Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 28 of 109
Found at i:9242573 original size:68 final size:70
Alignment explanation
Indices: 9242482--9242619 Score: 185
Period size: 68 Copynumber: 2.0 Consensus size: 70
9242472 ATTTTAATAG
* * *
9242482 TTTAATATTCAATTTAATTTAATACTTATCTTA-ATAATATT-T-TATT-AATTTAATATTAAAG
1 TTTAATATTAAATTTAATTTAATACTTATC-AAGAT-ATATTATAGATTAAATTTAATATTAAAG
9242543 TGATTAT
64 TGATTAT
*
9242550 TTTAATATTAAATTTAATTTAATATTTATCAAGATATATTAATAGATTAAATTTAATATTAAAGT
1 TTTAATATTAAATTTAATTTAATACTTATCAAGATATATT-ATAGATTAAATTTAATATTAAAGT
9242615 GATTA
65 GATTA
9242620 AATTTAATCA
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
67 6 0.10
68 30 0.49
69 1 0.02
70 3 0.05
71 21 0.34
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (70 bp):
TTTAATATTAAATTTAATTTAATACTTATCAAGATATATTATAGATTAAATTTAATATTAAAGTG
ATTAT
Found at i:9242608 original size:20 final size:20
Alignment explanation
Indices: 9242585--9242627 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
9242575 TTATCAAGAT
9242585 ATATTAATA-GATTAAATTTA
1 ATATTAA-AGGATTAAATTTA
9242605 ATATTAAAGTGATTAAATTTA
1 ATATTAAAG-GATTAAATTTA
9242626 AT
1 AT
9242628 CATAATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.05
20 7 0.33
21 13 0.62
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
ATATTAAAGGATTAAATTTA
Found at i:9244792 original size:15 final size:16
Alignment explanation
Indices: 9244772--9244804 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9244762 TAAGTAAATA
9244772 AAATGGAA-AGTAAGT
1 AAATGGAATAGTAAGT
*
9244787 AAATGGAATGGTAAGT
1 AAATGGAATAGTAAGT
9244803 AA
1 AA
9244805 GTAAATAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.00, G:0.27, T:0.21
Consensus pattern (16 bp):
AAATGGAATAGTAAGT
Found at i:9244818 original size:20 final size:20
Alignment explanation
Indices: 9244762--9244818 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
9244752 AAGTTTATGC
* *
9244762 TAAGTAAATAAAATGGAAAG
1 TAAGTAAATAGAATGGTAAG
*
9244782 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATAGAATGGTAAG
*
9244802 TAAGTAAATAGAGTGGT
1 TAAGTAAATAGAATGGT
9244819 TCATAATCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (20 bp):
TAAGTAAATAGAATGGTAAG
Found at i:9251538 original size:18 final size:19
Alignment explanation
Indices: 9251517--9251555 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
9251507 AATAATTTTG
*
9251517 ATCAAGTAAATT-AAATTA
1 ATCAAATAAATTAAAATTA
*
9251535 ATCAAATCAATTAAAATTA
1 ATCAAATAAATTAAAATTA
9251554 AT
1 AT
9251556 ATTATGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:9255686 original size:53 final size:53
Alignment explanation
Indices: 9255606--9255710 Score: 192
Period size: 53 Copynumber: 2.0 Consensus size: 53
9255596 GGCATTTTTT
* *
9255606 AGGAGATTGAATGCATTGTTAGACAGTTCATATGGGGAAACTTTGGAGCGGGG
1 AGGAGATTGAACGCATTGTTAGACAGTTCATATAGGGAAACTTTGGAGCGGGG
9255659 AGGAGATTGAACGCATTGTTAGACAGTTCATATAGGGAAACTTTGGAGCGGG
1 AGGAGATTGAACGCATTGTTAGACAGTTCATATAGGGAAACTTTGGAGCGGG
9255711 TAATAAGCTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.30, C:0.10, G:0.34, T:0.26
Consensus pattern (53 bp):
AGGAGATTGAACGCATTGTTAGACAGTTCATATAGGGAAACTTTGGAGCGGGG
Found at i:9257857 original size:28 final size:28
Alignment explanation
Indices: 9257826--9257894 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
9257816 CAAAAGGTTT
9257826 AAATTGTAAACCCAAACA-TAAAATCATA
1 AAATTGTAAACCCAAACACT-AAATCATA
* ** *
9257854 AAATTGTAAGCCTTAACACTAAATCTTA
1 AAATTGTAAACCCAAACACTAAATCATA
*
9257882 AAATTTTAAACCC
1 AAATTGTAAACCC
9257895 TATTCAAGAG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (28 bp):
AAATTGTAAACCCAAACACTAAATCATA
Found at i:9260140 original size:120 final size:122
Alignment explanation
Indices: 9259923--9260197 Score: 466
Period size: 120 Copynumber: 2.3 Consensus size: 122
9259913 CACGAGGGCA
*
9259923 CGATTTTATACTATTTGCTCAGAAACGTAAAAAAAAAATATTTCTTACATGACCAACTGTAGCGA
1 CGATTTTATACTATTTGCTCAGAAACGT--CAAAAAAATATTTCTTACATGACCAACTGTAGCGA
*
9259988 AATCGCGTCCAGGAGGGCACAATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAG
64 AATCGCGTCCACGAGGGCACAATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAG
9260047 CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-A-TTCTTACATGACCAACTGTAGCGAAA
1 CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATATTTCTTACATGACCAACTGTAGCGAAA
* *
9260110 TCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATTCTGGTAGAAG
66 TCGCGTCCACGAGGGCACAATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAG
9260167 CGATTTTATACTATTTGAC-CAGAAACGTCAA
1 CGATTTTATACTATTTG-CTCAGAAACGTCAA
9260198 CTCGAAATAA
Statistics
Matches: 146, Mismatches: 4, Indels: 6
0.94 0.03 0.04
Matches are distributed among these distances:
120 109 0.75
121 2 0.01
122 7 0.05
124 28 0.19
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (122 bp):
CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATATTTCTTACATGACCAACTGTAGCGAAA
TCGCGTCCACGAGGGCACAATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAG
Found at i:9260278 original size:52 final size:52
Alignment explanation
Indices: 9260200--9260304 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
9260190 AACGTCAACT
**
9260200 CGAAATAATTTTTTTCGGGACCCCTAAACCCTAAAAAAGCCTGCACCCTAAA
1 CGAAATAATTTTTTTCGACACCCCTAAACCCTAAAAAAGCCTGCACCCTAAA
9260252 CGAAATAATTTTTTTCGACACCCCTAAACCCTAAAAAAGCCTGCACCCTAAA
1 CGAAATAATTTTTTTCGACACCCCTAAACCCTAAAAAAGCCTGCACCCTAAA
9260304 C
1 C
9260305 CCTAAAACCC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.37, C:0.30, G:0.10, T:0.23
Consensus pattern (52 bp):
CGAAATAATTTTTTTCGACACCCCTAAACCCTAAAAAAGCCTGCACCCTAAA
Found at i:9260528 original size:29 final size:28
Alignment explanation
Indices: 9260468--9260527 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
9260458 GATTTCGGGG
9260468 AAAATGGCCCATTCCGATAAATAATTAA
1 AAAATGGCCCATTCCGATAAATAATTAA
* * *
9260496 AAAATCGGCCTATTTCGATAAAT-TTTAA
1 AAAAT-GGCCCATTCCGATAAATAATTAA
9260524 AAAA
1 AAAA
9260528 AAGGGCTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (28 bp):
AAAATGGCCCATTCCGATAAATAATTAA
Found at i:9265293 original size:40 final size:40
Alignment explanation
Indices: 9265238--9265320 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
9265228 ATCCAGCAAA
9265238 ATGAGAAGTTATGGATGCAATAAGGTGCTGAGAAGAATGG
1 ATGAGAAGTTATGGATGCAATAAGGTGCTGAGAAGAATGG
9265278 ATGAGAAGTTATGGATGCAATAAGGTGCTGAGAAGAATGG
1 ATGAGAAGTTATGGATGCAATAAGGTGCTGAGAAGAATGG
9265318 ATG
1 ATG
9265321 CAAAATGAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.37, C:0.05, G:0.35, T:0.23
Consensus pattern (40 bp):
ATGAGAAGTTATGGATGCAATAAGGTGCTGAGAAGAATGG
Found at i:9265331 original size:20 final size:20
Alignment explanation
Indices: 9265306--9265373 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
9265296 AATAAGGTGC
9265306 TGAGAAGAATGGATGCAAAA
1 TGAGAAGAATGGATGCAAAA
* *
9265326 TGAGAAGTTAA--AATG-AAATTT
1 TGAGAAG--AATGGATGCAAA--A
9265347 TGAGAAGAATGGATGCAAAA
1 TGAGAAGAATGGATGCAAAA
9265367 TGAGAAG
1 TGAGAAG
9265374 TTAAAATGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
19 5 0.14
20 17 0.46
21 10 0.27
22 5 0.14
ACGTcount: A:0.49, C:0.03, G:0.28, T:0.21
Consensus pattern (20 bp):
TGAGAAGAATGGATGCAAAA
Found at i:9265363 original size:41 final size:41
Alignment explanation
Indices: 9265306--9265388 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
9265296 AATAAGGTGC
9265306 TGAGAAGAATGGATGCAAAATGAGAAGTTAAAATGAAATTT
1 TGAGAAGAATGGATGCAAAATGAGAAGTTAAAATGAAATTT
9265347 TGAGAAGAATGGATGCAAAATGAGAAGTTAAAATGAAATTT
1 TGAGAAGAATGGATGCAAAATGAGAAGTTAAAATGAAATTT
9265388 T
1 T
9265389 AAAAAGTGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.25
Consensus pattern (41 bp):
TGAGAAGAATGGATGCAAAATGAGAAGTTAAAATGAAATTT
Found at i:9266457 original size:23 final size:23
Alignment explanation
Indices: 9266437--9266482 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9266427 TTAAATTTTG
9266437 AATTATTTAGTGATAATATTTAA
1 AATTATTTAGTGATAATATTTAA
9266460 AATTATTTAGTGATAATATTTAA
1 AATTATTTAGTGATAATATTTAA
9266483 GAAAAATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (23 bp):
AATTATTTAGTGATAATATTTAA
Found at i:9268775 original size:18 final size:17
Alignment explanation
Indices: 9268752--9268785 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9268742 ATCATTGTTA
9268752 TATTTAATAATTAAATTT
1 TATTTAA-AATTAAATTT
*
9268770 TATTTAAAATTTAATT
1 TATTTAAAATTAAATT
9268786 AGGTAATCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTTAAAATTAAATTT
Found at i:9270836 original size:210 final size:211
Alignment explanation
Indices: 9270474--9270905 Score: 839
Period size: 210 Copynumber: 2.0 Consensus size: 211
9270464 ATAAATATAC
9270474 AATAATATAATTCATACAAAGACAGCTAGTGAAGTTTTTAAACTTCATATGCAGGGTTAAAAGGT
1 AATAATATAATTCATACAAAGACAGCTAGTGAAGTTTTTAAACTTCATATGCAGGGTTAAAAGGT
9270539 TGACAAGTTTCCTATAAAGAGTGTAGTATAATATTAAAAAAATAAAAATAAAAAAGAGACACACA
66 TGACAAGTTTCCTATAAAGAGTGTAGTATAATATTAAAAAAATAAAAATAAAAAAGAGACACACA
9270604 CATGACAAAGTTTTAAGGCTACTTGTGAAATTAACAAAAAAATATATTACCAGCATATCAAATAC
131 CATGACAAAGTTTTAAGGCTACTTGTGAAATTAACAAAAAAATATATTACCAGCATATCAAATAC
9270669 TAACC-TTAATACTAT
196 TAACCATTAATACTAT
9270684 AATAATATAATTCATACAAAGACAGCTAGTGAAGTTTTTAAACTTCATATGCAGGGTTAAAAGGT
1 AATAATATAATTCATACAAAGACAGCTAGTGAAGTTTTTAAACTTCATATGCAGGGTTAAAAGGT
9270749 TGACAAGTTTCCTATAAAGAGTGTAGTATAATATTAAAAAAATAAAAATAAAAAAGAGACACACA
66 TGACAAGTTTCCTATAAAGAGTGTAGTATAATATTAAAAAAATAAAAATAAAAAAGAGACACACA
9270814 CATGACAAAGTTTTAAGGCTACTTGTGAAATTAACAAAAAAATATATTACCAGCATATCAAATAC
131 CATGACAAAGTTTTAAGGCTACTTGTGAAATTAACAAAAAAATATATTACCAGCATATCAAATAC
9270879 TAACCATTAATACTAT
196 TAACCATTAATACTAT
9270895 ATATATATATA
1 A-ATA-ATATA
9270906 TATATATATG
Statistics
Matches: 219, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
210 200 0.91
211 11 0.05
212 3 0.01
213 5 0.02
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (211 bp):
AATAATATAATTCATACAAAGACAGCTAGTGAAGTTTTTAAACTTCATATGCAGGGTTAAAAGGT
TGACAAGTTTCCTATAAAGAGTGTAGTATAATATTAAAAAAATAAAAATAAAAAAGAGACACACA
CATGACAAAGTTTTAAGGCTACTTGTGAAATTAACAAAAAAATATATTACCAGCATATCAAATAC
TAACCATTAATACTAT
Found at i:9271504 original size:6 final size:6
Alignment explanation
Indices: 9271493--9271518 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9271483 TTTTGACCAA
9271493 AAGCAG AAGCAG AAGCAG AAGCAG AA
1 AAGCAG AAGCAG AAGCAG AAGCAG AA
9271519 AATTATAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.31, T:0.00
Consensus pattern (6 bp):
AAGCAG
Found at i:9271710 original size:94 final size:94
Alignment explanation
Indices: 9271549--9271737 Score: 369
Period size: 94 Copynumber: 2.0 Consensus size: 94
9271539 AATGCTTTTG
9271549 AGAAGCAATGTTAAATTGACCATTAACTCAATTGGCATGGGCATTGTTGCCAGTGCAGGAGGACA
1 AGAAGCAATGTTAAATTGACCATTAACTCAATTGGCATGGGCATTGTTGCCAGTGCAGGAGGACA
9271614 TAAGTTCGAGTGCGCTAAAACCAAGGGCA
66 TAAGTTCGAGTGCGCTAAAACCAAGGGCA
*
9271643 AGAAGCAATGTTAAATTGACCCTTAACTCAATTGGCATGGGCATTGTTGCCAGTGCAGGAGGACA
1 AGAAGCAATGTTAAATTGACCATTAACTCAATTGGCATGGGCATTGTTGCCAGTGCAGGAGGACA
9271708 TAAGTTCGAGTGCGCTAAAACCAAGGGCA
66 TAAGTTCGAGTGCGCTAAAACCAAGGGCA
9271737 A
1 A
9271738 AGCCAGAGCA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (94 bp):
AGAAGCAATGTTAAATTGACCATTAACTCAATTGGCATGGGCATTGTTGCCAGTGCAGGAGGACA
TAAGTTCGAGTGCGCTAAAACCAAGGGCA
Found at i:9272890 original size:29 final size:30
Alignment explanation
Indices: 9272824--9272893 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 30
9272814 TGTATTTATT
*
9272824 TATAATTTTATTATTTTTAAAATAATTAAA
1 TATAATTTTATTATTTTTAAAAGAATTAAA
* *
9272854 CATAAATTTT-TTATTTTT-AAAGGATTAAA
1 TAT-AATTTTATTATTTTTAAAAGAATTAAA
9272883 GTATAATTTTA
1 -TATAATTTTA
9272894 CTATGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 15 0.45
30 12 0.36
31 6 0.18
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (30 bp):
TATAATTTTATTATTTTTAAAAGAATTAAA
Found at i:9278407 original size:325 final size:326
Alignment explanation
Indices: 9277817--9278470 Score: 1301
Period size: 325 Copynumber: 2.0 Consensus size: 326
9277807 TTGTTTTCGG
9277817 TTAACTATTAAAAATCGAATGATAATTTGCAAGTAGCTTCTGCGATATATTCCGAGAGATTAAAG
1 TTAACTATTAAAAATCGAATGATAATTTGCAAGTAGCTTCTGCGATATATTCCGAGAGATTAAAG
9277882 TTAAGTTGTGAATTATCTAGCCAAACAAGCCTTGATTGGAAAAGATAATTTGTAAGTTTTCAATG
66 TTAAGTTGTGAATTATCTAGCCAAACAAGCCTTGATTGGAAAAGATAATTTGTAAGTTTTCAATG
9277947 TTCCTCATCTGATGGCGCATGCTTTACTGGACTTGGACAAGATTAAGAATGGTTCTCTTTTTCAA
131 TTCCTCATCTGATGGCGCATGCTTTACTGGACTTGGACAAGATTAAGAATGGTTCTCTTTTTCAA
9278012 AATATTATTATGTAATCAATTTGATCTTTTCTTATTCTCACAAAAAAAAAGGTGAATGATATTTA
196 AATATTATTATGTAATCAATTTGATCTTTTCTTATTCTCACAAAAAAAAAGGTGAATGATATTTA
9278077 TAATAATAAATATTTTTCAAATTAATTAATAATTCATAAAAAGTTTTACAATTATAA-TATAAAT
261 TAATAATAAATATTTTTCAAATTAATTAATAATTCATAAAAAGTTTTACAATTATAATTATAAAT
9278141 T
326 T
9278142 TTAACTATTAAAAATCGAATGATAATTTGCAAGTAGCTTCTGCGATATATTCCGAGAGATTAAAG
1 TTAACTATTAAAAATCGAATGATAATTTGCAAGTAGCTTCTGCGATATATTCCGAGAGATTAAAG
9278207 TTAAGTTGTGAATTATCTAGCCAAACAAGCCTTGATTGGAAAAGATAATTTGTAAGTTTTCAATG
66 TTAAGTTGTGAATTATCTAGCCAAACAAGCCTTGATTGGAAAAGATAATTTGTAAGTTTTCAATG
9278272 TTCCTCATCTGATGGCGCATGCTTTACTGGACTTGGACAAGATTAAGAATGGTTCTCTTTTTCAA
131 TTCCTCATCTGATGGCGCATGCTTTACTGGACTTGGACAAGATTAAGAATGGTTCTCTTTTTCAA
9278337 AATATTATTATGTAATCAATTTGATCTTTTCTTATTCTCACAAAAAAAAAGGTGAATGATATTTA
196 AATATTATTATGTAATCAATTTGATCTTTTCTTATTCTCACAAAAAAAAAGGTGAATGATATTTA
9278402 TAATAATAAATATTTTTCAAATTAATTAATAATTCATAAAAAGTTTTACAATTATAATTATAAAT
261 TAATAATAAATATTTTTCAAATTAATTAATAATTCATAAAAAGTTTTACAATTATAATTATAAAT
9278467 T
326 T
9278468 TTA
1 TTA
9278471 TTATTATATT
Statistics
Matches: 328, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
325 317 0.97
326 11 0.03
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.38
Consensus pattern (326 bp):
TTAACTATTAAAAATCGAATGATAATTTGCAAGTAGCTTCTGCGATATATTCCGAGAGATTAAAG
TTAAGTTGTGAATTATCTAGCCAAACAAGCCTTGATTGGAAAAGATAATTTGTAAGTTTTCAATG
TTCCTCATCTGATGGCGCATGCTTTACTGGACTTGGACAAGATTAAGAATGGTTCTCTTTTTCAA
AATATTATTATGTAATCAATTTGATCTTTTCTTATTCTCACAAAAAAAAAGGTGAATGATATTTA
TAATAATAAATATTTTTCAAATTAATTAATAATTCATAAAAAGTTTTACAATTATAATTATAAAT
T
Found at i:9278661 original size:9 final size:9
Alignment explanation
Indices: 9278647--9278678 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
9278637 CTATTTGTAT
9278647 TTAAAATTA
1 TTAAAATTA
9278656 TTAAAATTA
1 TTAAAATTA
9278665 TTAAAATTA
1 TTAAAATTA
9278674 TTAAA
1 TTAAA
9278679 CAATTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTAAAATTA
Found at i:9278686 original size:18 final size:17
Alignment explanation
Indices: 9278645--9278688 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
9278635 AACTATTTGT
9278645 ATTTAAAATTATTAAAA
1 ATTTAAAATTATTAAAA
*
9278662 TTATTAAAATTATTAAACA
1 AT-TTAAAATTATTAAA-A
9278681 ATTTAAAA
1 ATTTAAAA
9278689 GAAAAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 20 0.87
19 2 0.09
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTAAAATTATTAAAA
Found at i:9294069 original size:21 final size:21
Alignment explanation
Indices: 9294045--9294094 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
9294035 GAAGTAACAC
9294045 TTGCTTTCCTTCTTTTCTCTT
1 TTGCTTTCCTTCTTTTCTCTT
9294066 TTGCTTTCCTTCTTTTCTCTT
1 TTGCTTTCCTTCTTTTCTCTT
*
9294087 TTCCTTTC
1 TTGCTTTC
9294095 ACTTTATTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.66
Consensus pattern (21 bp):
TTGCTTTCCTTCTTTTCTCTT
Found at i:9296836 original size:14 final size:15
Alignment explanation
Indices: 9296817--9296848 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
9296807 ACTCATTACA
9296817 ACAAAAAATTTT-CT
1 ACAAAAAATTTTGCT
9296831 ACAAAAAATTTTGCT
1 ACAAAAAATTTTGCT
9296846 ACA
1 ACA
9296849 GACAGACTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.31
Consensus pattern (15 bp):
ACAAAAAATTTTGCT
Found at i:9297895 original size:25 final size:25
Alignment explanation
Indices: 9297867--9297919 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
9297857 GAGACTCACT
9297867 ACAAAGGCAACATACAGAATACAAC
1 ACAAAGGCAACATACAGAATACAAC
* * *
9297892 ACAAAGTCAACATACATAATACACC
1 ACAAAGGCAACATACAGAATACAAC
9297917 ACA
1 ACA
9297920 CAGAAGGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.55, C:0.26, G:0.08, T:0.11
Consensus pattern (25 bp):
ACAAAGGCAACATACAGAATACAAC
Found at i:9303620 original size:9 final size:9
Alignment explanation
Indices: 9303604--9303637 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
9303594 GGTATTTTTT
9303604 GGTAATTCG
1 GGTAATTCG
*
9303613 GTTAATTCG
1 GGTAATTCG
9303622 GGTAATTCG
1 GGTAATTCG
9303631 GGTAATT
1 GGTAATT
9303638 TTTAACCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:9306395 original size:23 final size:24
Alignment explanation
Indices: 9306335--9306395 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
9306325 ATTTCAAAAA
*
9306335 TAATATTATTTTAATAATTTAATAT
1 TAATA-TATTTTAATAACTTAATAT
*
9306360 TAAATATAATTTAA-AACTT-ATAT
1 T-AATATATTTTAATAACTTAATAT
9306383 TAATAGTATTTTA
1 TAATA-TATTTTA
9306396 TTCTTTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 4 0.13
23 11 0.35
24 4 0.13
25 8 0.26
26 4 0.13
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TAATATATTTTAATAACTTAATAT
Found at i:9313713 original size:9 final size:9
Alignment explanation
Indices: 9313697--9313730 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
9313687 GGTATTTTTT
9313697 GGTAATTCG
1 GGTAATTCG
*
9313706 GTTAATTCG
1 GGTAATTCG
9313715 GGTAATTCG
1 GGTAATTCG
9313724 GGTAATT
1 GGTAATT
9313731 TTTAACCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:9316488 original size:23 final size:24
Alignment explanation
Indices: 9316428--9316488 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
9316418 ATTTCAAAAA
*
9316428 TAATATTATTTTAATAATTTAATAT
1 TAATA-TATTTTAATAACTTAATAT
*
9316453 TAAATATAATTTAA-AACTT-ATAT
1 T-AATATATTTTAATAACTTAATAT
9316476 TAATAGTATTTTA
1 TAATA-TATTTTA
9316489 TTCTTTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 4 0.13
23 11 0.35
24 4 0.13
25 8 0.26
26 4 0.13
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TAATATATTTTAATAACTTAATAT
Found at i:9318941 original size:20 final size:20
Alignment explanation
Indices: 9318918--9318963 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
9318908 GGCATGATTA
** *
9318918 TGCAATTAGAGGCATCAAAG
1 TGCAATTAGAGAAACCAAAG
*
9318938 TGCAAATAGAGAAACCAAAG
1 TGCAATTAGAGAAACCAAAG
9318958 TGCAAT
1 TGCAAT
9318964 CCCGTACAAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (20 bp):
TGCAATTAGAGAAACCAAAG
Found at i:9319384 original size:47 final size:47
Alignment explanation
Indices: 9319314--9319407 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
9319304 AATCAAAGTA
* *
9319314 AACATTTAAAGAGACAATCTATAATTCTTGATCACCAAATATAGTTT
1 AACATTTAAAGAGACAATATATAATTCCTGATCACCAAATATAGTTT
*
9319361 AACATTTAATGAGACAATATATAATTCCTGATCACCAAATATAGTTT
1 AACATTTAAAGAGACAATATATAATTCCTGATCACCAAATATAGTTT
9319408 CACCAATCAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.34
Consensus pattern (47 bp):
AACATTTAAAGAGACAATATATAATTCCTGATCACCAAATATAGTTT
Found at i:9320773 original size:26 final size:26
Alignment explanation
Indices: 9320726--9320775 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9320716 GTTACAACCT
**
9320726 CGTGTTTAATGTCCCGTTAGACTACC
1 CGTGTTTAATGTCCCGGCAGACTACC
* *
9320752 CGTGTTTATTGTTCCGGCAGACTA
1 CGTGTTTAATGTCCCGGCAGACTA
9320776 TATTAGTTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
CGTGTTTAATGTCCCGGCAGACTACC
Found at i:9323612 original size:23 final size:24
Alignment explanation
Indices: 9323577--9323623 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
9323567 TGAAATTGGG
*
9323577 ATTAGATTGCTTAATCTATTCAAT
1 ATTAGATTCCTTAATCTATTCAAT
9323601 ATTA-ATTCCTTAATCTATTCAAT
1 ATTAGATTCCTTAATCTATTCAAT
9323624 GAATCTCCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTAGATTCCTTAATCTATTCAAT
Found at i:9331219 original size:12 final size:12
Alignment explanation
Indices: 9331202--9331232 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9331192 CCTCACTCGC
9331202 CCGTGTGCTAAG
1 CCGTGTGCTAAG
*
9331214 CCGTGTGCTAGG
1 CCGTGTGCTAAG
9331226 CCGTGTG
1 CCGTGTG
9331233 AAAACTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.26, G:0.39, T:0.26
Consensus pattern (12 bp):
CCGTGTGCTAAG
Found at i:9342008 original size:146 final size:147
Alignment explanation
Indices: 9341846--9342139 Score: 572
Period size: 146 Copynumber: 2.0 Consensus size: 147
9341836 TCGAACTTTT
9341846 ATTAAAAAAAATTTTAAAATTTTTTTAAAATTTTCCATATGATTTTTTAAAGTTTTAATTATTTG
1 ATTAAAAAAAATTTTAAAATTTTTTTAAAATTTTCCATATGATTTTTTAAAGTTTTAATTATTTG
9341911 TAAATGTAATTAATTTTTTATTTTTTTATTATTTTATAGAAAAATGTTTAGAATTTCGTAGCATT
66 TAAATGTAATTAATTTTTTATTTTTTTATTATTTTATAGAAAAATGTTTAGAATTTCGTAGCATT
9341976 TATTAGG-TTTTCTTAA
131 TATTAGGATTTTCTTAA
*
9341992 ATTAAAAAAAATTTTAAAATTTTTTTAAAATTTTCCATATGATTTTTTAAAGTTTTTATTATTTG
1 ATTAAAAAAAATTTTAAAATTTTTTTAAAATTTTCCATATGATTTTTTAAAGTTTTAATTATTTG
9342057 TAAATGTAATTAATTTTTTATTTTTTTATTATTTTATAGAAAAATGTTTAGAATTTCGTAGCATT
66 TAAATGTAATTAATTTTTTATTTTTTTATTATTTTATAGAAAAATGTTTAGAATTTCGTAGCATT
9342122 TATTAGGATTTTCTTAA
131 TATTAGGATTTTCTTAA
9342139 A
1 A
9342140 AAAATAAGCA
Statistics
Matches: 146, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
146 136 0.93
147 10 0.07
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.53
Consensus pattern (147 bp):
ATTAAAAAAAATTTTAAAATTTTTTTAAAATTTTCCATATGATTTTTTAAAGTTTTAATTATTTG
TAAATGTAATTAATTTTTTATTTTTTTATTATTTTATAGAAAAATGTTTAGAATTTCGTAGCATT
TATTAGGATTTTCTTAA
Found at i:9342219 original size:146 final size:145
Alignment explanation
Indices: 9341848--9342223 Score: 442
Period size: 146 Copynumber: 2.6 Consensus size: 145
9341838 GAACTTTTAT
* ** * *
9341848 TAAAAAAAATTTTAAAATTTTTTTAAAATTTTCCATATGATTTTTTAAAGTTTTAATTATTTGTA
1 TAAAAAAAATTTTAAAATTTTTTTAAAATTTTCCATAAGAAATGTTAAAGTTTTAATTATTTGCA
**
9341913 AATGTAATTAATTTTTTATTTTTTTATTATTTTATAGAAAAATGTTTAGAATTTCGTAGCATTTA
66 AATAAAATTAATTTTTTATTTTTTTATTATTTTATAGAAAAATGTTTAGAATTTCGTAGCATTTA
9341978 TTAGGTTTTCTTAAA
131 TTAGGTTTTCTTAAA
* ** * * *
9341993 TTAAAAAAAATTTTAAAATTTTTTTAAAATTTTCCATATGATTTTTTAAAGTTTTTATTATTTGT
1 -TAAAAAAAATTTTAAAATTTTTTTAAAATTTTCCATAAGAAATGTTAAAGTTTTAATTATTTGC
**
9342058 AAATGTAATTAATTTTTTATTTTTTTATTATTTTATAGAAAAATGTTTAGAATTTCGTAGCATTT
65 AAATAAAATTAATTTTTTATTTTTTTATTATTTTATAGAAAAATGTTTAGAATTTCGTAGCATTT
9342123 ATTAGGATTTTCTTAAA
130 ATTAGG-TTTTCTTAAA
* * * * *
9342140 -AAAATAAGCATTTTTAGATTTTTTT-AAA-TTTCTA-AAGAAAATGTTAATGTTTTAAATT-TC
1 TAAAA-AA-AATTTTAAAATTTTTTTAAAATTTTCCATAAG-AAATGTTAAAGTTTT-AATTAT-
9342200 TT-CAAA-AAACATTATATTTTTTAT
61 TTGCAAATAAA-ATTA-ATTTTTTAT
9342224 AACTTTTAAC
Statistics
Matches: 208, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
144 3 0.01
145 28 0.13
146 153 0.74
147 24 0.12
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (145 bp):
TAAAAAAAATTTTAAAATTTTTTTAAAATTTTCCATAAGAAATGTTAAAGTTTTAATTATTTGCA
AATAAAATTAATTTTTTATTTTTTTATTATTTTATAGAAAAATGTTTAGAATTTCGTAGCATTTA
TTAGGTTTTCTTAAA
Found at i:9355945 original size:15 final size:15
Alignment explanation
Indices: 9355900--9355945 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
9355890 AAATAAAAAT
*
9355900 AAAAAAAAGTATTTTA
1 AAAAAAAAATA-TTTA
9355916 AAATAAAAAA-ATTTA
1 AAA-AAAAAATATTTA
9355931 AAAAAAAAATATTTA
1 AAAAAAAAATATTTA
9355946 TTATACTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.22
15 12 0.44
16 4 0.15
17 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (15 bp):
AAAAAAAAATATTTA
Found at i:9358933 original size:16 final size:16
Alignment explanation
Indices: 9358912--9358942 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9358902 TATAATAAAT
*
9358912 TATAATTAATTTATAG
1 TATAATAAATTTATAG
9358928 TATAATAAATTTATA
1 TATAATAAATTTATA
9358943 AAAAAAGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TATAATAAATTTATAG
Found at i:9369107 original size:194 final size:194
Alignment explanation
Indices: 9368778--9369159 Score: 631
Period size: 194 Copynumber: 2.0 Consensus size: 194
9368768 ACACTATGAA
* ** *
9368778 TGTCACAAGCGAATAAATTCATAAATGGATACAGGATTTATTCTACTTGGGTCATGTCCAATGTA
1 TGTCACAAGCGAATAAATCCATAAACAGATACAAGATTTATTCTACTTGGGTCATGTCCAATGTA
*
9368843 TTGTCAGTCCAAAAAATCAGATCTATGTCTCTATCTTCTAAGAGTCATCCAGTCCGAAACACGGT
66 TTGTCAGTCCAAAAAATCACATCTATGTCTCTATCTTCTAAGAGTCATCCAGTCCGAAACACGGT
* *
9368908 AAAAGTTATCTCACCAATTGGACTTGATAGAC-GACATAATAGTCTTTCAATCAATTTCTTTGAT
131 AAAAGTTATCTCACCAATTGGACTTGAGAAACAG-CATAATAGTCTTTCAATCAATTTCTTTGAT
* *
9368972 TGTCACAAGCGAATAAATCCATAAACAGATACAAGATTTATTTTACTTGGGTCATGTTCAATGTA
1 TGTCACAAGCGAATAAATCCATAAACAGATACAAGATTTATTCTACTTGGGTCATGTCCAATGTA
* * *
9369037 TTGTCAGTCCAAACAATCACATCTATGTCTCTATCTTTTAAGAGTCATCTAGTCCGAAACACGGT
66 TTGTCAGTCCAAAAAATCACATCTATGTCTCTATCTTCTAAGAGTCATCCAGTCCGAAACACGGT
*
9369102 AAAAGTTATCTCACCAATTGGACTTGAGAAACAGCATAATAGTCTTTTAATCAATTTC
131 AAAAGTTATCTCACCAATTGGACTTGAGAAACAGCATAATAGTCTTTCAATCAATTTC
9369160 CTCAATTTTG
Statistics
Matches: 174, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
194 173 0.99
195 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (194 bp):
TGTCACAAGCGAATAAATCCATAAACAGATACAAGATTTATTCTACTTGGGTCATGTCCAATGTA
TTGTCAGTCCAAAAAATCACATCTATGTCTCTATCTTCTAAGAGTCATCCAGTCCGAAACACGGT
AAAAGTTATCTCACCAATTGGACTTGAGAAACAGCATAATAGTCTTTCAATCAATTTCTTTGAT
Found at i:9372845 original size:27 final size:27
Alignment explanation
Indices: 9372807--9372895 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
9372797 AGATGTCAAT
*
9372807 AAATGACTGAATTACCCCTACAAGGTA
1 AAATGACTGAATTACCCCCACAAGGTA
* *
9372834 AAATGACCGAATTACCCCCACAAAGTA
1 AAATGACTGAATTACCCCCACAAGGTA
* * *
9372861 AAATGACTAAATTACCCCCATAGGGTA
1 AAATGACTGAATTACCCCCACAAGGTA
9372888 AAATGACT
1 AAATGACT
9372896 ATTATACCCC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.43, C:0.24, G:0.13, T:0.20
Consensus pattern (27 bp):
AAATGACTGAATTACCCCCACAAGGTA
Found at i:9372903 original size:27 final size:27
Alignment explanation
Indices: 9372858--9372927 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
9372848 CCCCCACAAA
*
9372858 GTAAAATGACTA-AATTACCCCCATAG-G
1 GTAAAATGACTATTA-TACCCCCA-AGAG
*
9372885 GTAAAATGACTATTATACCCCTAAGAG
1 GTAAAATGACTATTATACCCCCAAGAG
* *
9372912 ATAAAATGACTGTTAT
1 GTAAAATGACTATTAT
9372928 GGCCTTATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.05
27 34 0.92
28 1 0.03
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (27 bp):
GTAAAATGACTATTATACCCCCAAGAG
Found at i:9372904 original size:54 final size:54
Alignment explanation
Indices: 9372807--9372922 Score: 128
Period size: 54 Copynumber: 2.1 Consensus size: 54
9372797 AGATGTCAAT
* *
9372807 AAATGACTGAATTACCCCTACAAGGTAAAATGACCGAATTACCCCCACAAAG-TA
1 AAATGACTAAATTACCCCCACAAGGTAAAATGACCGAATTACCCCCA-AAAGATA
* * * * * *
9372861 AAATGACTAAATTACCCCCATAGGGTAAAATGA-CTATTATACCCCTAAGAGATA
1 AAATGACTAAATTACCCCCACAAGGTAAAATGACCGAAT-TACCCCCAAAAGATA
9372915 AAATGACT
1 AAATGACT
9372923 GTTATGGCCT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
53 6 0.12
54 46 0.88
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.22
Consensus pattern (54 bp):
AAATGACTAAATTACCCCCACAAGGTAAAATGACCGAATTACCCCCAAAAGATA
Found at i:9373311 original size:33 final size:33
Alignment explanation
Indices: 9373248--9373311 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
9373238 TGCATTATTG
*
9373248 CACTGTACTGATACTGTATTGGGCTAAGGCCTA
1 CACTGTACTGATACTGTAATGGGCTAAGGCCTA
* *
9373281 CACTGTACTGTTACTG-AATGAGGCTCAGGCC
1 CACTGTACTGATACTGTAATG-GGCTAAGGCC
9373312 CATTCTGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 3 0.11
33 24 0.89
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.28
Consensus pattern (33 bp):
CACTGTACTGATACTGTAATGGGCTAAGGCCTA
Found at i:9378751 original size:20 final size:20
Alignment explanation
Indices: 9378726--9378777 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
9378716 TATTATTTTA
9378726 TTTAATTTTATTTTTTTATT
1 TTTAATTTTATTTTTTTATT
9378746 TTTAATTTTATTTTTTTATT
1 TTTAATTTTATTTTTTTATT
9378766 TTTAATTTTATT
1 TTTAATTTTATT
9378778 CTTCCTTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTAATTTTATTTTTTTATT
Found at i:9378756 original size:12 final size:12
Alignment explanation
Indices: 9378739--9378777 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
9378729 AATTTTATTT
9378739 TTTTATTTTTAA
1 TTTTATTTTTAA
9378751 TTTTA--TTT--
1 TTTTATTTTTAA
9378759 TTTTATTTTTAA
1 TTTTATTTTTAA
9378771 TTTTATT
1 TTTTATT
9378778 CTTCCTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 5 0.22
10 6 0.26
12 12 0.52
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTATTTTTAA
Found at i:9378769 original size:14 final size:14
Alignment explanation
Indices: 9378718--9378768 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
9378708 TGTTAGGATA
*
9378718 TTATTTTATTTAATT
1 TTATTTT-TTTATTT
9378733 TTATTTTTTTATTT
1 TTATTTTTTTATTT
*
9378747 TTAATTTTATT-TTT
1 TT-ATTTTTTTATTT
9378761 TTATTTTT
1 TTATTTTT
9378769 AATTTTATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 5 0.16
14 13 0.41
15 14 0.44
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTATTTTTTTATTT
Found at i:9378774 original size:14 final size:14
Alignment explanation
Indices: 9378726--9378774 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
9378716 TATTATTTTA
9378726 TTTAATTTTATT-TT
1 TTTAATTTT-TTATT
*
9378740 TTT-A-TTTTTAAT
1 TTTAATTTTTTATT
*
9378752 TTTATTTTTTTATT
1 TTTAATTTTTTATT
9378766 TTTAATTTT
1 TTTAATTTT
9378775 ATTCTTCCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
11 2 0.07
12 7 0.25
13 1 0.04
14 18 0.64
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTAATTTTTTATT
Found at i:9382651 original size:20 final size:20
Alignment explanation
Indices: 9382623--9382662 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9382613 GTTGACTATT
*
9382623 AATT-TTTTTAATTATTTTAA
1 AATTATTTTGAATT-TTTTAA
9382643 AATTATTTTGAATTTTTTAA
1 AATTATTTTGAATTTTTTAA
9382663 TTAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
AATTATTTTGAATTTTTTAA
Found at i:9383005 original size:16 final size:16
Alignment explanation
Indices: 9382986--9383026 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
9382976 TAATTTTTCA
9382986 AAAATTATAAAGAT-AT
1 AAAATTATAAA-ATGAT
9383002 AAAA-TATTAAAATGAT
1 AAAATTA-TAAAATGAT
9383018 AAAATTATA
1 AAAATTATA
9383027 TTTTATCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.18
16 16 0.73
17 2 0.09
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
AAAATTATAAAATGAT
Found at i:9400543 original size:97 final size:97
Alignment explanation
Indices: 9400404--9400637 Score: 271
Period size: 97 Copynumber: 2.4 Consensus size: 97
9400394 CGCTACCTTT
* * * * ***
9400404 AGCTTTAATCTATT-CACTGTAATGCCAAAGAGAT-AGGATTCGCT-GCTATCCGTTTTAATCTA
1 AGCTTCAATCTATTCCACTGCAATGCCAAGGAAATGA-GATTCGCTGGC-ATCAACTTTAATCTA
*
9400466 CTATGACGCCA-GGAAAATAAGATTCGCTGT-CCTC
64 CTACGACGCCATGG-AAATAAGATTCGCT-TCCCTC
* *
9400500 AGCTTCAATTTATTCCACTGCAATGCCAAGGAAATGAGATTCGCTGGCCTCAACTTTAATCTACT
1 AGCTTCAATCTATTCCACTGCAATGCCAAGGAAATGAGATTCGCTGGCATCAACTTTAATCTACT
* *
9400565 ACGACGCCATGGTAATGAGATTCGCTTCCCTC
66 ACGACGCCATGGAAATAAGATTCGCTTCCCTC
* *
9400597 AGCTTCAATCTATTCCACTGCAACGCCACGGAAATGAGATT
1 AGCTTCAATCTATTCCACTGCAATGCCAAGGAAATGAGATT
9400638 GGTGTCTTCG
Statistics
Matches: 118, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
96 13 0.11
97 100 0.85
98 5 0.04
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (97 bp):
AGCTTCAATCTATTCCACTGCAATGCCAAGGAAATGAGATTCGCTGGCATCAACTTTAATCTACT
ACGACGCCATGGAAATAAGATTCGCTTCCCTC
Found at i:9400636 original size:51 final size:49
Alignment explanation
Indices: 9400471--9400637 Score: 164
Period size: 51 Copynumber: 3.4 Consensus size: 49
9400461 ATCTACTATG
* *
9400471 ACGCCAGGAAAATAAGATTCGCTGTCCTCAGCTTCAATTTATTCCACTGCA
1 ACGCCAGG-AAATGAGATTCGCT-TCCTCAGCTTCAATCTATTCCACTGCA
* * * * *
9400522 ATGCCAAGGAAATGAGATTCGCTGGCCTCAACTTTAATCTA--CTAC-G--
1 ACGCC-AGGAAATGAGATTCGCT-TCCTCAGCTTCAATCTATTCCACTGCA
*
9400568 ACGCCATGGTAATGAGATTCGCTTCCCTCAGCTTCAATCTATTCCACTGCA
1 ACGCCA-GGAAATGAGATTCGCTT-CCTCAGCTTCAATCTATTCCACTGCA
9400619 ACGCCACGGAAATGAGATT
1 ACGCCA-GGAAATGAGATT
9400638 GGTGTCTTCG
Statistics
Matches: 93, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
45 1 0.01
46 33 0.35
48 4 0.04
49 4 0.04
51 48 0.52
52 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
ACGCCAGGAAATGAGATTCGCTTCCTCAGCTTCAATCTATTCCACTGCA
Found at i:9400763 original size:89 final size:89
Alignment explanation
Indices: 9400637--9401226 Score: 766
Period size: 89 Copynumber: 6.6 Consensus size: 89
9400627 GAAATGAGAT
* * * *
9400637 TGGTGTCTTCGATCTGCTTTGCTGTCAGTATAGGAAGGCAAAATCTGCTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
*
9400702 GCTGCAAACCTAGGGAGGCAAAGC
66 GCTGCAAACCCAGGGAGGCAAAGC
** ** * * * * *
9400726 TAATGTCTTCGATCTGCTTCGCTGCCAGTACATGAAGGCAAAATCTTCTATCTTCAGTCTACCCC
1 TGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* *
9400791 GCTGCAAACCCAGAGAGGCAAGGC
66 GCTGCAAACCCAGGGAGGCAAAGC
** * *
9400815 TGGTGTCTTCGATCTGCTTTTCTGCTAGTATAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * *
9400880 GCTGTAAACCCAGGGAGGGAAGGC
66 GCTGCAAACCCAGGGAGGCAAAGC
9400904 TGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* *
9400969 GCTGCAAACCCAGTGAGGCAAGGC
66 GCTGCAAACCCAGGGAGGCAAAGC
* *
9400993 TGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGGTTTGCTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
** * *
9401058 GCTGCAAACTTAAGGAGGCAAAGT
66 GCTGCAAACCCAGGGAGGCAAAGC
* * * *
9401082 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGACAAAATCTTCTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * *
9401147 GCTGCAAACCTAGGGAGACAAGATC
66 GCTGCAAACCCAGGGAGGCAA-AGC
* * * * * * *
9401172 TGCTATCTTCGATCTACTTCGCTGCTAATATAGGAAGACAAGATCTGCTATCTTC
1 TGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTTC
9401227 GATCTAGTTC
Statistics
Matches: 439, Mismatches: 61, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
89 392 0.89
90 47 0.11
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (89 bp):
TGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
GCTGCAAACCCAGGGAGGCAAAGC
Found at i:9400920 original size:44 final size:44
Alignment explanation
Indices: 9400789--9401106 Score: 176
Period size: 44 Copynumber: 7.2 Consensus size: 44
9400779 TCAGTCTACC
* * *
9400789 CCGCTGCAAACCCAGAGAGGCAAGGCTGGTGTCTTCGATCTGCT
1 CCGCTGTAAACACAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT
*** ** * * * * *
9400833 TTTCTGCT-AGTATAGGAAGGCAAGATCTGCTATCTTC-AGTCTGCT
1 CCGCTG-TAAACACAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCT
* *
9400878 CCGCTGTAAACCCAGGGAGGGAAGGCTGGTGTCTTCGATCTGCT
1 CCGCTGTAAACACAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT
* * ** * * * *
9400922 TCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTTC-AGTCTGCT
1 CCGCTGTAAACACAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCT
* * *
9400967 CCGCTGCAAACCCAGTGAGGCAAGGCTGGTGTCTTCGATCTGCT
1 CCGCTGTAAACACAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT
* * ** * * * *
9401011 TCGCTGTTAGTACAGGAAGGCAAGGTTTGCTATCTTC-AGTCTGCT
1 CCGCTGTAAACACAGGGAGGCAAGG-CTGGTGTCTTCGA-TCTGCT
* ** * * *
9401056 CCGCTGCAAACTTAAGGAGGCAAAGTTGGTGTCTTCGATCTGCT
1 CCGCTGTAAACACAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT
*
9401100 TCGCTGT
1 CCGCTGT
9401107 CAGTACAGGA
Statistics
Matches: 192, Mismatches: 71, Indels: 22
0.67 0.25 0.08
Matches are distributed among these distances:
44 101 0.53
45 91 0.47
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (44 bp):
CCGCTGTAAACACAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT
Found at i:9401369 original size:45 final size:45
Alignment explanation
Indices: 9400909--9401357 Score: 317
Period size: 45 Copynumber: 10.0 Consensus size: 45
9400899 AAGGCTGGTG
* ** * *
9400909 TCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * ** * * * *
9400954 TCTTC-AGTCTGCTCCGCTGCAAACCCAGTG-AGGCAAG-GCTGGTG
1 TCTTCGA-TCTACTTCGCTGCCAATACAG-GAAGACAAGATCTGCTA
* ** * * * *
9400998 TCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGGTTTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * * * *
9401043 TCTTC-AGTCTGCTCCGCTGCAAACTTA-AGG-AGGCAA-AGT-TGGTG
1 TCTTCGA-TCTACTTCGCTGCCAA--TACAGGAAGACAAGA-TCTGCTA
* * * * *
9401087 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGACAAAATCTTCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
9401132 TCTTC-AGTCTGCTCCGCTG-CAA-ACCTAGGGAGACAAGATCTGCTA
1 TCTTCGA-TCTACTTCGCTGCCAATA-C-AGGAAGACAAGATCTGCTA
* *
9401177 TCTTCGATCTACTTCGCTGCTAATATAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
9401222 TCTTCGATCTAGTTCGCTGCCAACACAGAAAGATAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
9401267 TCCTCGATCTACTTTGCTGCCAATACAAGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
9401312 TCTTCAATCTACTTCACTGCCAATACAGGAGGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
9401357 T
1 T
9401358 TTTCAACCTA
Statistics
Matches: 321, Mismatches: 63, Indels: 40
0.76 0.15 0.09
Matches are distributed among these distances:
42 2 0.01
43 5 0.02
44 63 0.20
45 241 0.75
46 7 0.02
47 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
Found at i:9401478 original size:88 final size:88
Alignment explanation
Indices: 9401312--9401480 Score: 250
Period size: 88 Copynumber: 1.9 Consensus size: 88
9401302 AGATCTGCTA
*
9401312 TCTTCAATCTACTTCACTGCCAATACAGGAGGACAAGATCTGCTATTTTCAACCTACTCCACTAC
1 TCTTCAATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
*
9401377 TTCCCAGGAAGATAAGGCTGGGG
66 TGCCCAGGAAGATAAGGCTGGGG
* * * * *
9401400 TCTTTAATCTACTTCGCTGCCAGTACAGGAAGACAATATCTGCTATTTTCAACCTACTCCACTGC
1 TCTTCAATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
*
9401465 TGCTCAGTG-AGATAAG
66 TGCCCAG-GAAGATAAG
9401481 ACTTGCTATC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 71 0.99
89 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (88 bp):
TCTTCAATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
TGCCCAGGAAGATAAGGCTGGGG
Found at i:9402828 original size:47 final size:46
Alignment explanation
Indices: 9402762--9402853 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 46
9402752 CCATTTTTAC
*
9402762 TTTTTTTTGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCT
1 TTTTTTTTGAACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCT
9402808 TTTTTTTTAGAACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTC
1 TTTTTTTT-GAACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTC
9402854 CATTCTCCTT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 8 0.18
47 36 0.82
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.42
Consensus pattern (46 bp):
TTTTTTTTGAACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCT
Found at i:9403810 original size:18 final size:18
Alignment explanation
Indices: 9403773--9403814 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9403763 TTCATTTCCA
*
9403773 TTTTCATTTTTTTAAATT
1 TTTTGATTTTTTTAAATT
**
9403791 TTTTGATTTTTTTATTTT
1 TTTTGATTTTTTTAAATT
9403809 TTTTGA
1 TTTTGA
9403815 AACTCATAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTGATTTTTTTAAATT
Found at i:9405926 original size:24 final size:24
Alignment explanation
Indices: 9405899--9405951 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
9405889 ATTTGGTCAA
*
9405899 TTGCTTTTGTCTCTGTATTTGCAT
1 TTGCTTTTGTATCTGTATTTGCAT
*
9405923 TTGCATTTGTATCTGTATTTGCAT
1 TTGCTTTTGTATCTGTATTTGCAT
9405947 TTGCT
1 TTGCT
9405952 CTAATCTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.11, C:0.15, G:0.17, T:0.57
Consensus pattern (24 bp):
TTGCTTTTGTATCTGTATTTGCAT
Found at i:9408214 original size:3 final size:3
Alignment explanation
Indices: 9408151--9408196 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
9408141 GAAATAAGTA
* * *
9408151 AAT AAT AAT ATT ACT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9408197 TATTACTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:9411469 original size:3 final size:3
Alignment explanation
Indices: 9411461--9411548 Score: 158
Period size: 3 Copynumber: 29.3 Consensus size: 3
9411451 AGTAAATCTA
* *
9411461 AAG AAG AAG AAG AAG AAG AAG AAG AAG ATG ATG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
9411509 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
9411549 CATTAGTACT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:9414456 original size:6 final size:6
Alignment explanation
Indices: 9414445--9414491 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
9414435 TTAGAGATAA
* * *
9414445 AAAAAT AAAAAT AAAAAG AAAAAG AAAAAG AAAAGG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
9414492 AAAGAGGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:9415293 original size:53 final size:52
Alignment explanation
Indices: 9415235--9415337 Score: 152
Period size: 53 Copynumber: 2.0 Consensus size: 52
9415225 AATAAAAGAG
* *
9415235 TTATTAATTAAAAAGATGAATTAAAAATTAAAAAAAACTTGAAAACAATATAT
1 TTATTAATTAAAAACATGAATTAAAAATAAAAAAAAACTTG-AAACAATATAT
* * *
9415288 TTATTAATTATAAACATTAATTAAAAATAAAAAAAAACTTGAGACAATAT
1 TTATTAATTAAAAACATGAATTAAAAATAAAAAAAAACTTGAAACAATAT
9415338 GAAATAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 8 0.18
53 37 0.82
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (52 bp):
TTATTAATTAAAAACATGAATTAAAAATAAAAAAAAACTTGAAACAATATAT
Found at i:9419663 original size:24 final size:24
Alignment explanation
Indices: 9419634--9419680 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
9419624 TAATTCCCTC
9419634 TATGTATGAGTACCACATTGCCTA
1 TATGTATGAGTACCACATTGCCTA
*
9419658 TATGTATGAGTCCCACATTGCCT
1 TATGTATGAGTACCACATTGCCT
9419681 CTATTATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (24 bp):
TATGTATGAGTACCACATTGCCTA
Found at i:9436927 original size:12 final size:12
Alignment explanation
Indices: 9436912--9436941 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9436902 ATGGAAATCT
9436912 GCTTCAGAGTTG
1 GCTTCAGAGTTG
*
9436924 GCTTTAGAGTTG
1 GCTTCAGAGTTG
9436936 GCTTCA
1 GCTTCA
9436942 ATGATGTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.17, C:0.17, G:0.30, T:0.37
Consensus pattern (12 bp):
GCTTCAGAGTTG
Found at i:9436961 original size:12 final size:12
Alignment explanation
Indices: 9436944--9436973 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9436934 TGGCTTCAAT
9436944 GATGTTCTTCGA
1 GATGTTCTTCGA
9436956 GATGTTCTTCGA
1 GATGTTCTTCGA
*
9436968 GTTGTT
1 GATGTT
9436974 TTCTTGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.13, G:0.27, T:0.47
Consensus pattern (12 bp):
GATGTTCTTCGA
Found at i:9439615 original size:42 final size:43
Alignment explanation
Indices: 9439549--9439668 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 43
9439539 CAAATAACGA
* * * *
9439549 TGCCACTGTCCCAAACA-GGATCTTACACGAAAT-T-ATATACGC
1 TGCCAATGTCCCAGACACGG-TCTTACACGAAATCTCAAAT-CAC
* * *
9439591 TGCCAATGTTCCAGACATGTTCTTACACGTAAATCTCAAATCAC
1 TGCCAATGTCCCAGACACGGTCTTACACG-AAATCTCAAATCAC
*
9439635 TGCCAATGTCCCAGACGCGGTCTTACACGAAATC
1 TGCCAATGTCCCAGACACGGTCTTACACGAAATC
9439669 ATGTATCGGA
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
42 23 0.36
43 10 0.16
44 28 0.44
45 3 0.05
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (43 bp):
TGCCAATGTCCCAGACACGGTCTTACACGAAATCTCAAATCAC
Found at i:9441977 original size:27 final size:30
Alignment explanation
Indices: 9441939--9442002 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 30
9441929 TAAAACAACC
* *
9441939 AATAAAATAATAAAATAAA-AAGT-TCA-A
1 AATAAAAAAATAAAACAAAGAAGTCTCACA
9441966 AATAAAAAAATAAAACAAAGAAGTCTCACA
1 AATAAAAAAATAAAACAAAGAAGTCTCACA
9441996 AATAAAA
1 AATAAAA
9442003 TAAAAACAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 17 0.53
28 4 0.12
29 3 0.09
30 8 0.25
ACGTcount: A:0.70, C:0.08, G:0.05, T:0.17
Consensus pattern (30 bp):
AATAAAAAAATAAAACAAAGAAGTCTCACA
Found at i:9451772 original size:45 final size:45
Alignment explanation
Indices: 9451731--9451931 Score: 296
Period size: 45 Copynumber: 4.5 Consensus size: 45
9451721 AAATGATGTT
* ** * *
9451731 ATAGTTTCTTTCAACTACAGTCTTATTTA-TTTCTGACATGATGCC
1 ATAGTGTCTTTCAACTATGGTCTTATTCATTTTC-GTCATGATGCC
*
9451776 ATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGTCATGTTGCC
1 ATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGTCATGATGCC
*
9451821 ATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGTCATGTTGCC
1 ATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGTCATGATGCC
* *
9451866 ATAGTGTCTTTCAACTATGGTCTTATTCATTTCCATCATGATGCC
1 ATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGTCATGATGCC
*
9451911 ATAGCGTCTTTCAACTATGGT
1 ATAGTGTCTTTCAACTATGGT
9451932 TTTACTCGTG
Statistics
Matches: 145, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
45 141 0.97
46 4 0.03
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.44
Consensus pattern (45 bp):
ATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGTCATGATGCC
Found at i:9457365 original size:16 final size:16
Alignment explanation
Indices: 9457344--9457401 Score: 86
Period size: 16 Copynumber: 3.8 Consensus size: 16
9457334 ATGTAAAAAT
9457344 TAAATTAAAAAATGGA
1 TAAATTAAAAAATGGA
9457360 TAAATTAAAAAAT---
1 TAAATTAAAAAATGGA
9457373 TAAATTAAAAAATGGA
1 TAAATTAAAAAATGGA
9457389 TAAATTAATAAAA
1 TAAATTAA-AAAA
9457402 ATAAAGTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
13 13 0.34
16 21 0.55
17 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (16 bp):
TAAATTAAAAAATGGA
Found at i:9457376 original size:29 final size:29
Alignment explanation
Indices: 9457338--9457406 Score: 120
Period size: 29 Copynumber: 2.3 Consensus size: 29
9457328 ATTAGAATGT
9457338 AAAAATTAAATTAAAAAATGGATAAATTA
1 AAAAATTAAATTAAAAAATGGATAAATTA
9457367 AAAAATTAAATTAAAAAATGGATAAATTA
1 AAAAATTAAATTAAAAAATGGATAAATTA
*
9457396 ATAAAAATAAA
1 A-AAAATTAAA
9457407 GTTTTCCTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 30 0.79
30 8 0.21
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (29 bp):
AAAAATTAAATTAAAAAATGGATAAATTA
Found at i:9457384 original size:13 final size:13
Alignment explanation
Indices: 9457324--9457385 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
9457314 CAAACAAAAG
9457324 AAAAATTAGAATGT-
1 AAAAATTA-AAT-TA
9457338 AAAAATTAAATTA
1 AAAAATTAAATTA
9457351 AAAAATGGATAAATTA
1 AAAAAT---TAAATTA
9457367 AAAAATTAAATTA
1 AAAAATTAAATTA
9457380 AAAAAT
1 AAAAAT
9457386 GGATAAATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.02
13 22 0.50
14 8 0.18
16 13 0.30
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.27
Consensus pattern (13 bp):
AAAAATTAAATTA
Found at i:9465374 original size:23 final size:23
Alignment explanation
Indices: 9465348--9465422 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
9465338 ATAAGTGCAA
*
9465348 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
9465371 CACTGAAATGTAGCCGAAGCTAA
1 CACTGAAATGTAGCCGAAGCTAC
*
9465394 CACTGAAACGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
9465417 CACTGA
1 CACTGA
9465423 TCAATAACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:9479841 original size:56 final size:55
Alignment explanation
Indices: 9479774--9479882 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 55
9479764 TTTATCCATT
*
9479774 AGATGATAAATCATCACTTTTAATTTGAAT-GATGCTTATGAATAATTAAATTTGTA
1 AGATGATAAATCATCACTTTTAATTTGAATAG-TGCTCATGAATAATT-AATTTGTA
9479830 AGATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 AGATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
9479883 CAATCTATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
55 6 0.12
56 44 0.86
57 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (55 bp):
AGATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTA
Found at i:9482123 original size:56 final size:55
Alignment explanation
Indices: 9482052--9482158 Score: 169
Period size: 56 Copynumber: 1.9 Consensus size: 55
9482042 TATCCATTGG
* *
9482052 ATGATAAATCGTCACTTTTAATTTGAATAATCCTTATGAATAATTAAATTTGTAAA
1 ATGATAAATCATCACTTTTAATTTGAATAATCCTCATGAATAATT-AATTTGTAAA
* *
9482108 ATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 ATGATAAATCATCACTTTTAATTTGAATAATCCTCATGAATAATTAATTTG
9482159 CAATCTATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
55 6 0.13
56 41 0.87
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.41
Consensus pattern (55 bp):
ATGATAAATCATCACTTTTAATTTGAATAATCCTCATGAATAATTAATTTGTAAA
Found at i:9484758 original size:16 final size:16
Alignment explanation
Indices: 9484737--9484768 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9484727 TAATACTTCA
9484737 CAATAAAATTGGCTTG
1 CAATAAAATTGGCTTG
9484753 CAATAAAATTGGCTTG
1 CAATAAAATTGGCTTG
9484769 TATATGATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
CAATAAAATTGGCTTG
Found at i:9487718 original size:15 final size:15
Alignment explanation
Indices: 9487700--9487730 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9487690 TGGTTTAACT
9487700 TTATATATTATCATC
1 TTATATATTATCATC
*
9487715 TTATATATTATTATC
1 TTATATATTATCATC
9487730 T
1 T
9487731 ATGTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:9488079 original size:20 final size:19
Alignment explanation
Indices: 9488022--9488079 Score: 53
Period size: 22 Copynumber: 2.8 Consensus size: 19
9488012 TAAAAATACC
*
9488022 TTTTATATATCTTACATATA
1 TTTTATAT-TATTACATATA
*
9488042 TTTTATAATTCACGTACATATA
1 TTTTAT-ATT-A-TTACATATA
9488064 TCTTTATATTATTACA
1 T-TTTATATTATTACA
9488080 ATTTGTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 11 0.35
21 3 0.10
22 12 0.39
23 5 0.16
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTTATATTATTACATATA
Found at i:9500185 original size:44 final size:45
Alignment explanation
Indices: 9500111--9500694 Score: 473
Period size: 44 Copynumber: 13.3 Consensus size: 45
9500101 GTCATTAAAA
* * *
9500111 CAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * *
9500155 CATG-TCCTATCTTCCTATATTGGTAG-GAAGTGGATCAAAGAT-G
1 CA-GATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * *
9500198 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * *
9500243 CAGATCTTGTCTTCATGTGTTGG-CGTGAAGTAGATCGAAGATAA
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * *
9500287 CAGGT-TCTATCTTCCTATATTGGTAG-GGAGTGGATCGAAGAT-G
1 CAGATCT-TGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * *
9500330 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * *
9500374 CAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCAAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * *
9500417 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * * *
9500462 TATATCTTGTCTTCATGTGTTGG-CGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * * * * * * *
9500506 AAGGTCCTATCTGCCCATACTGGTGGCGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * *
9500551 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * *
9500595 CAGGTCCTATCTTCCTATATTTGTAG-GAAGTGGATCGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * *
9500638 CAGATCTTGTCTTCCCATACTGGT-GACGAAGTAGATCGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAG-TGAAGTAGATCGAAGATAG
9500682 CAGATCTTGTCTT
1 CAGATCTTGTCTT
9500695 TTCATACTGG
Statistics
Matches: 417, Mismatches: 106, Indels: 34
0.75 0.19 0.06
Matches are distributed among these distances:
42 3 0.01
43 92 0.22
44 250 0.60
45 72 0.17
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
Found at i:9500490 original size:219 final size:221
Alignment explanation
Indices: 9500111--9500694 Score: 971
Period size: 219 Copynumber: 2.7 Consensus size: 221
9500101 GTCATTAAAA
* *
9500111 CAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCATGTCCTATCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATT
9500176 GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
66 GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
* * *
9500241 AGCAGATCTTGTCTTCATGTGTTGGCGTGAAGTAGATCGAAGATA-ACAGGTTCTATCTTCCTAT
131 AGCAGATCTTGTCTTCATGTGTTGGCGTGAAGTAGATCGAAGATAGA-AGGTCCTATCTGCCCAT
* * *
9500305 ATTGGTAGG-G-AGTGGATCGAAG-ATG
195 ACTGGT-GGCGAAGTAGATCGAAGAAAG
* *
9500330 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATT
9500395 GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
66 GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
* *
9500460 AGTATATCTTGTCTTCATGTGTTGGCGTGAAGTAGATCGAAGATAGAAGGTCCTATCTGCCCATA
131 AGCAGATCTTGTCTTCATGTGTTGGCGTGAAGTAGATCGAAGATAGAAGGTCCTATCTGCCCATA
9500525 CTGGTGGCGAAGTAGATCGAAGAAAG
196 CTGGTGGCGAAGTAGATCGAAGAAAG
9500551 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATT
* * *
9500616 TGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATCGAAG-A
66 GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
*
9500680 TGCAGATCTTGTCTT
131 AGCAGATCTTGTCTT
9500695 TTCATACTGG
Statistics
Matches: 341, Mismatches: 20, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
218 2 0.01
219 189 0.55
220 25 0.07
221 125 0.37
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (221 bp):
CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATT
GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
AGCAGATCTTGTCTTCATGTGTTGGCGTGAAGTAGATCGAAGATAGAAGGTCCTATCTGCCCATA
CTGGTGGCGAAGTAGATCGAAGAAAG
Found at i:9500581 original size:89 final size:89
Alignment explanation
Indices: 9500111--9500723 Score: 410
Period size: 87 Copynumber: 7.0 Consensus size: 89
9500101 GTCATTAAAA
* * * *
9500111 CAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCATGTCCTATCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCCATACT
* * * *
9500176 GGTAG-GAAGTGGATCAAAG-ATG
66 GGTGGCGAAGTAGATCGAAGAAAG
*** * * * * * * * *
9500198 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTT--CAT-G
1 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCCATAC
*
9500260 TGTTGGCGTGAAGTAGATCGAAGATAA-
65 TGGTGGC--GAAGTAGATCGAAGA-AAG
* * * * * * * * * * ***
9500287 CAGGT-TCTATCTTCCTATATTGGTAG-GGAGTGGATCGAAGAT-GCAGATCTTGTCTTCATGTA
1 CAGATCT-TGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCCATA
* * * * *
9500349 TTGG-CGTGAAGTAGATCAAAGATAG
64 CTGGTGGCGAAGTAGATCGAAGAAAG
* * * * * * * * * *
9500374 CAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCAAAGAT-GCAGATCTTGTCTTCCCATAC
1 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCCATAC
9500437 TGGTGGCGAAGTAGATCGAAGAAAG
65 TGGTGGCGAAGTAGATCGAAGAAAG
* * * * *
9500462 TATATCTTGTCTTCATGTGTTGGCGTGAAGTAGATCGAAGATAGAAGGTCCTATCTGCCCATACT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCCATACT
9500527 GGTGGCGAAGTAGATCGAAGAAAG
66 GGTGGCGAAGTAGATCGAAGAAAG
* *
9500551 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCCATACT
* * * *
9500616 TGTAG-GAAGTGGATCGAAG-ATG
66 GGTGGCGAAGTAGATCGAAGAAAG
*** * * * * * * **
9500638 CAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATCGAAGAT-GCAGATCTTGTCTTTTCATAC
1 CAGATCTTGTCTTCATGTATTGGCG-TGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCCATAC
*
9500702 TGGTGGCAAAGTAGATCGAAGA
65 TGGTGGCGAAGTAGATCGAAGA
9500724 CCACAGATCT
Statistics
Matches: 418, Mismatches: 90, Indels: 34
0.77 0.17 0.06
Matches are distributed among these distances:
85 4 0.01
86 3 0.01
87 145 0.35
88 140 0.33
89 123 0.29
90 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (89 bp):
CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCCATACT
GGTGGCGAAGTAGATCGAAGAAAG
Found at i:9502121 original size:15 final size:15
Alignment explanation
Indices: 9502103--9502133 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9502093 TGGTTTAAAT
9502103 TTATATATTATCATC
1 TTATATATTATCATC
*
9502118 TTATATATTATTATC
1 TTATATATTATCATC
9502133 T
1 T
9502134 ATGTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:9502491 original size:20 final size:19
Alignment explanation
Indices: 9502434--9502491 Score: 53
Period size: 22 Copynumber: 2.8 Consensus size: 19
9502424 TAAAAATACC
*
9502434 TTTTATATATCTTACATATA
1 TTTTATAT-TATTACATATA
*
9502454 TTTTATAATTCACGTACATATA
1 TTTTAT-ATT-A-TTACATATA
9502476 TCTTTATATTATTACA
1 T-TTTATATTATTACA
9502492 ATTTGTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 11 0.35
21 3 0.10
22 12 0.39
23 5 0.16
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTTATATTATTACATATA
Found at i:9502945 original size:105 final size:107
Alignment explanation
Indices: 9502645--9502973 Score: 527
Period size: 107 Copynumber: 3.1 Consensus size: 107
9502635 NNNNNNNNNN
9502645 GCCAAATATCATTTTTAAACTTTTAAAATAAGGCAATATTTTGTGTTTGGAAAATCGAGAAAACG
1 GCCAAATATCATTTTTAAACTTTTAAAATAAGGCAATATTTTGTGTTTGGAAAATCGAGAAAACG
* * *
9502710 TGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCGACCAAATA
66 TGCCCTAACGTGCTGGGTCTCAATTTCTCGTTTGACCAAATA
9502752 GCCAAATATCATTTTTAAACTTTTAAAATAAGGCAATATTTTGTGTTTGGAAAATCGAGAAAACG
1 GCCAAATATCATTTTTAAACTTTTAAAATAAGGCAATATTTTGTGTTTGGAAAATCGAGAAAACG
9502817 TGCCCTAACGTGCTGGGTCTCAATTTCTCGTTTGACCAAATA
66 TGCCCTAACGTGCTGGGTCTCAATTTCTCGTTTGACCAAATA
* ** * * * * * * *
9502859 GCCAAATATC-CTTTTAAACTTTCGAAGTTAGGCAATA-TTTGCGTTTGGAAATTTGAGAGAATG
1 GCCAAATATCATTTTTAAACTTTTAAAATAAGGCAATATTTTGTGTTTGGAAAATCGAGAAAACG
9502922 TGCCCTAACGTGCTGGGTCTCAATTTCTCGTTTGACCAAATA
66 TGCCCTAACGTGCTGGGTCTCAATTTCTCGTTTGACCAAATA
9502964 GCCAAATATC
1 GCCAAATATC
9502974 TTCTTAGTTT
Statistics
Matches: 209, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
105 73 0.35
106 22 0.11
107 114 0.55
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (107 bp):
GCCAAATATCATTTTTAAACTTTTAAAATAAGGCAATATTTTGTGTTTGGAAAATCGAGAAAACG
TGCCCTAACGTGCTGGGTCTCAATTTCTCGTTTGACCAAATA
Found at i:9513425 original size:20 final size:21
Alignment explanation
Indices: 9513397--9513454 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
9513387 AAAAATATAT
9513397 AAAATATAAAATTATTTAAA-
1 AAAATATAAAATTATTTAAAG
* * *
9513417 AATATATAAATTTA-TAAAAG
1 AAAATATAAAATTATTTAAAG
9513437 AAAATATAAATATTATTT
1 AAAATATAAA-ATTATTT
9513455 CACATTCAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 4 0.14
20 21 0.72
21 3 0.10
22 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAATATAAAATTATTTAAAG
Found at i:9513434 original size:18 final size:18
Alignment explanation
Indices: 9513382--9513435 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
9513372 TATTATTTTG
*
9513382 AAAT-TAAAAATATAT-A
1 AAATATAAAATTATATAA
*
9513398 AAATATAAAATTATTTAA
1 AAATATAAAATTATATAA
9513416 AAATATATAAATT-TATAA
1 AAATATA-AAATTATATAA
9513434 AA
1 AA
9513436 GAAAATATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 4 0.12
17 9 0.28
18 14 0.44
19 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATATAAAATTATATAA
Found at i:9514042 original size:20 final size:21
Alignment explanation
Indices: 9514019--9514063 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
9514009 GTTCTAATTC
9514019 TAAAAAT-TAAAAAAATATTT
1 TAAAAATCTAAAAAAATATTT
* *
9514039 T-AAATTCTAAAAAGATATTT
1 TAAAAATCTAAAAAAATATTT
9514059 TAAAA
1 TAAAA
9514064 CTTTTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAAAATCTAAAAAAATATTT
Found at i:9516270 original size:55 final size:59
Alignment explanation
Indices: 9516153--9516276 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 59
9516143 TGATTATGGT
** *** *
9516153 TTTCTCAAAA-ATGAAAATGAAAATGGAGAAAATAGAATCATTTGGAAATGAATGTGGT
1 TTTCTCAAAATATGAAAATGAAAATGGAGAAAATAGAATCATTTACAAATGAACAAGGA
9516211 TTTCTCAAAATA-G-AAATGAAAAT-GAG-AAAT-GAATTCATTTACAAATGAACAAGGA
1 TTTCTCAAAATATGAAAATGAAAATGGAGAAAATAGAA-TCATTTACAAATGAACAAGGA
*
9516266 TTTCTAAAAAT
1 TTTCTCAAAAT
9516277 GATCAGAAGA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
54 3 0.05
55 29 0.51
56 3 0.05
57 10 0.18
58 11 0.19
59 1 0.02
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.28
Consensus pattern (59 bp):
TTTCTCAAAATATGAAAATGAAAATGGAGAAAATAGAATCATTTACAAATGAACAAGGA
Found at i:9520106 original size:17 final size:17
Alignment explanation
Indices: 9520084--9520131 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
9520074 GTTGTCGCAT
*
9520084 GAATTAAATTAATTACA
1 GAATTAATTTAATTACA
*
9520101 GAATTAATTTAATTATA
1 GAATTAATTTAATTACA
9520118 GAATTAATTTAATT
1 GAATTAATTTAATT
9520132 GGGTAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (17 bp):
GAATTAATTTAATTACA
Found at i:9524352 original size:30 final size:29
Alignment explanation
Indices: 9524287--9524358 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
9524277 TTATCAAAAT
* *
9524287 ATATTTTAGATTAGTAAAAATATTATCAA
1 ATATTTTAGATTAGTAAAAAAAATATCAA
* *
9524316 AAATTTTAGATTAGATAAAAGAAAATAT-TA
1 ATATTTTAGATTAG-TAAAA-AAAATATCAA
9524346 ATATTTTAGATTA
1 ATATTTTAGATTA
9524359 AATTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 13 0.36
30 18 0.50
31 5 0.14
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.40
Consensus pattern (29 bp):
ATATTTTAGATTAGTAAAAAAAATATCAA
Found at i:9525917 original size:15 final size:15
Alignment explanation
Indices: 9525897--9525925 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9525887 ATTAAAAATA
9525897 TCAAAAAATTTAATT
1 TCAAAAAATTTAATT
9525912 TCAAAAAATTTAAT
1 TCAAAAAATTTAAT
9525926 AATTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
TCAAAAAATTTAATT
Found at i:9526549 original size:15 final size:15
Alignment explanation
Indices: 9526529--9526559 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9526519 AAGTAAAAAA
*
9526529 AATAATAACAATAAT
1 AATAATAACAACAAT
9526544 AATAATAACAACAAT
1 AATAATAACAACAAT
9526559 A
1 A
9526560 TTTTTTCTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAACAACAAT
Found at i:9536599 original size:44 final size:43
Alignment explanation
Indices: 9536543--9536869 Score: 311
Period size: 44 Copynumber: 7.7 Consensus size: 43
9536533 GCTATTTTCC
* * *
9536543 ACCTACTCCACTGCTGCTCAGGGAGATAGGGTTCACGATCTTTA
1 ACCTATTCCACTGCTGC-CAGGGAGATAGGATTCACAATCTTTA
* * * *
9536587 ACCTATTACACTGCTGACCAGGGAGATAAGA-CCTACAATCTTCA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTC-ACAATCTTTA
* * * *
9536631 ATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAAT-TTTCA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTT-A
9536675 ACCTATTCCACTGCTGTCC----A-ATAGGA-T-----TCTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTTA
* * * *
9536708 ATCTATTCCACTGCTGCCTAGGGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTGCC-AGGGAGATAGGATTCACAATCTTTA
*
9536752 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCAAAATCTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTTA
*
9536796 ACCTATTCCACTACTGTCCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTTA
*
9536840 ACCTATTCCACTGCTGACCAGGAAGATAGG
1 ACCTATTCCACTGCTG-CCAGGGAGATAGG
9536870 GCTAGGGTCA
Statistics
Matches: 231, Mismatches: 34, Indels: 36
0.77 0.11 0.12
Matches are distributed among these distances:
32 2 0.01
33 17 0.07
34 3 0.01
37 1 0.00
38 6 0.03
39 6 0.03
40 1 0.00
43 3 0.01
44 188 0.81
45 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
ACCTATTCCACTGCTGCCAGGGAGATAGGATTCACAATCTTTA
Found at i:9536659 original size:88 final size:85
Alignment explanation
Indices: 9536549--9536869 Score: 354
Period size: 88 Copynumber: 3.8 Consensus size: 85
9536539 TTCCACCTAC
* * ** * *
9536549 TCCACTGCTGCTCAGGGAGATAGGGTTCACGATCTTTAACCTATTACACTGCTGACCAGGGAGAT
1 TCCACTACTGCCCAGGGAGATAGAATTCACAATCTTTAACCTATTCCACTGCTGACCAGGGAGAT
* *
9536614 AAGACCTACAATCTTCAATCTAT
66 AGGA--TA-AATCTTTAATCTAT
* *
9536637 TCCACTACTGCCCAGGGAGATAGAATTCTCAAT-TTTCAACCTATTCCACTGCTGTCC----A-A
1 TCCACTACTGCCCAGGGAGATAGAATTCACAATCTTT-AACCTATTCCACTGCTGACCAGGGAGA
9536696 TAGGAT---TCTTTAATCTAT
65 TAGGATAAATCTTTAATCTAT
* * * *
9536714 TCCACTGCTGCCTAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
1 TCCACTACTGCCCAGGGAGATAGAATTCACAATCTTTAACCTATTCCACTGCTGACCAGGGAGAT
*
9536779 AGGATTCAAAATCTTTAACCTAT
66 AGGA-T--AAATCTTTAATCTAT
* * *
9536802 TCCACTACTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCAGGAAGAT
1 TCCACTACTGCCCAGGGAGATAGAATTCACAATCTTTAACCTATTCCACTGCTGACCAGGGAGAT
9536867 AGG
66 AGG
9536870 GCTAGGGTCA
Statistics
Matches: 198, Mismatches: 22, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
77 61 0.31
78 2 0.01
81 2 0.01
82 6 0.03
83 6 0.03
84 1 0.01
87 3 0.02
88 117 0.59
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (85 bp):
TCCACTACTGCCCAGGGAGATAGAATTCACAATCTTTAACCTATTCCACTGCTGACCAGGGAGAT
AGGATAAATCTTTAATCTAT
Found at i:9536757 original size:77 final size:80
Alignment explanation
Indices: 9536624--9536858 Score: 280
Period size: 77 Copynumber: 2.9 Consensus size: 80
9536614 AAGACCTACA
* *
9536624 ATCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATTTTCAACCTATTCCACTGC
1 ATCTTTAATCTATTCCACTACTG-CCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGC
*
9536689 TGTCC-A-ATAGGA-T
65 TGACCGAGATAGGATT
*
9536702 -TCTTTAATCTATTCCACTGCTGCCTAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGC
1 ATCTTTAATCTATTCCACTACTGCC-AGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGC
9536766 TGACCAGGGAGATAGGATT
65 TGACC---GAGATAGGATT
* * * *
9536785 CAAAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCA
1 ----ATCTTTAATCTATTCCACTACTG-CCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCA
9536850 CTGCTGACC
61 CTGCTGACC
9536859 AGGAAGATAG
Statistics
Matches: 135, Mismatches: 9, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
76 2 0.01
77 62 0.46
81 1 0.01
82 6 0.04
83 1 0.01
88 61 0.45
89 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (80 bp):
ATCTTTAATCTATTCCACTACTGCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCT
GACCGAGATAGGATT
Found at i:9536799 original size:121 final size:121
Alignment explanation
Indices: 9536581--9536815 Score: 316
Period size: 121 Copynumber: 1.9 Consensus size: 121
9536571 GGGTTCACGA
*
9536581 TCTTTAACCTATTACACTGCTGACCAGGGAGATAAGACCTACAATCTTCAATCTATTCCACTACT
1 TCTTTAACCTATTACACTGCTGACCAGGGAGATAAGACCTACAATCTTCAACCTATTCCACTACT
* ** *
9536646 GCCCAGGGAGATAGAATTCTCAATTTTCAACCTATTCCACTGCTGTCCAATAGGAT
66 GACCAGGGAGATAGAATTCAAAATTTTCAACCTATTCCACTACTGTCCAATAGGAT
* * *
9536702 TCTTTAATCTATTCCACTGCTG-CCTAGGGAGAT-AGAATTCT-CAATCTTCAACCTATTCCACT
1 TCTTTAACCTATTACACTGCTGACC-AGGGAGATAAG-A-CCTACAATCTTCAACCTATTCCACT
* *
9536764 GCTGACCAGGGAGATAGGATTCAAAATCTTT-AACCTATTCCACTACTGTCCA
63 ACTGACCAGGGAGATAGAATTCAAAAT-TTTCAACCTATTCCACTACTGTCCA
9536816 GGGAGATAGG
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
120 4 0.04
121 91 0.91
122 5 0.05
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (121 bp):
TCTTTAACCTATTACACTGCTGACCAGGGAGATAAGACCTACAATCTTCAACCTATTCCACTACT
GACCAGGGAGATAGAATTCAAAATTTTCAACCTATTCCACTACTGTCCAATAGGAT
Found at i:9536821 original size:165 final size:165
Alignment explanation
Indices: 9536549--9536855 Score: 440
Period size: 165 Copynumber: 1.9 Consensus size: 165
9536539 TTCCACCTAC
** * *
9536549 TCCACTGCTGCTCAGGGAGATAGGGTTCACGATCTTTAACCTATTACACTGCTGACCAGGGAGAT
1 TCCACTGCTGCTCAGGGAGATAGAATTCACAATCTTCAACCTATTACACTGCTGACCAGGGAGAT
* * *
9536614 AAGACCTACAATCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAAT-TTTCAACC
66 AAGACCTAAAATCTTCAACCTATTCCACTACTGCCCAGGGAGATAGAATTCACAATCTTT-AACC
9536678 TATTCCACTGCTGTCCAATAGGATTCTTTAATCTAT
130 TATTCCACTGCTGTCCAATAGGATTCTTTAATCTAT
* *
9536714 TCCACTGCTGC-CTAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGA
1 TCCACTGCTGCTC-AGGGAGATAGAATTCACAATCTTCAACCTATTACACTGCTGACCAGGGAGA
* * * * *
9536778 TAGGA-TTCAAAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAGGATTCACAATCTTTAAC
65 TAAGACCT-AAAATCTTCAACCTATTCCACTACTGCCCAGGGAGATAGAATTCACAATCTTTAAC
9536842 CTATTCCACTGCTG
129 CTATTCCACTGCTG
9536856 ACCAGGAAGA
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
164 2 0.02
165 120 0.96
166 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (165 bp):
TCCACTGCTGCTCAGGGAGATAGAATTCACAATCTTCAACCTATTACACTGCTGACCAGGGAGAT
AAGACCTAAAATCTTCAACCTATTCCACTACTGCCCAGGGAGATAGAATTCACAATCTTTAACCT
ATTCCACTGCTGTCCAATAGGATTCTTTAATCTAT
Found at i:9536928 original size:88 final size:88
Alignment explanation
Indices: 9536883--9537358 Score: 675
Period size: 88 Copynumber: 5.4 Consensus size: 88
9536873 AGGGTCATCA
* * * *
9536883 ATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGCTACGCTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTACTACACTGCAACCCA
*
9536948 GGGAGGCAAGGCTGGTGTCTTTG
66 GGGAGGCAAGGCTGGTGTCTTCG
* * * *
9536971 ATCTGCTTCGCTGTCGGTGCAGAAAGGCAAGATCTGCTATTTTCAGCCTACTTCACTACAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTACTACACTGCAACCCA
*
9537036 GGGAGGCAAGGCTGATGTCTTCG
66 GGGAGGCAAGGCTGGTGTCTTCG
* * *
9537059 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCATGCTCCACTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTACTACACTGCAACCCA
*
9537124 GGGAGGCAAGGCTGGTGACTTCG
66 GGGAGGCAAGGCTGGTGTCTTCG
* * * *
9537147 ATCTGCTTTGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTACACTGTAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTACTACACTGCAACCCA
*
9537212 GGGAGGCAAGGCTGGTGTCTTTG
66 GGGAGGCAAGGCTGGTGTCTTCG
* * *
9537235 ATCTGTTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTTATTTTTAGCCTACT-CTGCTGCAACCC
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTACTAC-ACTGCAACCC
* * *
9537299 AGGGAGGCAAGGTTGCTGACTTCG
65 AGGGAGGCAAGGCTGGTGTCTTCG
* * **
9537323 ATCTGCTTCGCTGCCAGTATAGGAAGGCAAGATCTG
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
9537359 TTATCTTCAC
Statistics
Matches: 346, Mismatches: 41, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
87 1 0.00
88 345 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (88 bp):
ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTACTACACTGCAACCCA
GGGAGGCAAGGCTGGTGTCTTCG
Found at i:9537087 original size:44 final size:44
Alignment explanation
Indices: 9536946--9537089 Score: 103
Period size: 44 Copynumber: 3.3 Consensus size: 44
9536936 CGCTGCAACC
* * *
9536946 CAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCGGTG
* * * * * * * * * ****
9536990 CAGAAAGGCAAGATCTGCTATTTTC-AGCCTACTTCACT-ACAACC
1 CAGGAAGGCAAG-GCTGATGTCTTCGA-TCTGCTTCGCTGTCGGTG
*
9537034 CAGGGAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCGGTG
9537078 CAGGAAGGCAAG
1 CAGGAAGGCAAG
9537090 ATCTGCTATT
Statistics
Matches: 66, Mismatches: 30, Indels: 8
0.63 0.29 0.08
Matches are distributed among these distances:
43 16 0.24
44 35 0.53
45 15 0.23
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.25
Consensus pattern (44 bp):
CAGGAAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCGGTG
Found at i:9537239 original size:264 final size:264
Alignment explanation
Indices: 9536883--9537358 Score: 765
Period size: 264 Copynumber: 1.8 Consensus size: 264
9536873 AGGGTCATCA
* *
9536883 ATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGCTACGCTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTACACTGCAACCCA
9536948 GGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGAAAGGCAAGATCTGCTATTT
66 GGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGAAAGGCAAGATCTGCTATTT
* * *
9537013 TCAGCCTACT-TCACTACAACCCAGGGAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCGGT
131 TCAGCCTACTCT-ACTACAACCCAGGGAGGCAAGGCTGATGACTTCGATCTGCTTCGCTGCCAGT
*
9537077 GCAGGAAGGCAAGATCTGCTATTTTTAGCATGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGA
195 ACAGGAAGGCAAGATCTGCTATTTTTAGCATGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGA
9537142 CTTCG
260 CTTCG
* * * *
9537147 ATCTGCTTTGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTACACTGTAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTACACTGCAACCCA
* * *
9537212 GGGAGGCAAGGCTGGTGTCTTTGATCTGTTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTTATTT
66 GGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGAAAGGCAAGATCTGCTATTT
* * * * *
9537277 TTAGCCTACTCTGCTGCAACCCAGGGAGGCAAGGTTGCTGACTTCGATCTGCTTCGCTGCCAGTA
131 TCAGCCTACTCTACTACAACCCAGGGAGGCAAGGCTGATGACTTCGATCTGCTTCGCTGCCAGTA
*
9537342 TAGGAAGGCAAGATCTG
196 CAGGAAGGCAAGATCTG
9537359 TTATCTTCAC
Statistics
Matches: 192, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
264 191 0.99
265 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (264 bp):
ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTACACTGCAACCCA
GGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGAAAGGCAAGATCTGCTATTT
TCAGCCTACTCTACTACAACCCAGGGAGGCAAGGCTGATGACTTCGATCTGCTTCGCTGCCAGTA
CAGGAAGGCAAGATCTGCTATTTTTAGCATGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGAC
TTCG
Found at i:9537510 original size:16 final size:17
Alignment explanation
Indices: 9537489--9537521 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9537479 CGAATGCATA
9537489 ATTTA-TTTATTTTTTT
1 ATTTATTTTATTTTTTT
9537505 ATTTATTTTATTTTTTT
1 ATTTATTTTATTTTTTT
9537522 GAGAATGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
ATTTATTTTATTTTTTT
Found at i:9545352 original size:22 final size:21
Alignment explanation
Indices: 9545317--9545395 Score: 63
Period size: 22 Copynumber: 3.7 Consensus size: 21
9545307 AAAGGGTATC
* * *
9545317 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
9545338 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
9545361 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
9545380 TGCATATATCATATCT
1 TACA-A-ATCATATCT
9545396 AAGATTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
19 11 0.24
21 9 0.20
22 15 0.33
23 11 0.24
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:9545362 original size:23 final size:22
Alignment explanation
Indices: 9545317--9545374 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
9545307 AAAGGGTATC
* * *
9545317 TACAAATTAAATC-TCTAATAT
1 TACAAATCATATCTTCTAAGAT
9545338 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
9545361 TACATATCATATCT
1 TACAAATCATATCT
9545375 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:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:9545377 original size:19 final size:19
Alignment explanation
Indices: 9545353--9545408 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
9545343 AATCATATCT
9545353 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
9545372 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
9545393 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
9545409 CTCGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 14 0.44
21 18 0.56
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:9545390 original size:21 final size:21
Alignment explanation
Indices: 9545364--9545407 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
9545354 CTAAGATTAC
9545364 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
9545385 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
9545406 AT
1 AT
9545408 CCTCGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:9549850 original size:23 final size:23
Alignment explanation
Indices: 9549786--9549853 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
9549776 TAAATTACGG
9549786 TTACTTAAGTGTTCTAAATAGAT
1 TTACTTAAGTGTTCTAAATAGAT
* *
9549809 TTAATTCA-TGTT-TATAATATGA-
1 TTACTTAAGTGTTCTA-AATA-GAT
*
9549831 TTACTGAAGTGTTCTAAATAGAT
1 TTACTTAAGTGTTCTAAATAGAT
9549854 ATAAATCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
21 2 0.06
22 15 0.43
23 16 0.46
24 2 0.06
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.44
Consensus pattern (23 bp):
TTACTTAAGTGTTCTAAATAGAT
Found at i:9551533 original size:114 final size:113
Alignment explanation
Indices: 9551375--9551729 Score: 471
Period size: 114 Copynumber: 3.1 Consensus size: 113
9551365 ATGTATAACC
* * * *
9551375 TTTGCAGCATTTTAGCCCAAACGCCACTAAAAATGCTACTAAAAACAGTGCCGTTTTGCAAAATT
1 TTTGCGGCGTTTTAGCCCAAACGCCACTAAAAAAGCTGCTAAAAA-AGTGCCGTTTTGCAAAATT
* *
9551440 TTAATACATATTCACGGCGTTTTTGGTCCAAACGCCGCAATTGCTTCCT
65 TTAATACATATTCGCGGCGTTTTTGGTCCAAACGCCGCTATTGCTTCCT
* * * * * *
9551489 TTTGCGGTGTTTTAGCCTAAATGCTACTAAAAAAGCTGCTAAAAATG-GCATTGTTTTGCAAAAT
1 TTTGCGGCGTTTTAGCCCAAACGCCACTAAAAAAGCTGCTAAAAAAGTGC--CGTTTTGCAAAAT
*
9551553 TTTAATACATATTCGCGGCGTTTTTGGTCTAAACGCCGCTATTGCTTCCT
64 TTTAATACATATTCGCGGCGTTTTTGGTCCAAACGCCGCTATTGCTTCCT
* *
9551603 TTTGCGGCGTTTTAGCCCAAACGCCACTAAAAGAGCTGCTAAAAATGGTGCCGTTTTGCAAAATT
1 TTTGCGGCGTTTTAGCCCAAACGCCACTAAAAAAGCTGCTAAAAA-AGTGCCGTTTTGCAAAATT
* * * * *
9551668 TTAATACATATTTGCGGCATTTTTTGTCCAAACACCGCTATTGCTTCAT
65 TTAATACATATTCGCGGCGTTTTTGGTCCAAACGCCGCTATTGCTTCCT
*
9551717 TTTACGGC-TTTTA
1 TTTGCGGCGTTTTA
9551730 TAATAAAAAC
Statistics
Matches: 210, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
112 2 0.01
113 6 0.03
114 199 0.95
115 1 0.00
116 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (113 bp):
TTTGCGGCGTTTTAGCCCAAACGCCACTAAAAAAGCTGCTAAAAAAGTGCCGTTTTGCAAAATTT
TAATACATATTCGCGGCGTTTTTGGTCCAAACGCCGCTATTGCTTCCT
Found at i:9552507 original size:21 final size:22
Alignment explanation
Indices: 9552464--9552521 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
9552454 AATAAAAAAT
* **
9552464 ATTTTAGTTTTTTATTTTATTA
1 ATTTTATTTTTTTAGCTTATTA
9552486 ATTTTATTTTTTTAGCTT-TTA
1 ATTTTATTTTTTTAGCTTATTA
*
9552507 AATTTATTTTATTTA
1 ATTTTATTTT-TTTA
9552522 TTAAATTACC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (22 bp):
ATTTTATTTTTTTAGCTTATTA
Found at i:9552644 original size:17 final size:17
Alignment explanation
Indices: 9552622--9552674 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
9552612 GCAATTAATT
9552622 AATTTTTAAATTTTAAA
1 AATTTTTAAATTTTAAA
* * *
9552639 AATTTTAAAAATATAAAA
1 AATTTT-TAAATTTTAAA
9552657 ATATTTTTAAA-TTTAAA
1 A-ATTTTTAAATTTTAAA
9552674 A
1 A
9552675 TTGATTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 11 0.39
18 12 0.43
19 5 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTTTTAAATTTTAAA
Found at i:9552662 original size:28 final size:28
Alignment explanation
Indices: 9552631--9552688 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
9552621 TAATTTTTAA
9552631 ATTTTAAAAATTTTAAAAAT-A-TAAAAAT
1 ATTTT-AAAA-TTTAAAAATGATTAAAAAT
* *
9552659 ATTTTTAAATTTAAAATTGATTAAAAAT
1 ATTTTAAAATTTAAAAATGATTAAAAAT
9552687 AT
1 AT
9552689 AAAAATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 8 0.31
27 4 0.15
28 14 0.54
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (28 bp):
ATTTTAAAATTTAAAAATGATTAAAAAT
Found at i:9552670 original size:36 final size:35
Alignment explanation
Indices: 9552623--9552694 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 35
9552613 CAATTAATTA
9552623 ATTTTTAAATTTTAAAAATT-TTAAAAATATAAAAAT
1 ATTTTTAAA-TTT-AAAATTATTAAAAATATAAAAAT
9552659 ATTTTTAAATTTAAAATTGATTAAAAATATAAAAAT
1 ATTTTTAAATTTAAAATT-ATTAAAAATATAAAAAT
9552695 TAATTAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 6 0.18
35 3 0.09
36 25 0.74
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (35 bp):
ATTTTTAAATTTAAAATTATTAAAAATATAAAAAT
Found at i:9552675 original size:17 final size:17
Alignment explanation
Indices: 9552623--9552675 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
9552613 CAATTAATTA
9552623 ATTTTTAAATTTTAAAA-
1 ATTTTTAAA-TTTAAAAT
* *
9552640 ATTTTAAAAATATAAAAAT
1 ATTTT-TAAAT-TTAAAAT
9552659 ATTTTTAAATTTAAAAT
1 ATTTTTAAATTTAAAAT
9552676 TGATTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 12 0.41
18 12 0.41
19 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTTTAAATTTAAAAT
Found at i:9552695 original size:19 final size:18
Alignment explanation
Indices: 9552635--9552701 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
9552625 TTTTAAATTT
9552635 TAAAAATT-TTAAAAATA
1 TAAAAATTATTAAAAATA
**
9552652 TAAAAA-TATTTTTAAAT-
1 TAAAAATTA-TTAAAAATA
*
9552669 TTAAAATTGATTAAAAATA
1 TAAAAATT-ATTAAAAATA
9552688 TAAAAATTAATTAA
1 TAAAAATT-ATTAA
9552702 TTAGTAACGT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
16 1 0.03
17 11 0.29
18 13 0.34
19 13 0.34
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (18 bp):
TAAAAATTATTAAAAATA
Found at i:9556291 original size:25 final size:25
Alignment explanation
Indices: 9556255--9556317 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
9556245 AAAAACTTAC
* * *
9556255 ACGGTGAT-CAGCGGAGGACTGTTG
1 ACGGCGATGCAGCAGAGGACTGTCG
9556279 ACGGCGATGCAGCAGAGGACTGTCG
1 ACGGCGATGCAGCAGAGGACTGTCG
9556304 ACGGCGATGCAGCA
1 ACGGCGATGCAGCA
9556318 AACGTTGGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 7 0.20
25 28 0.80
ACGTcount: A:0.24, C:0.22, G:0.40, T:0.14
Consensus pattern (25 bp):
ACGGCGATGCAGCAGAGGACTGTCG
Found at i:9557062 original size:19 final size:18
Alignment explanation
Indices: 9557023--9557062 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
9557013 AGGGGTTTTA
*
9557023 TTTTATTAGGGTTATGAT
1 TTTTATTAGGCTTATGAT
*
9557041 TTTTATTAGAGCTTATGGT
1 TTTTATTAG-GCTTATGAT
9557060 TTT
1 TTT
9557063 AAGGGTTACG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.20, C:0.03, G:0.20, T:0.57
Consensus pattern (18 bp):
TTTTATTAGGCTTATGAT
Found at i:9559933 original size:51 final size:51
Alignment explanation
Indices: 9559868--9560061 Score: 246
Period size: 51 Copynumber: 3.8 Consensus size: 51
9559858 TAAATGGTAC
* * *
9559868 CCGATTCACATAGTAGCCTACACATAGTACTACACATGTGACCATTTTCAT
1 CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCAT
* * * ***
9559919 CCGATACACGTAGTAGCCTGCACATAGTACTACATACGTGATCGAAGCT-AT
1 CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATTTTCAT
* * * *
9559970 CCGGTACGCATAGTAGCCTGCACATAGTACTACACACATTACCATTTTCAT
1 CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCAT
*
9560021 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGA
1 CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGA
9560062 TCTAGTAACT
Statistics
Matches: 117, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
50 3 0.03
51 111 0.95
52 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (51 bp):
CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCAT
Found at i:9560001 original size:102 final size:102
Alignment explanation
Indices: 9559876--9560063 Score: 331
Period size: 102 Copynumber: 1.8 Consensus size: 102
9559866 ACCCGATTCA
**
9559876 CATAGTAGCCTACACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACACATGACCATTTTCATCCGATACACGTAGTAGCCTGCA
*
9559941 CATAGTACTACATACGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* *
9559978 CATAGTAGCCTGCACATAGTACTACACACATTACCATTTTCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACACATGACCATTTTCATCCGATACACGTAGTAGCCTGCA
9560043 CATAGTACTACACACGTGATC
66 CATAGTACTACACACGTGATC
9560064 TAGTAACTTC
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 81 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (102 bp):
CATAGTAGCCTACACATAGTACTACACACATGACCATTTTCATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:9562928 original size:32 final size:33
Alignment explanation
Indices: 9562892--9562957 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
9562882 TGGCGGTAGA
9562892 AGACCAA-AGGTCTGAACCA-AGCGGCGCTTAGG
1 AGACCAACA-GTCTGAACCAGAGCGGCGCTTAGG
* *
9562924 AGACCAACAGTCTGAAGCAGGGGCGGCGCTTAGG
1 AGACCAACAGTCTGAACCA-GAGCGGCGCTTAGG
9562958 GTTTCAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 16 0.55
33 1 0.03
34 12 0.41
ACGTcount: A:0.29, C:0.24, G:0.35, T:0.12
Consensus pattern (33 bp):
AGACCAACAGTCTGAACCAGAGCGGCGCTTAGG
Found at i:9564050 original size:46 final size:46
Alignment explanation
Indices: 9563973--9564781 Score: 1186
Period size: 46 Copynumber: 17.6 Consensus size: 46
9563963 GGGTGATAGA
* * * * **
9563973 ATCTGCAATCTTCAATCGACTTCGCTGCCAAATACAAAAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* * * *
9564019 ATCTACTGTCTTCGATCTACTCCACTGCCAAATACAGGAAGACAAT
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
** *
9564065 ATCTGCTATCTTCGATCTACTCCTTTGCCAAATGCAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* *
9564111 ATCTGTTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* * *
9564157 ATCTGCTATCTTCGATCTACTCCTCTGCCAAATACAGGAAGATAAT
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* *
9564203 ATCTGCTATCTTCAATCTACTCCGCTGTCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* *
9564249 ATCTGCTATCTTCGATCTACTCCTCTGCTAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
9564295 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* *
9564341 ATCTGCTATCTTTGATCTACTCCGCTACCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* * * *
9564387 ATCTACTATTTTCGATCTACTCCGCTGCCAAATACATGAAAACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* *
9564433 ATCTGCTATCTTCGATCTTCTCTGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* * * * *
9564479 ATCTGCTATTTTCAATCTATTCTGCTGCCAAATATAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
9564525 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* * *
9564571 ATCTGCTATCTTGGATCTACTCCGCTGCCAAATATAGGAAGATAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* * * *
9564617 ATCTGCTATCTTTGATCTACTTCGCTACCAAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* *
9564663 ATCTGCTATCTTCGATCTACTCCTCTGCCAAATACAAGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* * **
9564709 ATCTGCTATCTTTGATCTACTTCTTTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
9564755 ATCTGCTATCTTCGATCTACTCCGCTG
1 ATCTGCTATCTTCGATCTACTCCGCTG
9564782 TCGATCTACT
Statistics
Matches: 680, Mismatches: 83, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 680 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (46 bp):
ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
Found at i:9564153 original size:138 final size:138
Alignment explanation
Indices: 9563973--9564920 Score: 1266
Period size: 138 Copynumber: 6.8 Consensus size: 138
9563963 GGGTGATAGA
* * * * ** * *
9563973 ATCTGCAATCTTCAATCGACTTCGCTGCCAAATACAAAAAGACAAGATCTACTGTCTTCGATCTA
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* * ** *
9564038 CTCCACTGCCAAATACAGGAAGACAATATCTGCTATCTTCGATCTACTCCTTTGCCAAATGCAGG
66 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGG
9564103 AAGACAAG
131 AAGACAAG
* *
9564111 ATCTGTTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* * * * *
9564176 CTCCTCTGCCAAATACAGGAAGATAATATCTGCTATCTTCAATCTACTCCGCTGTCAAATACAGG
66 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGG
9564241 AAGACAAG
131 AAGACAAG
* *
9564249 ATCTGCTATCTTCGATCTACTCCTCTGCTAAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* *
9564314 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTCCGCTACCAAATACAGG
66 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGG
9564379 AAGACAAG
131 AAGACAAG
* * * * *
9564387 ATCTACTATTTTCGATCTACTCCGCTGCCAAATACATGAAAACAAGATCTGCTATCTTCGATCTT
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* * * * * *
9564452 CTCTGCTGCCAAATACAGGAAGACAAGATCTGCTATTTTCAATCTATTCTGCTGCCAAATATAGG
66 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGG
9564517 AAGACAAG
131 AAGACAAG
*
9564525 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTGGATCTA
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* * * * * *
9564590 CTCCGCTGCCAAATATAGGAAGATAAGATCTGCTATCTTTGATCTACTTCGCTACCAAATACATG
66 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGG
9564655 AAGACAAG
131 AAGACAAG
* * *
9564663 ATCTGCTATCTTCGATCTACTCCTCTGCCAAATACAAGAAGACAAGATCTGCTATCTTTGATCTA
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* **
9564728 CTTCTTTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGTCGATCTACTC
66 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCG----A-T---C--T--A-CT-C-C
* *
9564793 TGCTGCCAAATACATGAAGATAAG
116 -GCTGCCAAATACAGGAAGACAAG
* * *
9564817 ATCTGCTATCTTCGATCTACTCTGTTGCCAAATACAGGAAGACAAGATCTACTATCTTCGATCTA
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
*
9564882 CTCCTCTGCCAAATACAGGAAGACAAGATCTGCTATCTT
66 CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTT
9564921 TTAGTCTATT
Statistics
Matches: 715, Mismatches: 79, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
138 590 0.83
142 1 0.00
143 1 0.00
146 1 0.00
148 1 0.00
150 1 0.00
151 2 0.00
153 1 0.00
154 117 0.16
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (138 bp):
ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
CTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGG
AAGACAAG
Found at i:9564787 original size:16 final size:16
Alignment explanation
Indices: 9564766--9564797 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9564756 TCTGCTATCT
9564766 TCGATCTACTCCGCTG
1 TCGATCTACTCCGCTG
*
9564782 TCGATCTACTCTGCTG
1 TCGATCTACTCCGCTG
9564798 CCAAATACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.34, G:0.19, T:0.34
Consensus pattern (16 bp):
TCGATCTACTCCGCTG
Done.