches are distributed among these distances:
6 5 0.04
7 32 0.28
8 57 0.50
9 15 0.13
10 5 0.04
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.34
Consensus pattern (8 bp):
AATAATAT
Found at i:56571424 original size:206 final size:206
Alignment explanation
Indices: 56571015--56571554 Score: 791
Period size: 206 Copynumber: 2.6 Consensus size: 206
56571005 AAATTTGCTT
* *
56571015 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAATTCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * *
56571080 GCGAAAACCAAATCAGCTAT-TCTTCGATTTGCTCCTTGCAAGCACAAGGAT-ACCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGA-CAAACCATCT
* * * * *
56571143 TGGATCTGCTTCAGGCTAAGCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCGAATAT
130 TGGATCTGCTTCAGGATAAACATCTGAAAGTCAGATCTGCTATGTATCTGCCCTCCATCGAATAT
56571208 GGAGACGCCAAA
195 GGAGACGCCAAA
* *
56571220 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
56571285 GTGAAAGCTAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGACAAATCATCT
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAGCACAAGGATGACAAACCATCT
* * *
56571349 TGGATCTGCTTCAGTATAAACATCT-AAAGTCCAGATCTGCTATGTATCTGCTCTCCGTCGAATA
130 TGGATCTGCTTCAGGATAAACATCTGAAAGT-CAGATCTGCTATGTATCTGCCCTCCATCGAATA
56571413 TGGAGACGCCAAA
194 TGGAGACGCCAAA
* * * * *
56571426 CTTTGATTTGTTTTCTGACAATACAAATATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
56571491 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAATGATGCCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGACAAACCATCT
56571555 CAGATCTTAC
Statistics
Matches: 299, Mismatches: 31, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
205 83 0.28
206 214 0.72
207 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGACAAACCATCTT
GGATCTGCTTCAGGATAAACATCTGAAAGTCAGATCTGCTATGTATCTGCCCTCCATCGAATATG
GAGACGCCAAA
Found at i:56572464 original size:1 final size:1
Alignment explanation
Indices: 56572460--56572546 Score: 66
Period size: 1 Copynumber: 87.0 Consensus size: 1
56572450 CTCTTCTCTC
* ** * * * * * *
56572460 TTTTTTCTTTTTTCCTTTTTTTTCTTTTTTTTTTGTTTTTTTTGTTTTTTGTTTTTTTATTTTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
56572525 GTTTGTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTT
56572547 GATTTTCAAA
Statistics
Matches: 64, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.01, C:0.07, G:0.06, T:0.86
Consensus pattern (1 bp):
T
Found at i:56572468 original size:7 final size:7
Alignment explanation
Indices: 56572435--56572546 Score: 59
Period size: 7 Copynumber: 14.9 Consensus size: 7
56572425 GGCCTCTCCA
56572435 TTTTTCTC
1 TTTTT-TC
56572443 TTTTTTCC
1 TTTTTT-C
*
56572451 TCTTCTCTC
1 T-TT-TTTC
56572460 TTTTTTC
1 TTTTTTC
56572467 TTTTTTCC
1 TTTTTT-C
56572475 TTTTTTTTC
1 --TTTTTTC
56572484 TTTTTT-
1 TTTTTTC
56572490 TTTTGTT-
1 TTTT-TTC
*
56572497 TTTTTTG
1 TTTTTTC
*
56572504 TTTTTTG
1 TTTTTTC
56572511 TTTTTT-
1 TTTTTTC
*
56572517 TATTTTCTG
1 T-TTTT-TC
*
56572526 TTTGTTTT
1 TTT-TTTC
56572534 TTTTTTC
1 TTTTTTC
56572541 TTTTTT
1 TTTTTT
56572547 GATTTTCAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 25
0.75 0.03 0.21
Matches are distributed among these distances:
6 7 0.08
7 48 0.55
8 17 0.19
9 8 0.09
10 8 0.09
ACGTcount: A:0.01, C:0.12, G:0.04, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:56572468 original size:24 final size:24
Alignment explanation
Indices: 56572435--56572493 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
56572425 GGCCTCTCCA
56572435 TTTTTCTCTTTTTTCCTCTTCTCTC
1 TTTTT-TCTTTTTTCCTCTTCTCTC
* * *
56572460 TTTTTTCTTTTTTCCTTTTTTTTC
1 TTTTTTCTTTTTTCCTCTTCTCTC
56572484 TTTTTT-TTTT
1 TTTTTTCTTTT
56572494 GTTTTTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 4 0.13
24 22 0.71
25 5 0.16
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTTTCTTTTTTCCTCTTCTCTC
Done.