Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 177 of 208
Found at i:54108068 original size:13 final size:13
Alignment explanation
Indices: 54108047--54108097 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
54108037 ACACTCAAAT
54108047 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
54108060 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
*
54108073 TTTTTC-ACAGCAC
1 -TTTTCAAAAGCAC
54108086 TTTTCAAAAGCA
1 TTTTCAAAAGCA
54108098 ATGAAGAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 5 0.16
13 23 0.72
14 4 0.12
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:54108084 original size:26 final size:27
Alignment explanation
Indices: 54108046--54108097 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
54108036 AACACTCAAA
54108046 TTTTTCAAAAGCACTTCTCAAAAGCAC
1 TTTTTCAAAAGCACTTCTCAAAAGCAC
* *
54108073 TTTTTC-ACAGCACTTTTCAAAAGCA
1 TTTTTCAAAAGCACTTCTCAAAAGCA
54108098 ATGAAGAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.33
Consensus pattern (27 bp):
TTTTTCAAAAGCACTTCTCAAAAGCAC
Found at i:54113168 original size:33 final size:33
Alignment explanation
Indices: 54113084--54113229 Score: 130
Period size: 33 Copynumber: 4.3 Consensus size: 33
54113074 TTTTTGCGAT
* ** * *
54113084 TTGGTGTGTTAGTTGGATTAGCTCTTTTGAGCA
1 TTGGTGTGTTGGAGGGATTAGCTCGTGTGAGCA
* ** * *
54113117 TTGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGAGGGATTAGCTCGTGTGAGCA
*
54113150 TTGGTGTGTTGGAGGGATTGGCTCGTGTGAGCA
1 TTGGTGTGTTGGAGGGATTAGCTCGTGTGAGCA
* *
54113183 TCTGGTGCGTTTTGGAGGGATTAACTCGTGTGAGCA
1 T-TGGT--GTGTTGGAGGGATTAGCTCGTGTGAGCA
*
54113219 TCTAGTGTGTT
1 T-TGGTGTGTT
54113230 TGGTTGGACT
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
33 58 0.60
34 8 0.08
36 30 0.31
ACGTcount: A:0.14, C:0.11, G:0.36, T:0.39
Consensus pattern (33 bp):
TTGGTGTGTTGGAGGGATTAGCTCGTGTGAGCA
Found at i:54113201 original size:36 final size:36
Alignment explanation
Indices: 54113158--54113230 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
54113148 CATTGGTGTG
** *
54113158 TTGGAGGGATTGGCTCGTGTGAGCATCTGGTGCGTT
1 TTGGAGGGATTAACTCGTGTGAGCATCTAGTGCGTT
*
54113194 TTGGAGGGATTAACTCGTGTGAGCATCTAGTGTGTT
1 TTGGAGGGATTAACTCGTGTGAGCATCTAGTGCGTT
54113230 T
1 T
54113231 GGTTGGACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.15, C:0.12, G:0.37, T:0.36
Consensus pattern (36 bp):
TTGGAGGGATTAACTCGTGTGAGCATCTAGTGCGTT
Found at i:54114744 original size:19 final size:19
Alignment explanation
Indices: 54114717--54114756 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
54114707 GTGTCTCAGC
* *
54114717 CGTGTGTGACACATGGCCA
1 CGTGCGTGACACACGGCCA
*
54114736 CGTGCGTGACTCACGGCCA
1 CGTGCGTGACACACGGCCA
54114755 CG
1 CG
54114757 CGACACGGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.17
Consensus pattern (19 bp):
CGTGCGTGACACACGGCCA
Found at i:54115470 original size:8 final size:8
Alignment explanation
Indices: 54115457--54115504 Score: 73
Period size: 8 Copynumber: 6.2 Consensus size: 8
54115447 AGGCATGGGG
*
54115457 TTTAGGTT
1 TTTAGGGT
54115465 TTTAGGG-
1 TTTAGGGT
54115472 TTTAGGGT
1 TTTAGGGT
54115480 TTTAGGGT
1 TTTAGGGT
54115488 TTTAGGG-
1 TTTAGGGT
54115495 TTTAGGGT
1 TTTAGGGT
54115503 TT
1 TT
54115505 AGCCTTGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
7 14 0.38
8 23 0.62
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.52
Consensus pattern (8 bp):
TTTAGGGT
Found at i:54115474 original size:15 final size:14
Alignment explanation
Indices: 54115454--54115506 Score: 70
Period size: 15 Copynumber: 3.6 Consensus size: 14
54115444 TGAAGGCATG
54115454 GGGTTTAGGTTTTTA
1 GGGTTTAGG-TTTTA
54115469 GGGTTTAGGGTTTTA
1 GGGTTTA-GGTTTTA
*
54115484 GGGTTTTAGGGTTTA
1 GGG-TTTAGGTTTTA
54115499 GGGTTTAG
1 GGGTTTAG
54115507 CCTTGTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
14 5 0.14
15 24 0.69
16 6 0.17
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (14 bp):
GGGTTTAGGTTTTA
Found at i:54115477 original size:7 final size:7
Alignment explanation
Indices: 54115454--54115506 Score: 70
Period size: 7 Copynumber: 7.1 Consensus size: 7
54115444 TGAAGGCATG
54115454 GGGTTTA
1 GGGTTTA
*
54115461 GGTTTTTA
1 GG-GTTTA
54115469 GGGTTTA
1 GGGTTTA
54115476 GGGTTTTA
1 GGG-TTTA
54115484 GGGTTTTA
1 GGG-TTTA
54115492 GGGTTTA
1 GGGTTTA
54115499 GGGTTTA
1 GGGTTTA
54115506 G
1 G
54115507 CCTTGTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 21 0.50
8 21 0.50
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (7 bp):
GGGTTTA
Found at i:54115483 original size:23 final size:23
Alignment explanation
Indices: 54115457--54115504 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
54115447 AGGCATGGGG
*
54115457 TTTAGGTTTTTAGGGTTTAGGGT
1 TTTAGGGTTTTAGGGTTTAGGGT
54115480 TTTAGGGTTTTAGGGTTTAGGGT
1 TTTAGGGTTTTAGGGTTTAGGGT
54115503 TT
1 TT
54115505 AGCCTTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.52
Consensus pattern (23 bp):
TTTAGGGTTTTAGGGTTTAGGGT
Found at i:54117147 original size:19 final size:19
Alignment explanation
Indices: 54117123--54117233 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
54117113 AATCTTCAGG
54117123 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
54117142 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
54117161 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
54117180 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
54117199 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
54117218 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
54117234 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:54117173 original size:38 final size:38
Alignment explanation
Indices: 54117130--54117233 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
54117120 AGGGATATGC
54117130 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
54117168 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
54117206 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
54117234 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:54117259 original size:22 final size:21
Alignment explanation
Indices: 54117123--54117259 Score: 114
Period size: 19 Copynumber: 6.9 Consensus size: 21
54117113 AATCTTCAGG
*
54117123 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
54117142 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
54117161 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
54117180 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
54117199 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
54117218 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
54117240 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
54117260 TTAATTTGTA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
19 79 0.77
22 12 0.12
23 11 0.11
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:54123317 original size:33 final size:33
Alignment explanation
Indices: 54123275--54123653 Score: 153
Period size: 27 Copynumber: 11.4 Consensus size: 33
54123265 GTGAATTCCT
54123275 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGAATCGGGGAATCAG
** *
54123308 CACACAGCAACC-CC--T---TGGGGGAATCAG
1 CACTTAGCAACCACCAATGAATCGGGGAATCAG
*
54123335 CACTTAGCAACCACCTTCACATTTCAGATGCGGTGGAATCAG
1 CACTTAGCAACCA-C--CA-A--TGA-AT-CGG-GGAATCAG
*
54123377 CACTTAGCAACCACCAATGAATAGGGGAATCAG
1 CACTTAGCAACCACCAATGAATCGGGGAATCAG
54123410 CACTTAGCAACC-CC------TCGGGGGAATCAG
1 CACTTAGCAACCACCAATGAATC-GGGGAATCAG
54123437 CACTTAGCAACC-CC------TCGGGGGAATCAG
1 CACTTAGCAACCACCAATGAATC-GGGGAATCAG
* * *
54123464 CACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATTAG
1 CACTTAGCAA-CCAC---CA-A--T-GAAT-CGG-GGAATCAG
*
54123507 CACTTAGCAACCACCAATGAATCTGGGAATCAG
1 CACTTAGCAACCACCAATGAATCGGGGAATCAG
** *
54123540 CACACAGCAACC-CC--T---TGGGGGAATCAG
1 CACTTAGCAACCACCAATGAATCGGGGAATCAG
* *
54123567 CACTTAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCAG
1 CACTTAGCAA-CCAC--CA-A--TGA-AT-CGG-GGAATCAG
*
54123609 TACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGAATCGGGGAATCAG
**
54123642 CACACAGCAACC
1 CACTTAGCAACC
54123654 CCTTTATATG
Statistics
Matches: 271, Mismatches: 27, Indels: 96
0.69 0.07 0.24
Matches are distributed among these distances:
26 1 0.00
27 86 0.32
28 4 0.01
29 3 0.01
30 2 0.01
31 2 0.01
32 7 0.03
33 64 0.24
34 7 0.03
35 7 0.03
36 7 0.03
38 3 0.01
39 6 0.02
40 2 0.01
41 8 0.03
42 44 0.16
43 18 0.07
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.18
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGAATCGGGGAATCAG
Found at i:54123434 original size:27 final size:27
Alignment explanation
Indices: 54123400--54123477 Score: 156
Period size: 27 Copynumber: 2.9 Consensus size: 27
54123390 CCAATGAATA
54123400 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACTTAGCAACCCCTCG
54123427 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACTTAGCAACCCCTCG
54123454 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
54123478 CTTTCACATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.27, C:0.33, G:0.26, T:0.14
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTCG
Found at i:54123447 original size:129 final size:130
Alignment explanation
Indices: 54123298--54123580 Score: 442
Period size: 130 Copynumber: 2.2 Consensus size: 130
54123288 CCAATGAATC
** * * *
54123298 GGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCACC-TTCACATTTCAG
1 GGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCACCTTTCACATTTAAA
* **
54123362 ATGCGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCG
66 ATACGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCG
*
54123427 GGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAA
1 GGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCACCTTTCACATTTAAA
* ** *
54123492 ATACGGTGGAATTAGCACTTAGCAACCACCAATGAATCTGGGAATCAGCACACAGCAACCCCTTG
66 ATACGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCG
54123557 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
54123581 CTTCACATTT
Statistics
Matches: 140, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
129 48 0.34
130 92 0.66
ACGTcount: A:0.31, C:0.30, G:0.22, T:0.18
Consensus pattern (130 bp):
GGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCACCTTTCACATTTAAA
ATACGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCG
Found at i:54123642 original size:102 final size:103
Alignment explanation
Indices: 54123427--54123657 Score: 374
Period size: 102 Copynumber: 2.3 Consensus size: 103
54123417 CAACCCCTCG
** *
54123427 GGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAA
1 GGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAA
*
54123492 ATACGGTGGAATTAGCACTTAGCAACCACCAATGAATC
66 ATACGGTGGAATCAGCACTTAGCAACCACCAATGAATC
* * *
54123530 TGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCC-TTCACATTTCAG
1 GGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAA
* *
54123594 ATGCGGTGGAATCAGTACTTAGCAACCACCAATGAATC
66 ATACGGTGGAATCAGCACTTAGCAACCACCAATGAATC
54123632 GGGGAATCAGCACACAGCAACCCCTT
1 GGGGAATCAGCACACAGCAACCCCTT
54123658 TATATGCAAT
Statistics
Matches: 118, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
102 70 0.59
103 48 0.41
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.19
Consensus pattern (103 bp):
GGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAA
ATACGGTGGAATCAGCACTTAGCAACCACCAATGAATC
Found at i:54130443 original size:132 final size:132
Alignment explanation
Indices: 54130267--54131176 Score: 1573
Period size: 132 Copynumber: 6.9 Consensus size: 132
54130257 TTGACAGCGA
* * * *
54130267 AGCAGATCGAAGATGGCAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCTAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
54130332 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
54130397 GG
131 GG
54130399 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
54130464 TCTACTTCCCTGGGA-AACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
66 TCTACTTCCCT-GGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
54130528 TGG
130 TGG
54130531 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
54130596 TCTACTTCCCTGGGA-AACAGTGGAATAGATTGAAGATTTCA-AGTCTTATCTCCCTAAGCAGTA
66 TCTACTTCCCT-GGACAACAGTGGAATAGATTGAAGATTTCAGA-TCTTATCTCCCTAAGCAGTA
54130659 GTGG
129 GTGG
*
54130663 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAACCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
*
54130728 TCTACTTCGCTGGACAACAGTGGAATAGATTGAAGATTTCA-AGTCTTATCTCCCTAAGCAGTAG
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGA-TCTTATCTCCCTAAGCAGTAG
54130792 TGG
130 TGG
*
54130795 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACACTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
54130860 TCTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
54130925 GG
131 GG
*
54130927 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
54130992 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
54131057 GG
131 GG
*
54131059 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * * *
54131123 TCATA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCC
66 TC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCC
54131177 TTGATATTGC
Statistics
Matches: 752, Mismatches: 19, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
131 7 0.01
132 738 0.98
133 7 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:54131511 original size:19 final size:19
Alignment explanation
Indices: 54131487--54131567 Score: 135
Period size: 19 Copynumber: 4.3 Consensus size: 19
54131477 AATCTTCAGG
54131487 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
54131506 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
54131525 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
54131544 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
54131563 GATAT
1 GATAT
54131568 ATAATCTTNN
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 56 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:54131537 original size:38 final size:38
Alignment explanation
Indices: 54131494--54131575 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
54131484 AGGGATATGC
54131494 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
54131532 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
54131570 AATCTT
1 AATCTT
54131576 NNNNNNNNNN
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:54134481 original size:12 final size:12
Alignment explanation
Indices: 54134464--54134488 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54134454 GGTGTTCATT
54134464 CGGTTAACCGAC
1 CGGTTAACCGAC
54134476 CGGTTAACCGAC
1 CGGTTAACCGAC
54134488 C
1 C
54134489 CGAAATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:54134662 original size:9 final size:9
Alignment explanation
Indices: 54134648--54134723 Score: 116
Period size: 9 Copynumber: 8.4 Consensus size: 9
54134638 TTTGGTTAAA
54134648 AATTAACCG
1 AATTAACCG
54134657 AATTAACCG
1 AATTAACCG
54134666 AATTAACCG
1 AATTAACCG
*
54134675 AATTACCCG
1 AATTAACCG
54134684 AATTAACCG
1 AATTAACCG
*
54134693 AATTACCCG
1 AATTAACCG
*
54134702 AATTAACCA
1 AATTAACCG
*
54134711 AATTAACCA
1 AATTAACCG
54134720 AATT
1 AATT
54134724 GAATCACTAC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 62 1.00
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:54134956 original size:11 final size:11
Alignment explanation
Indices: 54134940--54134976 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
54134930 GCTAGCTTCT
54134940 TTGCTTGCCAG
1 TTGCTTGCCAG
*
54134951 TTGCTT--CAA
1 TTGCTTGCCAG
54134960 TTGCTTGCCAG
1 TTGCTTGCCAG
54134971 TTGCTT
1 TTGCTT
54134977 CAATTATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (11 bp):
TTGCTTGCCAG
Found at i:54134965 original size:20 final size:20
Alignment explanation
Indices: 54134940--54134981 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
54134930 GCTAGCTTCT
54134940 TTGCTTGCCAGTTGCTTCAA
1 TTGCTTGCCAGTTGCTTCAA
54134960 TTGCTTGCCAGTTGCTTCAA
1 TTGCTTGCCAGTTGCTTCAA
54134980 TT
1 TT
54134982 ATCTTCTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
TTGCTTGCCAGTTGCTTCAA
Found at i:54135536 original size:17 final size:17
Alignment explanation
Indices: 54135510--54135567 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
54135500 ATTTTGAAGG
54135510 TTTTGGGGG-AGTAAAA
1 TTTTGGGGGAAGTAAAA
54135526 TTTTGGGGGGAAGT-AAA
1 TTTT-GGGGGAAGTAAAA
54135543 --TT-GGGGAA-TAAAA
1 TTTTGGGGGAAGTAAAA
54135556 TTTTGGAGGGAA
1 TTTTGG-GGGAA
54135568 AATATTCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
12 1 0.03
13 9 0.26
15 4 0.11
16 5 0.14
17 13 0.37
18 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.38, T:0.29
Consensus pattern (17 bp):
TTTTGGGGGAAGTAAAA
Found at i:54135958 original size:14 final size:14
Alignment explanation
Indices: 54135939--54135977 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
54135929 AATGACTAAT
54135939 AGAATACAATGTGG
1 AGAATACAATGTGG
*
54135953 AGAATA-AAAGTGG
1 AGAATACAATGTGG
54135966 AGAATACAATGT
1 AGAATACAATGT
54135978 TGAGGACTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.49, C:0.05, G:0.26, T:0.21
Consensus pattern (14 bp):
AGAATACAATGTGG
Found at i:54140762 original size:17 final size:18
Alignment explanation
Indices: 54140740--54140773 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54140730 TTATTCATGA
54140740 AGAG-AAGGTTTACATTT
1 AGAGAAAGGTTTACATTT
*
54140757 AGAGAAATGTTTACATT
1 AGAGAAAGGTTTACATT
54140774 GAAAAGTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (18 bp):
AGAGAAAGGTTTACATTT
Found at i:54146990 original size:35 final size:35
Alignment explanation
Indices: 54146940--54147009 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
54146930 CACTGCTGTC
* * *
54146940 TGATTCCAGTTTATATCAGGATACATGGATTACCA
1 TGATTCCAGTATATATCAAGATACATGGATAACCA
* *
54146975 TGATTCTAGTATATATCAAGATACGTGGATAACCA
1 TGATTCCAGTATATATCAAGATACATGGATAACCA
54147010 ATATGACAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (35 bp):
TGATTCCAGTATATATCAAGATACATGGATAACCA
Found at i:54147194 original size:2 final size:2
Alignment explanation
Indices: 54147189--54147220 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
54147179 TGTTTTTGGT
54147189 TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
54147221 GCAATTCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:54148717 original size:26 final size:27
Alignment explanation
Indices: 54148668--54148718 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
54148658 TGTAATATAA
* *
54148668 TAAATATTATATTATTTATATATATGT
1 TAAATAATATATTATATATATATATGT
*
54148695 TAAATAATA-ATTATATATTTATAT
1 TAAATAATATATTATATATATATAT
54148719 TAAATCACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TAAATAATATATTATATATATATATGT
Found at i:54148898 original size:38 final size:38
Alignment explanation
Indices: 54148820--54148898 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
54148810 TAAAATTATA
* *
54148820 TTTAATACAATAAAATATTTATTATATTTATTTATATT
1 TTTAATACAATAAAACATTTATTATATTTATTGATATT
* * *
54148858 TTTAATATAATGAAACATTTGTTATATTTA-TGATAGTT
1 TTTAATACAATAAAACATTTATTATATTTATTGATA-TT
54148896 TTT
1 TTT
54148899 TTTAATATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 4 0.11
38 31 0.89
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (38 bp):
TTTAATACAATAAAACATTTATTATATTTATTGATATT
Found at i:54150623 original size:23 final size:23
Alignment explanation
Indices: 54150570--54150624 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 23
54150560 AAGTATAAAG
54150570 TATATAAAAAAATATATTTGCAT
1 TATATAAAAAAATATATTTGCAT
*
54150593 T-TA-AAAAAAAAATATGTT-CAT
1 TATATAAAAAAATATAT-TTGCAT
54150614 ATATATAAAAA
1 -TATATAAAAA
54150625 TTAGTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 14 0.52
22 5 0.19
23 3 0.11
24 5 0.19
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (23 bp):
TATATAAAAAAATATATTTGCAT
Found at i:54150778 original size:21 final size:21
Alignment explanation
Indices: 54150739--54150779 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
54150729 TTATACTACA
* *
54150739 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
54150760 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
54150780 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:54151235 original size:19 final size:19
Alignment explanation
Indices: 54151208--54151254 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
54151198 CTGCCAATCG
*
54151208 TTCTCTTTTTT-ATTCCTC
1 TTCTTTTTTTTCATTCCTC
*
54151226 ATTCTTTTTTTTCTTTCCTC
1 -TTCTTTTTTTTCATTCCTC
54151246 TT-TTTTTTT
1 TTCTTTTTTT
54151255 GAAGGGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 7 0.28
19 12 0.48
20 6 0.24
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.74
Consensus pattern (19 bp):
TTCTTTTTTTTCATTCCTC
Found at i:54151377 original size:22 final size:21
Alignment explanation
Indices: 54151342--54151418 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 21
54151332 AAAGGGTATC
* *
54151342 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
54151363 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
54151386 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
54151405 TGCATATCATATCT
1 TACAAATCATATCT
54151419 AGGATTGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 19 0.40
21 4 0.08
22 15 0.31
23 10 0.21
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:54151385 original size:23 final size:22
Alignment explanation
Indices: 54151342--54151399 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
54151332 AAAGGGTATC
* *
54151342 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
54151363 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
54151386 TGCATATCATATCT
1 TACAAATCATATCT
54151400 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:54151402 original size:19 final size:19
Alignment explanation
Indices: 54151378--54151450 Score: 137
Period size: 19 Copynumber: 3.8 Consensus size: 19
54151368 AATCATATCT
54151378 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
54151397 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
54151416 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
54151435 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
54151451 CTCAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:54154461 original size:3 final size:3
Alignment explanation
Indices: 54154453--54154502 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
54154443 CCATAAAATA
54154453 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
54154501 AA
1 AA
54154503 GCTTCATTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:54155149 original size:25 final size:25
Alignment explanation
Indices: 54155128--54155174 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
54155118 TTTTATATTA
*
54155128 ATATTAAAATTAAATAAATATAATT
1 ATATTAAAATAAAATAAATATAATT
*
54155153 GTATTAAAATAAAATAAA-ATAA
1 ATATTAAAATAAAATAAATATAA
54155175 AAACCTCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (25 bp):
ATATTAAAATAAAATAAATATAATT
Found at i:54163312 original size:13 final size:14
Alignment explanation
Indices: 54163290--54163324 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
54163280 GATCCGATTC
54163290 GAAAAAAAAAGAG-
1 GAAAAAAAAAGAGA
*
54163303 GAAAAGAAAAGAGA
1 GAAAAAAAAAGAGA
54163317 GAAAAAAA
1 GAAAAAAA
54163325 TCAAAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
GAAAAAAAAAGAGA
Found at i:54163332 original size:6 final size:6
Alignment explanation
Indices: 54163321--54163430 Score: 79
Period size: 6 Copynumber: 18.8 Consensus size: 6
54163311 AAGAGAGAAA
* **
54163321 AAAATC AAAATC AAAATC AAAATC AAAATC AAAAAC AAAAAG AAAA--
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
* * * *
54163367 AAAATC AAAGTC AAAAGC AAAA-- AAGAA-A AATTAATC AAAACC AAAATC
1 AAAATC AAAATC AAAATC AAAATC AA-AATC AA--AATC AAAATC AAAATC
*
54163415 AAAGTC AAAAT- AAAAT
1 AAAATC AAAATC AAAAT
54163431 ATGAAAAGAG
Statistics
Matches: 87, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
4 6 0.07
5 7 0.08
6 70 0.80
7 2 0.02
8 2 0.02
ACGTcount: A:0.70, C:0.13, G:0.05, T:0.13
Consensus pattern (6 bp):
AAAATC
Found at i:54163380 original size:28 final size:29
Alignment explanation
Indices: 54163339--54163417 Score: 97
Period size: 28 Copynumber: 2.7 Consensus size: 29
54163329 AATCAAAATC
54163339 AAAATCAAAATCAAAAAC-AAAAAGAAAA
1 AAAATCAAAATCAAAAACAAAAAAGAAAA
* *
54163367 AAAATCAAAGTCAAAAGCAAAAAAGAAAA
1 AAAATCAAAATCAAAAACAAAAAAGAAAA
* * *
54163396 ATTAATCAAAACCAAAATCAAA
1 A-AAATCAAAATCAAAAACAAA
54163418 GTCAAAATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 16 0.37
29 11 0.26
30 16 0.37
ACGTcount: A:0.72, C:0.13, G:0.05, T:0.10
Consensus pattern (29 bp):
AAAATCAAAATCAAAAACAAAAAAGAAAA
Found at i:54165011 original size:87 final size:87
Alignment explanation
Indices: 54164858--54165642 Score: 1291
Period size: 87 Copynumber: 9.0 Consensus size: 87
54164848 AACAGATTAG
* *
54164858 TGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGGAAACAAAGCCTTGCCTC
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
* *
54164923 CATCGGTTGTAATGGAGATGGT
66 CATCGGTTGTAGTGGAGCTGGT
* *
54164945 TGAAAACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAACCTTGCCTC
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
*
54165010 CATCGGTTGTAGTGGAACTGGT
66 CATCGGTTGTAGTGGAGCTGGT
* *
54165032 TGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGTAAAGCAGATCGGAAACAAAGCCTTGCCTC
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
* *
54165097 CATCAGTTGTAGTGAAGCTGGT
66 CATCGGTTGTAGTGGAGCTGGT
*
54165119 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAAATCGGAAACAAAGCCTTGCCTC
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
54165184 CATCGGTTGTAGTGGAGCTGGT
66 CATCGGTTGTAGTGGAGCTGGT
* *
54165206 TGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGTGAAGGAGATCGGAAACAAAGCCTTGCCTC
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
*
54165271 CATTGGTTGTAGTGGAGCTGGT
66 CATCGGTTGTAGTGGAGCTGGT
* * *
54165293 TGAAGACAACAAATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCAGAAACAAAGCCTTGCCTC
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
* *
54165358 CATCGATTGTAGAGGAGCTGGT
66 CATCGGTTGTAGTGGAGCTGGT
* * * * *
54165380 TGAAGATAACAGATCTTGCCTTCTTGCATTGACAGTGAAGCAGATCAGAAACAAAGCCTTACCTC
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
*
54165445 CATCGGTTATAGTGGAGCTGGT
66 CATCGGTTGTAGTGGAGCTGGT
* * *
54165467 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTACCTC
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
*
54165532 CATCGGTTGCAGTGGAGCTGGT
66 CATCGGTTGTAGTGGAGCTGGT
*
54165554 TGAAGACAGCAGATCTTGCCTTCCTACATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
54165619 CATCGGTTGTAGTGGAGCTGGT
66 CATCGGTTGTAGTGGAGCTGGT
54165641 TG
1 TG
54165643 TAGTGAAGCT
Statistics
Matches: 647, Mismatches: 51, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 647 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.24
Consensus pattern (87 bp):
TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
CATCGGTTGTAGTGGAGCTGGT
Found at i:54165148 original size:174 final size:174
Alignment explanation
Indices: 54164858--54165789 Score: 1342
Period size: 174 Copynumber: 5.3 Consensus size: 174
54164848 AACAGATTAG
*
54164858 TGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGGAAACAAAGCCTTGCCTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
* * *
54164923 CATCGGTTGTAATGGAGATGGTTGAAAACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAG
66 CATCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAG
* *
54164988 ATCGGAAACAAAACCTTGCCTCCATCGGTTGTAGTGGAACTGGT
131 ATCGGAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
*
54165032 TGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGTAAAGCAGATCGGAAACAAAGCCTTGCCTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
* * *
54165097 CATCAGTTGTAGTGAAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAA
66 CATCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAG
54165162 ATCGGAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
131 ATCGGAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
* * *
54165206 TGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGTGAAGGAGATCGGAAACAAAGCCTTGCCTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
* * *
54165271 CATTGGTTGTAGTGGAGCTGGTTGAAGACAACAAATCTTGCCTTCCTGCATTGACAGTGAAGCAG
66 CATCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAG
* * *
54165336 ATCAGAAACAAAGCCTTGCCTCCATCGATTGTAGAGGAGCTGGT
131 ATCGGAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
* * * *
54165380 TGAAGATAACAGATCTTGCCTTCTTGCATTGACAGTGAAGCAGATCAGAAACAAAGCCTTACCTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
* *
54165445 CATCGGTTATAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAG
66 CATCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAG
* * *
54165510 ATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGT
131 ATCGGAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
* *
54165554 TGAAGACAGCAGATCTTGCCTTCCTACATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
* *
54165619 CATCGGTTGTAGTGGAGCTGGTTGTAGTGAAGCTTGTTGAAGATAACAGATCTTGCCTTCCTGCG
66 CATCGGTTGTAGTGGAGCTGGTTG-A-AG-A-C-------AG----CAGATCTTGCCTTCCTGCA
** * * * * * *
54165684 TCAACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTCCATCGGTTGCATTGGAGCTAGT
116 TTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
* * *
54165743 TGAAGATAGCAGATCTTGCCCTCCTGCGTCGACAGTGAAGCAGATCG
1 TGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCG
54165790 AAGATTACAA
Statistics
Matches: 682, Mismatches: 61, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
174 563 0.83
175 1 0.00
176 1 0.00
177 1 0.00
178 1 0.00
185 2 0.00
189 113 0.17
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (174 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTC
CATCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAG
ATCGGAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
Found at i:54165643 original size:15 final size:15
Alignment explanation
Indices: 54165623--54165657 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
54165613 TGCCTCCATC
*
54165623 GGTTGTAGTGGAGCT
1 GGTTGTAGTGAAGCT
54165638 GGTTGTAGTGAAGCT
1 GGTTGTAGTGAAGCT
*
54165653 TGTTG
1 GGTTG
54165658 AAGATAACAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.06, G:0.43, T:0.37
Consensus pattern (15 bp):
GGTTGTAGTGAAGCT
Found at i:54165717 original size:102 final size:102
Alignment explanation
Indices: 54165536--54165744 Score: 283
Period size: 102 Copynumber: 2.0 Consensus size: 102
54165526 TACCTCCATC
* * ** *
54165536 GGTTGCAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTACATTGACAGTGAAGCAGATCG
1 GGTTGCAGTGAAGCTGGTTGAAGACAACAGATCTTGCCTTCCTACATCAACAGCGAAGCAGATCG
* *
54165601 GAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCT
66 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCT
* * * * *
54165638 GGTTGTAGTGAAGCTTGTTGAAGATAACAGATCTTGCCTTCCTGCGTCAACAGCGAAGCAGATCG
1 GGTTGCAGTGAAGCTGGTTGAAGACAACAGATCTTGCCTTCCTACATCAACAGCGAAGCAGATCG
* *
54165703 AAAACAAAGTCTTGCCTCCATCGGTTGCATTGGAGCT
66 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCT
*
54165740 AGTTG
1 GGTTG
54165745 AAGATAGCAG
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (102 bp):
GGTTGCAGTGAAGCTGGTTGAAGACAACAGATCTTGCCTTCCTACATCAACAGCGAAGCAGATCG
AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCT
Found at i:54165785 original size:189 final size:189
Alignment explanation
Indices: 54165449--54165789 Score: 529
Period size: 189 Copynumber: 1.8 Consensus size: 189
54165439 TACCTCCATC
* * **
54165449 GGTTATAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCG
1 GGTTATAGTGAAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATCAACAGCGAAGCAGATCG
* *
54165514 AAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCT
66 AAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTAGTTGAAGACAGCAGATCTTGCCCTCCT
*
54165579 ACATTGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCT
131 ACATCGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCT
* * * *
54165638 GGTTGTAGTGAAGCTTGTTGAAGATAACAGATCTTGCCTTCCTGCGTCAACAGCGAAGCAGATCG
1 GGTTATAGTGAAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATCAACAGCGAAGCAGATCG
* * * *
54165703 AAAACAAAGTCTTGCCTCCATCGGTTGCATTGGAGCTAGTTGAAGATAGCAGATCTTGCCCTCCT
66 AAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTAGTTGAAGACAGCAGATCTTGCCCTCCT
* *
54165768 GCGTCGACAGTGAAGCAGATCG
131 ACATCGACAGTGAAGCAGATCG
54165790 AAGATTACAA
Statistics
Matches: 135, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
189 135 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (189 bp):
GGTTATAGTGAAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATCAACAGCGAAGCAGATCG
AAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTAGTTGAAGACAGCAGATCTTGCCCTCCT
ACATCGACAGTGAAGCAGATCGGAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCT
Found at i:54165793 original size:45 final size:44
Alignment explanation
Indices: 54165657--54165794 Score: 108
Period size: 45 Copynumber: 3.1 Consensus size: 44
54165647 GAAGCTTGTT
* * *
54165657 GAAGATAACAGATCTTGCCTTCCTGCGTCAACAGCGAAGCAGATC
1 GAAGAT-ACAGATCTTGCCCTCCTGCGTCGACAGTGAAGCAGATC
* * * * *
54165702 GAA-A-ACAAAGTCTTG-CCTCCAT-CGGTTG-CATTGGAGCTAG-TT
1 GAAGATACAGA-TCTTGCCCTCC-TGC-GTCGACAGTGAAGC-AGATC
54165744 GAAGATAGCAGATCTTGCCCTCCTGCGTCGACAGTGAAGCAGATC
1 GAAGATA-CAGATCTTGCCCTCCTGCGTCGACAGTGAAGCAGATC
54165789 GAAGAT
1 GAAGAT
54165795 TACAAGTCCT
Statistics
Matches: 69, Mismatches: 13, Indels: 22
0.66 0.12 0.21
Matches are distributed among these distances:
42 19 0.28
43 11 0.16
44 13 0.19
45 26 0.38
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (44 bp):
GAAGATACAGATCTTGCCCTCCTGCGTCGACAGTGAAGCAGATC
Found at i:54165995 original size:43 final size:44
Alignment explanation
Indices: 54165885--54166043 Score: 144
Period size: 44 Copynumber: 3.6 Consensus size: 44
54165875 TCGCATCGGG
* ** * * *
54165885 TCTTATCTCCCTGAAGTTGCAGCGGAATATACTG-AGAAAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAGCAAA
* **
54165929 TCTTATCACCCTGAAGTCACAGTGG-GCAGACTGAAGAAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGCAAA
* * ***
54165972 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATTTG-ATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGCA-AA
*
54166016 TCCTATCTCCCTGAAGTTGCAGTGGAGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGC
54166044 GGATTAAAAC
Statistics
Matches: 93, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
43 32 0.34
44 61 0.66
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGCAAA
Found at i:54166067 original size:44 final size:44
Alignment explanation
Indices: 54165885--54166071 Score: 139
Period size: 44 Copynumber: 4.3 Consensus size: 44
54165875 TCGCATCGGG
* ** * * * *
54165885 TCTTATCTCCCTGAAGTTGCAGCGGAATATACTGAGAAAAC-AAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AAACCAAAA
* ** * *
54165929 TCTTATCACCCTGAAGTCACAGTGG-GCAGACTGAAGAAGC-AAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AACCAAAA
* **** *
54165972 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATTTGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAACCAAAA
* *
54166016 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAACCAAAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAACCAAA-A
54166060 TCTTATCTCCCT
1 TCTTATCTCCCT
54166072 AAGCAATAGT
Statistics
Matches: 111, Mismatches: 28, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
42 1 0.01
43 36 0.32
44 74 0.67
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAACCAAAA
Found at i:54170189 original size:19 final size:19
Alignment explanation
Indices: 54170165--54170201 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
54170155 TTAGTAATCC
*
54170165 CACATTGCTAATATATTTT
1 CACATTGCTAACATATTTT
54170184 CACATTGCTAACATATTT
1 CACATTGCTAACATATTT
54170202 AAAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.43
Consensus pattern (19 bp):
CACATTGCTAACATATTTT
Found at i:54177269 original size:17 final size:16
Alignment explanation
Indices: 54177231--54177281 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
54177221 GGGTGAGAAG
*
54177231 TAAAAGTTTATGGGAAAA
1 TAAAAGTTT-TGGG-GAA
54177249 TAAAAAGTTTTGGGGAA
1 T-AAAAGTTTTGGGGAA
*
54177266 TAAAAGTTTTAGGGAA
1 TAAAAGTTTTGGGGAA
54177282 AGTAAATAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 14 0.47
17 3 0.10
18 5 0.17
19 8 0.27
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.29
Consensus pattern (16 bp):
TAAAAGTTTTGGGGAA
Found at i:54177409 original size:26 final size:25
Alignment explanation
Indices: 54177380--54177428 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
54177370 GGGATGGGAA
*
54177380 GAGAGTAAAAATTTTAGGGGAAAAGT
1 GAGAGTAAAAATTTT-GGAGAAAAGT
54177406 GAGAGTAAAAATTTTGGAGAAAA
1 GAGAGTAAAAATTTTGGAGAAAA
54177429 ATAAAAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (25 bp):
GAGAGTAAAAATTTTGGAGAAAAGT
Found at i:54177658 original size:9 final size:9
Alignment explanation
Indices: 54177644--54177680 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
54177634 TATAATTTGA
54177644 TATTCGAAT
1 TATTCGAAT
*
54177653 TATTCGAGT
1 TATTCGAAT
*
54177662 TATTCGAGT
1 TATTCGAAT
54177671 TATTCGAAT
1 TATTCGAAT
54177680 T
1 T
54177681 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:54181616 original size:18 final size:18
Alignment explanation
Indices: 54181574--54181646 Score: 58
Period size: 20 Copynumber: 3.8 Consensus size: 18
54181564 ATAATCATTA
* * *
54181574 TTATATAATTATTCATTAA
1 TTATATAATT-TTTATGAT
54181593 TTATAT-ATTTTTATGATT
1 TTATATAATTTTTATGA-T
54181611 TTATATAATTTTTTATTGAT
1 TTATATAA-TTTTTA-TGAT
*
54181631 TTATAATGATTTTTAT
1 TTAT-ATAATTTTTAT
54181647 ATAAAATACT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
17 5 0.11
18 9 0.20
19 8 0.18
20 17 0.38
21 6 0.13
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (18 bp):
TTATATAATTTTTATGAT
Found at i:54181643 original size:20 final size:20
Alignment explanation
Indices: 54181593--54181646 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
54181583 TATTCATTAA
54181593 TTATAT-ATTTTTA-TGATT
1 TTATATAATTTTTATTGATT
54181611 TTATATAATTTTTTATTGA-T
1 TTATATAA-TTTTTATTGATT
*
54181631 TTATAATGATTTTTAT
1 TTAT-ATAATTTTTAT
54181647 ATAAAATACT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 6 0.19
19 1 0.03
20 18 0.58
21 6 0.19
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.65
Consensus pattern (20 bp):
TTATATAATTTTTATTGATT
Found at i:54183394 original size:35 final size:35
Alignment explanation
Indices: 54183347--54183422 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
54183337 AAGAAAATAT
54183347 ATTTTGTCTAACTTGACTTGCAAGCAATCTCTTAG
1 ATTTTGTCTAACTTGACTTGCAAGCAATCTCTTAG
* *
54183382 ATTTTGTTTAACTTGACTTGCAAGTAATCTCTTAG
1 ATTTTGTCTAACTTGACTTGCAAGCAATCTCTTAG
*
54183417 AATTTG
1 ATTTTG
54183423 AGTCACATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.43
Consensus pattern (35 bp):
ATTTTGTCTAACTTGACTTGCAAGCAATCTCTTAG
Found at i:54199746 original size:44 final size:44
Alignment explanation
Indices: 54199682--54199822 Score: 237
Period size: 44 Copynumber: 3.2 Consensus size: 44
54199672 ATTTAAGCCA
* *
54199682 CAAGTCCCATCTCCCTGACCAGCAGTGAAATAGGTTGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* * *
54199726 CAAGTCCTATCTCCCAGACCAGTAATGGAATAGGTTGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
54199770 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
54199814 CAAGTCCTA
1 CAAGTCCTA
54199823 ACCCGCAGTG
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 89 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (44 bp):
CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
Found at i:54203458 original size:21 final size:21
Alignment explanation
Indices: 54203424--54203491 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
54203414 TTATGAGAGC
54203424 TAAACGAAAACCCATAAGGGT
1 TAAACGAAAACCCATAAGGGT
** * * * *
54203445 TAAATTAAAGCCCAAAAGAGC
1 TAAACGAAAACCCATAAGGGT
*
54203466 TGAACGAAAACCCATAAGGGT
1 TAAACGAAAACCCATAAGGGT
54203487 TAAAC
1 TAAAC
54203492 TGAAGCTCAA
Statistics
Matches: 33, Mismatches: 14, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.49, C:0.19, G:0.18, T:0.15
Consensus pattern (21 bp):
TAAACGAAAACCCATAAGGGT
Found at i:54203478 original size:42 final size:42
Alignment explanation
Indices: 54203419--54203530 Score: 179
Period size: 42 Copynumber: 2.7 Consensus size: 42
54203409 GAAGGTTATG
* *
54203419 AGAGCTAAACGAAAACCCATAAGGGTTAAATTAAAGCCCAAA
1 AGAGCTGAACGAAAACCCATAAGGGTTAAACTAAAGCCCAAA
* *
54203461 AGAGCTGAACGAAAACCCATAAGGGTTAAACTGAAGCTCAAA
1 AGAGCTGAACGAAAACCCATAAGGGTTAAACTAAAGCCCAAA
*
54203503 AGAGCTGAACGAAAACCCATAAGCGTTA
1 AGAGCTGAACGAAAACCCATAAGGGTTA
54203531 CCTGAAACTC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (42 bp):
AGAGCTGAACGAAAACCCATAAGGGTTAAACTAAAGCCCAAA
Found at i:54205052 original size:2 final size:2
Alignment explanation
Indices: 54205039--54205071 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
54205029 AGTATGAAAT
*
54205039 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
54205072 GTTAAATTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:54205592 original size:41 final size:41
Alignment explanation
Indices: 54205531--54205639 Score: 164
Period size: 41 Copynumber: 2.6 Consensus size: 41
54205521 GACTATACAT
*
54205531 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
54205572 CTATCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
54205613 CTAGCAGGCCAAGTGTCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
54205640 TTAAATTAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 56 0.92
42 5 0.08
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:54208627 original size:21 final size:20
Alignment explanation
Indices: 54208557--54208627 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 20
54208547 AGTTAAATAA
* *
54208557 TAAAGAATCAATTCAAACAG
1 TAAAGAATCGATTCAAAAAG
* * *
54208577 TAATGAATCGATTTAAAACAA
1 TAAAGAATCGATTCAAAA-AG
* *
54208598 CAAACAATCGATTCAAAGAAG
1 TAAAGAATCGATTCAAA-AAG
54208619 TAAAGAATC
1 TAAAGAATC
54208628 AATTTAAGAC
Statistics
Matches: 37, Mismatches: 12, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
20 14 0.38
21 22 0.59
22 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.21
Consensus pattern (20 bp):
TAAAGAATCGATTCAAAAAG
Found at i:54208627 original size:42 final size:43
Alignment explanation
Indices: 54208561--54208775 Score: 222
Period size: 42 Copynumber: 5.0 Consensus size: 43
54208551 AAATAATAAA
* * *
54208561 GAATCAATTCAAA-CAGTAATGAATCGATTTAAAACAACAAA-
1 GAATCGATTCAAAGAAGTAAAGAATCGATTTAAAACAACAAAT
* * *
54208602 CAATCGATTCAAAGAAGTAAAGAATCAATTTAAGACAACAATTAT
1 GAATCGATTCAAAGAAGTAAAGAATCGATTTAAAACAACAA--AT
* * * *
54208647 GAATCAATT-AAAGAAGCAAATAACCGATTTAAAACAACAATAAT
1 GAATCGATTCAAAGAAGTAAAGAATCGATTTAAAACAAC-A-AAT
* * * *
54208691 GAATCGATTCAAATAAGTAAAGAATCAATTTTAAATAACAAAT
1 GAATCGATTCAAAGAAGTAAAGAATCGATTTAAAACAACAAAT
* *
54208734 -AATCGATTCAAAGAAGAAAAAAATCGATTTAAAACAACAAAT
1 GAATCGATTCAAAGAAGTAAAGAATCGATTTAAAACAACAAAT
54208776 TTAGTAACAA
Statistics
Matches: 140, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
41 11 0.08
42 59 0.42
43 3 0.02
44 36 0.26
45 30 0.21
46 1 0.01
ACGTcount: A:0.55, C:0.13, G:0.10, T:0.23
Consensus pattern (43 bp):
GAATCGATTCAAAGAAGTAAAGAATCGATTTAAAACAACAAAT
Found at i:54208699 original size:24 final size:24
Alignment explanation
Indices: 54208572--54208699 Score: 62
Period size: 21 Copynumber: 5.8 Consensus size: 24
54208562 AATCAATTCA
*
54208572 AACAGTAATGAATCGATTTAAAAC
1 AACAATAATGAATCGATTTAAAAC
* *
54208596 AAC-A-AA-CAATCGA-TTCAAA-
1 AACAATAATGAATCGATTTAAAAC
* * * * *
54208615 GA-AGTAAAGAATCAATTTAAGAC
1 AACAATAATGAATCGATTTAAAAC
* *
54208638 AACAATTATGAATC-AATTAAAGA-
1 AACAATAATGAATCGATTTAAA-AC
* *
54208661 AGC-A-AAT-AACCGATTTAAAAC
1 AACAATAATGAATCGATTTAAAAC
54208682 AACAATAATGAATCGATT
1 AACAATAATGAATCGATT
54208700 CAAATAAGTA
Statistics
Matches: 71, Mismatches: 21, Indels: 24
0.61 0.18 0.21
Matches are distributed among these distances:
19 1 0.01
20 11 0.15
21 21 0.30
22 8 0.11
23 11 0.15
24 19 0.27
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.23
Consensus pattern (24 bp):
AACAATAATGAATCGATTTAAAAC
Found at i:54208712 original size:89 final size:85
Alignment explanation
Indices: 54208585--54208774 Score: 242
Period size: 89 Copynumber: 2.2 Consensus size: 85
54208575 AGTAATGAAT
54208585 CGATTTAAAACAAC-AAACAATCGATTCAAAGAAGTAAAGAATCAA-TTTAAGACAACAATTATG
1 CGATTTAAAACAACAAAACAATCGATTCAAAGAAGTAAAGAATCAATTTTAA-ACAACAA--AT-
* *
54208648 AATCAATT-AAAGAAGCAAATAAC
62 AATCAATTCAAAGAAGAAAAAAAC
* * *
54208671 CGATTTAAAACAACAATAATGAATCGATTCAAATAAGTAAAGAATCAATTTTAAATAACAAATAA
1 CGATTTAAAACAACAA-AA-CAATCGATTCAAAGAAGTAAAGAATCAATTTTAAACAACAAATAA
* *
54208736 TCGATTCAAAGAAGAAAAAAAT
64 TCAATTCAAAGAAGAAAAAAAC
54208758 CGATTTAAAACAACAAA
1 CGATTTAAAACAACAAA
54208775 TTTAGTAACA
Statistics
Matches: 92, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
86 22 0.24
87 31 0.34
88 2 0.02
89 32 0.35
90 5 0.05
ACGTcount: A:0.56, C:0.13, G:0.09, T:0.22
Consensus pattern (85 bp):
CGATTTAAAACAACAAAACAATCGATTCAAAGAAGTAAAGAATCAATTTTAAACAACAAATAATC
AATTCAAAGAAGAAAAAAAC
Found at i:54208716 original size:21 final size:21
Alignment explanation
Indices: 54208691--54208762 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
54208681 CAACAATAAT
*
54208691 GAATCGATTCAAATAAGTAAA
1 GAATCGATTCAAATAAGAAAA
* * *
54208712 GAATCAATTTTAAATAA-CAAA
1 GAATCGA-TTCAAATAAGAAAA
* *
54208733 TAATCGATTCAAAGAAGAAAA
1 GAATCGATTCAAATAAGAAAA
*
54208754 AAATCGATT
1 GAATCGATT
54208763 TAAAACAACA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 7 0.17
21 25 0.62
22 8 0.20
ACGTcount: A:0.54, C:0.10, G:0.11, T:0.25
Consensus pattern (21 bp):
GAATCGATTCAAATAAGAAAA
Found at i:54210226 original size:19 final size:19
Alignment explanation
Indices: 54210191--54210238 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
54210181 ATTTTTAAAA
*
54210191 ATTAAAAATCTTCAAAATT
1 ATTAAAAATATTCAAAATT
54210210 ATTAAAAATATAT-AAAATT
1 ATTAAAAATAT-TCAAAATT
54210229 -TATAAAAATA
1 AT-TAAAAATA
54210239 ATTTTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 24 0.92
20 1 0.04
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTAAAAATATTCAAAATT
Found at i:54214534 original size:5 final size:5
Alignment explanation
Indices: 54214487--54214532 Score: 76
Period size: 5 Copynumber: 9.4 Consensus size: 5
54214477 AGGGCTAGGC
*
54214487 GCAT- GCATG GCATG GCATG GCATG GCATG GCATG GCATG GCCTG GC
1 GCATG GCATG GCATG GCATG GCATG GCATG GCATG GCATG GCATG GC
54214533 CTCTCTAAGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
4 4 0.10
5 36 0.90
ACGTcount: A:0.17, C:0.24, G:0.39, T:0.20
Consensus pattern (5 bp):
GCATG
Found at i:54215540 original size:19 final size:18
Alignment explanation
Indices: 54215507--54215544 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
54215497 GCAAACATAT
54215507 AATATATTTTATAATTAAA
1 AATATATTTTATAA-TAAA
54215526 AATAT-TTTTATTAATAAA
1 AATATATTTTA-TAATAAA
54215544 A
1 A
54215545 CTGGCTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATATATTTTATAATAAA
Found at i:54228569 original size:40 final size:40
Alignment explanation
Indices: 54228514--54228592 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
54228504 CGTTTGGATA
54228514 AAAAAACGCCGCTAAAAATCAAGCATTAGCAGCGCTTTTC
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCAGCGCTTTTC
* * * *
54228554 AAAAACCGCTGCTAAAGATCGAGCATTAGCAGCGCTTTT
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCAGCGCTTTT
54228593 TGGAAACACC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.22
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATCAAGCATTAGCAGCGCTTTTC
Found at i:54228794 original size:13 final size:14
Alignment explanation
Indices: 54228771--54228800 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
54228761 GTAATTATCA
54228771 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
54228785 TTAT-GTTTAGGGT
1 TTATAGTTTAGGGT
54228798 TTA
1 TTA
54228801 AGATTTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:54229745 original size:7 final size:7
Alignment explanation
Indices: 54229658--54229792 Score: 67
Period size: 7 Copynumber: 19.0 Consensus size: 7
54229648 AACTAATAAT
54229658 GGGTTTA
1 GGGTTTA
*
54229665 GGGATTA
1 GGGTTTA
*
54229672 TGGTTTA
1 GGGTTTA
*
54229679 TGGTTTA
1 GGGTTTA
*
54229686 TGGTTTA
1 GGGTTTA
*
54229693 TGGTTTAA
1 GGGTTT-A
*
54229701 GGG-TTG
1 GGGTTTA
*
54229707 GGGTTCA
1 GGGTTTA
*
54229714 AGGTTTA
1 GGGTTTA
*
54229721 GGGGTTAA
1 -GGGTTTA
* *
54229729 GGGCTAA
1 GGGTTTA
54229736 GGGTTTA
1 GGGTTTA
54229743 GGGTTTA
1 GGGTTTA
* * *
54229750 TGTTTTT
1 GGGTTTA
* *
54229757 TGATTTA
1 GGGTTTA
54229764 GGGTTTAA
1 GGGTTT-A
*
54229772 GGG-ATA
1 GGGTTTA
54229778 GGGTTTA
1 GGGTTTA
54229785 GGGGTTTA
1 -GGGTTTA
54229793 ATGTTTAGAT
Statistics
Matches: 99, Mismatches: 23, Indels: 11
0.74 0.17 0.08
Matches are distributed among these distances:
6 7 0.07
7 73 0.74
8 19 0.19
ACGTcount: A:0.19, C:0.01, G:0.38, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:54241256 original size:43 final size:43
Alignment explanation
Indices: 54241192--54241282 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
54241182 CTTTGAGTTC
* * *
54241192 ATTA-CAAGATTTCCTTAATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTAATTAAGAAAATGCATTATATCTTTT
* * *
54241234 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATTTTTT
1 ATTACCAAGATTTACTTAATTAAGAAAATGCATTATATCTTTT
54241277 ATTACC
1 ATTACC
54241283 TTGCAATGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 4 0.10
43 38 0.90
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTAATTAAGAAAATGCATTATATCTTTT
Found at i:54241739 original size:43 final size:42
Alignment explanation
Indices: 54241630--54241747 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
54241620 AATGTTTTTT
* * *
54241630 TAAATGTTATGTTTTTAGCGGCGTTTTTG-CGAGAAGCGTCGC
1 TAAAAGTTATGTTTTTAGCGGCGTTTCTGAC-AAAAGCGTCGC
* *
54241672 TAAAGGTT-TGTTTTATAGCGGCGTTTGTGACAAAAGCGTCGC
1 TAAAAGTTATGTTTT-TAGCGGCGTTTCTGACAAAAGCGTCGC
*
54241714 TAAAAGTTATGTTTTGCAGCGGCGTTTCTGACAA
1 TAAAAGTTATGTTTT-TAGCGGCGTTTCTGACAA
54241748 GCCCCGCTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
41 6 0.09
42 37 0.56
43 23 0.35
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (42 bp):
TAAAAGTTATGTTTTTAGCGGCGTTTCTGACAAAAGCGTCGC
Found at i:54245468 original size:16 final size:16
Alignment explanation
Indices: 54245444--54245477 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
54245434 GAGTCTGTCA
54245444 AACCCTAGAGTTCACC
1 AACCCTAGAGTTCACC
* *
54245460 AACCTTAGAGTTCTCC
1 AACCCTAGAGTTCACC
54245476 AA
1 AA
54245478 ATGATGAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.24
Consensus pattern (16 bp):
AACCCTAGAGTTCACC
Found at i:54248317 original size:12 final size:12
Alignment explanation
Indices: 54248295--54248325 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
54248285 TTTTATTTTC
54248295 TTAGTTTAATTAT
1 TTAG-TTAATTAT
54248308 TTAGTTAATTAT
1 TTAGTTAATTAT
54248320 TTAGTT
1 TTAGTT
54248326 TTTATAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (12 bp):
TTAGTTAATTAT
Found at i:54250820 original size:14 final size:14
Alignment explanation
Indices: 54250803--54250847 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
54250793 GGGTATCGTT
54250803 GGAGGATACTCATG
1 GGAGGATACTCATG
*
54250817 GGAGGATA-TCGTG
1 GGAGGATACTCATG
* *
54250830 GAAGGGTACTCATG
1 GGAGGATACTCATG
54250844 GGAG
1 GGAG
54250848 AGTACCATGG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.27, C:0.11, G:0.42, T:0.20
Consensus pattern (14 bp):
GGAGGATACTCATG
Found at i:54250826 original size:27 final size:26
Alignment explanation
Indices: 54250777--54250847 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
54250767 GGTCCCAATG
* *
54250777 GGAGGGTACT-ATGGAAGGGTATCGTT
1 GGAGGGTACTCATGGGAGGATATCG-T
*
54250803 GGAGGATACTCATGGGAGGATATCGT
1 GGAGGGTACTCATGGGAGGATATCGT
54250829 GGAAGGGTACTCATGGGAG
1 GG-AGGGTACTCATGGGAG
54250848 AGTACCATGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
26 12 0.31
27 27 0.69
ACGTcount: A:0.25, C:0.10, G:0.42, T:0.23
Consensus pattern (26 bp):
GGAGGGTACTCATGGGAGGATATCGT
Found at i:54250858 original size:27 final size:27
Alignment explanation
Indices: 54250809--54250860 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
54250799 CGTTGGAGGA
* *
54250809 TACTCATGGGAGGATATCGTGGAAGGG
1 TACTCATGGGAGGATACCATGGAAGGG
54250836 TACTCATGGGA-GAGTACCATGGAAG
1 TACTCATGGGAGGA-TACCATGGAAG
54250861 TAGTTTTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.29, C:0.13, G:0.37, T:0.21
Consensus pattern (27 bp):
TACTCATGGGAGGATACCATGGAAGGG
Found at i:54263985 original size:68 final size:68
Alignment explanation
Indices: 54263905--54264035 Score: 226
Period size: 68 Copynumber: 1.9 Consensus size: 68
54263895 TATCAAGGTA
* *
54263905 AAATCTGCTAACTGAATGTCTTCCTCTTTTCGTAGGTGGGAATTATCTTTATTTACGATTTTGAG
1 AAATCTGATAACTGAATGTCTTCCTCTTTTCGTAGGTGAGAATTATCTTTATTTACGATTTTGAG
54263970 GGT
66 GGT
* *
54263973 AAATCTGATAACTGAATGTCTTCCTCTTTTCGTTGGTGAGAATTGTCTTTATTTACGATTTTG
1 AAATCTGATAACTGAATGTCTTCCTCTTTTCGTAGGTGAGAATTATCTTTATTTACGATTTTG
54264036 TGAACTGGCG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (68 bp):
AAATCTGATAACTGAATGTCTTCCTCTTTTCGTAGGTGAGAATTATCTTTATTTACGATTTTGAG
GGT
Found at i:54264973 original size:17 final size:16
Alignment explanation
Indices: 54264942--54264985 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
54264932 AATTATAATT
54264942 TTTTAATAAAA-ATTA
1 TTTTAATAAAATATTA
54264957 TTTTAATTAAAATATTA
1 TTTTAA-TAAAATATTA
*
54264974 TTTCAATAAAAT
1 TTTTAATAAAAT
54264986 GTTTAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 6 0.23
16 11 0.42
17 9 0.35
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTAATAAAATATTA
Found at i:54267792 original size:42 final size:42
Alignment explanation
Indices: 54267707--54267827 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 42
54267697 CTTTTTGTTT
* * * * ** * *
54267707 AGCTCTCACGAGCTTCTGTTTAACTCATATAAGTTTTCGTTC
1 AGCTCTTAAGAGCTTCTGTTTAACCCTTATGGGTTTCCATTC
*
54267749 AGCTC-TATTGAGCTTCTGTTTAACCCTTATGGGTTTCCATTC
1 AGCTCTTA-AGAGCTTCTGTTTAACCCTTATGGGTTTCCATTC
*
54267791 AGCTCTTAAGAGC-TCTCGTTCAACCCTTATGGGTTTC
1 AGCTCTTAAGAGCTTCT-GTTTAACCCTTATGGGTTTC
54267828 TGTTTAGCTT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 60 0.91
43 2 0.03
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.40
Consensus pattern (42 bp):
AGCTCTTAAGAGCTTCTGTTTAACCCTTATGGGTTTCCATTC
Found at i:54267846 original size:42 final size:41
Alignment explanation
Indices: 54267741--54267869 Score: 122
Period size: 42 Copynumber: 3.1 Consensus size: 41
54267731 TCATATAAGT
*
54267741 TTTC-GTTCAGCTC-TATTGAGCTTCTGTTTAACCCTTATGGG
1 TTTCTGTTCAGCTCTTA-TGAGCTTC-GTTCAACCCTTATGGG
** *
54267782 TTTCCATTCAGCTCTTAAGAGCTCTCGTTCAACCCTTATGGG
1 TTTCTGTTCAGCTCTTATGAGCT-TCGTTCAACCCTTATGGG
* * * *
54267824 TTTCTGTTTAGCTTTTATGAGCTTTTGTTC-ACCCTT-CGGG
1 TTTCTGTTCAGCTCTTATGAGC-TTCGTTCAACCCTTATGGG
54267864 TTTCTG
1 TTTCTG
54267870 ATAATGATGT
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
40 9 0.12
41 10 0.14
42 50 0.68
43 5 0.07
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (41 bp):
TTTCTGTTCAGCTCTTATGAGCTTCGTTCAACCCTTATGGG
Found at i:54270488 original size:19 final size:18
Alignment explanation
Indices: 54270448--54270499 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
54270438 AATTCATATA
54270448 CATAT-ATATAAAT-ATT
1 CATATCATATAAATAATT
54270464 CAATATCATATAGAATAATT
1 C-ATATCATATA-AATAATT
54270484 CATATCATATACAATA
1 CATATCATATA-AATA
54270500 TATAAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 1 0.03
17 4 0.13
18 5 0.16
19 17 0.55
20 4 0.13
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.37
Consensus pattern (18 bp):
CATATCATATAAATAATT
Found at i:54273639 original size:2 final size:2
Alignment explanation
Indices: 54273632--54273664 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
54273622 GTGAAATGTC
54273632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
54273665 GATACCGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:54273908 original size:25 final size:25
Alignment explanation
Indices: 54273874--54273938 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
54273864 TGACCCACAA
* *
54273874 CTTGTAAGAGTATACCGATTTACAG
1 CTTGTGAGAGCATACCGATTTACAG
54273899 CTTGTGAGAGCATACCGATTTACAG
1 CTTGTGAGAGCATACCGATTTACAG
*
54273924 CTCGTGAGAGCATAC
1 CTTGTGAGAGCATAC
54273939 ATGTGCAGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (25 bp):
CTTGTGAGAGCATACCGATTTACAG
Found at i:54274556 original size:26 final size:25
Alignment explanation
Indices: 54274498--54274556 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
54274488 TGGCTATTGT
*
54274498 TGGCCATGTGTTTTGGTTGTTGAAA
1 TGGCCATTTGTTTTGGTTGTTGAAA
*
54274523 TGGCCATTTGTTTTGGCTTG-TGATA
1 TGGCCATTTGTTTTGG-TTGTTGAAA
54274548 TGGCACATT
1 TGGC-CATT
54274557 AATGATGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 23 0.77
26 7 0.23
ACGTcount: A:0.15, C:0.12, G:0.29, T:0.44
Consensus pattern (25 bp):
TGGCCATTTGTTTTGGTTGTTGAAA
Found at i:54276497 original size:22 final size:22
Alignment explanation
Indices: 54276463--54276566 Score: 93
Period size: 22 Copynumber: 4.7 Consensus size: 22
54276453 ACGCAATTTT
* *
54276463 CACTATGGTGCCTACTGATTCG
1 CACTACGGTGCCTACTAATTCG
* *
54276485 CAGTACGGTGCCTACTAATTTG
1 CACTACGGTGCCTACTAATTCG
* *
54276507 CTCTACAGTGCCTACTAATTCG
1 CACTACGGTGCCTACTAATTCG
* * ***
54276529 CACTTCGATGCCTA-TCGCTCAG
1 CACTACGGTGCCTACTAATTC-G
54276551 CACTACGGTGCCTACT
1 CACTACGGTGCCTACT
54276567 GGTGTGGTGT
Statistics
Matches: 63, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
21 3 0.05
22 59 0.94
23 1 0.02
ACGTcount: A:0.20, C:0.31, G:0.19, T:0.30
Consensus pattern (22 bp):
CACTACGGTGCCTACTAATTCG
Found at i:54279865 original size:68 final size:68
Alignment explanation
Indices: 54279751--54280070 Score: 300
Period size: 68 Copynumber: 4.7 Consensus size: 68
54279741 GGTGCACAAC
* * * * * * *
54279751 ACCATACCGTGTAAAACCATAGCTGGGCTATGGCAACATATAAAGTCTGCGAGGACAATAAACAT
1 ACCATATCGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCCGCCAAGACAGTAAACAT
*
54279816 GGT
66 GAT
* * * * *
54279819 ACCATATCATGTAAAACCATAGCTGGGTTATTGCAACATATGAAGTCCACCAAGACAGTAAACAT
1 ACCATATCGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCCGCCAAGACAGTAAACAT
54279884 GAT
66 GAT
* * * * * ** * *
54279887 ACTATATCCTGTAAGACTATAGCTGGGATATGGCAACATATGAAGCCCGTTAAGATAGTTAACAT
1 ACCATATCGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCCGCCAAGACAGTAAACAT
*
54279952 GAC
66 GAT
* * * * * * ** * *
54279955 ACCATATTGTGTAAGACCATAGTTGGGCTATAGAAATATATGAATTTTGCCAGGATAGTAAACAT
1 ACCATATCGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCCGCCAAGACAGTAAACAT
*
54280020 GGCT
66 -GAT
* *
54280024 -CTATATCGTGTAAGACCATAGCTGGGCTATGACAACATATGAAGTCC
1 ACCATATCGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCC
54280071 ACTAGGACAT
Statistics
Matches: 198, Mismatches: 53, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
68 197 0.99
69 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (68 bp):
ACCATATCGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCCGCCAAGACAGTAAACAT
GAT
Found at i:54284152 original size:12 final size:12
Alignment explanation
Indices: 54284135--54284187 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
54284125 ATATCAAATC
54284135 TAAAGTATGATT
1 TAAAGTATGATT
* *
54284147 TAAAGTATAATAAA
1 TAAAGTATGAT--T
*
54284161 TAAAATATGATT
1 TAAAGTATGATT
*
54284173 TAAAGTATGTTT
1 TAAAGTATGATT
54284185 TAA
1 TAA
54284188 TGTTAAAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
12 23 0.72
14 9 0.28
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (12 bp):
TAAAGTATGATT
Found at i:54284688 original size:30 final size:30
Alignment explanation
Indices: 54284654--54284711 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
54284644 TTAGTAGATC
*
54284654 AAATAAACAATGCTAATAAATACTAAATAT
1 AAATAAACAATACTAATAAATACTAAATAT
* ** *
54284684 AAATATATTATACTCATAAATACTAAAT
1 AAATAAACAATACTAATAAATACTAAAT
54284712 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (30 bp):
AAATAAACAATACTAATAAATACTAAATAT
Found at i:54286621 original size:24 final size:24
Alignment explanation
Indices: 54286588--54286639 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
54286578 TTAGTAGGTC
* *
54286588 AAATAAATTATACTACTAAATGCT
1 AAATAAATTATACTAATAAATACT
*
54286612 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
54286636 AAAT
1 AAAT
54286640 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:54287466 original size:101 final size:102
Alignment explanation
Indices: 54287281--54287490 Score: 359
Period size: 101 Copynumber: 2.1 Consensus size: 102
54287271 TGATTTTTAA
* *
54287281 AATTAAAACCAAAATTTAAAATAAATAGTAATATAGATAATATATAAATAAAAAAAGTATTTAAG
1 AATTAAAACCAAAATTTAAAATAAATAGTAATATAGAAAATATATAAAT-AAAAAAGTATGTAAG
* *
54287346 TTAAAAAATAGATAAATCATCTAAATAAAATTTTATTT
65 TTAAAAAATAGATAAATCATCGAAACAAAATTTTATTT
*
54287384 AATTAAAACCAAAATTTAAAATAAATAGTAATATAGAAAATATATAAAT-AAAAATTATGTAAGT
1 AATTAAAACCAAAATTTAAAATAAATAGTAATATAGAAAATATATAAATAAAAAAGTATGTAAGT
54287448 TAAAAAATAGATAAATCATCGAAACAAAATTTTATTT
66 TAAAAAATAGATAAATCATCGAAACAAAATTTTATTT
54287485 AATTAA
1 AATTAA
54287491 TTAAATGTTT
Statistics
Matches: 102, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
101 54 0.53
103 48 0.47
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (102 bp):
AATTAAAACCAAAATTTAAAATAAATAGTAATATAGAAAATATATAAATAAAAAAGTATGTAAGT
TAAAAAATAGATAAATCATCGAAACAAAATTTTATTT
Found at i:54291531 original size:20 final size:20
Alignment explanation
Indices: 54291508--54291551 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
54291498 AAAAATTACA
54291508 AAAAAATCAAAATAATTTTC
1 AAAAAATCAAAATAATTTTC
** * *
54291528 AAAATTTGAAAATAATTTTT
1 AAAAAATCAAAATAATTTTC
54291548 AAAA
1 AAAA
54291552 TTATAAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAAATCAAAATAATTTTC
Found at i:54291552 original size:20 final size:20
Alignment explanation
Indices: 54291516--54291553 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
54291506 CAAAAAAATC
54291516 AAAATAATTTTCAAAATTTG
1 AAAATAATTTTCAAAATTTG
*
54291536 AAAATAATTTTTAAAATT
1 AAAATAATTTTCAAAATT
54291554 ATAAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAATAATTTTCAAAATTTG
Found at i:54291916 original size:21 final size:21
Alignment explanation
Indices: 54291892--54291932 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
54291882 ACCTTTTCTA
54291892 AAGTTAAAA-GTCAAAACTATC
1 AAGTTAAAAGGT-AAAACTATC
54291913 AAGTTAAAAGGTAAAACTAT
1 AAGTTAAAAGGTAAAACTAT
54291933 GTTGTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.24
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACTATC
Found at i:54292495 original size:17 final size:17
Alignment explanation
Indices: 54292473--54292510 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
54292463 GATTAAGTTG
*
54292473 ATTTTTATAATTTGAAT
1 ATTTTTATAATTCGAAT
*
54292490 ATTTTTTTAATTCGAAT
1 ATTTTTATAATTCGAAT
54292507 ATTT
1 ATTT
54292511 GGTGTACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (17 bp):
ATTTTTATAATTCGAAT
Found at i:54294532 original size:2 final size:2
Alignment explanation
Indices: 54294525--54294553 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
54294515 TAGTTTATGA
54294525 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
54294554 AAAGGATGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:54305439 original size:31 final size:31
Alignment explanation
Indices: 54305404--54305477 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
54305394 AACTTTAAGG
*
54305404 AAAGTTTAGAAACCTTTTAATCAAATCAAAA
1 AAAGTTTAGAAACCTTCTAATCAAATCAAAA
54305435 AAAGTTTAGAAACCTTCTAATCAAATCAAAA
1 AAAGTTTAGAAACCTTCTAATCAAATCAAAA
* *
54305466 CAAGTTGAGAAA
1 AAAGTTTAGAAA
54305478 TACTTTGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (31 bp):
AAAGTTTAGAAACCTTCTAATCAAATCAAAA
Found at i:54309278 original size:31 final size:31
Alignment explanation
Indices: 54309243--54309305 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
54309233 TACAAGTAAC
*
54309243 TAGCATTTGGATGTTATTTAATAGACATTAT
1 TAGCATTTGGATGTTATTTAATAAACATTAT
54309274 TAGCATTTGGATGTTATTTAATAAACATTAT
1 TAGCATTTGGATGTTATTTAATAAACATTAT
54309305 T
1 T
54309306 TAAGTGTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.46
Consensus pattern (31 bp):
TAGCATTTGGATGTTATTTAATAAACATTAT
Found at i:54318750 original size:18 final size:18
Alignment explanation
Indices: 54318727--54318762 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
54318717 CGTGTGAGTG
54318727 TGAGTGTAAATAGTAACT
1 TGAGTGTAAATAGTAACT
*
54318745 TGAGTGTGAATAGTAACT
1 TGAGTGTAAATAGTAACT
54318763 ATCTAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (18 bp):
TGAGTGTAAATAGTAACT
Found at i:54322533 original size:272 final size:271
Alignment explanation
Indices: 54321986--54322539 Score: 892
Period size: 271 Copynumber: 2.0 Consensus size: 271
54321976 TGCATTTTGA
* * * * * *
54321986 ACTATTAATATACACTTTTGCTTGTAAATATTTGATATTTTTTCCTTTTTGTCATGTGATTCATT
1 ACTATTACTATACACTCTTGCTTGTAAATATTTGATATTATTTCATTTTGGTCATATGATTCATT
* * * *
54322051 AATGAATCATATTAATGTGTATTTTGTAAAGTCTTTAGGTTACCTAATATATATGTTTCATGTTG
66 AATGAATCACATTAATGTGTATTTTATAAAGTATTTAGGTTACCTAATATATATGCTTCATGTTG
* *
54322116 AATTTGTTAATAATTAGGATGTTTTAGACCTCATTGAAAATGTATGTTGGATCTTACAGACTGTT
131 AATTTGTTAATAATTAGGATGTTTCAGACCTAATTGAAAATGTATGTTGGATCTTACAGACTGTT
*
54322181 TTAGTATTATATCAACTGGATTTGGTTTGTACTGTTAACTATATATCTCTAGTAAAAGAAATTTA
196 TTAGTATTATATCAACTGGATTTGGTTTGTACTGTTAACTATATATCTCTAGCAAAAGAAATTTA
54322246 TGATAGAGCCT
261 TGATAGAGCCT
* * *
54322257 ACTATTACTATATACTCTTGCTTGTAAATATTTTATATTATTTCATTTTGGTCCTATGATTCATT
1 ACTATTACTATACACTCTTGCTTGTAAATATTTGATATTATTTCATTTTGGTCATATGATTCATT
*
54322322 AATGAATCACATTACTGTGTATTTTATAAAGTATTTAGGTTACCTAATATATATGCTTCATGTTG
66 AATGAATCACATTAATGTGTATTTTATAAAGTATTTAGGTTACCTAATATATATGCTTCATGTTG
* * *
54322387 AATTTGTTGATAATTAGGATGTTATCGGACCTAATTGAAAATGTATGTTGGATCTTATAGACTGT
131 AATTTGTTAATAATTAGGATGTT-TCAGACCTAATTGAAAATGTATGTTGGATCTTACAGACTGT
* * *
54322452 TTTAGTATTGTATCACCTGGATTTGGTTTGTATTGTTAACTATATATCTCTAGCAAAAGAAATTT
195 TTTAGTATTATATCAACTGGATTTGGTTTGTACTGTTAACTATATATCTCTAGCAAAAGAAATTT
54322517 ATGATAGAGCCT
260 ATGATAGAGCCT
54322529 ACTATTACTAT
1 ACTATTACTAT
54322540 TGTAACACCC
Statistics
Matches: 259, Mismatches: 23, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
271 138 0.53
272 121 0.47
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.45
Consensus pattern (271 bp):
ACTATTACTATACACTCTTGCTTGTAAATATTTGATATTATTTCATTTTGGTCATATGATTCATT
AATGAATCACATTAATGTGTATTTTATAAAGTATTTAGGTTACCTAATATATATGCTTCATGTTG
AATTTGTTAATAATTAGGATGTTTCAGACCTAATTGAAAATGTATGTTGGATCTTACAGACTGTT
TTAGTATTATATCAACTGGATTTGGTTTGTACTGTTAACTATATATCTCTAGCAAAAGAAATTTA
TGATAGAGCCT
Found at i:54323877 original size:42 final size:42
Alignment explanation
Indices: 54323830--54323973 Score: 164
Period size: 42 Copynumber: 3.4 Consensus size: 42
54323820 AACAAAATCA
* * *
54323830 CATAAGTGCTAAACAGAAACCTATAAGGGTTAAACGGAAGCT
1 CATAAGAGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCT
* *
54323872 CATAAGAGCTGAACAGAAACCCGTAAGGGTTAAACAGAAGCT
1 CATAAGAGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCT
* * * * *
54323914 CA-ATAGAGCTGAACGGAAACCCATTAGGGTTTAACAGAAACT
1 CATA-AGAGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCT
* *
54323956 CATATGAGTTAAACAGAA
1 CATAAGAGCTAAACAGAA
54323974 GCTCGTGAGA
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.01
42 84 0.98
43 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (42 bp):
CATAAGAGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCT
Found at i:54323929 original size:63 final size:63
Alignment explanation
Indices: 54323860--54323995 Score: 148
Period size: 63 Copynumber: 2.2 Consensus size: 63
54323850 CTATAAGGGT
* * *
54323860 TAAACGGAAGCTCATAAGAGCTGAACAGAAACCCGTAAGGGTTAAACAGAAGCTCAAT-AGAGC
1 TAAACGGAAGCCCATAAGAGCTGAACAGAAACCCATAAGAGTTAAACAGAAGCTC-ATGAGAGC
* * * * * * * * *
54323923 TGAACGGAAACCCATTAGGGTTTAACAGAAACTCATATGAGTTAAACAGAAGCTCGTGAGAGC
1 TAAACGGAAGCCCATAAGAGCTGAACAGAAACCCATAAGAGTTAAACAGAAGCTCATGAGAGC
54323986 TAAACGGAAG
1 TAAACGGAAG
54323996 GTAAACACGA
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
62 1 0.02
63 57 0.98
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (63 bp):
TAAACGGAAGCCCATAAGAGCTGAACAGAAACCCATAAGAGTTAAACAGAAGCTCATGAGAGC
Found at i:54323970 original size:21 final size:21
Alignment explanation
Indices: 54323830--54323973 Score: 85
Period size: 21 Copynumber: 6.9 Consensus size: 21
54323820 AACAAAATCA
* *
54323830 CATAAGTGCTAAACAGAAAC-
1 CATAAGAGTTAAACAGAAACT
* * *
54323850 CTATAAGGGTTAAACGGAAGCT
1 C-ATAAGAGTTAAACAGAAACT
* * *
54323872 CATAAGAGCTGAACAGAAACC
1 CATAAGAGTTAAACAGAAACT
* * *
54323893 CGTAAGGGTTAAACAGAAGCT
1 CATAAGAGTTAAACAGAAACT
* * * *
54323914 CA-ATAGAGCTGAACGGAAACC
1 CATA-AGAGTTAAACAGAAACT
* * *
54323935 CATTAGGGTTTAACAGAAACT
1 CATAAGAGTTAAACAGAAACT
*
54323956 CATATGAGTTAAACAGAA
1 CATAAGAGTTAAACAGAA
54323974 GCTCGTGAGA
Statistics
Matches: 87, Mismatches: 33, Indels: 7
0.69 0.26 0.06
Matches are distributed among these distances:
20 2 0.02
21 84 0.97
22 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (21 bp):
CATAAGAGTTAAACAGAAACT
Found at i:54334359 original size:20 final size:21
Alignment explanation
Indices: 54334334--54334374 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
54334324 ATGCCATATT
54334334 TAATAATGA-AAAAAATCAAA
1 TAATAATGATAAAAAATCAAA
*
54334354 TAATAATGATAATAAATCAAA
1 TAATAATGATAAAAAATCAAA
54334375 GATAAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (21 bp):
TAATAATGATAAAAAATCAAA
Found at i:54336128 original size:94 final size:94
Alignment explanation
Indices: 54335905--54336191 Score: 324
Period size: 94 Copynumber: 3.0 Consensus size: 94
54335895 GTGGCACAGT
* * * **
54335905 TTCATCTTGCTCTATTGCAACTTCAAGGAGATAAGATTTGCTGTTGTAGTTTCATTCCAACCCAC
1 TTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTCGCTATTGTAGTTTCATTCTGACCCAC
* * * *
54335970 TGTAACTTCAAGGATATAGGATTTGTATC
66 TGCAACTTCAGGGGTATAGGATTTGTAGC
* * * * * * * * * *
54335999 TTCATTTTACTCCACTGCAACTTTAGGGAGGTAAGATTCGCTATGGTAGCTTCAATCTGACACAC
1 TTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTCGCTATTGTAGTTTCATTCTGACCCAC
*
54336064 TGCAACTTCAGGGGCATAGGATTTGTAGC
66 TGCAACTTCAGGGGTATAGGATTTGTAGC
* * * *
54336093 TTTATCTTGCTCCATTGCAACCTCAATGAGATAAGATTCG-TCATTGTAGTTTGTATTCTGACCC
1 TTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTCGCT-ATTGTAGTTT-CATTCTGACCC
*
54336157 ACTGCAACTTCAGGGGTATAGGAATTGTAGC
64 ACTGCAACTTCAGGGGTATAGGATTTGTAGC
54336188 TTCA
1 TTCA
54336192 ATCCAATCAA
Statistics
Matches: 154, Mismatches: 37, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
93 1 0.01
94 113 0.73
95 40 0.26
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (94 bp):
TTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTCGCTATTGTAGTTTCATTCTGACCCAC
TGCAACTTCAGGGGTATAGGATTTGTAGC
Found at i:54336214 original size:139 final size:138
Alignment explanation
Indices: 54336044--54336331 Score: 366
Period size: 139 Copynumber: 2.1 Consensus size: 138
54336034 ATTCGCTATG
** * * *
54336044 GTAGCTTCAATCTGACACACTGCAACTTCAGGGGCATAGGATTTGTAGCTTTATCTTGCTCCATT
1 GTAGCTTCAATCCAACACACTGCAACTTCAGGGACATAGGATTTGTAGCTTCATCTTGCTCCACT
* * * * * *
54336109 GCAACCTCA-ATGAGATAAGATTCG-TCATTGTAGTTTGTATTCTGACCCACTGCAACTTCAGGG
66 GCAACCTCAGA-AAGATAAGATTCGCT-ATGGTAGATT-CAATCCGACCCACTGCAACTTCAGGG
54336172 GTATAGGAATT
128 GTATAGGAATT
*
54336183 GTAGCTTCAATCCAATCA-ACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCAC
1 GTAGCTTCAATCCAA-CACACTGCAACTTCAGGGACATAGGATTTGTAGCTTCATCTTGCTCCAC
* * * *
54336247 TGCAACTTTAGAAAGATAAGATTTGCTATGGTAGATTCAATCCGACCTACTGCAACTTCAGGGGT
65 TGCAACCTCAGAAAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACTTCAGGGGT
*
54336312 ATAGGATTT
130 ATAGGAATT
54336321 GTAGCTTCAAT
1 GTAGCTTCAAT
54336332 ATGTTCCACT
Statistics
Matches: 129, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
138 43 0.33
139 82 0.64
140 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (138 bp):
GTAGCTTCAATCCAACACACTGCAACTTCAGGGACATAGGATTTGTAGCTTCATCTTGCTCCACT
GCAACCTCAGAAAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACTTCAGGGGTA
TAGGAATT
Found at i:54336249 original size:44 final size:44
Alignment explanation
Indices: 54335966--54336722 Score: 180
Period size: 44 Copynumber: 16.3 Consensus size: 44
54335956 TCATTCCAAC
* * * * *
54335966 CCACTGTAACTTCAAGGATATAGGATTTGTATCTTCATTTTACT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
* ** *
54336010 CCACTGCAACTTTAGGGAGGTAAGATTCGCTATGGTAGCTTCAATC-TGAC-
1 CCACTGCAACTTCAGGGATATAGGA-T---T-T-GTAGCTTC-ATCTTG-CT
* ** *
54336060 ACACTGCAACTTCAGGGGCATAGGATTTGTAGCTTTATCTTGCT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
* * ** * * * *
54336104 CCATTGCAACCTCAATGAGATAAGATTCGTCATTGTAGTTTGTAT-TCTGAC-
1 CCACTGCAACTTCAGGGATATAGGA----T--TTGTAGCTT-CATCT-TG-CT
* * ***
54336155 CCACTGCAACTTCAGGGGTATAGGAATTGTAGCTTCAATC-CAAT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCT
*
54336199 CAACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
* ** * * * ** * * *
54336243 CCACTGCAACTTTAGAAAGATAAGATTTGCTATGGTAGATTCAATCCGA
1 CCACTGCAACTTCAGGGATATAGGATTTG-TA-GCTTCA-TC-TTGC-T
* * *
54336292 CCTACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAAT-ATGTT
1 CC-ACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCT
* * * * * *
54336337 CCACTGCAACTTCAAGGAGATAAGATTCGCTATGGTAGTTTCA-ATT-CAA
1 CCACTGCAACTTCAGGGATATAGGA-T---T-T-GTAGCTTCATCTTGC-T
* * **
54336386 CC-C-GCAACTTCAAGGG-TATATGATTTGTAG-TTGCAACTTTATT
1 CCACTGCAACTTC-AGGGATATAGGATTTGTAGCTT-CATC-TTGCT
* * * *
54336429 CCAACCTATTGCAACTTCAAAGG-TATAGAAATTGTAGCTTCAATC-TGAT
1 CC-A-C---TGCAACTTC-AGGGATATAGGATTTGTAGCTTC-ATCTTGCT
* * *
54336478 CCACTACAACTTCAGGGATGTAGGATTTGTAGCTTTATCTTGCT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
* * * * *
54336522 CCACTACAACTTCAGGGAGATAGATATGCTATGGTAGATTCGA-CTCGGC-
1 CCACTGCAACTTCAGGGATATAG-GAT--T-T-GTAGCTTC-ATCT-TGCT
* * * * * * * *
54336571 CTACTGCAACTTTAGGGGTATAAGATTTGTAGTTGTAGCTTCATTCCAAC
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCT-T--CATC-TTGC--T
* * *
54336621 CCACTGCAACTTCAGGGGTATAGGAATTGTAGCTTCAATC-TGAT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCT
* **
54336665 CCATTGCTGCTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
* *
54336709 CTACTACAACTTCA
1 CCACTGCAACTTCA
54336723 AGGAGATAAG
Statistics
Matches: 509, Mismatches: 133, Indels: 142
0.65 0.17 0.18
Matches are distributed among these distances:
40 2 0.00
41 6 0.01
42 1 0.00
43 21 0.04
44 215 0.42
45 21 0.04
46 10 0.02
47 21 0.04
48 19 0.04
49 42 0.08
50 120 0.24
51 30 0.06
52 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
Found at i:54336299 original size:94 final size:93
Alignment explanation
Indices: 54336183--54336770 Score: 297
Period size: 94 Copynumber: 6.3 Consensus size: 93
54336173 TATAGGAATT
* * *
54336183 GTAGCTTCAATCCAATCAACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACT
1 GTAGATTCAATCCGA-CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACT
*
54336248 GCAACTTTAGAAAGATAAGATTTGCTATG
65 GCAACTTCAGAAAGATAAGATTTGCTATG
* * *
54336277 GTAGATTCAATCCGACCTACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAAT-ATGTTCCAC
1 GTAGATTCAATCCGACC-ACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCTCCAC
* *
54336341 TGCAACTTCA-AGGAGATAAGATTCGCTATG
64 TGCAACTTCAGA-AAGATAAGATTTGCTATG
* * * * * **
54336371 GTAGTTTCAATTCAACC-C-GCAACTTCAAGGG-TATATGATTTGTAG-TTGCAACTTTATTCCA
1 GTAGATTCAATCCGACCACTGCAACTTC-AGGGATATAGGATTTGTAGCTT-CATC-TTGCTCC-
* * *
54336432 ACCTATTGCAACTTC--AAAGGTATAGA-----AATT
62 A-C---TGCAACTTCAGAAAGATA-AGATTTGCTATG
* * * * *
54336462 GTAGCTTCAATCTGATCCACTACAACTTCAGGGATGTAGGATTTGTAGCTTTATCTTGCTCCACT
1 GTAGATTCAATCCGA-CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACT
* ** *
54336527 ACAACTTCAGGGAGAT-AGATATGCTATG
65 GCAACTTCAGAAAGATAAGATTTGCTATG
* * * * * * * *
54336555 GTAGATTCGA-CTCGGCCTACTGCAACTTTAGGGGTATAAGATTTGTAGTTGTAGCTTCATTCCA
1 GTAGATTCAATC-CGACC-ACTGCAACTTCAGGGATATAGGATTTGTAGCT-T--CATC-TTGC-
* * * * *
54336619 ACCCACTGCAACTTCAG--GGGTATAG----G-AATT
59 -TCCACTGCAACTTCAGAAAGATA-AGATTTGCTATG
* * * ** *
54336649 GTAGCTTCAATCTGATCCATTGCTGCTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCTACT
1 GTAGATTCAATCCGA-CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACT
* * * *
54336714 ACAACTTCA-AGGAGATAAGATTCGTTATG
65 GCAACTTCAGA-AAGATAAGATTTGCTATG
*
54336743 GTA-ACTTCAATCCGACCCACTACAACTT
1 GTAGA-TTCAATCCGA-CCACTGCAACTT
54336771 TAAAGGTATA
Statistics
Matches: 365, Mismatches: 83, Indels: 92
0.68 0.15 0.17
Matches are distributed among these distances:
88 23 0.06
89 2 0.01
90 12 0.03
91 39 0.11
92 16 0.04
93 52 0.14
94 173 0.47
95 12 0.03
96 6 0.02
97 14 0.04
99 16 0.04
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (93 bp):
GTAGATTCAATCCGACCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACTG
CAACTTCAGAAAGATAAGATTTGCTATG
Found at i:54336643 original size:187 final size:184
Alignment explanation
Indices: 54336277--54336745 Score: 557
Period size: 187 Copynumber: 2.5 Consensus size: 184
54336267 ATTTGCTATG
* * * * *
54336277 GTAGATTCAATCCGA-CCTACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAAT-ATGTTCCA
1 GTAGCTTCAATCTGATCC-ACTGCAACTTCAGGGATATAGGATTTGTAGCTT-AATCTTGCTCCA
* * *
54336340 CTGCAACTTCAAGGAGATAAGATTCGCTATGGTAGTTTCAATTCAACCCGCAACTTCAAGGGTAT
64 CTACAACTTCAAGGAGAT-AGATTCGCTATGGTAGATTCAACTCAACCCGCAACTTCAAGGGTAT
* * * *
54336405 ATGATTTGTAGTTGCAACTTTATTCCAACCTATTGCAACTTCAAAGGTATAGAAATT
128 AAGATTTGTAGTTGCAACTTCATTCCAACCCACTGCAACTTCAAAGGTATAGAAATT
* * *
54336462 GTAGCTTCAATCTGATCCACTACAACTTCAGGGATGTAGGATTTGTAGCTTTATCTTGCTCCACT
1 GTAGCTTCAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGTAGCTTAATCTTGCTCCACT
* * ** * *
54336527 ACAACTTCAGGGAGATAGATAT-GCTATGGTAGATTCGACTCGGCCTACTGCAACTTTAGGGGTA
66 ACAACTTCAAGGAGATAGAT-TCGCTATGGTAGATTCAACTCAACC--C-GCAACTTCAAGGGTA
* * ** *
54336591 TAAGATTTGTAGTTGTAGCTTCATTCCAACCCACTGCAACTTCAGGGGTATAGGAATT
127 TAAGATTTGTAGTTGCAACTTCATTCCAACCCACTGCAACTTCAAAGGTATAGAAATT
* ** * *
54336649 GTAGCTTCAATCTGATCCATTGCTGCTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCTACT
1 GTAGCTTCAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGTAGCTTAATCTTGCTCCACT
*
54336714 ACAACTTCAAGGAGATAAGATTCGTTATGGTA
66 ACAACTTCAAGGAGAT-AGATTCGCTATGGTA
54336746 ACTTCAATCC
Statistics
Matches: 241, Mismatches: 35, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
184 24 0.10
185 66 0.27
186 3 0.01
187 136 0.56
188 12 0.05
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (184 bp):
GTAGCTTCAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGTAGCTTAATCTTGCTCCACT
ACAACTTCAAGGAGATAGATTCGCTATGGTAGATTCAACTCAACCCGCAACTTCAAGGGTATAAG
ATTTGTAGTTGCAACTTCATTCCAACCCACTGCAACTTCAAAGGTATAGAAATT
Found at i:54345698 original size:31 final size:31
Alignment explanation
Indices: 54345662--54345740 Score: 79
Period size: 34 Copynumber: 2.4 Consensus size: 31
54345652 ATATTTTAAC
*
54345662 ATTTATATTACA-AAACATTTATTATTAATAT
1 ATTTATATTA-ATAAACATTTATTATTAAAAT
*
54345693 ATTTATAATTGTAATAAAGATTTATTATTAAAAT
1 ATTTAT-A-T-TAATAAACATTTATTATTAAAAT
*
54345727 ATTAATATTGAATA
1 ATTTATATT-AATA
54345741 TTTTCAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
31 7 0.17
32 6 0.15
33 3 0.08
34 24 0.60
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (31 bp):
ATTTATATTAATAAACATTTATTATTAAAAT
Found at i:54347596 original size:15 final size:15
Alignment explanation
Indices: 54347569--54347623 Score: 74
Period size: 15 Copynumber: 3.7 Consensus size: 15
54347559 AAAAATGGCA
*
54347569 GGAGGAGGGGGTGGT
1 GGAGGAGGAGGTGGT
* *
54347584 GGTGGAGGAGGTGGA
1 GGAGGAGGAGGTGGT
54347599 GGAGGAGGAGGTGGT
1 GGAGGAGGAGGTGGT
*
54347614 GGCGGAGGAG
1 GGAGGAGGAG
54347624 CTGCACCACC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.18, C:0.02, G:0.69, T:0.11
Consensus pattern (15 bp):
GGAGGAGGAGGTGGT
Found at i:54347608 original size:18 final size:18
Alignment explanation
Indices: 54347568--54347623 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
54347558 AAAAAATGGC
* * *
54347568 AGGAGGAGGGGGTGGTGG
1 AGGAGGAGGTGGAGGAGG
*
54347586 TGGAGGAGGTGGAGGAGG
1 AGGAGGAGGTGGAGGAGG
* *
54347604 AGGAGGTGGTGGCGGAGG
1 AGGAGGAGGTGGAGGAGG
54347622 AG
1 AG
54347624 CTGCACCACC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.20, C:0.02, G:0.68, T:0.11
Consensus pattern (18 bp):
AGGAGGAGGTGGAGGAGG
Found at i:54369415 original size:21 final size:21
Alignment explanation
Indices: 54369382--54369421 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
54369372 ATATAGATAG
*
54369382 TTTTTAAAATTTTTATGAACA
1 TTTTTAAAATTTTAATGAACA
* *
54369403 TTTTTGAATTTTTAATGAA
1 TTTTTAAAATTTTAATGAA
54369422 GTGCGCGTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (21 bp):
TTTTTAAAATTTTAATGAACA
Found at i:54381251 original size:21 final size:21
Alignment explanation
Indices: 54381210--54381251 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
54381200 GCTCAACTTA
* *
54381210 AAGCAAAGGCAGCATCGAGGG
1 AAGCAAAGGCAGCAACAAGGG
*
54381231 AAGCAGAGGCAGCAACAAGGG
1 AAGCAAAGGCAGCAACAAGGG
54381252 CAATAGAGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.19, G:0.38, T:0.02
Consensus pattern (21 bp):
AAGCAAAGGCAGCAACAAGGG
Found at i:54383708 original size:126 final size:126
Alignment explanation
Indices: 54383483--54383771 Score: 456
Period size: 126 Copynumber: 2.3 Consensus size: 126
54383473 AATAGGAACT
* * * * * *
54383483 ACTGTAGCAAAAAAGCGTACACGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGCATCCTGCT
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTAACAATGCATCCTACT
*
54383548 TGAAGAGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAAACA
66 TGAAAAGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAAACA
*
54383609 ACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTCTTTTAGTACTTTTGCTAACAATGCATCCTACT
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTAACAATGCATCCTACT
* *
54383674 T-AAAACGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACT
66 TGAAAA-GTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAAACA
*
54383735 ACTGTAGCAAAAGAGCGTCCACGTAGGAGCTT-TTTTA
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTA
54383772 AATTAACAAA
Statistics
Matches: 150, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
125 8 0.05
126 142 0.95
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (126 bp):
ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTAACAATGCATCCTACT
TGAAAAGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAAACA
Found at i:54383971 original size:96 final size:96
Alignment explanation
Indices: 54383803--54383983 Score: 303
Period size: 96 Copynumber: 1.9 Consensus size: 96
54383793 AGTAACCCTA
54383803 AACCCCAAACACTAATTTATTTGATTTTTCCTTAAAAACCCAAAACACTAAACCCTAATCTAATT
1 AACCCCAAACACTAATTTATTTGATTTTTCCTTAAAAACCCAAAACACTAAACCCTAATCTAATT
54383868 TTTTTAAAATTTATAATTAATTTACTTAAGT
66 TTTTTAAAATTTATAATTAATTTACTTAAGT
* **
54383899 AACCCCAAACCCTAATTTATTTGATTTTTTCCTTAAAAA-CCATAAACGTTAAACCCTAATCTAA
1 AACCCCAAACACTAATTTATTTGA-TTTTTCCTTAAAAACCCA-AAACACTAAACCCTAATCTAA
54383963 -TTTTTTAAAATTTATAATTAA
64 TTTTTTTAAAATTTATAATTAA
54383984 CCTAAACCCT
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
96 47 0.59
97 33 0.41
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.39
Consensus pattern (96 bp):
AACCCCAAACACTAATTTATTTGATTTTTCCTTAAAAACCCAAAACACTAAACCCTAATCTAATT
TTTTTAAAATTTATAATTAATTTACTTAAGT
Found at i:54384772 original size:30 final size:30
Alignment explanation
Indices: 54384729--54384785 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
54384719 TAGTTTAACC
*
54384729 TAAATTTTGAAAATTTAAAA-AGTAAAAAAT
1 TAAATTTTGAAAA-TAAAAATAGTAAAAAAT
54384759 TAAATTTCT-AAAATAAAAATAGTAAAA
1 TAAATTT-TGAAAATAAAAATAGTAAAA
54384786 CTAAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 5 0.21
30 18 0.75
31 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (30 bp):
TAAATTTTGAAAATAAAAATAGTAAAAAAT
Found at i:54386431 original size:9 final size:9
Alignment explanation
Indices: 54386412--54386442 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
54386402 ACTTGTGTAT
54386412 TGCCTGCTGC
1 TGCC-GCTGC
54386422 TGCCGCTGC
1 TGCCGCTGC
54386431 TGCCGCTGC
1 TGCCGCTGC
54386440 TGC
1 TGC
54386443 AGAGGTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 17 0.81
10 4 0.19
ACGTcount: A:0.00, C:0.42, G:0.32, T:0.26
Consensus pattern (9 bp):
TGCCGCTGC
Done.