Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 81 of 206
Found at i:23089066 original size:29 final size:29
Alignment explanation
Indices: 23089017--23089083 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
23089007 TTGAAAAATG
* * *
23089017 AAAAGGGATAGTTTTGGCTATCGAATACA
1 AAAAGGGATAGCTTCGACTATCGAATACA
* **
23089046 AAAAGGGATAGCTTCGACTATCGATTATG
1 AAAAGGGATAGCTTCGACTATCGAATACA
23089075 AAAAGGGAT
1 AAAAGGGAT
23089084 GGTGACGACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.25
Consensus pattern (29 bp):
AAAAGGGATAGCTTCGACTATCGAATACA
Found at i:23089092 original size:29 final size:29
Alignment explanation
Indices: 23089060--23089322 Score: 116
Period size: 30 Copynumber: 8.8 Consensus size: 29
23089050 GGGATAGCTT
*
23089060 CGACTATCGATTATGAAAAGGGATGGTGA
1 CGACCATCGATTATGAAAAGGGATGGTGA
* * ** * *
23089089 CGACAATCAACAATGAAAAGGGATAGTGG
1 CGACCATCGATTATGAAAAGGGATGGTGA
* * *
23089118 CGACCATCGACTATGAAAAGGGATAGCT-T
1 CGACCATCGATTATGAAAAGGGAT-GGTGA
* * * * *
23089147 CGGCTATCAAATTATTAAAATGGATGGTGA
1 CGACCATC-GATTATGAAAAGGGATGGTGA
* *
23089177 CGACCATCGAATAATGAAAAGGGATAGTGA
1 CGACCATCG-ATTATGAAAAGGGATGGTGA
** * * * *
23089207 CGGTCATTGAAATATGAAAAGGGATCGCT-T
1 CGACCATCG-ATTATGAAAAGGGAT-GGTGA
* * * * *
23089237 CGGCTATCAAATTATGAAAAAAGGATGGGGA
1 CGACCATC-GATTATG-AAAAGGGATGGTGA
* ** * *
23089268 TGACCATCGAACAATGGAGAGGGATGGTGA
1 CGACCATCG-ATTATGAAAAGGGATGGTGA
* *
23089298 CGACCATCAAATTATGAAAAAGGAT
1 CGACCATC-GATTATGAAAAGGGAT
23089323 AGCTTCAGCT
Statistics
Matches: 163, Mismatches: 61, Indels: 19
0.67 0.25 0.08
Matches are distributed among these distances:
29 52 0.32
30 93 0.57
31 18 0.11
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (29 bp):
CGACCATCGATTATGAAAAGGGATGGTGA
Found at i:23089156 original size:58 final size:57
Alignment explanation
Indices: 23089014--23089203 Score: 152
Period size: 58 Copynumber: 3.2 Consensus size: 57
23089004 TCATTGAAAA
* * * * * * *
23089014 ATGAAAAGGGATAGTTTTGGCTATCGAATACAAAAAGGGATAGCT-TCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCAAATA-TAAAAGGGATAG-TGACGACCATCGAAT
* * * * * *
23089072 ATGAAAAGGGAT-GGTGACGACAATCAACA-ATGAAAAGGGATAGTGGCGACCATCGACT
1 ATGAAAAGGGATAGCT-TCGGCTATCAA-ATAT-AAAAGGGATAGTGACGACCATCGAAT
* *
23089130 ATGAAAAGGGATAGCTTCGGCTATCAAATTATTAAAATGGATGGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCAAA-TA-TAAAAGGGATAGTGACGACCATCGAAT
23089189 AATGAAAAGGGATAG
1 -ATGAAAAGGGATAG
23089204 TGACGGTCAT
Statistics
Matches: 105, Mismatches: 18, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
57 4 0.04
58 60 0.57
59 26 0.25
60 15 0.14
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (57 bp):
ATGAAAAGGGATAGCTTCGGCTATCAAATATAAAAGGGATAGTGACGACCATCGAAT
Found at i:23089314 original size:91 final size:90
Alignment explanation
Indices: 23089046--23089347 Score: 351
Period size: 91 Copynumber: 3.4 Consensus size: 90
23089036 ATCGAATACA
* * * *
23089046 AAAAGGGATAGCTTCGACTATC-GATTATG-AAAAGGGATGGTGACGACAATC-AACAATGAAAA
1 AAAAGGGATAGCTTCGGCTATCAAATTATGAAAAAAGGATGGTGACGACCATCGAACAATGAAAA
* * *
23089108 GGGATAGTGGCGACCATCGACTATG
66 GGGATAGTGACGACCATCAAATATG
* * *
23089133 AAAAGGGATAGCTTCGGCTATCAAATTAT-TAAAATGGATGGTGACGACCATCGAATAATGAAAA
1 AAAAGGGATAGCTTCGGCTATCAAATTATGAAAAAAGGATGGTGACGACCATCGAACAATGAAAA
** *
23089197 GGGATAGTGACGGTCATTGAAATATG
66 GGGATAGTGACGACCA-TCAAATATG
* * * * *
23089223 AAAAGGGATCGCTTCGGCTATCAAATTATGAAAAAAGGATGGGGATGACCATCGAACAATGGAGA
1 AAAAGGGATAGCTTCGGCTATCAAATTATGAAAAAAGGATGGTGACGACCATCGAACAATGAAAA
*
23089288 GGGATGGTGACGACCATCAAATTATG
66 GGGATAGTGACGACCATCAAA-TATG
* * * *
23089314 AAAAAGGATAGCTTCAGCTATCGAACTATGAAAA
1 AAAAGGGATAGCTTCGGCTATCAAATTATGAAAA
23089348 GGGTAACTTC
Statistics
Matches: 181, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
87 21 0.12
88 25 0.14
89 23 0.13
90 38 0.21
91 74 0.41
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (90 bp):
AAAAGGGATAGCTTCGGCTATCAAATTATGAAAAAAGGATGGTGACGACCATCGAACAATGAAAA
GGGATAGTGACGACCATCAAATATG
Found at i:23089357 original size:29 final size:29
Alignment explanation
Indices: 23089310--23089379 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
23089300 ACCATCAAAT
*
23089310 TATGAAAAAGGATAGCTTCAGCTATCGAAC
1 TATG-AAAAGGATAACTTCAGCTATCGAAC
* * * *
23089340 TATGAAAAGGGTAACTTCGGTTATCGAAT
1 TATGAAAAGGATAACTTCAGCTATCGAAC
23089369 TATGAAAAGGA
1 TATGAAAAGGA
23089380 ATGAGTCAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 30 0.88
30 4 0.12
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (29 bp):
TATGAAAAGGATAACTTCAGCTATCGAAC
Found at i:23090650 original size:20 final size:21
Alignment explanation
Indices: 23090625--23090664 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
23090615 CCTGCAGTGT
* *
23090625 TGAAAATTTTTGTGA-TTTTC
1 TGAAAAATTCTGTGAGTTTTC
23090645 TGAAAAATTCTGTGAGTTTT
1 TGAAAAATTCTGTGAGTTTT
23090665 TAATTTAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.50
Consensus pattern (21 bp):
TGAAAAATTCTGTGAGTTTTC
Found at i:23096545 original size:40 final size:41
Alignment explanation
Indices: 23096486--23096588 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 41
23096476 AGATTAGGGC
* * *
23096486 ATACACAACTGGCTTACACATATC-AGGGCATATACACAAT
1 ATACACAACAGACTAACACATATCTAGGGCATATACACAAT
23096526 ATACACAATC-GACTAACACATA-CTAGGGCATATACACAAT
1 ATACACAA-CAGACTAACACATATCTAGGGCATATACACAAT
* *
23096566 ATACATAACAGGCTAACACATAT
1 ATACACAACAGACTAACACATAT
23096589 TAAGGCACTT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
39 2 0.04
40 52 0.95
41 1 0.02
ACGTcount: A:0.44, C:0.24, G:0.11, T:0.21
Consensus pattern (41 bp):
ATACACAACAGACTAACACATATCTAGGGCATATACACAAT
Found at i:23098248 original size:32 final size:32
Alignment explanation
Indices: 23098212--23098276 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
23098202 TATTTAAAAG
*
23098212 AAACATAA-TTATTCAATTAATATCTCTTAAAT
1 AAACATAACTT-TTCAAGTAATATCTCTTAAAT
* *
23098244 AAACATAACTTTTCAAGTAATATTTCTTGAAT
1 AAACATAACTTTTCAAGTAATATCTCTTAAAT
23098276 A
1 A
23098277 TTTATAATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (32 bp):
AAACATAACTTTTCAAGTAATATCTCTTAAAT
Found at i:23100570 original size:23 final size:23
Alignment explanation
Indices: 23100537--23100614 Score: 120
Period size: 23 Copynumber: 3.4 Consensus size: 23
23100527 TTTAAGCGGA
*
23100537 TGTGTTTGGAGGGTATATTTGGT
1 TGTGTTTGGAGGCTATATTTGGT
*
23100560 TGTGTTGGGAGGCTATATTTGGT
1 TGTGTTTGGAGGCTATATTTGGT
* *
23100583 TGTGTTTGGAGGCTCTGTTTGGT
1 TGTGTTTGGAGGCTATATTTGGT
23100606 TGTGTTTGG
1 TGTGTTTGG
23100615 TGGATGATAG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.09, C:0.04, G:0.40, T:0.47
Consensus pattern (23 bp):
TGTGTTTGGAGGCTATATTTGGT
Found at i:23113233 original size:18 final size:18
Alignment explanation
Indices: 23113181--23113233 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
23113171 AATCTGGCAG
23113181 ACAGA-TCAGTTACAGAT
1 ACAGATTCAGTTACAGAT
* **
23113198 ACAAATAT-AGTTTTAGAT
1 ACAGAT-TCAGTTACAGAT
23113216 ACAGATTCAGTTACAGAT
1 ACAGATTCAGTTACAGAT
23113234 GCAAATACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
17 5 0.19
18 21 0.78
19 1 0.04
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (18 bp):
ACAGATTCAGTTACAGAT
Found at i:23113251 original size:36 final size:35
Alignment explanation
Indices: 23113181--23113254 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 35
23113171 AATCTGGCAG
* ** *
23113181 ACAGATCAGTTACAGATACAAATATAGTTTTAGAT
1 ACAGATCAGTTACAGATACAAATACAAATATAGAT
*
23113216 ACAGATTCAGTTACAGATGCAAATACAAATATAGAT
1 ACAGA-TCAGTTACAGATACAAATACAAATATAGAT
23113252 ACA
1 ACA
23113255 AATCCTACCC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
35 5 0.15
36 28 0.85
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (35 bp):
ACAGATCAGTTACAGATACAAATACAAATATAGAT
Found at i:23116993 original size:254 final size:254
Alignment explanation
Indices: 23116544--23117052 Score: 946
Period size: 254 Copynumber: 2.0 Consensus size: 254
23116534 AAAAGCATTT
23116544 TAGGGTTCCTAACAAGAAAAAGACCATAAACAATGTAGTTTTAATTTTGGGTTTAAGATTTTTTA
1 TAGGGTTCCTAACAAGAAAAAGACCATAAACAATGTAGTTTTAATTTTGGGTTTAAGATTTTTTA
*
23116609 TATTAATTATAAAATGACATCAAAAGCATGTGGAAAAAATTAATGGTTAAAAAATCATACCGTTA
66 TATTAATTATAAAATGACATCAAAAGCATGTGGAAAAAAATAATGGTTAAAAAATCATACCGTTA
*
23116674 AGTTAACTGATGAGTCACCAAACTATTAGCATTTTAACAATTTTGGACTAAAAAATTTGACTAGT
131 AGTTAACTGATGAGTCACCAAACTATTAGCATTTTAACAATTTTGGACTAAAAAAATTGACTAGT
23116739 CAAGTGATCATTTTCTAACTTTTTAAAGTCAAGAAACCTAATAAGAAACTTTCTAATAA
196 CAAGTGATCATTTTCTAACTTTTTAAAGTCAAGAAACCTAATAAGAAACTTTCTAATAA
* **
23116798 TAGGGTTCCTAACGAGAAAAAGACCATAAACGGTGTAGTTTTAATTTTGGGTTTAAGATTTTTTA
1 TAGGGTTCCTAACAAGAAAAAGACCATAAACAATGTAGTTTTAATTTTGGGTTTAAGATTTTTTA
* *
23116863 TATTAATTATAAAATGACATTAAAAGCATGTGGAAAAAAATAATGGTTAAAAAATCATACTGTTA
66 TATTAATTATAAAATGACATCAAAAGCATGTGGAAAAAAATAATGGTTAAAAAATCATACCGTTA
23116928 AGTTAACTGATGAGTCACCAAACTATTAGCATTTTAACAATTTTGGACTAAAAAAATTGACTAGT
131 AGTTAACTGATGAGTCACCAAACTATTAGCATTTTAACAATTTTGGACTAAAAAAATTGACTAGT
*
23116993 CAAGTGATCATTTTCTAACTTTTTAAAGTCAAGTAACCTAATAAGAAACTTTCTAATAA
196 CAAGTGATCATTTTCTAACTTTTTAAAGTCAAGAAACCTAATAAGAAACTTTCTAATAA
23117052 T
1 T
23117053 CAGATGATCA
Statistics
Matches: 247, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
254 247 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (254 bp):
TAGGGTTCCTAACAAGAAAAAGACCATAAACAATGTAGTTTTAATTTTGGGTTTAAGATTTTTTA
TATTAATTATAAAATGACATCAAAAGCATGTGGAAAAAAATAATGGTTAAAAAATCATACCGTTA
AGTTAACTGATGAGTCACCAAACTATTAGCATTTTAACAATTTTGGACTAAAAAAATTGACTAGT
CAAGTGATCATTTTCTAACTTTTTAAAGTCAAGAAACCTAATAAGAAACTTTCTAATAA
Found at i:23117832 original size:5 final size:5
Alignment explanation
Indices: 23117824--23117850 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
23117814 GTTTTGTTTC
23117824 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
23117851 CTTTTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:23122621 original size:15 final size:15
Alignment explanation
Indices: 23122601--23122636 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
23122591 AAAAGATGTA
23122601 TTTTTCTTTTTCTTC
1 TTTTTCTTTTTCTTC
*
23122616 TTTTTCTTTTTTTTC
1 TTTTTCTTTTTCTTC
23122631 TATTTT
1 T-TTTT
23122637 TTTGCTGCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTTTCTTC
Found at i:23132001 original size:26 final size:27
Alignment explanation
Indices: 23131972--23132031 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 27
23131962 TATATTTACA
23131972 AATTTATATATTTTT-AAATTATCTTT
1 AATTTATATATTTTTAAAATTATCTTT
* *
23131998 AATTATTTTATTTTTTTAAAATTATCTTT
1 AA-T-TTATATATTTTTAAAATTATCTTT
23132027 AATTT
1 AATTT
23132032 GAATGGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 2 0.07
27 3 0.10
28 11 0.38
29 13 0.45
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (27 bp):
AATTTATATATTTTTAAAATTATCTTT
Found at i:23136374 original size:19 final size:19
Alignment explanation
Indices: 23136350--23136421 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
23136340 CTTCAAGGAC
23136350 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
*
23136369 ATGCAATTTTAGATATGATAT
1 ATGCAATCTTAGATATG--AT
23136390 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
23136409 ATGCAATCTTAGA
1 ATGCAATCTTAGA
23136422 AGATATGATT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 31 0.63
21 18 0.37
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGCAATCTTAGATATGAT
Found at i:23136443 original size:23 final size:22
Alignment explanation
Indices: 23136360--23136444 Score: 81
Period size: 19 Copynumber: 4.0 Consensus size: 22
23136350 ATGCAATCTT
*
23136360 AGATATGATATGCAATTTTAG-
1 AGATATGATATGCAATCTTAGA
*
23136381 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGCAATCTTAGA
23136400 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
23136422 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
23136445 GATTTAATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.04
19 15 0.28
21 14 0.26
22 10 0.19
23 12 0.23
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:23137135 original size:23 final size:22
Alignment explanation
Indices: 23137106--23137149 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
23137096 ATAATTCGCA
*
23137106 TACATATATATTTTTCTTATATG
1 TACATATATATATTT-TTATATG
23137129 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
23137150 TTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:23137333 original size:3 final size:3
Alignment explanation
Indices: 23137327--23137359 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
23137317 TTATCTTTTC
23137327 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23137360 GTTCTTGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:23141485 original size:24 final size:24
Alignment explanation
Indices: 23141458--23141507 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
23141448 TTCTACTCAT
23141458 CTAGAGAATAACATGTTGGTTTTC
1 CTAGAGAATAACATGTTGGTTTTC
23141482 CTAGAGAATAACATGTTGGTTTTC
1 CTAGAGAATAACATGTTGGTTTTC
23141506 CT
1 CT
23141508 TGCATTAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (24 bp):
CTAGAGAATAACATGTTGGTTTTC
Found at i:23144091 original size:63 final size:63
Alignment explanation
Indices: 23143992--23144117 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
23143982 TGAACAGGAT
*
23143992 AACCAAATACTTTGTCGAGTCTAGCACTCTGTCTTTCGGGGGCATCACTACCTCTATTAGGCC
1 AACCAAATACTTTGTCGAGTCTAGCACTCTGGCTTTCGGGGGCATCACTACCTCTATTAGGCC
23144055 AACCAAATACTTTGTCGAGTCTAGCACTCTGGCTTTCGGGGGCATCACTACCTCTATTAGGCC
1 AACCAAATACTTTGTCGAGTCTAGCACTCTGGCTTTCGGGGGCATCACTACCTCTATTAGGCC
23144118 TTCAAATTTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (63 bp):
AACCAAATACTTTGTCGAGTCTAGCACTCTGGCTTTCGGGGGCATCACTACCTCTATTAGGCC
Found at i:23154043 original size:23 final size:23
Alignment explanation
Indices: 23154017--23154063 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
23154007 CGATTTATCA
* * *
23154017 AGAAAATACATGTTAAATTTCAC
1 AGAAAACACATATTAAAGTTCAC
*
23154040 AGAAAACACGTATTAAAGTTCAC
1 AGAAAACACATATTAAAGTTCAC
23154063 A
1 A
23154064 ATATAGATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.26
Consensus pattern (23 bp):
AGAAAACACATATTAAAGTTCAC
Found at i:23160762 original size:34 final size:34
Alignment explanation
Indices: 23160710--23160777 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
23160700 TACATTTATT
23160710 AAGGCTAAATTTATAGTAAATAGTGAAAATTGAA
1 AAGGCTAAATTTATAGTAAATAGTGAAAATTGAA
* *
23160744 AAGGTTAAGTTTATAGTAAATAGTGAAAATTGAA
1 AAGGCTAAATTTATAGTAAATAGTGAAAATTGAA
23160778 CTACAGAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.49, C:0.01, G:0.19, T:0.31
Consensus pattern (34 bp):
AAGGCTAAATTTATAGTAAATAGTGAAAATTGAA
Found at i:23164367 original size:27 final size:28
Alignment explanation
Indices: 23164304--23164367 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
23164294 TCAACACTCT
*
23164304 CCCTCAAACCCTTCTACTTCTCTCCAAAC
1 CCCTCAAA-ACTTCTACTTCTCTCCAAAC
* * *
23164333 CCC-AAAAACTTGTACTTCTCT-CGAAC
1 CCCTCAAAACTTCTACTTCTCTCCAAAC
23164359 CCCTCAAAA
1 CCCTCAAAA
23164368 AAAATTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 7 0.24
27 16 0.55
28 3 0.10
29 3 0.10
ACGTcount: A:0.30, C:0.42, G:0.03, T:0.25
Consensus pattern (28 bp):
CCCTCAAAACTTCTACTTCTCTCCAAAC
Found at i:23165883 original size:13 final size:13
Alignment explanation
Indices: 23165865--23165897 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
23165855 GCACAATGGA
23165865 AGTTTGGATCTGG
1 AGTTTGGATCTGG
23165878 AGTTTGGATCTGG
1 AGTTTGGATCTGG
23165891 AGCTTTG
1 AG-TTTG
23165898 AACTGTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.15, C:0.09, G:0.36, T:0.39
Consensus pattern (13 bp):
AGTTTGGATCTGG
Found at i:23166519 original size:28 final size:27
Alignment explanation
Indices: 23166488--23166565 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 27
23166478 AAACATGCCA
* *
23166488 GAAAAAGAAAGTATTTGTGGCAATCTAT
1 GAAAAAG-AAGCATTTGTGGCAATATAT
* *
23166516 GAAAAATGAAGCCTTTGTGGCGATATAT
1 GAAAAA-GAAGCATTTGTGGCAATATAT
*
23166544 GAAAAAGGAAGCCTTTTGTGGC
1 GAAAAA-GAAG-CATTTGTGGC
23166566 GAACTATAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 32 0.76
29 10 0.24
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.27
Consensus pattern (27 bp):
GAAAAAGAAGCATTTGTGGCAATATAT
Found at i:23166562 original size:29 final size:28
Alignment explanation
Indices: 23166501--23166567 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
23166491 AAAGAAAGTA
* * *
23166501 TTTGTGGCAATCTATGAAAAATGAAGCC
1 TTTGTGGCGATATATGAAAAAGGAAGCC
23166529 TTTGTGGCGATATATGAAAAAGGAAGCC
1 TTTGTGGCGATATATGAAAAAGGAAGCC
23166557 TTTTGTGGCGA
1 -TTTGTGGCGA
23166568 ACTATAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 25 0.71
29 10 0.29
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (28 bp):
TTTGTGGCGATATATGAAAAAGGAAGCC
Found at i:23166577 original size:29 final size:28
Alignment explanation
Indices: 23166501--23166578 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
23166491 AAAGAAAGTA
*
23166501 TTTGTGGC-AATCTATGAAAAATGAAGCC
1 TTTGTGGCGAA-CTATGAAAAAGGAAGCC
23166529 TTTGTGGCGATA-TATGAAAAAGGAAGCC
1 TTTGTGGCGA-ACTATGAAAAAGGAAGCC
*
23166557 TTTTGTGGCGAACTATAAAAAA
1 -TTTGTGGCGAACTATGAAAAA
23166579 AAAAAAAAGC
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 24 0.55
29 19 0.43
30 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (28 bp):
TTTGTGGCGAACTATGAAAAAGGAAGCC
Found at i:23169092 original size:21 final size:21
Alignment explanation
Indices: 23169062--23169102 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23169052 CCTTTATAGC
* *
23169062 ACATTGTGGATAAACTACTCA
1 ACATTATGGATAAACCACTCA
*
23169083 ACATTATGGATGAACCACTC
1 ACATTATGGATAAACCACTC
23169103 GTGGATAAAC
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:0.37, C:0.22, G:0.15, T:0.27
Consensus pattern (21 bp):
ACATTATGGATAAACCACTCA
Found at i:23169150 original size:17 final size:17
Alignment explanation
Indices: 23169128--23169165 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
23169118 GTAATAAAAT
*
23169128 GGGTGAACAAACCACCG
1 GGGTGAACAAACCACCA
*
23169145 GGGTGAACGAACCACCA
1 GGGTGAACAAACCACCA
23169162 GGGT
1 GGGT
23169166 TTTGGGTGAA
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:0.26, G:0.34, T:0.08
Consensus pattern (17 bp):
GGGTGAACAAACCACCA
Found at i:23169531 original size:15 final size:15
Alignment explanation
Indices: 23169511--23169542 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23169501 CATTTCACTA
*
23169511 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
23169526 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
23169541 TT
1 TT
23169543 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:23169821 original size:18 final size:18
Alignment explanation
Indices: 23169797--23169840 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
23169787 TGTCATTCGT
23169797 TTTCAAAACATTATTC-A
1 TTTCAAAACATTATTCAA
* *
23169814 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTCAA
23169833 TTTCAAAA
1 TTTCAAAA
23169841 TTTTTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (18 bp):
TTTCAAAACATTATTCAA
Found at i:23172906 original size:28 final size:28
Alignment explanation
Indices: 23172866--23172928 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
23172856 TAAAGAGTTA
*
23172866 ATGATATATTCTCATTGGCATTATGTTG
1 ATGATATACTCTCATTGGCATTATGTTG
* *
23172894 ATGATATCCTCTCATTGGCATTGTGTTG
1 ATGATATACTCTCATTGGCATTATGTTG
23172922 ATTGATA
1 A-TGATA
23172929 AATATGGAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 26 0.84
29 5 0.16
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (28 bp):
ATGATATACTCTCATTGGCATTATGTTG
Found at i:23179441 original size:71 final size:70
Alignment explanation
Indices: 23179269--23179449 Score: 188
Period size: 71 Copynumber: 2.6 Consensus size: 70
23179259 TTAATATATA
* * ** *
23179269 ATATACTATTATTTTAAATTACCAT-TAATATTATTTAAATTTATCATGCATCATAGTTTATAAT
1 ATATACTATTATTTTAAATTACTATGTATTATTATTTAAATGCATCATGCATCATAGTTTATAAG
23179333 TTATC
66 TTATC
* * * * * *
23179338 ATATACTATTGTTTTAAACTTATTATAG-ATTATTATTTAGATGCATTATGTATTCATA-TTTTT
1 ATATACTATTATTTTAAA-TTACTAT-GTATTATTATTTAAATGCATCATGCA-TCATAGTTTAT
23179401 AAGTTATC
63 AAGTTATC
* *
23179409 ATATGCTATTATTTTGAAATTACTATGTATTATTACTTAAA
1 ATATACTATTATTTT-AAATTACTATGTATTATTATTTAAA
23179450 GATATCATAT
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
69 17 0.19
70 6 0.07
71 59 0.66
72 8 0.09
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (70 bp):
ATATACTATTATTTTAAATTACTATGTATTATTATTTAAATGCATCATGCATCATAGTTTATAAG
TTATC
Found at i:23183803 original size:14 final size:15
Alignment explanation
Indices: 23183770--23183861 Score: 61
Period size: 15 Copynumber: 6.3 Consensus size: 15
23183760 GATTCAATAT
23183770 AAAAAAATCAATCAAT-
1 AAAAAAATCAA--AATC
23183786 AAAAAAA-CAAAATC
1 AAAAAAATCAAAATC
*
23183800 AAAAAAATGAAAATC
1 AAAAAAATCAAAATC
23183815 --AAAAATCAAAA--
1 AAAAAAATCAAAATC
** **
23183826 AAAGAAAGAAAAAAAAG
1 AAA-AAA-ATCAAAATC
23183843 AAAAAAATCAAAATC
1 AAAAAAATCAAAATC
23183858 AAAA
1 AAAA
23183862 TCAAAATGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
13 14 0.23
14 10 0.17
15 23 0.38
16 10 0.17
17 3 0.05
ACGTcount: A:0.77, C:0.09, G:0.04, T:0.10
Consensus pattern (15 bp):
AAAAAAATCAAAATC
Found at i:23183812 original size:21 final size:21
Alignment explanation
Indices: 23183788--23183867 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
23183778 CAATCAATAA
23183788 AAAAACAAAATCAAAAAAATG
1 AAAAACAAAATCAAAAAAATG
*
23183809 AAAATCAAAAATCAAAAAAA-G
1 AAAAAC-AAAATCAAAAAAATG
* ** *
23183830 AAAGAAAAAAAAGAAAAAAATC
1 AAA-AACAAAATCAAAAAAATG
*
23183852 AAAATCAAAATCAAAA
1 AAAAACAAAATCAAAA
23183868 TGAAAAAAGA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
21 29 0.63
22 17 0.37
ACGTcount: A:0.78, C:0.09, G:0.05, T:0.09
Consensus pattern (21 bp):
AAAAACAAAATCAAAAAAATG
Found at i:23183847 original size:43 final size:42
Alignment explanation
Indices: 23183800--23183882 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 42
23183790 AAACAAAATC
*
23183800 AAAAAAATGAAAATCAAAAATCAAAA-AAAGAAAGAAAAAAAAG
1 AAAAAAATCAAAATC-AAAATCAAAAGAAA-AAAGAAAAAAAAG
23183843 AAAAAAATCAAAATCAAAATCAAAATGAAAAAAGAAAAAA
1 AAAAAAATCAAAATCAAAATCAAAA-GAAAAAAGAAAAAA
23183883 GAAAATAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
42 10 0.27
43 24 0.65
44 3 0.08
ACGTcount: A:0.78, C:0.06, G:0.07, T:0.08
Consensus pattern (42 bp):
AAAAAAATCAAAATCAAAATCAAAAGAAAAAAGAAAAAAAAG
Found at i:23190606 original size:14 final size:16
Alignment explanation
Indices: 23190587--23190618 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
23190577 GGATGAGCTC
23190587 TTCATATA-ATA-ACT
1 TTCATATACATATACT
23190601 TTCATATACATATACT
1 TTCATATACATATACT
23190617 TT
1 TT
23190619 TCTTATCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (16 bp):
TTCATATACATATACT
Found at i:23191118 original size:64 final size:64
Alignment explanation
Indices: 23191017--23191142 Score: 146
Period size: 64 Copynumber: 2.0 Consensus size: 64
23191007 TCATTAAGAT
* * * * * * * * *
23191017 TCATATATCAGGACGTTCATAAAGAGTTGTGGTATGTCCGCAATATATGCAGGATCCATACCAA
1 TCATATATCAGGACGCTCACAAAGAGCTGCGATATGTCCGCAACACATACAGGATCAATACCAA
*
23191081 TCATATAAT-AGGACGCTCACAAAGAGCTGCGATATGTCTGCAACACATACAGGATCAATACC
1 TCATAT-ATCAGGACGCTCACAAAGAGCTGCGATATGTCCGCAACACATACAGGATCAATACC
23191143 GATTGCGATG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
64 49 0.96
65 2 0.04
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (64 bp):
TCATATATCAGGACGCTCACAAAGAGCTGCGATATGTCCGCAACACATACAGGATCAATACCAA
Found at i:23215018 original size:20 final size:20
Alignment explanation
Indices: 23214993--23215032 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23214983 AGGAGCTTGA
23214993 ACACAAGCATTTTGGTTAAG
1 ACACAAGCATTTTGGTTAAG
23215013 ACACAAGCATTTTGGTTAAG
1 ACACAAGCATTTTGGTTAAG
23215033 TTTTAATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (20 bp):
ACACAAGCATTTTGGTTAAG
Found at i:23230991 original size:34 final size:34
Alignment explanation
Indices: 23230953--23231020 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
23230943 CAAATGATAA
23230953 GATAAACAAATGACAACAACATTACAATGTGGTT
1 GATAAACAAATGACAACAACATTACAATGTGGTT
23230987 GATAAACAAATGACAACAACATTACAATGTGGTT
1 GATAAACAAATGACAACAACATTACAATGTGGTT
23231021 TTCGGTCAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24
Consensus pattern (34 bp):
GATAAACAAATGACAACAACATTACAATGTGGTT
Found at i:23248942 original size:24 final size:24
Alignment explanation
Indices: 23248910--23248957 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
23248900 TCGTTTTCTT
*
23248910 ACGAAGTAGTAACTCTGTTGTTAA
1 ACGAAGTAGTAACCCTGTTGTTAA
23248934 ACGAAGTAGTAACCCTGTTGTTAA
1 ACGAAGTAGTAACCCTGTTGTTAA
23248958 GTTCTGTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (24 bp):
ACGAAGTAGTAACCCTGTTGTTAA
Found at i:23252839 original size:22 final size:22
Alignment explanation
Indices: 23252803--23252863 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
23252793 AATCCTCTCA
* *
23252803 CAAATTTCCTTTCAATTTCC-TC
1 CAAATTT-CTCTCAAATTCCTTC
*
23252825 TAAATTTGCTCTCAAATTCCTTC
1 CAAATTT-CTCTCAAATTCCTTC
23252848 CAAATTTCTCTCAAAT
1 CAAATTTCTCTCAAAT
23252864 CCATATTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
22 25 0.76
23 8 0.24
ACGTcount: A:0.28, C:0.28, G:0.02, T:0.43
Consensus pattern (22 bp):
CAAATTTCTCTCAAATTCCTTC
Found at i:23254075 original size:7 final size:7
Alignment explanation
Indices: 23254063--23254088 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23254053 TAGTCGAATG
23254063 GTATTTA
1 GTATTTA
23254070 GTATTTA
1 GTATTTA
23254077 GTATTTA
1 GTATTTA
23254084 GTATT
1 GTATT
23254089 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:23254769 original size:18 final size:18
Alignment explanation
Indices: 23254742--23254776 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23254732 CATGTGCGTT
* *
23254742 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
23254760 TCCTAACCCTTATATGT
1 TCCTAACCCTTATATGT
23254777 TTCATTTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.29, G:0.09, T:0.43
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:23255334 original size:21 final size:21
Alignment explanation
Indices: 23255329--23255455 Score: 182
Period size: 21 Copynumber: 6.0 Consensus size: 21
23255319 TAAAAACCCT
23255329 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
23255350 AACCATAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
23255371 AACCCTAAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
* * *
23255393 AACCGTAACCCTTAAATAAAA
1 AACCCTAACCCTTAACTTAAA
*
23255414 AACCCTAACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
23255435 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
23255456 TATAATTTGA
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
21 73 0.80
22 18 0.20
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:23255340 original size:27 final size:27
Alignment explanation
Indices: 23255308--23255361 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
23255298 TGACAAACCA
*
23255308 AACCCTTAACCTAAAAACCCTAACCCT
1 AACCCTTAACCTAAAAACCATAACCCT
*
23255335 AACCCTTAACTTAAAAACCATAACCCT
1 AACCCTTAACCTAAAAACCATAACCCT
23255362 TAAATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (27 bp):
AACCCTTAACCTAAAAACCATAACCCT
Found at i:23255395 original size:43 final size:42
Alignment explanation
Indices: 23255329--23255455 Score: 191
Period size: 43 Copynumber: 3.0 Consensus size: 42
23255319 TAAAAACCCT
23255329 AACCCTAACCCTTAACTTAAAAACCATAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAAAACCATAACCCTTAAATTAAA
* * *
23255371 AACCCTAAACCCTTAACTTTAAAACCGTAACCCTTAAATAAAA
1 AACCCT-AACCCTTAACTTAAAAACCATAACCCTTAAATTAAA
* * *
23255414 AACCCTAACACTTAACTTAAAAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCATAACCCTTAAATTAAA
23255456 TATAATTTGA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
42 37 0.49
43 39 0.51
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (42 bp):
AACCCTAACCCTTAACTTAAAAACCATAACCCTTAAATTAAA
Found at i:23255404 original size:64 final size:63
Alignment explanation
Indices: 23255329--23255452 Score: 185
Period size: 64 Copynumber: 2.0 Consensus size: 63
23255319 TAAAAACCCT
* * *
23255329 AACCCTAACCCTTAACTTAAAAACCATAACCCTTAAATTAAAAACCCTAAACCCTTAACTTTAA
1 AACCCTAACCCTTAAATAAAAAACCATAACACTTAAATTAAAAACCCT-AACCCTTAACTTTAA
* * *
23255393 AACCGTAACCCTTAAATAAAAAACCCTAACACTTAACTTAAAAACCCTAACCCTTAACTT
1 AACCCTAACCCTTAAATAAAAAACCATAACACTTAAATTAAAAACCCTAACCCTTAACTT
23255453 AAATATAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
63 12 0.22
64 42 0.78
ACGTcount: A:0.45, C:0.30, G:0.01, T:0.24
Consensus pattern (63 bp):
AACCCTAACCCTTAAATAAAAAACCATAACACTTAAATTAAAAACCCTAACCCTTAACTTTAA
Found at i:23258953 original size:125 final size:124
Alignment explanation
Indices: 23258614--23259179 Score: 830
Period size: 125 Copynumber: 4.5 Consensus size: 124
23258604 CCCAAACATG
** * *
23258614 CTACTGTAGCAAAAGCGATTCTACGAGGGCGCGATTTCACAAATTATTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
23258679 TAGAAGCATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
66 TTGAAGCATTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* *
23258738 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
23258803 TTTAAGCGTTTTTTAAACTATTTGCTCAGAAAGGTCAACTCGAAATTATTTATTCCAGGAC
66 TTGAAGC-ATTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
*
23258864 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
23258929 TTGAAGCATTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TTGAAGCATTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* *
23258989 CTACTGTAGCAAAAGCGCATCCACGAGGGCGTGATTTCACAAATTCTTCTCATAA-AGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
* * * *
23259053 CTTGAAGCGTTTTTATACTATTTGCTCAGAAACTTCAACTCGAAATTATTTTTCCAAGAC
65 CTTGAAGCATTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * * * * * *
23259113 TTACTGTAACAAAAGCGCGTACACGTGGGCGCGACTTCAGAAATCCATCTGATAA-AGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
23259177 CTT
65 CTT
23259180 TGATTTTGTC
Statistics
Matches: 403, Mismatches: 36, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
124 128 0.32
125 196 0.49
126 79 0.20
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TTGAAGCATTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:23268467 original size:18 final size:18
Alignment explanation
Indices: 23268444--23268478 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
23268434 GCCGTGTACT
23268444 AGCCCGTGTCTGTGCCCC
1 AGCCCGTGTCTGTGCCCC
23268462 AGCCCGTGTCTGTGCCC
1 AGCCCGTGTCTGTGCCC
23268479 GTGTAACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.43, G:0.29, T:0.23
Consensus pattern (18 bp):
AGCCCGTGTCTGTGCCCC
Found at i:23272589 original size:3 final size:3
Alignment explanation
Indices: 23272581--23272632 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
23272571 ATAAAGAAGG
23272581 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
23272629 AAT A
1 AAT A
23272633 GGATTAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23272676 original size:5 final size:6
Alignment explanation
Indices: 23272657--23272708 Score: 59
Period size: 6 Copynumber: 8.2 Consensus size: 6
23272647 TTTGGAATTC
* *
23272657 AAATAA AAATAA AAATAA AACATTAC AAATAA AAATAAA AAATAA AGATAA
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAAT-AA AAATAA AAATAA
23272708 A
1 A
23272709 CTAAATTGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
6 28 0.70
7 8 0.20
8 4 0.10
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:23274007 original size:22 final size:23
Alignment explanation
Indices: 23273963--23274007 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
23273953 TACTACAATA
*
23273963 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
23273986 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
23274008 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:23277033 original size:6 final size:6
Alignment explanation
Indices: 23277022--23277091 Score: 63
Period size: 6 Copynumber: 11.8 Consensus size: 6
23277012 ATTATTAAAG
* * * * *
23277022 TAAAAA TAAAAA TAAAAA TGAAAA TGAAAA TGAAAA TGAAAA TGAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
*
23277070 TGAAAAA -AAAAA CAAAAA -AAAA
1 T-AAAAA TAAAAA TAAAAA TAAAA
23277092 CATGAAATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
5 9 0.15
6 47 0.78
7 4 0.07
ACGTcount: A:0.77, C:0.01, G:0.09, T:0.13
Consensus pattern (6 bp):
TAAAAA
Found at i:23277051 original size:18 final size:18
Alignment explanation
Indices: 23277024--23277076 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
23277014 TATTAAAGTA
*
23277024 AAAATAAAAATAAAAATG
1 AAAATGAAAATAAAAATG
*
23277042 AAAATGAAAATGAAAATG
1 AAAATGAAAATAAAAATG
23277060 AAAATGAAAATGAAAAA
1 AAAATGAAAAT-AAAAA
23277077 AAAAACAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
18 27 0.87
19 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (18 bp):
AAAATGAAAATAAAAATG
Found at i:23278647 original size:2 final size:2
Alignment explanation
Indices: 23278640--23278668 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23278630 TTTAATCATT
23278640 TA 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 T
23278669 GAATTAAGCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23278742 original size:85 final size:81
Alignment explanation
Indices: 23278661--23278896 Score: 225
Period size: 77 Copynumber: 2.9 Consensus size: 81
23278651 ATATATATAT
*
23278661 ATATATATGAATTAAGCATGCATCTCATATGTTGAATCAATCAAAACATGTATATA-TAT-TATG
1 ATATATATGAATTAAGCATGCATCTCATA-GTTGAATCAATCAAAACATGCATATATTATATATG
*** *
23278724 TATATA-ACCGAA--AC
65 TATATATAGAAAATTAA
*
23278738 ATATATATGAATTAAGCATACATCTCAT-GCATTGAATCAATCAAAACATGCATATATTATATAT
1 ATATATATGAATTAAGCATGCATCTCATAG--TTGAATCAATCAAAACATGCATATATTATATAT
* * *
23278802 TTATATATATATAATTGAAA
64 GTATATATAGAAAATT--AA
* * *
23278822 CATATATATAAATTAAGCATGCATCTCATAGATTGAATCAATCAAAAACGTTGCATTTATTATAT
1 -ATATATATGAATTAAGCATGCATCTCATAG-TTGAATCAATC-AAAAC-ATGCATATATTATAT
*
23278887 ATTTAT-TATA
62 ATGTATATATA
23278897 ATCAAAACAA
Statistics
Matches: 135, Mismatches: 11, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
75 1 0.01
77 51 0.38
78 3 0.02
79 9 0.07
80 3 0.02
84 1 0.01
85 38 0.28
86 10 0.07
87 19 0.14
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.36
Consensus pattern (81 bp):
ATATATATGAATTAAGCATGCATCTCATAGTTGAATCAATCAAAACATGCATATATTATATATGT
ATATATAGAAAATTAA
Found at i:23278751 original size:77 final size:80
Alignment explanation
Indices: 23278661--23278868 Score: 264
Period size: 85 Copynumber: 2.6 Consensus size: 80
23278651 ATATATATAT
23278661 ATATATATGAATTAAGCATGCATCTCATATGTTGAATCAATCAAAACATG-TA-TATATA-T-TA
1 ATATATATGAATTAAGCATGCATCTCATA-GTTGAATCAATCAAAACATGATATTATATATTATA
*
23278722 TGTATATAACCGAAAC
65 TATATATAACCGAAAC
*
23278738 ATATATATGAATTAAGCATACATCTCAT-GCATTGAATCAATCAAAACATGCATATATTATATAT
1 ATATATATGAATTAAGCATGCATCTCATAG--TTGAATCAATCAAAACATG---ATATTATATA-
**
23278802 TTATATATATATAATTGAAAC
60 TTATATATATATAACCGAAAC
*
23278823 ATATATATAAATTAAGCATGCATCTCATAGATTGAATCAATCAAAA
1 ATATATATGAATTAAGCATGCATCTCATAG-TTGAATCAATCAAAA
23278869 ACGTTGCATT
Statistics
Matches: 114, Mismatches: 6, Indels: 14
0.85 0.04 0.10
Matches are distributed among these distances:
75 1 0.01
77 46 0.40
81 2 0.02
82 6 0.05
84 1 0.01
85 57 0.50
86 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (80 bp):
ATATATATGAATTAAGCATGCATCTCATAGTTGAATCAATCAAAACATGATATTATATATTATAT
ATATATAACCGAAAC
Found at i:23287160 original size:21 final size:22
Alignment explanation
Indices: 23287118--23287163 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
23287108 TAAAATTATA
*
23287118 AAAATATTAATAATTACTAAAT
1 AAAATATTAATAATAACTAAAT
23287140 AAAATATT-ATAA-AACTAAAAT
1 AAAATATTAATAATAACT-AAAT
23287161 AAA
1 AAA
23287164 GAAAGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 11 0.50
22 8 0.36
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAATATTAATAATAACTAAAT
Found at i:23289177 original size:28 final size:28
Alignment explanation
Indices: 23289146--23289202 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
23289136 TAAGCTGTTG
* * *
23289146 TCTTTTAATAAATTAATTATACAATAAT
1 TCTTTAAAAAAATCAATTATACAATAAT
*
23289174 TCTTTAAAAAAATCAATTGTACAATAAT
1 TCTTTAAAAAAATCAATTATACAATAAT
23289202 T
1 T
23289203 GATAATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (28 bp):
TCTTTAAAAAAATCAATTATACAATAAT
Found at i:23289688 original size:35 final size:32
Alignment explanation
Indices: 23289636--23289710 Score: 87
Period size: 35 Copynumber: 2.2 Consensus size: 32
23289626 TAAACAATAA
* * *
23289636 TTTTCTTTTAATTTTTAAAAAATATATTTATATT
1 TTTTATTTTAATATTTAAAAAAT-T-TATATATT
*
23289670 GTTTTATTTTAATATTTAATAAATTTATATATT
1 -TTTTATTTTAATATTTAAAAAATTTATATATT
23289703 TTTTATTT
1 TTTTATTT
23289711 ATTGAAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 8 0.22
33 7 0.19
34 1 0.03
35 20 0.56
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (32 bp):
TTTTATTTTAATATTTAAAAAATTTATATATT
Found at i:23297258 original size:87 final size:86
Alignment explanation
Indices: 23297145--23297304 Score: 221
Period size: 87 Copynumber: 1.8 Consensus size: 86
23297135 TGTGTAAGGA
* **
23297145 TGAGTTTTTACTCTTAATGAATTCATAGCCCATAATTTGGGTGGTCCTATTGAGATGGACTTAAT
1 TGAGTTTTTACTCTTAATGAATTCATAGCCCAAAATTTGGGTGGTCCTATTGAGACAGACTTAAT
23297210 GAATTCACATAATTGAGAGGT
66 GAATTCACATAATTGAGAGGT
* * * ** **
23297231 TGAGTTTATTACTCTTAATGAGTTCATATCCTAAAATTTGGGTGGTTTTATTGAGACAGACTTGG
1 TGAGTTT-TTACTCTTAATGAATTCATAGCCCAAAATTTGGGTGGTCCTATTGAGACAGACTTAA
23297296 TGAATTCAC
65 TGAATTCAC
23297305 TGAACTTAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
86 7 0.11
87 56 0.89
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (86 bp):
TGAGTTTTTACTCTTAATGAATTCATAGCCCAAAATTTGGGTGGTCCTATTGAGACAGACTTAAT
GAATTCACATAATTGAGAGGT
Found at i:23299134 original size:26 final size:28
Alignment explanation
Indices: 23299105--23299158 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
23299095 TCCCTTTGTA
* *
23299105 AATTATTGATG-TAATT-TTAGTGCTTT
1 AATTATGGATGTTAATTCTTAGTACTTT
*
23299131 AATTCTGGATGTTAATTCTTAGTACTTT
1 AATTATGGATGTTAATTCTTAGTACTTT
23299159 TGATCTTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 9 0.39
27 5 0.22
28 9 0.39
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (28 bp):
AATTATGGATGTTAATTCTTAGTACTTT
Found at i:23299542 original size:20 final size:20
Alignment explanation
Indices: 23299481--23299578 Score: 74
Period size: 20 Copynumber: 4.9 Consensus size: 20
23299471 ACCAAGGTTT
* *
23299481 AGAAGTTACCAAAATATCTA
1 AGAATTTACCAAAATTTCTA
* *
23299501 ACG-ATCTA-CAAATATTTTTA
1 A-GAATTTACCAAA-ATTTCTA
*
23299521 AGAATTTACCAAAATTTGTA
1 AGAATTTACCAAAATTTCTA
* *
23299541 AGCATTTACCAAATTTTCTA
1 AGAATTTACCAAAATTTCTA
* * *
23299561 AGATTTTATCAATATTTC
1 AGAATTTACCAAAATTTC
23299579 CAAAATTTCT
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
19 5 0.08
20 50 0.83
21 5 0.08
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (20 bp):
AGAATTTACCAAAATTTCTA
Found at i:23299738 original size:40 final size:40
Alignment explanation
Indices: 23299688--23299783 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
23299678 GTCTTAACAA
**
23299688 TTACCAAAATTTCTATGACTTTACC-AAATAATCCAACGAT
1 TTACCAAAATTTCTAAAACTTTACCAAAAT-ATCCAACGAT
* *
23299728 TTACTAAAATTTCTAAAACTTTACCAAAATATCTAACGAT
1 TTACCAAAATTTCTAAAACTTTACCAAAATATCCAACGAT
23299768 TTACCAAAATTTCTAA
1 TTACCAAAATTTCTAA
23299784 CGAATTTATC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 46 0.92
41 4 0.08
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.34
Consensus pattern (40 bp):
TTACCAAAATTTCTAAAACTTTACCAAAATATCCAACGAT
Found at i:23299783 original size:20 final size:19
Alignment explanation
Indices: 23299688--23299999 Score: 120
Period size: 20 Copynumber: 15.7 Consensus size: 19
23299678 GTCTTAACAA
*
23299688 TTACCAAAATTTCTATGACT
1 TTACCAAAATTTCTAAGA-T
* *
23299708 TTACC-AAATAATCCAACGAT
1 TTACCAAAAT-TTCTAA-GAT
* *
23299728 TTACTAAAATTTCTAAAACT
1 TTACCAAAATTTCTAAGA-T
*
23299748 TTACCAAAATATCTAACGAT
1 TTACCAAAATTTCTAA-GAT
23299768 TTACCAAAATTTCTAACGAAT
1 TTACCAAAATTTCTAA-G-AT
* * * *
23299789 TTATCAATATTTATAAGCT
1 TTACCAAAATTTCTAAGAT
*
23299808 TATACCAAAA-GTCTTATAGA-
1 T-TACCAAAATTTC-TA-AGAT
** **
23299828 TTACCGCAATTTCTATTACT
1 TTACCAAAATTTCTAAGA-T
* *
23299848 TTACCAAAAATAT-AAAGGA-
1 TTACC-AAAATTTCTAA-GAT
23299867 TTACC-AAATTATCTAAGATT
1 TTACCAAAATT-TCTAAGA-T
* *
23299887 TTGCCAATATTTCTAAGGAT
1 TTACCAAAATTTCTAA-GAT
* *
23299907 TTACC-AAATTATATAAAACT
1 TTACCAAAATT-TCTAAGA-T
**
23299927 TTACCTGAATTTCTAACGAT
1 TTACCAAAATTTCTAA-GAT
** *
23299947 TTACCATTA-CTCTAAGACT
1 TTACCAAAATTTCTAAGA-T
23299966 TTACCAAAATATT-TAATGAT
1 TTACCAAAAT-TTCTAA-GAT
*
23299986 TTACCAAAAATTCT
1 TTACCAAAATTTCT
23300000 GACATTTTAC
Statistics
Matches: 213, Mismatches: 50, Indels: 58
0.66 0.16 0.18
Matches are distributed among these distances:
17 4 0.02
18 6 0.03
19 43 0.20
20 117 0.55
21 43 0.20
ACGTcount: A:0.40, C:0.18, G:0.06, T:0.36
Consensus pattern (19 bp):
TTACCAAAATTTCTAAGAT
Found at i:23299913 original size:40 final size:39
Alignment explanation
Indices: 23299688--23299993 Score: 134
Period size: 40 Copynumber: 7.7 Consensus size: 39
23299678 GTCTTAACAA
* * *
23299688 TTACCAAAATTTCT-ATGACTTTACCAAATAATCCAACGA-T
1 TTACC-AAATTTCTAAGGA-TTTACCAAATTATCTAA-GACT
* * *
23299728 TTACTAAAATTTCTAA-AACTTTACCAAAATATCTAACGA-T
1 TTAC-CAAATTTCTAAGGA-TTTACCAAATTATCTAA-GACT
* * *
23299768 TTACCAAAATTTCTAACGAATTTATCAATATT-TATAAG-CT
1 TTACC-AAATTTCTAA-GGATTTACCAA-ATTATCTAAGACT
** * **
23299808 TATACCAAAAGTCTTATA-GA-TTACCGCAATT-TCTATTACT
1 T-TACCAAATTTC-TA-AGGATTTACC-AAATTATCTAAGACT
** * *
23299848 TTACCAAAAATATAAAGGA-TTACCAAATTATCTAAGATT
1 TTACCAAATTTCT-AAGGATTTACCAAATTATCTAAGACT
* * *
23299887 TTGCCAATATTTCTAAGGATTTACCAAATTATATAAAACT
1 TTACCAA-ATTTCTAAGGATTTACCAAATTATCTAAGACT
* *
23299927 TTACCTGAATTTCTAACGATTTACC--ATTACTCTAAGACT
1 TTACC-AAATTTCTAAGGATTTACCAAATTA-TCTAAGACT
*
23299966 TTACCAAAATATT-TAATGATTTACCAAA
1 TTACC-AAAT-TTCTAAGGATTTACCAAA
23299994 AATTCTGACA
Statistics
Matches: 206, Mismatches: 38, Indels: 43
0.72 0.13 0.15
Matches are distributed among these distances:
38 10 0.05
39 70 0.34
40 101 0.49
41 20 0.10
42 5 0.02
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.36
Consensus pattern (39 bp):
TTACCAAATTTCTAAGGATTTACCAAATTATCTAAGACT
Found at i:23300126 original size:20 final size:20
Alignment explanation
Indices: 23300101--23300256 Score: 103
Period size: 20 Copynumber: 7.8 Consensus size: 20
23300091 GTCTTACCAA
*
23300101 TTACCAAAATTTCTATA-ATT
1 TTACCAAAATTTCTA-AGACT
23300121 TTACCAAAATATT-TAACGA-T
1 TTACCAAAAT-TTCTAA-GACT
23300141 TTACCAAAATTTCTAAGACT
1 TTACCAAAATTTCTAAGACT
* *
23300161 TTACCCAAATATCTAA-ACT
1 TTACCAAAATTTCTAAGACT
* *
23300180 TTACCAAATTTTCCTAGGA-T
1 TTACCAAAATTT-CTAAGACT
* *
23300200 CTACCAAAATATCTAACGA-T
1 TTACCAAAATTTCTAA-GACT
* *
23300220 TTA-TAAGAATTTCTAACAAC-
1 TTACCAA-AATTTCTAA-GACT
*
23300240 TTACCAATATTTCTAAG
1 TTACCAAAATTTCTAAG
23300257 CATATATCGA
Statistics
Matches: 108, Mismatches: 17, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
19 22 0.20
20 80 0.74
21 6 0.06
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.36
Consensus pattern (20 bp):
TTACCAAAATTTCTAAGACT
Found at i:23300148 original size:40 final size:38
Alignment explanation
Indices: 23300101--23300235 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 38
23300091 GTCTTACCAA
*
23300101 TTACCAAAATTTCTATAATTTTACCAAAATATTTAACGAT
1 TTACCAAAATTTCTA-AA-TTTACCAAAATATCTAACGAT
*
23300141 TTACCAAAATTTCTAAGACTTTACCCAAATATCTAA--ACT
1 TTACCAAAATTTCTAA-A-TTTACCAAAATATCTAACGA-T
* * *
23300180 TTACCAAATTTTCCTAGGATCTACCAAAATATCTAACGAT
1 TTACCAAAATTT-CTA-AATTTACCAAAATATCTAACGAT
*
23300220 TTA-TAAGAATTTCTAA
1 TTACCAA-AATTTCTAA
23300236 CAACTTACCA
Statistics
Matches: 78, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
38 1 0.01
39 33 0.42
40 43 0.55
41 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.36
Consensus pattern (38 bp):
TTACCAAAATTTCTAAATTTACCAAAATATCTAACGAT
Found at i:23300293 original size:20 final size:20
Alignment explanation
Indices: 23300248--23300295 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
23300238 ACTTACCAAT
*
23300248 ATTTCTAAGCATATATCGAA
1 ATTTCTAAGCATATACCGAA
** *
23300268 GCTTCTAAGCCTATACCGAA
1 ATTTCTAAGCATATACCGAA
23300288 ATTTCTAA
1 ATTTCTAA
23300296 AATTTCTCTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.33
Consensus pattern (20 bp):
ATTTCTAAGCATATACCGAA
Found at i:23300388 original size:20 final size:20
Alignment explanation
Indices: 23300326--23300395 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
23300316 GTCTTAAAAA
* *
23300326 TTACTAAAATTTCTAAGACT
1 TTACCAAAATTTCTAACACT
* * * *
23300346 TCACCAATATTTGTAATTA-T
1 TTACCAAAATTTCTAA-CACT
23300366 TTACCAAAATTTCTAACACT
1 TTACCAAAATTTCTAACACT
23300386 TTACCAAAAT
1 TTACCAAAAT
23300396 ATTTAAGATT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 1 0.03
20 37 0.95
21 1 0.03
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.39
Consensus pattern (20 bp):
TTACCAAAATTTCTAACACT
Found at i:23300422 original size:29 final size:29
Alignment explanation
Indices: 23300390--23300459 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
23300380 AACACTTTAC
* * *
23300390 CAAAATATTTAAGATTTTACAAATATTTT
1 CAAAATATCTAAAAGTTTACAAATATTTT
23300419 CAAAATATCTAAAAGTTTACAAATATTTT
1 CAAAATATCTAAAAGTTTACAAATATTTT
*
23300448 CAAAATTTCTAA
1 CAAAATATCTAA
23300460 GCACATACCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (29 bp):
CAAAATATCTAAAAGTTTACAAATATTTT
Found at i:23308615 original size:24 final size:26
Alignment explanation
Indices: 23308585--23308638 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
23308575 AAGTTCAAGC
*
23308585 GAGCCATAT-T-GGGAAGCTCATGAA
1 GAGCCATATATCGGGAAGCTCATAAA
*
23308609 GAGCCATATATCGGGACGCTCATAAA
1 GAGCCATATATCGGGAAGCTCATAAA
23308635 GAGC
1 GAGC
23308639 TGCGGTATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 9 0.35
25 1 0.04
26 16 0.62
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (26 bp):
GAGCCATATATCGGGAAGCTCATAAA
Found at i:23308726 original size:64 final size:64
Alignment explanation
Indices: 23308613--23308737 Score: 169
Period size: 64 Copynumber: 2.0 Consensus size: 64
23308603 CATGAAGAGC
* * * * * * *
23308613 CATATATCGGGACGCTCATAAAGAGCTGCGGTATGTCCGCAATATATGCAGGATCAATACCGAT
1 CATATAACAGGACACTCACAAAGAGCTGCGGTATGTCCACAACACATGCAGGATCAATACCGAT
* *
23308677 CATATAACAGGACACTCACAAAGAGCTGCGGTATGTCTACAACACATGCAGGATTAATACC
1 CATATAACAGGACACTCACAAAGAGCTGCGGTATGTCCACAACACATGCAGGATCAATACC
23308738 AATTGGGATG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (64 bp):
CATATAACAGGACACTCACAAAGAGCTGCGGTATGTCCACAACACATGCAGGATCAATACCGAT
Found at i:23310413 original size:14 final size:14
Alignment explanation
Indices: 23310394--23310421 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23310384 CTTATATACT
23310394 AAATAAAATAATAA
1 AAATAAAATAATAA
23310408 AAATAAAATAATAA
1 AAATAAAATAATAA
23310422 TAAAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAAATAATAA
Found at i:23312672 original size:51 final size:51
Alignment explanation
Indices: 23312607--23312704 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
23312597 TACCATCCAT
*
23312607 AAACACACCTAGGCACTGAGTG-TCAAGCCCGTAGGCTTCACATCCCTATAG
1 AAACAAACCTAGGCACTGAGTGCT-AAGCCCGTAGGCTTCACATCCCTATAG
* *
23312658 AAACAAACCTAGGCAGTGAGTGCTAAGCCTGTAGGCTTCACATCCCT
1 AAACAAACCTAGGCACTGAGTGCTAAGCCCGTAGGCTTCACATCCCT
23312705 CCAGAACACA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (51 bp):
AAACAAACCTAGGCACTGAGTGCTAAGCCCGTAGGCTTCACATCCCTATAG
Found at i:23317260 original size:37 final size:38
Alignment explanation
Indices: 23317218--23317294 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
23317208 CATCTATCAT
* *
23317218 TTGTTGTAAATTCTT-AGGTTA-TTAACGAGATCTCGCC
1 TTGTTGGAAATT-TTCAGGTTATTTAACGAGATCTAGCC
*
23317255 TTGTTGGAGATTTTCAGGTTATTTAACGAGATCTAGCC
1 TTGTTGGAAATTTTCAGGTTATTTAACGAGATCTAGCC
23317293 TT
1 TT
23317295 TTTTCTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 2 0.06
37 16 0.46
38 17 0.49
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (38 bp):
TTGTTGGAAATTTTCAGGTTATTTAACGAGATCTAGCC
Found at i:23318559 original size:14 final size:14
Alignment explanation
Indices: 23318540--23318569 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
23318530 ATAATGAGTG
23318540 TTAAACACACATAA
1 TTAAACACACATAA
23318554 TTAAACACACATAA
1 TTAAACACACATAA
23318568 TT
1 TT
23318570 GCATGTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (14 bp):
TTAAACACACATAA
Found at i:23325130 original size:28 final size:28
Alignment explanation
Indices: 23325091--23325166 Score: 80
Period size: 34 Copynumber: 2.5 Consensus size: 28
23325081 AAAAAAGAAA
* *
23325091 AAGAAGAGGAAAAAGAAAAGGGAAGGGG
1 AAGAAGAAGAAAAAGAAAAGAGAAGGGG
23325119 AAGAAGAAGAAAACAAAAAAGAAAAGAGAAGGGG
1 AAGAAGAAG------AAAAAGAAAAGAGAAGGGG
23325153 AAGAAGAAGAAAAA
1 AAGAAGAAGAAAAA
23325167 CTTAAAGAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
28 13 0.32
34 27 0.68
ACGTcount: A:0.66, C:0.01, G:0.33, T:0.00
Consensus pattern (28 bp):
AAGAAGAAGAAAAAGAAAAGAGAAGGGG
Found at i:23325185 original size:37 final size:34
Alignment explanation
Indices: 23325100--23325165 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
23325090 AAAGAAGAGG
*
23325100 AAAAAGAAAAGGGAAGGGGAAGAAGAAGAAAACA
1 AAAAAGAAAAGAGAAGGGGAAGAAGAAGAAAACA
23325134 AAAAAGAAAAGAGAAGGGGAAGAAGAAGAAAA
1 AAAAAGAAAAGAGAAGGGGAAGAAGAAGAAAA
23325166 ACTTAAAGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.67, C:0.02, G:0.32, T:0.00
Consensus pattern (34 bp):
AAAAAGAAAAGAGAAGGGGAAGAAGAAGAAAACA
Found at i:23336437 original size:21 final size:21
Alignment explanation
Indices: 23336411--23336450 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23336401 GTGTGAAAAG
*
23336411 AGGCACACGATTGTGTGACTA
1 AGGCACACGACTGTGTGACTA
*
23336432 AGGCACACGCCTGTGTGAC
1 AGGCACACGACTGTGTGAC
23336451 CTAGGGACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.20
Consensus pattern (21 bp):
AGGCACACGACTGTGTGACTA
Found at i:23340290 original size:85 final size:83
Alignment explanation
Indices: 23340112--23340265 Score: 218
Period size: 85 Copynumber: 1.8 Consensus size: 83
23340102 GGCCCACATG
* * * * * *
23340112 GCCTGACACACGGTCAATACACGCTCGTGTGGCCTACACGCCCAACTAGCCCAGACCGTGTGTCT
1 GCCTGGCACACGGTCAACACAAGCTCGTGTGGCCCACACGCCCAACTAGCCCAGACCCTATGTCT
23340177 CACACAGTCCAACACACA
66 CACACAGTCCAACACACA
**
23340195 GCCTGGCACACGGTCACACACAAGCTCGTGTGGCCCACACGACCCAACTAGCTTAGACCCTATGT
1 GCCTGGCACACGGTCA-ACACAAGCTCGTGTGGCCCACACG-CCCAACTAGCCCAGACCCTATGT
23340260 CTCACA
64 CTCACA
23340266 TGCTCTAACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 15 0.25
84 21 0.34
85 25 0.41
ACGTcount: A:0.26, C:0.38, G:0.19, T:0.16
Consensus pattern (83 bp):
GCCTGGCACACGGTCAACACAAGCTCGTGTGGCCCACACGCCCAACTAGCCCAGACCCTATGTCT
CACACAGTCCAACACACA
Found at i:23340890 original size:17 final size:17
Alignment explanation
Indices: 23340868--23340900 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23340858 ACAGATAAAG
23340868 AATGGGGTGTAAGGGAA
1 AATGGGGTGTAAGGGAA
23340885 AATGGGGTGTAAGGGA
1 AATGGGGTGTAAGGGA
23340901 GAATCGTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.48, T:0.18
Consensus pattern (17 bp):
AATGGGGTGTAAGGGAA
Found at i:23341620 original size:12 final size:13
Alignment explanation
Indices: 23341595--23341623 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
23341585 TAGTTAGTAG
23341595 ATTTAGGATTTTA
1 ATTTAGGATTTTA
23341608 ATTTAGG-TTTTA
1 ATTTAGGATTTTA
23341620 ATTT
1 ATTT
23341624 TTTCTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (13 bp):
ATTTAGGATTTTA
Found at i:23354595 original size:12 final size:12
Alignment explanation
Indices: 23354562--23354600 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
23354552 AAAAATCCAT
23354562 AAAAGTTATAAA
1 AAAAGTTATAAA
*
23354574 CAAAATTTATAAA
1 -AAAAGTTATAAA
23354587 AAAAGTTATAAA
1 AAAAGTTATAAA
23354599 AA
1 AA
23354601 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (12 bp):
AAAAGTTATAAA
Found at i:23357934 original size:17 final size:19
Alignment explanation
Indices: 23357909--23357949 Score: 50
Period size: 17 Copynumber: 2.2 Consensus size: 19
23357899 CTTTATTTCT
23357909 TTTTCTTTTA-ATAC-TTA
1 TTTTCTTTTATATACTTTA
*
23357926 TTTTGTTTTATTATACTTTA
1 TTTTCTTTTA-TATACTTTA
23357946 TTTT
1 TTTT
23357950 ATTATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTCTTTTATATACTTTA
Found at i:23358412 original size:48 final size:46
Alignment explanation
Indices: 23358322--23358421 Score: 166
Period size: 48 Copynumber: 2.2 Consensus size: 46
23358312 CAAGATGCAA
*
23358322 AATTTTTACAGGAAGTTTATTATTTAATGTTTCATATGTGATTATT
1 AATTTTTACAGGAAGTTTATTATTTAATGTTTCATATCTGATTATT
23358368 AATTTTTACAGGAAGTTTATTTTATTTAATGTTTCATATCTGATTATT
1 AATTTTTACAGGAAGTTTA--TTATTTAATGTTTCATATCTGATTATT
23358416 -ATTTTT
1 AATTTTT
23358422 CATTCTTCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
46 19 0.37
47 6 0.12
48 26 0.51
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (46 bp):
AATTTTTACAGGAAGTTTATTATTTAATGTTTCATATCTGATTATT
Found at i:23372601 original size:57 final size:57
Alignment explanation
Indices: 23372538--23372699 Score: 200
Period size: 57 Copynumber: 2.8 Consensus size: 57
23372528 TTTTTCAGGT
* *
23372538 TATTTTCATTTTCATTTTGGAGAAAACCACATTTATTTTCAAATGATT-CAATTTCTC
1 TATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTTCAAATGATTCCAATTT-TC
* * * * *
23372595 TATTTTCATTTTTATTTTGGTGAAAATCATAATCATTTTCAAATGATTCCAATTTTT
1 TATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTTCAAATGATTCCAATTTTC
* * * * *
23372652 TATTTTTATTTTCATTTTGAAGAAAATCATAATCATTTCCAAATGATT
1 TATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTTCAAATGATT
23372700 TCTCATTTCT
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
57 86 0.93
58 6 0.07
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.49
Consensus pattern (57 bp):
TATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTTCAAATGATTCCAATTTTC
Found at i:23378053 original size:27 final size:27
Alignment explanation
Indices: 23378015--23378072 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 27
23378005 GAGTTAATAA
23378015 AATTCTCTTTGAGTTTTTCTTTTA-AAG
1 AATTCTCTTTGAG-TTTTCTTTTAGAAG
23378042 AATTC-CTCTTGAGTTTTCTTTTAGAAG
1 AATTCTCT-TTGAGTTTTCTTTTAGAAG
23378069 AATT
1 AATT
23378073 TTAATAATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (27 bp):
AATTCTCTTTGAGTTTTCTTTTAGAAG
Found at i:23379799 original size:208 final size:208
Alignment explanation
Indices: 23379182--23379801 Score: 981
Period size: 208 Copynumber: 3.0 Consensus size: 208
23379172 TTGTTATCAT
* * *
23379182 TTTAA-TTCATTATATTATATTTCATCATCTTAATCATTTAAGCATAATAATATATCATAACTTC
1 TTTAAGTTCGTTATATTACATTTCACCATCTTAATCATTTAAGCATAATAATATATCATAACTTC
* *
23379246 AAAATTTCTAATACCCACATAAATGCTACAAGTAGTCTTAATAACTTAATTTAACCCATTTTTGT
66 AAAATTTCTAATACCCACATAAATGCTACAATTAGTCTTAATAACTTAATTTAACCCATTTTCGT
*
23379311 TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACCTTTACTGAGTTTTGCCTCATTTTATC
131 TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACCTTTACTGAGTTTTGTCTCATTTTATC
* * *
23379376 AACAAAAACAATA
196 AACAAAAGCCACA
* * * * *
23379389 TTTCAGTTCGTTATATTACATTTCACTATCTTAACCATTTAAGCATGATAATATATCCTAACTTC
1 TTTAAGTTCGTTATATTACATTTCACCATCTTAATCATTTAAGCATAATAATATATCATAACTTC
*
23379454 CAAATTTCTAATACCCACATAAATGCTACAATTAGTCTTAATAACTTAATTTAACCCATTTTCGT
66 AAAATTTCTAATACCCACATAAATGCTACAATTAGTCTTAATAACTTAATTTAACCCATTTTCGT
* *
23379519 TATTTCATAAGATTAAGCCACATAGAGTAAATATGCACCTTTACTGAGTTTTGTCTCATTTTATC
131 TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACCTTTACTGAGTTTTGTCTCATTTTATC
23379584 AACAAAAGCCACA
196 AACAAAAGCCACA
* * * *
23379597 TTTAAGTTCGTTATATTACGTTTTACCATCTTAATAATTTAAACATAATAATATATCATAACTTC
1 TTTAAGTTCGTTATATTACATTTCACCATCTTAATCATTTAAGCATAATAATATATCATAACTTC
* * * * *
23379662 AAAATTTCTAATATCCGCATAAATGCTACATTTAGTCTTAATAACTTAATTTAACCAATTTTCCT
66 AAAATTTCTAATACCCACATAAATGCTACAATTAGTCTTAATAACTTAATTTAACCCATTTTCGT
* *
23379727 TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACATTTATTGAGTTTTGTCTCATTTTATC
131 TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACCTTTACTGAGTTTTGTCTCATTTTATC
23379792 AACAAAAGCC
196 AACAAAAGCC
23379802 TTATTGTTCA
Statistics
Matches: 376, Mismatches: 36, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
207 4 0.01
208 372 0.99
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.39
Consensus pattern (208 bp):
TTTAAGTTCGTTATATTACATTTCACCATCTTAATCATTTAAGCATAATAATATATCATAACTTC
AAAATTTCTAATACCCACATAAATGCTACAATTAGTCTTAATAACTTAATTTAACCCATTTTCGT
TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACCTTTACTGAGTTTTGTCTCATTTTATC
AACAAAAGCCACA
Found at i:23380098 original size:84 final size:84
Alignment explanation
Indices: 23379984--23380145 Score: 306
Period size: 84 Copynumber: 1.9 Consensus size: 84
23379974 AGCTTTTAGG
*
23379984 TTTTTCTCTTAAATATGCAATAAATATCAATAATAAATGCTCAACTACTTAATAAACATGAATAC
1 TTTTTCTCTTAAATATACAATAAATATCAATAATAAATGCTCAACTACTTAATAAACATGAATAC
23380049 CTTAAATAAATATTTCAGA
66 CTTAAATAAATATTTCAGA
*
23380068 TTTTTCTCTTAAATATACAATAAATGTCAATAATAAATGCTCAACTACTTAATAAACATGAATAC
1 TTTTTCTCTTAAATATACAATAAATATCAATAATAAATGCTCAACTACTTAATAAACATGAATAC
23380133 CTTAAATAAATAT
66 CTTAAATAAATAT
23380146 GATGAGATGA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 76 1.00
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (84 bp):
TTTTTCTCTTAAATATACAATAAATATCAATAATAAATGCTCAACTACTTAATAAACATGAATAC
CTTAAATAAATATTTCAGA
Found at i:23380572 original size:28 final size:28
Alignment explanation
Indices: 23380540--23380596 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
23380530 AAATTTGAAG
23380540 AAAAAATCTAAAGAATATGGAATTAGTT
1 AAAAAATCTAAAGAATATGGAATTAGTT
23380568 AAAAAATCTAAAGAATATGGAATTAGTT
1 AAAAAATCTAAAGAATATGGAATTAGTT
23380596 A
1 A
23380597 TATTGTAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.54, C:0.04, G:0.14, T:0.28
Consensus pattern (28 bp):
AAAAAATCTAAAGAATATGGAATTAGTT
Found at i:23384665 original size:35 final size:35
Alignment explanation
Indices: 23384618--23384737 Score: 141
Period size: 35 Copynumber: 3.4 Consensus size: 35
23384608 TTTTGTTTGA
* *
23384618 CGTGTTTTGGTTGGATTAGCTCTTGTGAGCATTGG
1 CGTGTTATGGTTGGATTAGCTCTTATGAGCATTGG
* * * * *
23384653 CGTGTTACGGTTGGACTAGTTCTTATAAGCACTGG
1 CGTGTTATGGTTGGATTAGCTCTTATGAGCATTGG
* * * *
23384688 CATGTTTTGATTGGATTAGCTCTTATGAGCATCGG
1 CGTGTTATGGTTGGATTAGCTCTTATGAGCATTGG
23384723 CGTGTTATGGTTGGA
1 CGTGTTATGGTTGGA
23384738 CTGAAAACGT
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.17, C:0.13, G:0.31, T:0.39
Consensus pattern (35 bp):
CGTGTTATGGTTGGATTAGCTCTTATGAGCATTGG
Found at i:23386526 original size:21 final size:20
Alignment explanation
Indices: 23386502--23386571 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
23386492 AACATAAATA
* *
23386502 AATTTTCTAAAAGTTTTTATG
1 AATTTTTTAAAA-TTTTTTTG
*
23386523 AATTTGTTTACAATTTTTTTG
1 AATTT-TTTAAAATTTTTTTG
23386544 -ATTTTTTAAAATATTTTTTTG
1 AATTTTTT-AAA-ATTTTTTTG
23386565 AATTTTT
1 AATTTTT
23386572 ATGAATTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.07
20 6 0.15
21 21 0.51
22 11 0.27
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.61
Consensus pattern (20 bp):
AATTTTTTAAAATTTTTTTG
Found at i:23386560 original size:19 final size:20
Alignment explanation
Indices: 23386524--23386561 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
23386514 GTTTTTATGA
* *
23386524 ATTTGTTTACAATTTTTTTG
1 ATTTGTTTAAAATATTTTTG
23386544 ATTT-TTTAAAATATTTTT
1 ATTTGTTTAAAATATTTTT
23386562 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (20 bp):
ATTTGTTTAAAATATTTTTG
Found at i:23400382 original size:45 final size:45
Alignment explanation
Indices: 23400333--23400567 Score: 296
Period size: 45 Copynumber: 5.3 Consensus size: 45
23400323 TCTTATGGGC
* * *
23400333 ATGGTCTTATTTATTTTCGACAT-GATGCCATAGTGTCTTTCAACT
1 ATGGTCTTATTCATTTCCGATATAG-TGCCATAGTGTCTTTCAACT
* *
23400378 ATGGTCTTATTCATTTCCGGTATAGTGTCATAGTGTCTTTCAACT
1 ATGGTCTTATTCATTTCCGATATAGTGCCATAGTGTCTTTCAACT
* ** * *
23400423 ATGGTCTTATTCTTTTTTGTTATAGTGCCATAGTGTCTTTCTACT
1 ATGGTCTTATTCATTTCCGATATAGTGCCATAGTGTCTTTCAACT
* * *
23400468 ATGGTC-T-TTCATTTCCGGTATAGTGTCATATTGTCTTTCAACT
1 ATGGTCTTATTCATTTCCGATATAGTGCCATAGTGTCTTTCAACT
* * *
23400511 ATGGTCTTATTCATTTCCGGTACAGTGCCATAGTGTCTTTCAAAT
1 ATGGTCTTATTCATTTCCGATATAGTGCCATAGTGTCTTTCAACT
23400556 ATGGTCTTATTC
1 ATGGTCTTATTC
23400568 GTTTTTCAAG
Statistics
Matches: 165, Mismatches: 22, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
43 35 0.21
44 2 0.01
45 127 0.77
46 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.17, T:0.46
Consensus pattern (45 bp):
ATGGTCTTATTCATTTCCGATATAGTGCCATAGTGTCTTTCAACT
Found at i:23400513 original size:88 final size:88
Alignment explanation
Indices: 23400333--23400563 Score: 322
Period size: 88 Copynumber: 2.6 Consensus size: 88
23400323 TCTTATGGGC
* *
23400333 ATGGTCTTATTTATTTTC-G-ACATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCC
1 ATGGTCTTATTCATTTCCGGTACA-G-TGCCATAGTGTCTTTCAACTATGGTC-T-TTCATTTCC
23400396 GGTATAGTGTCATAGTGTCTTTCAACT
62 GGTATAGTGTCATAGTGTCTTTCAACT
* ** * * *
23400423 ATGGTCTTATTCTTTTTTGTTATAGTGCCATAGTGTCTTTCTACTATGGTCTTTCATTTCCGGTA
1 ATGGTCTTATTCATTTCCGGTACAGTGCCATAGTGTCTTTCAACTATGGTCTTTCATTTCCGGTA
*
23400488 TAGTGTCATATTGTCTTTCAACT
66 TAGTGTCATAGTGTCTTTCAACT
*
23400511 ATGGTCTTATTCATTTCCGGTACAGTGCCATAGTGTCTTTCAAATATGGTCTT
1 ATGGTCTTATTCATTTCCGGTACAGTGCCATAGTGTCTTTCAACTATGGTCTT
23400564 ATTCGTTTTT
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
88 81 0.65
89 1 0.01
90 40 0.32
91 1 0.01
92 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.46
Consensus pattern (88 bp):
ATGGTCTTATTCATTTCCGGTACAGTGCCATAGTGTCTTTCAACTATGGTCTTTCATTTCCGGTA
TAGTGTCATAGTGTCTTTCAACT
Found at i:23403658 original size:52 final size:52
Alignment explanation
Indices: 23403578--23403682 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
23403568 AGAAAATTCA
23403578 TAGCCTTGAATTTTTAATGAATACTGTTTACAAACCAGATAAACTATAATAC
1 TAGCCTTGAATTTTTAATGAATACTGTTTACAAACCAGATAAACTATAATAC
*
23403630 TAGCCTTGAATTTTTAATGAATATTGTTTACAAACCAGATAAACTATAATAC
1 TAGCCTTGAATTTTTAATGAATACTGTTTACAAACCAGATAAACTATAATAC
23403682 T
1 T
23403683 TTGGCCTAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (52 bp):
TAGCCTTGAATTTTTAATGAATACTGTTTACAAACCAGATAAACTATAATAC
Found at i:23405794 original size:35 final size:35
Alignment explanation
Indices: 23405743--23405890 Score: 188
Period size: 35 Copynumber: 4.2 Consensus size: 35
23405733 TGGTGCATTT
23405743 CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
1 CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
* * * *
23405778 AGGTTGTATTAACTCTTATGAGCATTGGCGTATTA
1 CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
* * * * * *
23405813 CGATTGGACTAGCTCTTATAAGCACTGACGTGTTT
1 CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
*
23405848 CGGTTGGATTAGCTCTTATGAGCATTAGCGTGTTA
1 CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
*
23405883 TGGTTGGA
1 CGGTTGGA
23405891 CTAACAATGT
Statistics
Matches: 91, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 91 1.00
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.37
Consensus pattern (35 bp):
CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
Found at i:23413339 original size:35 final size:35
Alignment explanation
Indices: 23413275--23413470 Score: 187
Period size: 35 Copynumber: 5.6 Consensus size: 35
23413265 TACTCTCTGT
* * * *
23413275 TTGGCGTGTTTCGGTTAGATTAGCTCTTATGAGCA
1 TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
* *
23413310 TTGGTGTGTTACGATTGGACTAAG-CCTTATGAGCA
1 TTGGCGTGTTACGGTTGGACT-AGCCCTTATGAGCA
23413345 TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
1 TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
* * * *
23413380 TTTGCATGGTACGGTTGGACTAGCCCTTATGAACA
1 TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
** * * * * **
23413415 TTGGAATATTTCGGTTAGATTAGCTGTTATGAGCA
1 TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
* * *
23413450 TCGACGTGTTATGGTTGGACT
1 TTGGCGTGTTACGGTTGGACT
23413471 GATGATGTAC
Statistics
Matches: 128, Mismatches: 31, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
34 2 0.02
35 124 0.97
36 2 0.02
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.36
Consensus pattern (35 bp):
TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
Found at i:23414532 original size:6 final size:6
Alignment explanation
Indices: 23414501--23414549 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
23414491 CCAAACACAC
* *
23414501 CAGTAAA CAGTAA TCAGTAA CGGTAA CAGTAA CAGTAA AAGTAA CAGTA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
23414550 TTCAACACAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
6 27 0.73
7 10 0.27
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.18
Consensus pattern (6 bp):
CAGTAA
Found at i:23414580 original size:45 final size:46
Alignment explanation
Indices: 23414529--23414635 Score: 155
Period size: 46 Copynumber: 2.3 Consensus size: 46
23414519 AACGGTAACA
* *
23414529 GTAACAGTAAAAGTAACAGTA-TTCAACACACAAAGTGCTGAATCT-
1 GTAACAGTAACAGTAACAGTATTTCAACACACAAAGTGCCGAAT-TG
* *
23414574 GTAACAGTAACGGTAACAGTATTTCGACACACAAAGTGCCGAATTG
1 GTAACAGTAACAGTAACAGTATTTCAACACACAAAGTGCCGAATTG
23414620 GTAACAGTAACAGTAA
1 GTAACAGTAACAGTAA
23414636 TCGGCACATA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 20 0.36
46 35 0.64
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (46 bp):
GTAACAGTAACAGTAACAGTATTTCAACACACAAAGTGCCGAATTG
Found at i:23418879 original size:15 final size:15
Alignment explanation
Indices: 23418859--23418890 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23418849 CATTTCACTA
*
23418859 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
23418874 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
23418889 TT
1 TT
23418891 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:23418955 original size:17 final size:17
Alignment explanation
Indices: 23418914--23418949 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
23418904 AAATTATAGA
*
23418914 TAAATTTAATTTAATAT
1 TAAATTAAATTTAATAT
23418931 TAAATTAAATTTAATAT
1 TAAATTAAATTTAATAT
23418948 TA
1 TA
23418950 TCTTAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATTAAATTTAATAT
Found at i:23420012 original size:183 final size:183
Alignment explanation
Indices: 23419704--23420067 Score: 629
Period size: 183 Copynumber: 2.0 Consensus size: 183
23419694 AAGTAATAAG
*
23419704 TAAGTAAAAGAGTTATCGTCTCCACAGGGATTGTATCAGTTAATCAAATAATTGCAAAATTATGA
1 TAAGTAAAAGAGTTATCGTCTCCACAGGGATTATATCAGTTAATCAAATAATTGCAAAATTATGA
* *
23419769 ATTTACAAGTTGGTAAAGAAAACACAAAAATTTTGAAGTGATAGATGTTAAAATTAAATTAATTA
66 ATTTACAAGCTGGTAAAGAAAACACAAAAATTTTGAAGTGATAGATGCTAAAATTAAATTAATTA
*
23419834 ACTAGATCCAAATTAACCTAAATGCAAATGAGATGAAATAAAATGTAGGGTAA
131 ACTAGATCCAAAGTAACCTAAATGCAAATGAGATGAAATAAAATGTAGGGTAA
* * * *
23419887 TAAGTAAAAGAGTTATTGTCTCCACATGGATTATATCTGTTAATCAAATAATTTCAAAATTATGA
1 TAAGTAAAAGAGTTATCGTCTCCACAGGGATTATATCAGTTAATCAAATAATTGCAAAATTATGA
* *
23419952 ATTTACAAGCTGGTAAAGAAAACACAACAATTTTGAATTGATAGATGCTAAAATTAAATTAATTA
66 ATTTACAAGCTGGTAAAGAAAACACAAAAATTTTGAAGTGATAGATGCTAAAATTAAATTAATTA
*
23420017 ACTAGATGCAAAGTAACCTAAATGCAAATGAGATGAAATAAAATGTAGGGT
131 ACTAGATCCAAAGTAACCTAAATGCAAATGAGATGAAATAAAATGTAGGGT
23420068 GATGGTTTAG
Statistics
Matches: 170, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
183 170 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (183 bp):
TAAGTAAAAGAGTTATCGTCTCCACAGGGATTATATCAGTTAATCAAATAATTGCAAAATTATGA
ATTTACAAGCTGGTAAAGAAAACACAAAAATTTTGAAGTGATAGATGCTAAAATTAAATTAATTA
ACTAGATCCAAAGTAACCTAAATGCAAATGAGATGAAATAAAATGTAGGGTAA
Found at i:23431269 original size:21 final size:21
Alignment explanation
Indices: 23431238--23431279 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
23431228 ACTAAATCAG
*
23431238 AAACATATGAAATTTTTTGAAA
1 AAACATATGAAA-ATTTTGAAA
23431260 AAACA-ATGAAAATTTTGAAA
1 AAACATATGAAAATTTTGAAA
23431280 CTGCAGGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 6 0.32
22 5 0.26
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (21 bp):
AAACATATGAAAATTTTGAAA
Found at i:23457487 original size:25 final size:25
Alignment explanation
Indices: 23457454--23457504 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
23457444 TAAGGAATGA
* *
23457454 AGAATAATGAAAGGGAAATGAAGAG
1 AGAAAAATGAAAGAGAAATGAAGAG
* *
23457479 AGAAAAATGAGAGAGAAGTGAAGAG
1 AGAAAAATGAAAGAGAAATGAAGAG
23457504 A
1 A
23457505 TGAGAAGAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.33, T:0.10
Consensus pattern (25 bp):
AGAAAAATGAAAGAGAAATGAAGAG
Found at i:23464503 original size:11 final size:12
Alignment explanation
Indices: 23464485--23464514 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
23464475 GACCCATCAT
23464485 TCTTTTTTTTTC
1 TCTTTTTTTTTC
23464497 T-TTTTTTTTTC
1 TCTTTTTTTTTC
23464508 TCTTTTT
1 TCTTTTT
23464515 ACTTCTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TCTTTTTTTTTC
Found at i:23466233 original size:12 final size:12
Alignment explanation
Indices: 23466218--23466265 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
23466208 ACTAATTAGT
23466218 TTAATATTATTA
1 TTAATATTATTA
*
23466230 TTAAT-TTATTG
1 TTAATATTATTA
*
23466241 TTATTATTATTA
1 TTAATATTATTA
* *
23466253 ATACTATTATTA
1 TTAATATTATTA
23466265 T
1 T
23466266 AATTTGTACT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (12 bp):
TTAATATTATTA
Found at i:23466264 original size:18 final size:18
Alignment explanation
Indices: 23466222--23466287 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
23466212 ATTAGTTTAA
* *
23466222 TATTATTATTAATTTATTGT
1 TATTATTATTAA--TACTAT
23466242 TATTATTATTAATACTAT
1 TATTATTATTAATACTAT
* **
23466260 TATTATAATTTGTACTAT
1 TATTATTATTAATACTAT
*
23466278 TATTTTTATT
1 TATTATTATT
23466288 TTTTTTTCTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 27 0.69
20 12 0.31
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (18 bp):
TATTATTATTAATACTAT
Found at i:23468321 original size:47 final size:47
Alignment explanation
Indices: 23468252--23468346 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
23468242 ATTTATAGAG
* * *
23468252 ATAAAATTTAGAATTCTAATTCTAATAGACGTCAAAATGCTAAAACT
1 ATAAAATATAGAATTCTAATTCTAATAGACATCAAAATACTAAAACT
*
23468299 ATAAAATATAGAATTCTAATTCTAATAGGCATCAAAATACTAAAACT
1 ATAAAATATAGAATTCTAATTCTAATAGACATCAAAATACTAAAACT
23468346 A
1 A
23468347 GAATTTTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (47 bp):
ATAAAATATAGAATTCTAATTCTAATAGACATCAAAATACTAAAACT
Found at i:23477199 original size:16 final size:16
Alignment explanation
Indices: 23477178--23477208 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
23477168 ATCTGAATAA
23477178 GAAAATTTGAAGTTTC
1 GAAAATTTGAAGTTTC
23477194 GAAAATTTGAAGTTT
1 GAAAATTTGAAGTTT
23477209 AGTTATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (16 bp):
GAAAATTTGAAGTTTC
Found at i:23477345 original size:17 final size:17
Alignment explanation
Indices: 23477275--23477353 Score: 63
Period size: 17 Copynumber: 4.6 Consensus size: 17
23477265 TAATCAAACC
* *
23477275 TTGAACTTAATCATGTT
1 TTGAACTTAAGCATATT
* *
23477292 TTAAACTTTAAG-AAATT
1 TTGAAC-TTAAGCATATT
**
23477309 TTGGGCTTAAGCGA-ATTT
1 TTGAACTTAAGC-ATA-TT
23477327 TTGAACTTAAGCATATT
1 TTGAACTTAAGCATATT
23477344 TTGAACTTAA
1 TTGAACTTAA
23477354 ACAAATTCTT
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
16 5 0.10
17 25 0.52
18 18 0.38
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (17 bp):
TTGAACTTAAGCATATT
Found at i:23477754 original size:124 final size:124
Alignment explanation
Indices: 23477529--23477841 Score: 394
Period size: 124 Copynumber: 2.5 Consensus size: 124
23477519 TTGACCCTAT
* * ** ** * * * * *
23477529 AAGCTTTTAGAATATCAATTGGGAGTGTAGGTTCGCTAACTATTTTTGGAGGTTGTGATCATGAA
1 AAGCTCTTAAAATATCAGCTGGGAGCATAGGTCCGCTAGCTTTTTTTGGAGGTTGCGATCATAAA
* *
23477594 CTGGTAAACCTTTATAACATCAGCTGGGAACCTAGGTCCACTAACTGTGTTGGAGCTAC
66 CTGGTAAACCTTTATAACATCAGCTGGGAACATAGGTCCACTAACTGTGTTGGAGATAC
* *
23477653 AAGCTCTTAAAATATCAGCTGGGAGCATAGGTCCGCTAG-TTGTTTTTGGAGGCTGCGACCATAA
1 AAGCTCTTAAAATATCAGCTGGGAGCATAGGTCCGCTAGCTT-TTTTTGGAGGTTGCGATCATAA
**
23477717 ACTGGTAAACCTTTATAACATCAGCTGGGAACATAGGTCCACTAGTTGTGTTGGAGATAC
65 ACTGGTAAACCTTTATAACATCAGCTGGGAACATAGGTCCACTAACTGTGTTGGAGATAC
* * * * * **
23477777 AAGCTTTTAGAATATTAGCTGGGAGCTTAGGTCTGCTAGCTTTTTTTAAAGGTTGCGATCATAAA
1 AAGCTCTTAAAATATCAGCTGGGAGCATAGGTCCGCTAGCTTTTTTTGGAGGTTGCGATCATAAA
23477842 TCGACAAACC
Statistics
Matches: 161, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
123 1 0.01
124 158 0.98
125 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (124 bp):
AAGCTCTTAAAATATCAGCTGGGAGCATAGGTCCGCTAGCTTTTTTTGGAGGTTGCGATCATAAA
CTGGTAAACCTTTATAACATCAGCTGGGAACATAGGTCCACTAACTGTGTTGGAGATAC
Found at i:23480754 original size:26 final size:26
Alignment explanation
Indices: 23480725--23480776 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
23480715 CGCATATGCT
23480725 CTTTTATAGATCTACTTTTCACTAAC
1 CTTTTATAGATCTACTTTTCACTAAC
23480751 CTTTTATAGATCTACTTTTCACTAAC
1 CTTTTATAGATCTACTTTTCACTAAC
23480777 ATTTCATCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.04, T:0.46
Consensus pattern (26 bp):
CTTTTATAGATCTACTTTTCACTAAC
Found at i:23483535 original size:21 final size:21
Alignment explanation
Indices: 23483503--23483544 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
23483493 ATTATATTAT
* *
23483503 AATAAAACAAAATAAATAAAG
1 AATAAAACAAAAGAAAGAAAG
23483524 AATAAATA-AAAAGAAAGAAAG
1 AATAAA-ACAAAAGAAAGAAAG
23483545 CTAGAAACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (21 bp):
AATAAAACAAAAGAAAGAAAG
Found at i:23484601 original size:39 final size:39
Alignment explanation
Indices: 23484479--23484603 Score: 112
Period size: 39 Copynumber: 3.2 Consensus size: 39
23484469 TGACTTCGAG
* * * *
23484479 TCGATGAGACACCAGGTGTTAATTTACTACTTTGGATTAAT
1 TCGATGAGACACTA-GTGTCAATTTATTACTTCGGATT-AT
* * * *
23484520 TCGATGAGGCACTGGGTGTCAA--T-TTACTTCGGTTTAA
1 TCGATGAGACACT-AGTGTCAATTTATTACTTCGGATTAT
* *
23484557 CCGATGAGACACTAGTGTCAATTTATTACTTCGAATTAT
1 TCGATGAGACACTAGTGTCAATTTATTACTTCGGATTAT
23484596 TCGATGAG
1 TCGATGAG
23484604 GTACTGGGTG
Statistics
Matches: 65, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
36 7 0.11
37 12 0.18
38 10 0.15
39 19 0.29
41 17 0.26
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (39 bp):
TCGATGAGACACTAGTGTCAATTTATTACTTCGGATTAT
Found at i:23488407 original size:5 final size:5
Alignment explanation
Indices: 23488393--23488490 Score: 189
Period size: 5 Copynumber: 19.8 Consensus size: 5
23488383 AATTATTAAG
23488393 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
23488442 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
23488491 ATAAAACAAA
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.04
5 89 0.96
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:23492055 original size:27 final size:27
Alignment explanation
Indices: 23492016--23492074 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
23492006 TTATTTGTGT
23492016 AGATCCAACCAGACCTCGTACGGAGTA
1 AGATCCAACCAGACCTCGTACGGAGTA
** *
23492043 AGATCCAGTCAGACCTCGTACGGAGTT
1 AGATCCAACCAGACCTCGTACGGAGTA
23492070 AGATC
1 AGATC
23492075 GAGGCAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.19
Consensus pattern (27 bp):
AGATCCAACCAGACCTCGTACGGAGTA
Done.