Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 131 of 163
Found at i:35824176 original size:59 final size:58
Alignment explanation
Indices: 35823976--35824178 Score: 223
Period size: 59 Copynumber: 3.5 Consensus size: 58
35823966 TAAAATTACA
* * *
35823976 TTTTGACCACGAAACTTTCAAAAATTACCATTTAACCCCTCGATGTCCAAAAACTCTAT
1 TTTTGACCTCGAAACTTTCAAAAATTACCATTTTACCCC-CAATGTCCAAAAACTCTAT
* * * * *
35824035 TTTTGACCTCGAACCTTT-TAAAATTACTATTTTACTCCCGAATGTCCAAAAAGT-TCAT
1 TTTTGACCTCGAAACTTTCAAAAATTACCATTTTAC-CCCCAATGTCCAAAAACTCT-AT
* **
35824093 TTTTGACCTCGAACCTTTTGAAAATTACCATTTTACCCCCAAATGTCCAAAAACTCTAT
1 TTTTGACCTCGAAACTTTCAAAAATTACCATTTTACCCCC-AATGTCCAAAAACTCTAT
* *
35824152 TTTTTATCCT-GAAACTTCCAAAAATTA
1 TTTTGA-CCTCGAAACTTTCAAAAATTA
35824179 TCGTATTACC
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
57 1 0.01
58 49 0.40
59 67 0.55
60 4 0.03
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (58 bp):
TTTTGACCTCGAAACTTTCAAAAATTACCATTTTACCCCCAATGTCCAAAAACTCTAT
Found at i:35824209 original size:117 final size:116
Alignment explanation
Indices: 35823964--35824252 Score: 261
Period size: 117 Copynumber: 2.5 Consensus size: 116
35823954 CCTGAACTTC
* *
35823964 TCTAAAATTACA-TTTTGACCACGAAACTTTCAAAAATTACCATTTAACCCCTCGATGTCCAAAA
1 TCTAAAATTTCATTTTTGACCACGAAACTTTCAAAAATTACCATTTAACCCCTCAATGTCCAAAA
* **
35824028 ACTCTATTTTTGACCTCGAACCTTTTAAAATTACTATTTTACTCCCGAATGT
66 ACTCTATTTTTGACCTCGAAACTTCAAAAATTACTA-TTTACTCCCGAATGT
* * * * * ** *
35824080 CCAAAAAGTTCATTTTTGACCTCGAACCTTTTGAAAATTACCATTTTACCCC-CAAATGTCCAAA
1 TCTAAAATTTCATTTTTGACCACGAAACTTTCAAAAATTACCATTTAACCCCTC-AATGTCCAAA
*
35824144 AACTCTATTTTTTATCCT-GAAACTTCCAAAAATTATCGTA-TTAC-CCTC-AGAT-T
65 AACTCTATTTTTGA-CCTCGAAACTT-CAAAAATTA-C-TATTTACTCC-CGA-ATGT
* * * * **
35824197 TCTAAAATTTCATTTTTAACC-CCAAATTTTCCTAAAATTACCATTTTTCCCCTCAA
1 TCTAAAATTTCATTTTTGACCACGAAACTTT-CAAAAATTACCATTTAACCCCTCAA
35824253 AAGTCTAAAA
Statistics
Matches: 139, Mismatches: 24, Indels: 19
0.76 0.13 0.10
Matches are distributed among these distances:
116 15 0.11
117 103 0.74
118 18 0.13
119 1 0.01
120 2 0.01
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (116 bp):
TCTAAAATTTCATTTTTGACCACGAAACTTTCAAAAATTACCATTTAACCCCTCAATGTCCAAAA
ACTCTATTTTTGACCTCGAAACTTCAAAAATTACTATTTACTCCCGAATGT
Found at i:35825742 original size:6 final size:6
Alignment explanation
Indices: 35825731--35825800 Score: 90
Period size: 6 Copynumber: 12.0 Consensus size: 6
35825721 TTATAATAAT
** *
35825731 TTTAAA TTTAAA AATAAA TTTAAA CTTAAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
35825778 -ATAAA TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
35825801 ACAAATTTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
5 9 0.16
6 46 0.84
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:35825801 original size:23 final size:23
Alignment explanation
Indices: 35825733--35825810 Score: 104
Period size: 23 Copynumber: 3.4 Consensus size: 23
35825723 ATAATAATTT
** *
35825733 TAAATTTAAAAATAAATTTAAACT
1 TAAATTTAAATTTAAATTTAAA-A
35825757 TAAA-TTAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAATTTAAAA
35825779 TAAATTTAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAATTTAAAA
*
35825802 CAAATTTAA
1 TAAATTTAA
35825811 TCTTAAAGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
22 4 0.08
23 41 0.84
24 4 0.08
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAATTTAAATTTAAATTTAAAA
Found at i:35825810 original size:17 final size:17
Alignment explanation
Indices: 35825712--35825794 Score: 112
Period size: 17 Copynumber: 4.8 Consensus size: 17
35825702 ACTTTTATTT
*
35825712 ATTTAAAATTTATAATAA
1 ATTT-AAATTTAAAATAA
*
35825730 TTTTAAATTTAAAAATAA
1 ATTTAAATTT-AAAATAA
* *
35825748 ATTTAAACTTAAATTAA
1 ATTTAAATTTAAAATAA
35825765 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
35825782 ATTTAAATTTAAA
1 ATTTAAATTTAAA
35825795 TTTAAAACAA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
17 40 0.70
18 17 0.30
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:35826413 original size:36 final size:36
Alignment explanation
Indices: 35826357--35826499 Score: 162
Period size: 36 Copynumber: 3.9 Consensus size: 36
35826347 GACTAACTGA
* * *
35826357 TGGTGATCTGTCTCAGGTTTGAGGTAAGAGATTGAG
1 TGGTGATCTGCCCCAGGTTTGAGGTAAGAGATCGAG
*
35826393 TGGTGATCTGCCCCAAGTTTGAGGTAAGAGATCGAG
1 TGGTGATCTGCCCCAGGTTTGAGGTAAGAGATCGAG
* *
35826429 TGGTGATCTGCCCCAGGCTCGAGGTAAGAGATCG-G
1 TGGTGATCTGCCCCAGGTTTGAGGTAAGAGATCGAG
** *
35826464 ATGGCTGCAATCTGCCCCAGACTCGAGGTAAGAGAT
1 -TGG-TG--ATCTGCCCCAGGTTTGAGGTAAGAGAT
35826500 TGGTTAATAG
Statistics
Matches: 95, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
35 1 0.01
36 66 0.69
37 2 0.02
39 26 0.27
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.24
Consensus pattern (36 bp):
TGGTGATCTGCCCCAGGTTTGAGGTAAGAGATCGAG
Found at i:35826515 original size:39 final size:38
Alignment explanation
Indices: 35826434--35826560 Score: 128
Period size: 39 Copynumber: 3.3 Consensus size: 38
35826424 TCGAGTGGTG
* *** *
35826434 ATCTGCCCCAGGCTCGAGGTAAGAGATCGGATGGCTGCA
1 ATCTGCCCCAGACTCGAGGTAAGAGATCGG-TTAATGTA
*
35826473 ATCTGCCCCAGACTCGAGGTAAGAGATTGGTTAATAGTA
1 ATCTGCCCCAGACTCGAGGTAAGAGATCGGTTAAT-GTA
* * * * *
35826512 ATCTGCCCTAGACTCGGGGTAAAAGATCGGCTAACGATA
1 ATCTGCCCCAGACTCGAGGTAAGAGATCGGTTAATG-TA
35826551 ATCTGCCCCA
1 ATCTGCCCCA
35826561 AGCTCGGGAT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
38 3 0.04
39 70 0.96
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (38 bp):
ATCTGCCCCAGACTCGAGGTAAGAGATCGGTTAATGTA
Found at i:35826865 original size:49 final size:50
Alignment explanation
Indices: 35826805--35827518 Score: 214
Period size: 49 Copynumber: 14.5 Consensus size: 50
35826795 TCTCGTCATG
* * *
35826805 TTTCTAAGGTACCGGATTCACCGTTGCGGTCGT-AACCTTTCCCTTCAAAT
1 TTTCTAAGGTACTGGATTCGCCGTTGCGG-CTTAAACCTTTCCCTTCAAAT
* *
35826855 TTTCT-AGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTC--AT
1 TTTCTAAGGTACTGGATTCGCCGTTGCGGCTTAAACCTTTCCCTTCAAAT
* * * ** *
35826902 GTTTCTGAGGTACAAGG-TTCGTCGTTGCGATTTAAACCTTTCCCTTTAAAT
1 -TTTCTAAGGTAC-TGGATTCGCCGTTGCGGCTTAAACCTTTCCCTTCAAAT
* * ***
35826953 CTTCGT--GGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGC
1 TTTC-TAAGGTACTGGATTCGCCGTTGCGGCTTAAACCTTTCCCTTCAAAT
* * * * *
35827002 TTCCT-GGGTACAAGG-TTCGCCGTTGCGACTTAAACCTTTCCCTT--TAT
1 TTTCTAAGGTAC-TGGATTCGCCGTTGCGGCTTAAACCTTTCCCTTCAAAT
* ** * * * *
35827049 TTCCTTGTGGAACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTC--AT
1 TTTC-TAAGGTACTGGATTCGCCGTTGCGGCTTAAACCTTTCCCTTCAAAT
* * *** * * *
35827098 GCTTCTGAGGTA-TAAGG-TTTTTCGTTGCGACTTAAACCTTTTCCCTCCATAT
1 -TTTCTAAGGTACT--GGATTCGCCGTTGCGGCTTAAACC-TTTCCCTTCAAAT
* * * * * * * ***
35827150 CTTCGT--GGTATTAGATTCGTCGTTACGGCTTAAATCTTTCCTTTCATGC
1 TTTC-TAAGGTACTGGATTCGCCGTTGCGGCTTAAACCTTTCCCTTCAAAT
* * * * *
35827199 TTCCT-AGGTACAAGG-TTCACCGTTGCGACTTAAACCTTTCCCTT--TAT
1 TTTCTAAGGTAC-TGGATTCGCCGTTGCGGCTTAAACCTTTCCCTTCAAAT
* ** * * *
35827246 TTCCTTGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCC-TC-CAT
1 TTTC-TAAGGTACTGGATTCGCCGTTGCGGCTTAAACCTTTCCCTTCAAAT
* * * * ** * * * *
35827295 GCTTCTGAGGTACAAGG-TTCGCCATTATGACTTAAACACCTTTCTCTCCATAT
1 -TTTCTAAGGTAC-TGGATTCGCCGTTGCGGCTT-AA-ACCTTTCCCTTCAAAT
* * * **** * ***
35827348 CTTC-ATGGTATTGGATTTTTTGTTGCGACTTAAATCC-TTCCCTTCATGC
1 TTTCTAAGGTACTGGATTCGCCGTTGCGGCTTAAA-CCTTTCCCTTCAAAT
* * * *
35827397 TTCCT-AGGTACAAGG-TTCGCCGTTGCGACTTAAA-CTTTCCCTT--TAT
1 TTTCTAAGGTAC-TGGATTCGCCGTTGCGGCTTAAACCTTTCCCTTCAAAT
* ** * *
35827443 TTCCTTGTGGTACTGGATTCGCCGTTGCGACTTAAATCTTTCCCTTCAAAT
1 TTTC-TAAGGTACTGGATTCGCCGTTGCGGCTTAAACCTTTCCCTTCAAAT
* * *
35827494 CTTC-AAGGTACTAGATTCGTCGTTG
1 TTTCTAAGGTACTGGATTCGCCGTTG
35827519 TGGTCTGAAT
Statistics
Matches: 492, Mismatches: 126, Indels: 93
0.69 0.18 0.13
Matches are distributed among these distances:
46 5 0.01
47 16 0.03
48 48 0.10
49 325 0.66
50 56 0.11
51 32 0.07
52 8 0.02
53 2 0.00
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.38
Consensus pattern (50 bp):
TTTCTAAGGTACTGGATTCGCCGTTGCGGCTTAAACCTTTCCCTTCAAAT
Found at i:35826963 original size:98 final size:99
Alignment explanation
Indices: 35826838--35827490 Score: 788
Period size: 98 Copynumber: 6.6 Consensus size: 99
35826828 TTGCGGTCGT
* * *
35826838 AACCTTTCCCTTCAAATTTTC-TAGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCAT
1 AACCTTTCCCTTTATATCTTCGT-GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCAT
* * *
35826902 G-TTTCTGAGGTACAAGGTTCGTCGTTGCGATTTA
65 GCTTCCTGAGGTACAAGGTTCGCCGTTGCGACTTA
* *
35826936 AACCTTTCCCTTTAAATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATG
1 AACCTTTCCCTTTATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATG
35827001 CTTCCTG-GGTACAAGGTTCGCCGTTGCGACTTA
66 CTTCCTGAGGTACAAGGTTCGCCGTTGCGACTTA
* * *
35827034 AACCTTTCCCTTTATTTCCTT-GTGGAACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCAT
1 AACCTTTCCCTTTATAT-CTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCAT
* ***
35827098 GCTT-CTGAGGTATAAGGTTTTTCGTTGCGACTTA
65 GCTTCCTGAGGTACAAGGTTCGCCGTTGCGACTTA
** * * * *
35827132 AACCTTTTCCCTCCATATCTTCGTGGTATTAGATTCGTCGTTACGGCTTAAATCTTTCCTTTCAT
1 AACC-TTTCCCTTTATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCAT
*
35827197 GCTTCCT-AGGTACAAGGTTCACCGTTGCGACTTA
65 GCTTCCTGAGGTACAAGGTTCGCCGTTGCGACTTA
* *
35827231 AACCTTTCCCTTTATTTCCTT-GTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTCCAT
1 AACCTTTCCCTTTATAT-CTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCAT
* **
35827295 GCTT-CTGAGGTACAAGGTTCGCCATTATGACTTAA
65 GCTTCCTGAGGTACAAGGTTCGCCGTTGCGACTT-A
* ** * * * **** * *
35827330 ACACCTTTCTCTCCATATCTTCATGGTATTGGATTTTTTGTTGCGACTTAAATCCTTCCCTTCAT
1 A-ACCTTTCCCTTTATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCAT
35827395 GCTTCCT-AGGTACAAGGTTCGCCGTTGCGACTTA
65 GCTTCCTGAGGTACAAGGTTCGCCGTTGCGACTTA
* * *
35827429 AA-CTTTCCCTTTATTTCCTT-GTGGTACTGGATTCGCCGTTGCGACTTAAATCTTTCCCTTCA
1 AACCTTTCCCTTTATAT-CTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCA
35827491 AATCTTCAAG
Statistics
Matches: 473, Mismatches: 68, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
97 50 0.11
98 250 0.53
99 97 0.21
100 74 0.16
101 2 0.00
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.39
Consensus pattern (99 bp):
AACCTTTCCCTTTATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATG
CTTCCTGAGGTACAAGGTTCGCCGTTGCGACTTA
Found at i:35827237 original size:197 final size:196
Alignment explanation
Indices: 35826861--35827490 Score: 947
Period size: 197 Copynumber: 3.2 Consensus size: 196
35826851 AAATTTTCTA
*
35826861 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGTCG
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGTCG
* ** * * *
35826926 TTGCGATTTAAACCTTTCCCTTTAAATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTT
66 TTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTATTGGATTCGTCGTTGCGGCTTAAATCTT
*
35826991 TCCCTTCATGCTTCCTGGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATTTCCTTG
131 TCCCTTCATGCTTCCTAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATTTCCTTG
35827056 T
196 T
* * * **
35827057 GGAACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTATAAGGTTTTTCG
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGTCG
* *
35827122 TTGCGACTTAAACCTTTTCCCTCCATATCTTCGTGGTATTAGATTCGTCGTTACGGCTTAAATCT
66 TTGCGACTTAAACC-TTTCCCTCCATATCTTCGTGGTATTGGATTCGTCGTTGCGGCTTAAATCT
* *
35827187 TTCCTTTCATGCTTCCTAGGTACAAGGTTCACCGTTGCGACTTAAACCTTTCCCTTTATTTCCTT
130 TTCCCTTCATGCTTCCTAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATTTCCTT
35827252 GT
195 GT
* * *
35827254 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTCCATGCTTCTGAGGTACAAGGTTCGCCA
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGTCG
** * * ** * *
35827319 TTATGACTTAAACACCTTTCTCTCCATATCTTCATGGTATTGGATTTTTTGTTGCGACTTAAATC
66 TTGCGACTT-AA-ACCTTTCCCTCCATATCTTCGTGGTATTGGATTCGTCGTTGCGGCTTAAATC
*
35827384 CTTCCCTTCATGCTTCCTAGGTACAAGGTTCGCCGTTGCGACTTAAA-CTTTCCCTTTATTTCCT
129 TTTCCCTTCATGCTTCCTAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATTTCCT
35827448 TGT
194 TGT
* *
35827451 GGTACTGGATTCGCCGTTGCGACTTAAATCTTTCCCTTCA
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCA
35827491 AATCTTCAAG
Statistics
Matches: 390, Mismatches: 41, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
196 72 0.18
197 228 0.58
198 87 0.22
199 3 0.01
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.39
Consensus pattern (196 bp):
GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGTCG
TTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTATTGGATTCGTCGTTGCGGCTTAAATCTT
TCCCTTCATGCTTCCTAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATTTCCTTG
T
Found at i:35829417 original size:6 final size:6
Alignment explanation
Indices: 35829394--35829463 Score: 72
Period size: 6 Copynumber: 12.0 Consensus size: 6
35829384 TTATAATAAT
* ** *
35829394 TTTAAT TTTAAA AATAAA TTTAAA CTTAAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
35829441 TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
35829464 ACAAATTTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
5 9 0.17
6 44 0.83
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:35829417 original size:12 final size:12
Alignment explanation
Indices: 35829395--35829473 Score: 58
Period size: 12 Copynumber: 6.8 Consensus size: 12
35829385 TATAATAATT
*
35829395 TTAATTTTAAAA
1 TTAAATTTAAAA
* *
35829407 ATAAATTTAAAC
1 TTAAATTTAAAA
*
35829419 TTAAA-TTAAAT
1 TTAAATTTAAAA
*
35829430 TTAAATTTAAAT
1 TTAAATTTAAAA
*
35829442 TTAAA-AT-AAA
1 TTAAATTTAAAA
35829452 TCTAAATTTAAAA
1 T-TAAATTTAAAA
*
35829465 -CAAATTTAA
1 TTAAATTTAA
35829474 TCTTAAAATA
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 3 0.06
11 23 0.43
12 25 0.46
13 3 0.06
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (12 bp):
TTAAATTTAAAA
Found at i:35829430 original size:17 final size:17
Alignment explanation
Indices: 35829375--35829491 Score: 92
Period size: 17 Copynumber: 6.4 Consensus size: 17
35829365 ACTTTTATTT
*
35829375 ATTTAAAATTTATAATAA
1 ATTT-AAATTTAAAATAA
* *
35829393 TTTTAATTTTAAAAATAA
1 ATTTAAATTT-AAAATAA
*
35829411 ATTTAAACTTAAATTAAATTTAA
1 ATTTAAA--T---TTAAA-ATAA
35829434 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
* *
35829451 ATCTAAATTTAAAACAA
1 ATTTAAATTTAAAATAA
35829468 ATTT-AATCTTAAAATAA
1 ATTTAAAT-TTAAAATAA
35829485 ATTTAAA
1 ATTTAAA
35829492 ATAGGTTTGG
Statistics
Matches: 79, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.04
17 38 0.48
18 21 0.27
20 1 0.01
21 1 0.01
22 3 0.04
23 12 0.15
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:35829434 original size:23 final size:23
Alignment explanation
Indices: 35829408--35829463 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
35829398 ATTTTAAAAA
* *
35829408 TAAATTTAAACTTAAATTAAATT
1 TAAATTTAAACTTAAAATAAATC
*
35829431 TAAATTTAAATTTAAAATAAATC
1 TAAATTTAAACTTAAAATAAATC
35829454 TAAATTTAAA
1 TAAATTTAAA
35829464 ACAAATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAATTTAAACTTAAAATAAATC
Found at i:35829494 original size:11 final size:11
Alignment explanation
Indices: 35829408--35829491 Score: 62
Period size: 11 Copynumber: 7.4 Consensus size: 11
35829398 ATTTTAAAAA
*
35829408 TAAATTTAAACT
1 TAAA-TTAAATT
35829420 TAAATTAAATT
1 TAAATTAAATT
35829431 TAAATTTAAATT
1 TAAA-TTAAATT
* *
35829443 TAAAATAAATC
1 TAAATTAAATT
*
35829454 TAAATTTAAA-A
1 TAAA-TTAAATT
* *
35829465 CAAATTTAATCT
1 TAAATTAAAT-T
*
35829477 TAAAATAAATT
1 TAAATTAAATT
35829488 TAAA
1 TAAA
35829492 ATAGGTTTGG
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
10 4 0.07
11 27 0.47
12 26 0.46
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAATTAAATT
Found at i:35831172 original size:17 final size:17
Alignment explanation
Indices: 35831152--35831222 Score: 97
Period size: 17 Copynumber: 4.2 Consensus size: 17
35831142 AATAAGTTTG
*
35831152 AATTTATTTTAAATTCA
1 AATTTATTTTAAATTTA
* *
35831169 AATTTATTTTGAGTTTA
1 AATTTATTTTAAATTTA
*
35831186 AATTTACTTTAAATTTA
1 AATTTATTTTAAATTTA
*
35831203 AATTTATTTTAAATTAA
1 AATTTATTTTAAATTTA
35831220 AAT
1 AAT
35831223 AAAATTAAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 46 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:35831181 original size:51 final size:51
Alignment explanation
Indices: 35831126--35831222 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 51
35831116 CAACACTTAA
* * *
35831126 TTGAGTCCAAATTTTA-AATAAGTTTGAATTTATTTTAAATTCAAATTTATT
1 TTGAGTCCAAA-TTTACAATAAATTTAAATTTATTTTAAATTAAAATTTATT
** **
35831177 TTGAGTTTAAATTTACTTTAAATTTAAATTTATTTTAAATTAAAAT
1 TTGAGTCCAAATTTACAATAAATTTAAATTTATTTTAAATTAAAAT
35831223 AAAATTAAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 4 0.11
51 34 0.89
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (51 bp):
TTGAGTCCAAATTTACAATAAATTTAAATTTATTTTAAATTAAAATTTATT
Found at i:35831184 original size:34 final size:34
Alignment explanation
Indices: 35831146--35831212 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
35831136 ATTTTAAATA
* *
35831146 AGTTTGAATTTATTTTAAATTCAAATTTATTTTG
1 AGTTTAAATTTACTTTAAATTCAAATTTATTTTG
*
35831180 AGTTTAAATTTACTTTAAATTTAAATTTATTTT
1 AGTTTAAATTTACTTTAAATTCAAATTTATTTT
35831213 AAATTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (34 bp):
AGTTTAAATTTACTTTAAATTCAAATTTATTTTG
Found at i:35831956 original size:16 final size:16
Alignment explanation
Indices: 35831937--35831968 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35831927 AAGATGTTTT
35831937 AAAAGAAAGAAATTTG
1 AAAAGAAAGAAATTTG
*
35831953 AAAAGAAAGAATTTTG
1 AAAAGAAAGAAATTTG
35831969 TAATAACAAA
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:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (16 bp):
AAAAGAAAGAAATTTG
Found at i:35832905 original size:29 final size:28
Alignment explanation
Indices: 35832866--35833353 Score: 132
Period size: 29 Copynumber: 16.7 Consensus size: 28
35832856 AAACTATCAA
*
35832866 AAAATTACATTTTTGCCCCTAAACTTTCC
1 AAAATTACATTTTTACCCC-AAACTTTCC
* * *
35832895 AAAATTCCATTTTAACCCCAAATTTTCC
1 AAAATTACATTTTTACCCCAAACTTTCC
*
35832923 AAAAATTACATTTTTACCCCCGAACTTTCC
1 -AAAATTACATTTTTA-CCCCAAACTTTCC
** *
35832953 AAAATCCCATTTTTGACCTCAAAAC-TTCC
1 AAAATTACATTTTT-ACC-CCAAACTTTCC
* ** *
35832982 AAAAATTATCA-TTTTACCATCGGA-TGTCC
1 -AAAATTA-CATTTTTACC-CCAAACTTTCC
* *
35833011 AAAAATTCCATTTTTGACCCCGAACCTTT-C
1 -AAAATTACATTTTT-ACCCC-AAACTTTCC
* * *
35833041 AAAACTTACCA-TTTTACCCCCGAA-TATCTA
1 AAAA-TTA-CATTTTTA-CCCCAAACTTTC-C
*
35833071 AAAATT-CTATTTTTAACCCTAAACTTTCC
1 AAAATTAC-ATTTTT-ACCCCAAACTTTCC
** *
35833100 AAAATTACCA-TTTTACCCTCGGA-TGTCC
1 AAAATTA-CATTTTTACCC-CAAACTTTCC
*
35833128 AAAAACTT-CATTTTTGACCTCGAAA-TTTCC
1 -AAAA-TTACATTTTT-ACC-CCAAACTTTCC
** * *
35833158 AAAAATTACCA-TTTTACCCTCGGA-TGTCTA
1 -AAAATTA-CATTTTTACCC-CAAACTTTC-C
*
35833188 AAAACT-CTATTTTTAACCCCAAACTTTCC
1 AAAATTAC-ATTTTT-ACCCCAAACTTTCC
* *
35833217 AAAAATTACCA-TTTTACCCTCAAA-TATCTA
1 -AAAATTA-CATTTTTACCC-CAAACTTTC-C
* * * * *
35833247 AAAACTCCATTTTTGACCTCGAACCTTTCA
1 AAAATTACATTTTT-ACC-CCAAACTTTCC
*
35833277 AAAATTACCA-TTTTACCCCTAAA-TGTCC
1 AAAATTA-CATTTTTACCCC-AAACTTTCC
* * * *
35833305 AAAAATTCCATTTTTGATCTCAAACCTTCC
1 -AAAATTACATTTTT-ACCCCAAACTTTCC
35833335 AAAATTACCA-TTTTACCCC
1 AAAATTA-CATTTTTACCCC
35833354 CGGATGTCTA
Statistics
Matches: 332, Mismatches: 75, Indels: 105
0.65 0.15 0.21
Matches are distributed among these distances:
27 2 0.01
28 36 0.11
29 166 0.50
30 110 0.33
31 17 0.05
32 1 0.00
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.34
Consensus pattern (28 bp):
AAAATTACATTTTTACCCCAAACTTTCC
Found at i:35833016 original size:59 final size:59
Alignment explanation
Indices: 35832919--35833406 Score: 440
Period size: 59 Copynumber: 8.3 Consensus size: 59
35832909 ACCCCAAATT
* *
35832919 TTCCAAAAATTA-CATTTTTACCCCCGAACTTTCC-AAAATCCCATTTTTGACCTCAAAAC
1 TTCCAAAAATTACCA-TTTTACCCCCGAA-TGTCCAAAAATCCCATTTTTGACCTCGAAAC
* ** * * * *
35832978 TTCCAAAAATTATCATTTTACCATCGGATGTCCAAAAATTCCATTTTTGACCCCGAACC
1 TTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATCCCATTTTTGACCTCGAAAC
* * * * * * * *
35833037 TTTCAAAACTTACCATTTTACCCCCGAATATCTAAAAATTCTATTTTTAACC-CTAAAC
1 TTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATCCCATTTTTGACCTCGAAAC
* * * *
35833095 TTTCC-AAAATTACCATTTTACCCTCGGATGTCCAAAAA-CTTCATTTTTGACCTCGAAAT
1 -TTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATC-CCATTTTTGACCTCGAAAC
* * * * * *
35833154 TTCCAAAAATTACCATTTTACCCTCGGATGTCTAAAAA-CTCTATTTTTAACC-CCAAAC
1 TTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATC-CCATTTTTGACCTCGAAAC
* * * * *
35833212 TTTCCAAAAATTACCATTTTACCCTCAAATATCTAAAAA-CTCCATTTTTGACCTCGAACC
1 -TTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATC-CCATTTTTGACCTCGAAAC
* ** * *
35833272 TTTCAAAAATTACCATTTTACCCCTAAATGTCCAAAAATTCCATTTTTGATCTC-AAACC
1 TTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATCCCATTTTTGACCTCGAAA-C
* * * *
35833331 TTCC-AAAATTACCATTTTACCCCCGGATGTCTAAAAATTCCATTTTTGATCCT-GAACC
1 TTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATCCCATTTTTGA-CCTCGAAAC
*
35833389 TTCCAAAAATTACTATTT
1 TTCCAAAAATTACCATTT
35833407 CCCCTGGGTG
Statistics
Matches: 355, Mismatches: 61, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
58 101 0.28
59 248 0.70
60 6 0.02
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (59 bp):
TTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATCCCATTTTTGACCTCGAAAC
Found at i:35833124 original size:117 final size:118
Alignment explanation
Indices: 35832895--35833406 Score: 549
Period size: 117 Copynumber: 4.4 Consensus size: 118
35832885 TAAACTTTCC
* ** * *
35832895 AAAATTCCA-TTTTAACCCC-AAATTTTCCAAAAATTA-CATTTTTACCCCCGAACTTTC-CAAA
1 AAAATTCCATTTTTGACCCCGAACCTTT-CAAAAATTACCA-TTTTACCCCCGAA-TGTCTAAAA
* * * * *
35832956 ATCCCATTTTTGACCTCAAAAC-TTCCAAAAATTATCATTTTACCATCGGATGTCCA
63 ATTCCATTTTTAACC-CTAAACTTTCCAAAAATTACCATTTTACCCTCGGATGTCCA
* *
35833012 AAAATTCCATTTTTGACCCCGAACCTTTCAAAACTTACCATTTTACCCCCGAATATCTAAAAATT
1 AAAATTCCATTTTTGACCCCGAACCTTTCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATT
*
35833077 CTATTTTTAACCCTAAACTTTCC-AAAATTACCATTTTACCCTCGGATGTCCA
66 CCATTTTTAACCCTAAACTTTCCAAAAATTACCATTTTACCCTCGGATGTCCA
* * * *
35833129 AAAACTT-CATTTTTGACCTCGAA-ATTTCCAAAAATTACCATTTTACCCTCGGATGTCTAAAAA
1 AAAA-TTCCATTTTTGACCCCGAACCTTT-CAAAAATTACCATTTTACCCCCGAATGTCTAAAAA
* * * ** * *
35833192 CTCTATTTTTAACCCCAAACTTTCCAAAAATTACCATTTTACCCTCAAATATCTA
64 TTCCATTTTTAACCCTAAACTTTCCAAAAATTACCATTTTACCCTCGGATGTCCA
* * ** *
35833247 AAAACTCCATTTTTGACCTCGAACCTTTCAAAAATTACCATTTTACCCCTAAATGTCCAAAAATT
1 AAAATTCCATTTTTGACCCCGAACCTTTCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATT
* * * * *
35833312 CCATTTTTGA-TCTCAAACCTTCC-AAAATTACCATTTTACCCCCGGATGTCTA
66 CCATTTTTAACCCT-AAACTTTCCAAAAATTACCATTTTACCCTCGGATGTCCA
* * * *
35833364 AAAATTCCATTTTTGATCCTGAACCTTCCAAAAATTACTATTT
1 AAAATTCCATTTTTGACCCCGAACCTTTCAAAAATTACCATTT
35833407 CCCCTGGGTG
Statistics
Matches: 337, Mismatches: 47, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
116 3 0.01
117 181 0.54
118 143 0.42
119 10 0.03
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (118 bp):
AAAATTCCATTTTTGACCCCGAACCTTTCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATT
CCATTTTTAACCCTAAACTTTCCAAAAATTACCATTTTACCCTCGGATGTCCA
Found at i:35833228 original size:176 final size:174
Alignment explanation
Indices: 35832895--35833406 Score: 595
Period size: 176 Copynumber: 2.9 Consensus size: 174
35832885 TAAACTTTCC
* * *
35832895 AAAATTCCA-TTTTAACCCCAAATTTTCCAAAAATTA-CATTTTTACCCCCGAACTTTCCAAAAT
1 AAAATTCCATTTTTAACCCCAAACTTTCC-AAAATTACCA-TTTTA-CCCCGAA-TGTCCAAAAA
* * * *
35832958 C-CCATTTTTGACCTCAAAACTTCCAAAAATTATCATTTTACCATCGGATGTCCAAAAATTCCAT
62 CTTCATTTTTGACCTC-AAACTTCCAAAAATTACCATTTTACCCTCGGATGTCTAAAAATTCCAT
* * *
35833022 TTTTGACCCCGAACCTTT-CAAAACTTACCATTTTACCCCCGAATATCTA
126 TTTTGACCCC-AAACTTTCCAAAAATTACCATTTTACCCCCAAATATCTA
* * *
35833071 AAAATTCTATTTTTAACCCTAAACTTTCCAAAATTACCATTTTACCCTCGGATGTCCAAAAACTT
1 AAAATTCCATTTTTAACCCCAAACTTTCCAAAATTACCATTTTACCC-CGAATGTCCAAAAACTT
* * *
35833136 CATTTTTGACCTCGAAATTTCCAAAAATTACCATTTTACCCTCGGATGTCTAAAAACTCTATTTT
65 CATTTTTGACCTC-AAACTTCCAAAAATTACCATTTTACCCTCGGATGTCTAAAAATTCCATTTT
* *
35833201 TAACCCCAAACTTTCCAAAAATTACCATTTTACCCTCAAATATCTA
129 TGACCCCAAACTTTCCAAAAATTACCATTTTACCCCCAAATATCTA
* * * * * *
35833247 AAAACTCCATTTTTGACCTCGAACCTTTCAAAAATTACCATTTTACCCCTAAATGTCCAAAAA-T
1 AAAATTCCATTTTTAACC-CCAAACTTTCCAAAATTACCATTTTACCCC-GAATGTCCAAAAACT
* *
35833311 TCCATTTTTGATCTCAAACCTTCC-AAAATTACCATTTTACCCCCGGATGTCTAAAAATTCCATT
64 T-CATTTTTGACCTCAAA-CTTCCAAAAATTACCATTTTACCCTCGGATGTCTAAAAATTCCATT
* ** * *
35833375 TTTGATCCTGAACCTTCCAAAAATTACTATTT
127 TTTGACCCCAAACTTTCCAAAAATTACCATTT
35833407 CCCCTGGGTG
Statistics
Matches: 289, Mismatches: 38, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
175 18 0.06
176 199 0.69
177 72 0.25
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (174 bp):
AAAATTCCATTTTTAACCCCAAACTTTCCAAAATTACCATTTTACCCCGAATGTCCAAAAACTTC
ATTTTTGACCTCAAACTTCCAAAAATTACCATTTTACCCTCGGATGTCTAAAAATTCCATTTTTG
ACCCCAAACTTTCCAAAAATTACCATTTTACCCCCAAATATCTA
Found at i:35833449 original size:28 final size:26
Alignment explanation
Indices: 35833394--35833451 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
35833384 GAACCTTCCA
* * *
35833394 AAAATTACTATTTCCCCTGGGTGTCC
1 AAAATTACTATTTCCCCCGAGTATCC
35833420 AAAATTACTATTTTACCCCCGAGTATCC
1 AAAATTACTA-TTT-CCCCCGAGTATCC
35833448 AAAA
1 AAAA
35833452 GTCTCATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 10 0.37
27 3 0.11
28 14 0.52
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (26 bp):
AAAATTACTATTTCCCCCGAGTATCC
Found at i:35834726 original size:29 final size:29
Alignment explanation
Indices: 35834684--35834740 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
35834674 ATACCAACCC
35834684 TCCAACAAAGACCTTCATTAAAGAGCCTT
1 TCCAACAAAGACCTTCATTAAAGAGCCTT
*
35834713 TCCAACAAAGACCTTCATTAAGGAGCCT
1 TCCAACAAAGACCTTCATTAAAGAGCCT
35834741 CTTCGTAGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.23
Consensus pattern (29 bp):
TCCAACAAAGACCTTCATTAAAGAGCCTT
Found at i:35836526 original size:29 final size:29
Alignment explanation
Indices: 35836494--35836625 Score: 117
Period size: 29 Copynumber: 4.5 Consensus size: 29
35836484 ATTTGAGGGA
*
35836494 AAAATGGTAAATTTTGGATGTTCAGGGGC
1 AAAATGGTAAATTTTGGATGTTCAGGGGT
*
35836523 AAAATGG-AAATTTTTGGATGTTTAGGGGT
1 AAAATGGTAAA-TTTTGGATGTTCAGGGGT
* * * *
35836552 AAAATGATAACTTTTTGATGTTCGGGGGT
1 AAAATGGTAAATTTTGGATGTTCAGGGGT
* * *
35836581 AAAAAAT-GT-AATTTTGGAAAAGTTTAGGGTT
1 --AAAATGGTAAATTTTGG--ATGTTCAGGGGT
35836612 AAAATGGTAAATTT
1 AAAATGGTAAATTT
35836626 ATGAAATTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
28 3 0.04
29 55 0.68
30 5 0.06
31 18 0.22
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.36
Consensus pattern (29 bp):
AAAATGGTAAATTTTGGATGTTCAGGGGT
Found at i:35836556 original size:58 final size:58
Alignment explanation
Indices: 35836476--35836625 Score: 146
Period size: 58 Copynumber: 2.6 Consensus size: 58
35836466 AAAATGTGAT
* *
35836476 TTTTGGAAA-TTT-GAGGGAAAAATGGTAAATTTTGGATGTTCAGGGG-CAAAATGGAAA
1 TTTTGGAAAGTTTAG-GGGTAAAATGGTAAATTTTGGATGTTCAGGGGAAAAAAT-GAAA
* * * * * *
35836533 TTTTTGG-ATGTTTAGGGGTAAAATGATAACTTTTTGATGTTCGGGGGTAAAAAATGTAA
1 -TTTTGGAAAGTTTAGGGGTAAAATGGTAAATTTTGGATGTTCAGGGG-AAAAAATGAAA
*
35836592 TTTTGGAAAAGTTTAGGGTTAAAATGGTAAATTT
1 TTTTGG-AAAGTTTAGGGGTAAAATGGTAAATTT
35836626 ATGAAATTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
57 1 0.01
58 42 0.57
59 4 0.05
60 27 0.36
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (58 bp):
TTTTGGAAAGTTTAGGGGTAAAATGGTAAATTTTGGATGTTCAGGGGAAAAAATGAAA
Found at i:35836664 original size:60 final size:60
Alignment explanation
Indices: 35836600--35836766 Score: 176
Period size: 60 Copynumber: 2.8 Consensus size: 60
35836590 AATTTTGGAA
* * *
35836600 AAGTTT-AGGGTTAAAATGGTAAATTTATGAAATTTTAAGGGTCAAAACATTATTTTTAAG
1 AAGTTTAAGGGTTAAAAT-GTAATTTTATGAAAGTTTAAGGGTCAAAACATAATTTTTAAG
** * * * ** *
35836660 AAGTTTGGGGGTCAAAATGTAATTTTA-GAAAAGTTTAGGGGTTAAAATGTAATTTTTATG
1 AAGTTTAAGGGTTAAAATGTAATTTTATG-AAAGTTTAAGGGTCAAAACATAATTTTTAAG
* * *
35836720 AAGTTTAAGGGTTAAAATCTAATTTTTTGAAAGTTTGAGGGTCAAAA
1 AAGTTTAAGGGTTAAAATGTAATTTTATGAAAGTTTAAGGGTCAAAA
35836767 TGTATTTTTT
Statistics
Matches: 86, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
59 1 0.01
60 75 0.87
61 10 0.12
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.38
Consensus pattern (60 bp):
AAGTTTAAGGGTTAAAATGTAATTTTATGAAAGTTTAAGGGTCAAAACATAATTTTTAAG
Found at i:35836678 original size:90 final size:90
Alignment explanation
Indices: 35836583--35836775 Score: 250
Period size: 90 Copynumber: 2.1 Consensus size: 90
35836573 TCGGGGGTAA
* *
35836583 AAAATGTAATTTTGGAAAAGTTTA-GGGTTAAAATGGTAA-ATTTATGAAATTTTAAGGGTCAAA
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTTAAAAT-GTAATATTTATG-AAGTTTAAGGGTCAAA
* *
35836646 A-CATTATTTTTA-AGAAGTTTGGGGGTC
64 ATC-TAATTTTTAGA-AAGTTTGAGGGTC
* *
35836673 AAAATGTAATTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTTATGAAGTTTAAGGGTTAAAAT
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTTAAAATGTAATATTTATGAAGTTTAAGGGTCAAAAT
*
35836738 CTAATTTTTTGAAAGTTTGAGGGTC
66 CTAATTTTTAGAAAGTTTGAGGGTC
*
35836763 AAAATGTATTTTT
1 AAAATGTAATTTT
35836776 TAAACAAAAT
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
90 73 0.80
91 18 0.20
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.39
Consensus pattern (90 bp):
AAAATGTAATTTTAGAAAAGTTTAGGGGTTAAAATGTAATATTTATGAAGTTTAAGGGTCAAAAT
CTAATTTTTAGAAAGTTTGAGGGTC
Found at i:35836685 original size:30 final size:30
Alignment explanation
Indices: 35836583--35836778 Score: 141
Period size: 30 Copynumber: 6.5 Consensus size: 30
35836573 TCGGGGGTAA
* *
35836583 AAAATGTAATTTTGGAA-AAGTTT-AGGGTT
1 AAAATGTAATTTT-TAAGAAGTTTAAGGGTC
* * *
35836612 AAAATGGTAA-ATTTATGAAATTTTAAGGGTC
1 AAAAT-GTAATTTTTAAG-AAGTTTAAGGGTC
** * **
35836643 AAAACATTATTTTTAAGAAGTTTGGGGGTC
1 AAAATGTAATTTTTAAGAAGTTTAAGGGTC
* * *
35836673 AAAATGTAA-TTTTAGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTTA-AGAAGTTTAAGGGTC
* *
35836703 AAAATGTAATTTTTATGAAGTTTAAGGGTT
1 AAAATGTAATTTTTAAGAAGTTTAAGGGTC
* * *
35836733 AAAATCTAATTTTT-TGAAAGTTTGAGGGTC
1 AAAATGTAATTTTTAAG-AAGTTTAAGGGTC
*
35836763 AAAATGTATTTTTTAA
1 AAAATGTAATTTTTAA
35836779 ACAAAATAAG
Statistics
Matches: 130, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
28 1 0.01
29 14 0.11
30 96 0.74
31 19 0.15
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (30 bp):
AAAATGTAATTTTTAAGAAGTTTAAGGGTC
Found at i:35836767 original size:60 final size:56
Alignment explanation
Indices: 35836446--35836777 Score: 173
Period size: 60 Copynumber: 5.6 Consensus size: 56
35836436 GAAATTGAAC
* * * * * * *
35836446 TTTTGGAAAATTTAAGGTCGAAAATGTGATTTTTGGAAATTTGAGGG-AAAAATGGTAA
1 TTTTTGAAAGTTTAGGGTC-AAAATGTAATTTTTAGAAGTTT-AGGGTTAAAAT-GTAA
* * * * * * * * *
35836504 ATTTTGGATGTTCAGGGGCAAAATGGAAATTTTTGGATGTTTAGGGGTAAAATGATAA
1 TTTTTGAAAGTTTAGGGTCAAAAT-GTAATTTTTAGAAGTTTAGGGTTAAAATG-TAA
* ** * * *
35836562 CTTTTTG-ATGTTCGGGGGTAAAAAATGTAATTTTGGAAAAGTTTAGGGTTAAAATGGTAAA
1 -TTTTTGAAAGTT-TAGGGT-CAAAATGTAATTTT-TAGAAGTTTAGGGTTAAAAT-GT-AA
* * ** * * *
35836623 TTTATGAAATTTTAAGGGTCAAAACATTATTTTTAAGAAGTTTGGGGGTCAAAATGTAA
1 TTTTTGAAAGTTT-AGGGTCAAAATGTAATTTTT-AGAAGTTT-AGGGTTAAAATGTAA
* * *
35836682 TTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTTATGAAGTTTAAGGGTTAAAATCTAA
1 TTTTTG-AAAGTTTA-GGGTCAAAATGTAATTTTTA-GAAGTTT-AGGGTTAAAATGTAA
*
35836742 TTTTTTGAAAGTTTGAGGGTCAAAATGTATTTTTTA
1 -TTTTTGAAAGTTT-AGGGTCAAAATGTAATTTTTA
35836778 AACAAAATAA
Statistics
Matches: 205, Mismatches: 51, Indels: 34
0.71 0.18 0.12
Matches are distributed among these distances:
57 10 0.05
58 37 0.18
59 23 0.11
60 110 0.54
61 25 0.12
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (56 bp):
TTTTTGAAAGTTTAGGGTCAAAATGTAATTTTTAGAAGTTTAGGGTTAAAATGTAA
Found at i:35837469 original size:11 final size:12
Alignment explanation
Indices: 35837448--35837493 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
35837438 CCCTTTTTCC
*
35837448 CTTTCTTATTTT
1 CTTTATTATTTT
*
35837460 CTTT-TTATTTC
1 CTTTATTATTTT
35837471 CTTT-TTATTTCT
1 CTTTATTATTT-T
35837483 CTTTATTATTT
1 CTTTATTATTT
35837494 ATAAACCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 16 0.53
12 8 0.27
13 6 0.20
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (12 bp):
CTTTATTATTTT
Found at i:35837470 original size:24 final size:24
Alignment explanation
Indices: 35837447--35837493 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
35837437 CCCCTTTTTC
35837447 CCTTTCTTATTT-TCTTT-TTATTT
1 CCTTT-TTATTTCTCTTTATTATTT
35837470 CCTTTTTATTTCTCTTTATTATTT
1 CCTTTTTATTTCTCTTTATTATTT
35837494 ATAAACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 10 0.45
24 6 0.27
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (24 bp):
CCTTTTTATTTCTCTTTATTATTT
Found at i:35837481 original size:21 final size:23
Alignment explanation
Indices: 35837447--35837489 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
35837437 CCCCTTTTTC
*
35837447 CCTTTCTTATTTTCTTTTTATTT
1 CCTTTCTTATTTTCTCTTTATTT
35837470 CCTTT-TTA-TTTCTCTTTATT
1 CCTTTCTTATTTTCTCTTTATT
35837490 ATTTATAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 3 0.16
23 5 0.26
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (23 bp):
CCTTTCTTATTTTCTCTTTATTT
Found at i:35838506 original size:17 final size:17
Alignment explanation
Indices: 35838484--35838530 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
35838474 ACTTTCAAAT
*
35838484 TTTAAATTTAAAATAAA
1 TTTAAAATTAAAATAAA
*
35838501 TTTAAACTTAAAATAAA
1 TTTAAAATTAAAATAAA
35838518 TTTAAAATTAAAA
1 TTTAAAATTAAAA
35838531 ATTGGGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TTTAAAATTAAAATAAA
Found at i:35839112 original size:99 final size:99
Alignment explanation
Indices: 35838990--35839562 Score: 648
Period size: 99 Copynumber: 5.8 Consensus size: 99
35838980 TAAGGTGTTA
* * * *
35838990 GGTTCGCCGTTGCAGCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGATTCGCTGTTGCGAC
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTGCGGC
* *
35839055 CTCAATCC-TTCCCATCGCATCTTCTAAGGTACCG
66 CTCAA-CCTTTCCCATCACATCTTCTTAGGTACCG
* * * * * * **
35839089 GGTTCGCAGTTGCGGCCTTAACCTTTCCTTTTATATC-TCTGTGGTATCGGATTCATCGTTGCGG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTATCGGGTTCGCCGTTGCGG
* * * * *
35839153 CCTCAACCCTTCTCATCGCATCTTTTTAGGTACTG
65 CCTCAACCTTTCCCATCACATCTTCTTAGGTACCG
* * * * * *
35839188 GGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCGTATCTTCATGGTACCAGGTTCGCCGATACGGC
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTGCGGC
**
35839253 CTCAACCTTTCCCATCACATCTTCTTAGGTACAA
66 CTCAACCTTTCCCATCACATCTTCTTAGGTACCG
* * * * * *
35839287 GTTTTGCCATTACGGCCTCAACCTTTCCCTTCGTATCTTCATGGTACCGGGTTCGCCGTTGCGGC
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTGCGGC
35839352 CTCAACCTTTCCCATCACATCTTCTTAGGTACCG
66 CTCAACCTTTCCCATCACATCTTCTTAGGTACCG
** * * * * * *
35839386 GGTTTACCGTTGTGGCCTCAACCTTTCCCTTCGTATCTTCATGGTATTGGGTTTGCCATTACGGC
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTGCGGC
* *
35839451 CTCAACCTTTCCCATCACATCTTCTAAGGTATCG
66 CTCAACCTTTCCCATCACATCTTCTTAGGTACCG
* * * * * * *
35839485 GATTCACCGTCGCTGCCTCAATCC-TTCCCTTCATCTCTTCATGTTATTGGGTTCGCCGTTGCGG
1 GGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTGCGG
35839549 CCTCAACCTTTCCC
65 CCTCAACCTTTCCC
35839563 TTCATACCTC
Statistics
Matches: 405, Mismatches: 65, Indels: 8
0.85 0.14 0.02
Matches are distributed among these distances:
98 4 0.01
99 397 0.98
100 4 0.01
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.34
Consensus pattern (99 bp):
GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTGCGGC
CTCAACCTTTCCCATCACATCTTCTTAGGTACCG
Found at i:35839581 original size:148 final size:148
Alignment explanation
Indices: 35839004--35839590 Score: 414
Period size: 148 Copynumber: 4.0 Consensus size: 148
35838994 CGCCGTTGCA
* * * * * * * *
35839004 GCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGATTCGCTGTTGCGACCTCAATCC-TTCCC
1 GCCTCAACCTTTCCCATCACATCTTCAAGGTACCGGATTCACCGTCGCGGCCTCAA-CCTTTCCC
* * * * * * * **
35839068 ATCGCATCTTC-TAAGGTACCGGGTTCGCAGTTGCGGCCTTAACCTTTCCTTTTATATCTCTGTG
65 ATCACATCTTCAT-AGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCATACCTCCATG
** *** * *
35839132 GTATCGGATTCATCGTTGCG
129 GTATTAGATTTGCCATTACG
* * * ** * * ** *
35839152 GCCTCAACCCTTCTCATCGCATCTTTTTAGGTACTGGGTTTGCCGTTGCGGCCTCAACCTTTCCC
1 GCCTCAACCTTTCCCATCACATC-TTCAAGGTACCGGATTCACCGTCGCGGCCTCAACCTTTCCC
* ** * * * * * * * * *
35839217 TTCGTATCTTCAT-GGTACCAGGTTCGCCGATACGGCCTCAACCTTTCCCATCACATCTTCTTAG
65 ATCACATCTTCATAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCATACCTCCAT-G
** *
35839281 GTACAAGTTTTGCCATTACG
129 GTATTAGATTTGCCATTACG
* ** * * * *
35839301 GCCTCAACCTTTCCCTTCGTATCTTCATGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCA
1 GCCTCAACCTTTCCCATCACATCTTCAAGGTACCGGATTCACCGTCGCGGCCTCAACCTTTCCCA
* * * * * *
35839366 TCACATCTTCTTAGGTACCGGGTTTACCGTTGTGGCCTCAACCTTTCCCTTCGTATCTTCATGGT
66 TCACATCTTCATAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCATACCTCCATGGT
* *
35839431 ATTGGGTTTGCCATTACG
131 ATTAGATTTGCCATTACG
* *
35839449 GCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGATTCACCGTCGCTGCCTCAATCC-TTCC
1 GCCTCAACCTTTCCCATCACATCTTC-AAGGTACCGGATTCACCGTCGCGGCCTCAA-CCTTTCC
* * ** *
35839513 CTTCATC-TCTTCAT-GTTATTGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATACCTCCA-
64 CATCA-CATCTTCATAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCATACCTCCAT
35839575 GTGTATTAGATTTGCC
128 G-GTATTAGATTTGCC
35839591 GTTGTGGCCT
Statistics
Matches: 344, Mismatches: 86, Indels: 18
0.77 0.19 0.04
Matches are distributed among these distances:
147 1 0.00
148 193 0.56
149 146 0.42
150 4 0.01
ACGTcount: A:0.16, C:0.32, G:0.18, T:0.35
Consensus pattern (148 bp):
GCCTCAACCTTTCCCATCACATCTTCAAGGTACCGGATTCACCGTCGCGGCCTCAACCTTTCCCA
TCACATCTTCATAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCATACCTCCATGGT
ATTAGATTTGCCATTACG
Found at i:35839592 original size:49 final size:48
Alignment explanation
Indices: 35839182--35839620 Score: 209
Period size: 49 Copynumber: 8.9 Consensus size: 48
35839172 ATCTTTTTAG
* * * *
35839182 GTACTGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCGTATCTTCAT
1 GTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCATACCTCCAT
* * * * * * * * *
35839230 GGTACCAGGTTCGCCGATACGGCCTCAACCTTTCCCATCACATCTTCTTAG
1 -GTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCATA-CCTC-CAT
** * * * * * *
35839281 GTACAAGTTTTGCCATTACGGCCTCAACCTTTCCCTTCGTATCTTCAT
1 GTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCATACCTCCAT
* * * * * *
35839329 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAG
1 -GTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCATA-CCTC-CAT
* * * * *
35839380 GTACCGGGTTTACCGTTGTGGCCTCAACCTTTCCCTTCGTATCTTCAT
1 GTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCATACCTCCAT
** * * * * * * *
35839428 GGTATTGGGTTTGCCATTACGGCCTCAACCTTTCCCATCACATCTTCTAAG
1 -GTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCATA-CCTC-CAT
* * ** * * *
35839479 GTATCGGATTCACCGTCGCTGCCTCAATCC-TTCCCTTCAT-CTCTTCAT
1 GTACCGGGTTTGCCGTTGCGGCCTCAA-CCTTTCCCTTCATAC-CTCCAT
** *
35839527 GTTATTGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATACCTCCAGT
1 G-TACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCATACCTCCA-T
*** * * * *
35839577 GTATTAGATTTGCCGTTGTGGCCTCAATC-TTCCCTGTCAAACCT
1 GTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCT-TCATACCT
35839621 GTAGAATATG
Statistics
Matches: 284, Mismatches: 91, Indels: 30
0.70 0.22 0.07
Matches are distributed among these distances:
48 13 0.05
49 165 0.58
50 101 0.36
51 5 0.02
ACGTcount: A:0.15, C:0.33, G:0.18, T:0.34
Consensus pattern (48 bp):
GTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCATACCTCCAT
Found at i:35840372 original size:40 final size:41
Alignment explanation
Indices: 35840314--35840392 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 41
35840304 TTTGGTTTTA
* * * **
35840314 AGACGCCCTTTGCGGGTTTTCATCTTGATCT-TTTTTTTCG
1 AGACGCCCTCTACAGGTTTTCATCTCAATCTCTTTTTTTCG
35840354 AGACGCCCTCTACAGGTTTTCATCTCAATCTCTTTTTTT
1 AGACGCCCTCTACAGGTTTTCATCTCAATCTCTTTTTTT
35840393 AGGCAAAGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
40 26 0.79
41 7 0.21
ACGTcount: A:0.14, C:0.25, G:0.15, T:0.46
Consensus pattern (41 bp):
AGACGCCCTCTACAGGTTTTCATCTCAATCTCTTTTTTTCG
Found at i:35848266 original size:30 final size:29
Alignment explanation
Indices: 35848166--35848386 Score: 171
Period size: 30 Copynumber: 7.5 Consensus size: 29
35848156 TATAAGGTCG
* * *
35848166 AAAATGTGATTTTTGGAAATTTGAGGG-C
1 AAAATGTAATTTTTGGAAAGTTGAGGGTT
*
35848194 AAAATGGTAATTTTTGG-AAGTTCGAGGGTC
1 AAAAT-GTAATTTTTGGAAAGTT-GAGGGTT
** * * *
35848224 AAAACATGATTTTTGGGAAGTTCGAGGATT
1 AAAATGTAATTTTTGGAAAGTT-GAGGGTT
*
35848254 AAAATGTAA-TTTTGGAAAAGTTTAAGGGTT
1 AAAATGTAATTTTTGG-AAAG-TTGAGGGTT
* ** *
35848284 AAAATGTGATTTTTACAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGGAAAGTTGA-GGGTT
* * *
35848314 AAAATATAATTTTTGTAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGGAAAGTTGA-GGGTT
*
35848344 AAAATGTAATTTTTGG-AAGTTTGAGGGTC
1 AAAATGTAATTTTTGGAAAG-TTGAGGGTT
*
35848373 AAAATATAATTTTT
1 AAAATGTAATTTTT
35848387 AAATAAAATA
Statistics
Matches: 158, Mismatches: 26, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
28 9 0.06
29 53 0.34
30 90 0.57
31 6 0.04
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAAGTTGAGGGTT
Found at i:35848294 original size:60 final size:58
Alignment explanation
Indices: 35848166--35848385 Score: 203
Period size: 60 Copynumber: 3.7 Consensus size: 58
35848156 TATAAGGTCG
* * ** *
35848166 AAAATGTGATTTTTGGAAATTTGAGGG-CAAAATGGTAATTTTTGG-AAGTTCGAGGGTC
1 AAAATGTGATTTTTGGAAGTTTGAGGGTCAAAAT-ATAA-TTTTGGAAAGTTTAAGGGTT
** * * * *
35848224 AAAACATGATTTTTGGGAAGTTCGAGGATTAAAATGTAATTTTGGAAAAGTTTAAGGGTT
1 AAAATGTGATTTTT-GGAAGTTTGAGGGTCAAAATATAATTTTGG-AAAGTTTAAGGGTT
** * * *
35848284 AAAATGTGATTTTTACAAAGTTT-AGGGGTTAAAATATAATTTTTGTAAAGTTTAGGGGTT
1 AAAATGTGATTTTT-GGAAGTTTGA-GGGTCAAAATATAA-TTTTGGAAAGTTTAAGGGTT
*
35848344 AAAATGTAATTTTTGGAAGTTTGAGGGTCAAAATATAATTTT
1 AAAATGTGATTTTTGGAAGTTTGAGGGTCAAAATATAATTTT
35848386 TAAATAAAAT
Statistics
Matches: 132, Mismatches: 23, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
58 22 0.17
59 34 0.26
60 71 0.54
61 5 0.04
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (58 bp):
AAAATGTGATTTTTGGAAGTTTGAGGGTCAAAATATAATTTTGGAAAGTTTAAGGGTT
Found at i:35849091 original size:23 final size:25
Alignment explanation
Indices: 35849061--35849111 Score: 79
Period size: 23 Copynumber: 2.1 Consensus size: 25
35849051 ATTTCCCTTT
35849061 TTTCCTTTCTTATTT-TCTTT-TTA
1 TTTCCTTTCTTATTTCTCTTTATTA
*
35849084 TTTCCTTTTTTATTTCTCTTTATTA
1 TTTCCTTTCTTATTTCTCTTTATTA
35849109 TTT
1 TTT
35849112 ATAAACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 14 0.56
24 5 0.20
25 6 0.24
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTCCTTTCTTATTTCTCTTTATTA
Found at i:35849093 original size:12 final size:12
Alignment explanation
Indices: 35849061--35849111 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
35849051 ATTTCCCTTT
*
35849061 TTTCCTTTCTTA
1 TTTCCTTTTTTA
*
35849073 TTTTC-TTTTTA
1 TTTCCTTTTTTA
35849084 TTTCCTTTTTTA
1 TTTCCTTTTTTA
*
35849096 TTTCTCTTTATTA
1 TTTC-CTTTTTTA
35849109 TTT
1 TTT
35849112 ATAAACAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 9 0.27
12 14 0.42
13 10 0.30
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTCCTTTTTTA
Found at i:35849105 original size:22 final size:22
Alignment explanation
Indices: 35849051--35849107 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
35849041 CCAAGGTAAA
*
35849051 ATTTCCCTTT-TTTCCTTTCTT
1 ATTTCTCTTTATTTCCTTTCTT
* *
35849072 ATTTTCTTTTTATTTCCTTTTTT
1 A-TTTCTCTTTATTTCCTTTCTT
35849095 ATTTCTCTTTATT
1 ATTTCTCTTTATT
35849108 ATTTATAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 1 0.03
22 18 0.60
23 11 0.37
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (22 bp):
ATTTCTCTTTATTTCCTTTCTT
Found at i:35850409 original size:17 final size:17
Alignment explanation
Indices: 35850384--35850444 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 17
35850374 TTAAAATTTT
35850384 AAATTTAAAATAAATTG
1 AAATTTAAAATAAATTG
* *
35850401 AAGTTTAAAATAAATTT
1 AAATTTAAAATAAATTG
* *
35850418 AAACTTAAAATAAATTT
1 AAATTTAAAATAAATTG
*
35850435 AAAATTAAAA
1 AAATTTAAAA
35850445 ATTGGGTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (17 bp):
AAATTTAAAATAAATTG
Found at i:35850653 original size:14 final size:15
Alignment explanation
Indices: 35850610--35850654 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
35850600 TATTTTAGTG
*
35850610 TTTTATATTTATATTAA
1 TTTTAT-TTTAT-TTCA
35850627 TTTTATTTTATTTCA
1 TTTTATTTTATTTCA
35850642 TTTT-TTTTATTTC
1 TTTTATTTTATTTC
35850655 GAAACAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.33
15 7 0.26
16 5 0.19
17 6 0.22
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTATTTTATTTCA
Found at i:35857549 original size:21 final size:21
Alignment explanation
Indices: 35857490--35857570 Score: 60
Period size: 21 Copynumber: 3.9 Consensus size: 21
35857480 CACTTTAACG
* * *
35857490 ATTC-TTGATCAATATGTGCT
1 ATTCTTTGACCAATATTTGCA
* * *
35857510 ATTTTTTTACCAACATTTGTC-
1 ATTCTTTGACCAATATTTG-CA
*
35857531 ATT-TTTAGACCAATGTTTGCA
1 ATTCTTT-GACCAATATTTGCA
35857552 ATTCTTTGACCAATATTTG
1 ATTCTTTGACCAATATTTG
35857571 ATATTCATTC
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
20 7 0.15
21 36 0.77
22 4 0.09
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (21 bp):
ATTCTTTGACCAATATTTGCA
Found at i:35864514 original size:58 final size:58
Alignment explanation
Indices: 35864319--35864742 Score: 514
Period size: 58 Copynumber: 7.2 Consensus size: 58
35864309 ACCCGGGGGC
* * * * *
35864319 AAAATGGTAA-TTTTGATGAAGTCGGGGTTAAAAAATAGAATTTTTGAGAGTT-TAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAAATGGAATTTTAGA-AGTTCGA-GGGT
* *** * *
35864378 AAAATGGTAATTTTTGGTAAAATTAAGGTTAAAAATGGTATTTTAGAAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAG-AAGTTCGAGGGT
* *
35864437 AAAATGGTAATCTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGTTCGAGGGT
*
35864495 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGAAATTTTAGAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGTTCGAGGGT
* * * *
35864553 AAATTGGTAAATTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAGTT-TAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGTTCGA-GGGT
* ** * *
35864611 AAAATGGTAATTTTGGGTGAAATAAGGGTT-AAAATGGTATTTTAGAAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAG-AAGTTCGAGGGT
* * *
35864669 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATAGAATTTTAGAAGGTTCGGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAA-GTTC-GAGGGT
35864729 AAAATGGTAATTTT
1 AAAATGGTAATTTT
35864743 CTAAAATTTT
Statistics
Matches: 314, Mismatches: 42, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
57 14 0.04
58 179 0.57
59 87 0.28
60 34 0.11
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGTTCGAGGGT
Found at i:35864594 original size:116 final size:116
Alignment explanation
Indices: 35864312--35864742 Score: 591
Period size: 116 Copynumber: 3.7 Consensus size: 116
35864302 TTTGGACACC
* * * * *
35864312 CGGGGGCAAAATGGTAATTTTGATGAAGTCGGGGTTAAAAAATAGAATTTTTGAGAGTTTAGGGG
1 CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTT-AAAAATAGAATTTTAGA-AGTTGAGGGG
*
35864377 TAAAATGGTAATTTTTGGTAAAATTAA-GGTTAAAAATGGTATTTTAGAAAGTT
64 TAAAATGGTAATTTTTGGTGAAA-TAAGGGTTAAAAATGGTATTTTAGAAAGTT
* *
35864430 CGGGGGTAAAATGGTAATCTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGTTCGA-GGG
1 CGGGGGTAAAATGGTAAT-TTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAGTT-GAGGGG
** **
35864494 TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGAAATTTTAG-AAGTT
64 TAAAATGGTAATTTTTGGTGAAATAAGGGTTAAAAATGGTATTTTAGAAAGTT
* * *
35864546 CGAGGGTAAATTGGTAAATTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAGTTTAGGGGT
1 CGGGGGTAAAATGGT-AATTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAGTTGAGGGGT
*
35864611 AAAATGGTAATTTTGGGTGAAATAAGGGTT-AAAATGGTATTTTAGAAAGTT
65 AAAATGGTAATTTTTGGTGAAATAAGGGTTAAAAATGGTATTTTAGAAAGTT
* *
35864662 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATAGAATTTTAGAAGGTTCGGGGG
1 CGGGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAA-GTT-GAGGG
35864727 GTAAAATGGTAATTTT
63 GTAAAATGGTAATTTT
35864743 CTAAAATTTT
Statistics
Matches: 277, Mismatches: 27, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
115 16 0.06
116 141 0.51
117 53 0.19
118 52 0.19
119 15 0.05
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (116 bp):
CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAGTTGAGGGGTA
AAATGGTAATTTTTGGTGAAATAAGGGTTAAAAATGGTATTTTAGAAAGTT
Found at i:35864741 original size:30 final size:29
Alignment explanation
Indices: 35864409--35864742 Score: 114
Period size: 30 Copynumber: 11.5 Consensus size: 29
35864399 ATTAAGGTTA
*
35864409 AAAATGGT-ATTTTAGAAAGTTCGGGGGT
1 AAAATGGTAATTTTAGAAGGTTCGGGGGT
* * ** ** *
35864437 AAAATGGTAATCTTCGGTGAAATCGGGGTT
1 AAAATGGTAATTTTAGAAG-GTTCGGGGGT
*
35864467 AAAAATGG-AATTTTAGAA-GTTCGAGGGT
1 -AAAATGGTAATTTTAGAAGGTTCGGGGGT
* ** ** *
35864495 AAAATGGTAATTTTTGGTGAAATCGGGGTT
1 AAAATGGTAATTTTAGAAG-GTTCGGGGGT
* *
35864525 AAAAAT-GAAATTTTAGAA-GTTCGAGGGT
1 -AAAATGGTAATTTTAGAAGGTTCGGGGGT
* * * *
35864553 AAATTGGTAAATTTTGGTGAA--ATCGGGGTT
1 AAAATGGT-AATTTT--AGAAGGTTCGGGGGT
* **
35864583 AAAAATAG-AATTTTAGAA-GTTTAGGGGT
1 -AAAATGGTAATTTTAGAAGGTTCGGGGGT
* ** ** ** *
35864611 AAAATGGTAATTTTGGGTGAAATAAGGGTT
1 AAAATGGTAATTTTAGAAG-GTTCGGGGGT
*
35864641 AAAATGGT-ATTTTAGAAAGTTCGGGGGT
1 AAAATGGTAATTTTAGAAGGTTCGGGGGT
* ** ** * *
35864669 AAAATGGTAATTTTTGGTGAAATCGAGGTT
1 AAAATGGTAATTTTAGAAG-GTTCGGGGGT
*
35864699 AAAAATAG-AATTTTAGAAGGTTCGGGGGGT
1 -AAAATGGTAATTTTAGAAGGTTC-GGGGGT
35864729 AAAATGGTAATTTT
1 AAAATGGTAATTTT
35864743 CTAAAATTTT
Statistics
Matches: 207, Mismatches: 78, Indels: 40
0.64 0.24 0.12
Matches are distributed among these distances:
27 20 0.10
28 53 0.26
29 37 0.18
30 71 0.34
31 26 0.13
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (29 bp):
AAAATGGTAATTTTAGAAGGTTCGGGGGT
Found at i:35865862 original size:9 final size:8
Alignment explanation
Indices: 35865844--35865898 Score: 58
Period size: 9 Copynumber: 6.4 Consensus size: 8
35865834 ATTACCATTG
35865844 TTATTAATA
1 TTATT-ATA
35865853 TTATTGATA
1 TTATT-ATA
35865862 TTATTGATA
1 TTATT-ATA
35865871 TTATTATTA
1 TTATTA-TA
35865880 TTATTATA
1 TTATTATA
35865888 TCTATT-TA
1 T-TATTATA
35865896 TTA
1 TTA
35865899 CCGTTAAAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
7 2 0.05
8 7 0.16
9 34 0.79
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (8 bp):
TTATTATA
Found at i:35866570 original size:6 final size:6
Alignment explanation
Indices: 35866561--35866655 Score: 80
Period size: 6 Copynumber: 17.0 Consensus size: 6
35866551 TTAATATCAT
35866561 TTTAAA TTT-AA -TTAAA TTTAAA TTTAGAA --TAAA TTTAAA --TAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA
* * * * *
35866604 TTTAAA CTTAAA -ATAAA TTTAAA TTTAAA -TAAAA TTTAAA ATTAAT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
35866650 TTTAAA
1 TTTAAA
35866656 ATAAACAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 18
0.72 0.09 0.18
Matches are distributed among these distances:
4 8 0.11
5 14 0.20
6 47 0.66
7 2 0.03
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:35866570 original size:17 final size:16
Alignment explanation
Indices: 35866561--35866650 Score: 73
Period size: 17 Copynumber: 5.8 Consensus size: 16
35866551 TTAATATCAT
35866561 TTTAAATTTAATTAAA
1 TTTAAATTTAATTAAA
*
35866577 TTTAAATTT-A--GAA
1 TTTAAATTTAATTAAA
*
35866590 --TAAATTTAAATAAA
1 TTTAAATTTAATTAAA
* *
35866604 TTTAAACTTAAAATAAA
1 TTTAAA-TTTAATTAAA
*
35866621 TTTAAATTTAAATAAAA
1 TTTAAATTT-AATTAAA
*
35866638 TTTAAAATTAATT
1 TTTAAATTTAATT
35866651 TTAAAATAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
11 7 0.12
12 1 0.02
13 2 0.03
14 2 0.03
15 1 0.02
16 18 0.31
17 28 0.47
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (16 bp):
TTTAAATTTAATTAAA
Found at i:35866593 original size:27 final size:27
Alignment explanation
Indices: 35866563--35866651 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
35866553 AATATCATTT
*
35866563 TAAATTTAATTAAATTTAAATTTAGAA
1 TAAATTTAATTAAATTTAAATTTAAAA
* *
35866590 TAAATTTAAATAAATTTAAACTTAAAA
1 TAAATTTAATTAAATTTAAATTTAAAA
*
35866617 TAAATTTAAATTTAAA-TAAAATTTAAAA
1 TAAATTT-AA-TTAAATTTAAATTTAAAA
*
35866645 TTAATTT
1 TAAATTT
35866652 TAAAATAAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.58
28 18 0.34
29 4 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (27 bp):
TAAATTTAATTAAATTTAAATTTAAAA
Found at i:35866665 original size:28 final size:28
Alignment explanation
Indices: 35866580--35866666 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 28
35866570 AATTAAATTT
* ***
35866580 AAATTTAGAATAAATTTAAATA-AATTT
1 AAATTTAAAATAAATTTAAATATAAACA
* * *
35866607 AAACTTAAAATAAATTTAAATTTAAATA
1 AAATTTAAAATAAATTTAAATATAAACA
*
35866635 AAATTTAAAATTAATTTTAAA-ATAAACA
1 AAATTTAAAA-TAAATTTAAATATAAACA
35866663 AAAT
1 AAAT
35866667 CCAAGGCTCG
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
27 19 0.39
28 21 0.43
29 9 0.18
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (28 bp):
AAATTTAAAATAAATTTAAATATAAACA
Found at i:35866835 original size:18 final size:17
Alignment explanation
Indices: 35866795--35866827 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
35866785 AAGTGTCGTA
35866795 AAATA-TTTAAAAAAAT
1 AAATATTTTAAAAAAAT
35866811 AAATATTTTAAAAAAAT
1 AAATATTTTAAAAAAAT
35866828 CACATATTAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATTTTAAAAAAAT
Found at i:35867090 original size:128 final size:128
Alignment explanation
Indices: 35866954--35867213 Score: 511
Period size: 128 Copynumber: 2.0 Consensus size: 128
35866944 ACATTTTTAT
35866954 AATAAAAAGGTTTAAACAACTAAAACATAATAATTTTAATAAAATTAAAATAAATTATAAAGTAA
1 AATAAAAAGGTTTAAACAACTAAAACATAATAATTTTAATAAAATTAAAATAAATTATAAAGTAA
35867019 TAAAATTTGTAATTTTAATTATTTTTAATATATAAAAGACCCGACACCAGCGGGGCAAAGTTA
66 TAAAATTTGTAATTTTAATTATTTTTAATATATAAAAGACCCGACACCAGCGGGGCAAAGTTA
35867082 AATAAAAAGGTTTAAACAACTAAAACATAATAATTTTAATAAAATTAAAATAAATTATAAAGTAA
1 AATAAAAAGGTTTAAACAACTAAAACATAATAATTTTAATAAAATTAAAATAAATTATAAAGTAA
*
35867147 TAAAATTTGTAATTTTAATTATTTTTAATATATAAAATACCCGACACCAGCGGGGCAAAGTTA
66 TAAAATTTGTAATTTTAATTATTTTTAATATATAAAAGACCCGACACCAGCGGGGCAAAGTTA
35867210 AATA
1 AATA
35867214 TCCTTAATTT
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 131 1.00
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (128 bp):
AATAAAAAGGTTTAAACAACTAAAACATAATAATTTTAATAAAATTAAAATAAATTATAAAGTAA
TAAAATTTGTAATTTTAATTATTTTTAATATATAAAAGACCCGACACCAGCGGGGCAAAGTTA
Found at i:35868078 original size:18 final size:20
Alignment explanation
Indices: 35868055--35868097 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
35868045 CCACAAGTCA
35868055 AAAAATAAAG-AAATT-TAT
1 AAAAATAAAGAAAATTATAT
**
35868073 AAAAATTTAGAAAATTATAT
1 AAAAATAAAGAAAATTATAT
35868093 AAAAA
1 AAAAA
35868098 AACTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 5 0.24
20 8 0.38
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAAATAAAGAAAATTATAT
Found at i:35870667 original size:16 final size:16
Alignment explanation
Indices: 35870646--35870690 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
35870636 TAAATAAATC
35870646 ATTAAAAAATCA-TAAA
1 ATTAAAAAAT-ATTAAA
35870662 ATTAAAAAATATTTAAA
1 ATTAAAAAATA-TTAAA
35870679 ATTAAAACAATA
1 ATTAAAA-AATA
35870691 AAAAGCTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.04
16 10 0.38
17 11 0.42
18 4 0.15
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
ATTAAAAAATATTAAA
Found at i:35877030 original size:31 final size:29
Alignment explanation
Indices: 35876995--35877064 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
35876985 ATCCCAAAAT
*
35876995 TATACATGAACTATGGTTTAATGTGCAATTG
1 TATACATGAACTATGATTT--TGTGCAATTG
* * * *
35877026 TATACAAGAACTTTGATTTTGTGTAATTT
1 TATACATGAACTATGATTTTGTGCAATTG
35877055 TATACATGAA
1 TATACATGAA
35877065 ATTTTGATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 17 0.52
31 16 0.48
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (29 bp):
TATACATGAACTATGATTTTGTGCAATTG
Found at i:35877058 original size:29 final size:30
Alignment explanation
Indices: 35877016--35877074 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
35877006 TATGGTTTAA
35877016 TGTGCAATTGTATACAAG-AACTTTGATTT
1 TGTGCAATTGTATACAAGAAACTTTGATTT
* * * *
35877045 TGTGTAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACAAGAAACTTTGATTT
35877075 GATCCAATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (30 bp):
TGTGCAATTGTATACAAGAAACTTTGATTT
Found at i:35891061 original size:20 final size:20
Alignment explanation
Indices: 35891036--35891079 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
35891026 AACACCAATT
*
35891036 TAATAAAATACTTAA-ATATA
1 TAATAAAATA-ATAACATATA
*
35891056 TAATAATATAATAACATATA
1 TAATAAAATAATAACATATA
35891076 TAAT
1 TAAT
35891080 GTACAAGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATAAAATAATAACATATA
Found at i:35907531 original size:31 final size:32
Alignment explanation
Indices: 35907493--35907563 Score: 99
Period size: 31 Copynumber: 2.2 Consensus size: 32
35907483 CTACCAACTT
* **
35907493 AAAAAAATGTCAAGTTTAGGTATCAAATT-AA
1 AAAAAAATATCAAGTTTAAATATCAAATTGAA
35907524 AAAAAAATATCAAGTTTAAATATCAAATTGAA
1 AAAAAAATATCAAGTTTAAATATCAAATTGAA
*
35907556 CAAAAAAT
1 AAAAAAAT
35907564 TTATGTATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
31 26 0.74
32 9 0.26
ACGTcount: A:0.58, C:0.07, G:0.08, T:0.27
Consensus pattern (32 bp):
AAAAAAATATCAAGTTTAAATATCAAATTGAA
Found at i:35907553 original size:87 final size:85
Alignment explanation
Indices: 35907421--35907587 Score: 194
Period size: 87 Copynumber: 1.9 Consensus size: 85
35907411 TTTAAAAAAA
* * * *
35907421 TTAGGTACCAAATTAAAGAAAAAAATCAAGTTCAAGTACTGAATTGGACCCCAAAAATTTAACTA
1 TTAGGTACCAAATTAAAGAAAAAAATCAAGTTCAAATACTAAATT-GA-ACAAAAAATTTAACTA
*
35907486 CCAACTTAAAAAAATGTCAAGT
64 CCAAATTAAAAAAATGTCAAGT
* * **
35907508 TTAGGTATCAAATTAAA-AAAAAATATCAAGTTTAAATA-TCAAATTGAACAAAAAATTTATGTA
1 TTAGGTACCAAATTAAAGAAAAAA-ATCAAGTTCAAATACT-AAATTGAACAAAAAATTTAACTA
*
35907571 TCAAATTAAAAAAATGT
64 CCAAATTAAAAAAATGT
35907588 ATCAATTGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
85 27 0.40
86 9 0.13
87 32 0.47
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28
Consensus pattern (85 bp):
TTAGGTACCAAATTAAAGAAAAAAATCAAGTTCAAATACTAAATTGAACAAAAAATTTAACTACC
AAATTAAAAAAATGTCAAGT
Found at i:35907566 original size:25 final size:23
Alignment explanation
Indices: 35907538--35907584 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
35907528 AAATATCAAG
35907538 TTTAAATATCAAATTGAACAAAAAA
1 TTTAAATATCAAATT-AA-AAAAAA
**
35907563 TTTATGTATCAAATTAAAAAAA
1 TTTAAATATCAAATTAAAAAAA
35907585 TGTATCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 2 0.10
25 13 0.65
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.32
Consensus pattern (23 bp):
TTTAAATATCAAATTAAAAAAAA
Found at i:35907640 original size:22 final size:23
Alignment explanation
Indices: 35907604--35907646 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
35907594 TGTAAATACC
35907604 AAATATTATATTAAACCAAAATTA
1 AAATATTATATTAAA-CAAAATTA
35907628 AAATA-TA-ATTAAACAAAAT
1 AAATATTATATTAAACAAAAT
35907647 CCACATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
23 2 0.11
24 5 0.26
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (23 bp):
AAATATTATATTAAACAAAATTA
Found at i:35918596 original size:31 final size:33
Alignment explanation
Indices: 35918539--35918603 Score: 98
Period size: 31 Copynumber: 2.0 Consensus size: 33
35918529 ATCAATCCCT
35918539 CCAAAATTTTTTACTTCCCCTCCCCTTTTACTCC
1 CCAAAATTTTTTACTT-CCCTCCCCTTTTACTCC
*
35918573 CCAAAATTTTTTA-TT-TCTCCCCTTTTACTCC
1 CCAAAATTTTTTACTTCCCTCCCCTTTTACTCC
35918604 GAAAATCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 15 0.50
33 2 0.07
34 13 0.43
ACGTcount: A:0.18, C:0.37, G:0.00, T:0.45
Consensus pattern (33 bp):
CCAAAATTTTTTACTTCCCTCCCCTTTTACTCC
Found at i:35920865 original size:31 final size:31
Alignment explanation
Indices: 35920830--35920896 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
35920820 ATTTTCGAGG
*
35920830 AATTTGGGGA-TTAAAATTGAAATTTTTGAAA
1 AATTTGGGGATTTAAAATTG-AACTTTTGAAA
*
35920861 AATTT-GGGATTTAAAATTGAACTTTTGGAA
1 AATTTGGGGATTTAAAATTGAACTTTTGAAA
35920891 AATTTG
1 AATTTG
35920897 AGGTTGGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 18 0.56
31 14 0.44
ACGTcount: A:0.39, C:0.01, G:0.19, T:0.40
Consensus pattern (31 bp):
AATTTGGGGATTTAAAATTGAACTTTTGAAA
Found at i:35920966 original size:58 final size:58
Alignment explanation
Indices: 35920883--35921039 Score: 174
Period size: 58 Copynumber: 2.7 Consensus size: 58
35920873 AAAATTGAAC
*
35920883 TTTTGGAAAATTTGAGGTTGGAAATGTGATTTTTT-GAAATTTGAGGGCAAAAATGTAA
1 TTTTGGAAAATTTGAGGTTGAAAATGTGATTTTTTAGAAATTT-AGGGCAAAAATGTAA
* * * *
35920941 TTTTGGAAAAGTTTGGGGTT-AAAATGTTATTTTTTAGAAGTTTAGGGGAAAAATGTAA
1 TTTTGGAAAA-TTTGAGGTTGAAAATGTGATTTTTTAGAAATTTAGGGCAAAAATGTAA
* * * * *
35920999 TTTTAGAGAAATTCGAGGGGTGAAAATGTAATTTTTGAGAA
1 TTTTGGA-AAATTTGA-GGTTGAAAATGTGATTTTTTAGAA
35921040 GTTCAAGGGT
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
58 46 0.55
59 20 0.24
60 17 0.20
ACGTcount: A:0.35, C:0.01, G:0.26, T:0.38
Consensus pattern (58 bp):
TTTTGGAAAATTTGAGGTTGAAAATGTGATTTTTTAGAAATTTAGGGCAAAAATGTAA
Found at i:35921028 original size:31 final size:31
Alignment explanation
Indices: 35920990--35921048 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
35920980 GTTTAGGGGA
*
35920990 AAAATGTAATTTTAGAGAAATTCGAGGGGTG
1 AAAATGTAATTTTAGAGAAATTCAAGGGGTG
* *
35921021 AAAATGTAATTTTTGAGAAGTTCAAGGG
1 AAAATGTAATTTTAGAGAAATTCAAGGG
35921049 TAAAAACACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.03, G:0.27, T:0.31
Consensus pattern (31 bp):
AAAATGTAATTTTAGAGAAATTCAAGGGGTG
Found at i:35921125 original size:30 final size:30
Alignment explanation
Indices: 35920904--35921188 Score: 133
Period size: 29 Copynumber: 9.5 Consensus size: 30
35920894 TTGAGGTTGG
* * * *
35920904 AAATGTGATTTTTTGAAA-TTTGAGGGCAA
1 AAATGTAATTTTTGGAAAGTTTAAGGGTAA
* *
35920933 AAATGTAA-TTTTGGAAAAGTTT-GGGGTTA
1 AAATGTAATTTTTGG-AAAGTTTAAGGGTAA
* * *
35920962 AAATGTTATTTTT-TAGAAGTTT-AGGGGAA
1 AAATGTAATTTTTGGA-AAGTTTAAGGGTAA
* * * *
35920991 AAATGTAATTTTAGAGAAA-TTCGAGGGGTGA
1 AAATGTAATTTTTG-GAAAGTT-TAAGGGTAA
*
35921022 AAATGTAATTTTT-GAGAAGTTCAAGGGTAAA
1 AAATGTAATTTTTGGA-AAGTTTAAGGGT-AA
** ** *
35921053 AACACATAA-TTTTGGAAAGTTCGAGGGTCA
1 AA-ATGTAATTTTTGGAAAGTTTAAGGGTAA
** *
35921083 AAACAT-ATTTTTGGAAAGTTTAAGGATAA
1 AAATGTAATTTTTGGAAAGTTTAAGGGTAA
* *
35921112 AAATGTAATTTTT-GAGAAGTTTAGGGGTCA
1 AAATGTAATTTTTGGA-AAGTTTAAGGGTAA
* * * *
35921142 AAATGCAA-TTTTGGAGAACTTTGGAGGGTCA
1 AAATGTAATTTTTGGA-AAGTTT-AAGGGTAA
* *
35921173 AAATATGATTTTTGGA
1 AAATGTAATTTTTGGA
35921189 CTGTTCAGGG
Statistics
Matches: 196, Mismatches: 41, Indels: 35
0.72 0.15 0.13
Matches are distributed among these distances:
28 7 0.04
29 77 0.39
30 51 0.26
31 48 0.24
32 13 0.07
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (30 bp):
AAATGTAATTTTTGGAAAGTTTAAGGGTAA
Found at i:35921153 original size:60 final size:60
Alignment explanation
Indices: 35920913--35921159 Score: 197
Period size: 60 Copynumber: 4.2 Consensus size: 60
35920903 GAAATGTGAT
* * * * **
35920913 TTTTTGA-AA-TTTGAGGGCAAAAATGTAATTTTGGAAAAGTTT-GGGGTTAAAATGTTA
1 TTTTTGAGAAGTTTAAGGGTAAAAATGTAATTTTGGAGAAGTTTAGGGGTCAAAATGCAA
* * * * * * *
35920970 TTTTTTAGAAGTTT-AGGGGAAAAATGTAATTTTAGAGAAATTCGAGGGGTGAAAATGTAA
1 TTTTTGAGAAGTTTAAGGGTAAAAATGTAATTTTGGAGAAGTT-TAGGGGTCAAAATGCAA
* ** *
35921030 TTTTTGAGAAGTTCAAGGGTAAAAACACATAATTTTGGA-AAG-TTCGAGGGTCAAAA--CATA
1 TTTTTGAGAAGTTTAAGGGT-AAAA-ATGTAATTTTGGAGAAGTTTAG-GGGTCAAAATGCA-A
* *
35921090 TTTTTG-GAAAGTTTAAGGATAAAAATGTAATTTTTGAGAAGTTTAGGGGTCAAAATGCAA
1 TTTTTGAG-AAGTTTAAGGGTAAAAATGTAATTTTGGAGAAGTTTAGGGGTCAAAATGCAA
*
35921150 TTTTGGAGAA
1 TTTTTGAGAA
35921160 CTTTGGAGGG
Statistics
Matches: 149, Mismatches: 26, Indels: 27
0.74 0.13 0.13
Matches are distributed among these distances:
57 6 0.04
58 36 0.24
59 21 0.14
60 54 0.36
61 16 0.11
62 6 0.04
63 10 0.07
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (60 bp):
TTTTTGAGAAGTTTAAGGGTAAAAATGTAATTTTGGAGAAGTTTAGGGGTCAAAATGCAA
Found at i:35921174 original size:31 final size:30
Alignment explanation
Indices: 35921111--35921176 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
35921101 TTTAAGGATA
* * *
35921111 AAAATGTAATTTTTGAGAAGTTTAGGGGTC
1 AAAATGCAATTTTGGAGAACTTTAGGGGTC
*
35921141 AAAATGCAATTTTGGAGAACTTTGGAGGGTC
1 AAAATGCAATTTTGGAGAACTTTAG-GGGTC
35921172 AAAAT
1 AAAAT
35921177 ATGATTTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (30 bp):
AAAATGCAATTTTGGAGAACTTTAGGGGTC
Found at i:35921174 original size:90 final size:90
Alignment explanation
Indices: 35921021--35921188 Score: 223
Period size: 90 Copynumber: 1.9 Consensus size: 90
35921011 TCGAGGGGTG
35921021 AAAATGTAATTTTTGAGAAGTTCAAGGGTAAAAACACATAATTTTGGAAAGTTCGAGGGTCAAAA
1 AAAATGTAATTTTTGAGAAGTTCAAGGGTAAAAACACA-AATTTTGGAAAGTTCGAGGGTCAAAA
35921086 CAT-ATTTTTGGAAAGTTTAAGGATA
65 CATGATTTTTGGAAAGTTTAAGGATA
* * * ** * *
35921111 AAAATGTAATTTTTGAGAAGTTTAGGGGTCAAAATGC-AATTTTGGAGAACTTTGGAGGGTCAAA
1 AAAATGTAATTTTTGAGAAGTTCAAGGGTAAAAACACAAATTTTGGA-AA-GTTCGAGGGTCAAA
*
35921175 ATATGATTTTTGGA
64 ACATGATTTTTGGA
35921189 CTGTTCAGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
88 9 0.13
89 2 0.03
90 47 0.70
91 9 0.13
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (90 bp):
AAAATGTAATTTTTGAGAAGTTCAAGGGTAAAAACACAAATTTTGGAAAGTTCGAGGGTCAAAAC
ATGATTTTTGGAAAGTTTAAGGATA
Found at i:35923052 original size:18 final size:18
Alignment explanation
Indices: 35923029--35923065 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
35923019 ACAATTCATA
35923029 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
35923047 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
35923065 T
1 T
35923066 TGATCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:35923835 original size:2 final size:2
Alignment explanation
Indices: 35923828--35923880 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
35923818 TTATATCTTT
* * *
35923828 TA TA TA TA TA CA CA CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35923870 TA TA TA TA TA T
1 TA TA TA TA TA T
35923881 TAATTAGTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:35925561 original size:18 final size:18
Alignment explanation
Indices: 35925538--35925584 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
35925528 GATTAAATCT
35925538 TAAATTTAAAATTTAAAA
1 TAAATTTAAAATTTAAAA
35925556 TAAATTTAAAA-TTAAAA
1 TAAATTTAAAATTTAAAA
35925573 T-AATTTAAAATT
1 TAAATTTAAAATT
35925585 GAGTTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.32
17 8 0.29
18 11 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATTTAAAATTTAAAA
Found at i:35929508 original size:8 final size:7
Alignment explanation
Indices: 35929491--35929522 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
35929481 TGCTGCAACA
35929491 TTTTTCT
1 TTTTTCT
35929498 TTTTTCTT
1 TTTTTC-T
35929506 TTTTTCT
1 TTTTTCT
35929513 TTTTTCT
1 TTTTTCT
35929520 TTT
1 TTT
35929523 CACCATCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:35929511 original size:15 final size:15
Alignment explanation
Indices: 35929491--35929522 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
35929481 TGCTGCAACA
35929491 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
35929506 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
35929521 TT
1 TT
35929523 CACCATCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:35933423 original size:8 final size:7
Alignment explanation
Indices: 35933406--35933437 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
35933396 TGCTGCAACA
35933406 TTTTTCT
1 TTTTTCT
35933413 TTTTTCTT
1 TTTTTC-T
35933421 TTTTTCT
1 TTTTTCT
35933428 TTTTTCT
1 TTTTTCT
35933435 TTT
1 TTT
35933438 CACCATCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:35933426 original size:15 final size:15
Alignment explanation
Indices: 35933406--35933437 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
35933396 TGCTGCAACA
35933406 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
35933421 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
35933436 TT
1 TT
35933438 CACCATCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:35937338 original size:8 final size:7
Alignment explanation
Indices: 35937321--35937352 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
35937311 TGCTGCAACA
35937321 TTTTTCT
1 TTTTTCT
35937328 TTTTTCTT
1 TTTTTC-T
35937336 TTTTTCT
1 TTTTTCT
35937343 TTTTTCT
1 TTTTTCT
35937350 TTT
1 TTT
35937353 CACCATCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:35937341 original size:15 final size:15
Alignment explanation
Indices: 35937321--35937352 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
35937311 TGCTGCAACA
35937321 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
35937336 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
35937351 TT
1 TT
35937353 CACCATCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:35941253 original size:8 final size:7
Alignment explanation
Indices: 35941236--35941267 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
35941226 TGCTGCAACA
35941236 TTTTTCT
1 TTTTTCT
35941243 TTTTTCTT
1 TTTTTC-T
35941251 TTTTTCT
1 TTTTTCT
35941258 TTTTTCT
1 TTTTTCT
35941265 TTT
1 TTT
35941268 CACCATCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:35941256 original size:15 final size:15
Alignment explanation
Indices: 35941236--35941267 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
35941226 TGCTGCAACA
35941236 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
35941251 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
35941266 TT
1 TT
35941268 CACCATCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:35955383 original size:14 final size:13
Alignment explanation
Indices: 35955364--35955412 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 13
35955354 GCCTATTACA
35955364 TTTGTCTTCTTGCT
1 TTTGTCTT-TTGCT
35955378 TTTGTCTTATTGCT
1 TTTGTCTT-TTGCT
*
35955392 CTTTGTCTTTTACT
1 -TTTGTCTTTTGCT
35955406 TTTGTCT
1 TTTGTCT
35955413 CTGTGTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
13 7 0.22
14 17 0.53
15 8 0.25
ACGTcount: A:0.04, C:0.18, G:0.12, T:0.65
Consensus pattern (13 bp):
TTTGTCTTTTGCT
Found at i:35956345 original size:38 final size:38
Alignment explanation
Indices: 35956188--35956808 Score: 418
Period size: 38 Copynumber: 16.1 Consensus size: 38
35956178 AAGATTGGAT
* *
35956188 GATGTCTTCAATCTTCCCCATGATCGGGGTAAGAGATTGGTT
1 GATG-CTTCAATCTGCCCCATGATCGGGGTAAGAGA-T--TA
*
35956230 GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
1 GATG-CTTCAATCTGCCCCATGATCGGGGTAAGAGATTA
* * **
35956269 GTGTGTCTTCAATCTACCCTC-TGATTAGGGTATA-AGATTA
1 G-ATG-CTTCAATCTGCCC-CATGATCGGGGTA-AGAGATTA
* *
35956309 GATGCTTTAATTTGCCCCATGATCGGGGTAAGAGATT-
1 GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTA
* *** *
35956346 GCATGTCTTCAATCTGCCTTC-TGATTAAGGTAAAAGATTA
1 G-ATG-CTTCAATCTGCC-CCATGATCGGGGTAAGAGATTA
*
35956386 GATGCTTCAATCTGCCCCATGATCGAGGTAAGAGATT-
1 GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTA
* * *** *
35956423 GTATGTCTTCAATCTGCCTTC-TAATTAAGGTAAGAGATTG
1 G-ATG-CTTCAATCTGCC-CCATGATCGGGGTAAGAGATTA
35956463 GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTA
1 GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTA
* * * *** * *
35956501 CATGTCTTTAATCTGCCTTC-TGATTAAGGTAAAAGATTG
1 GATG-CTTCAATCTGCC-CCATGATCGGGGTAAGAGATTA
*
35956540 GATGCTTCAATTTGCCCCATGATCGGGGTAAGAGATT-
1 GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTA
* * *** *
35956577 GCATGGCTTCAATCTGCCTTC-TAATTAAGATAAGAGATTA
1 G-AT-GCTTCAATCTGCC-CCATGATCGGGGTAAGAGATTA
* ** * * *
35956617 GATGCTTCAATTTATCCCATGATCAGGGTAAAAGATTG
1 GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTA
* * *
35956655 GATGCTTCAATCTGTCCTATGATCGAGGTAAGAGATTA
1 GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTA
* * *** * *
35956693 CATGTCTTCAATCTGCCTC-TGATTAAGGTAAAAGATTG
1 GATG-CTTCAATCTGCCCCATGATCGGGGTAAGAGATTA
* * *
35956731 GATGCTTTAATCTACCCCATGATCGGGGTAAAAGATT-
1 GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTA
* * * ** *
35956768 GATGTATTCAATCTGTCTCATGATTAGGGTAAGTGATTA
1 GATG-CTTCAATCTGCCCCATGATCGGGGTAAGAGATTA
35956807 GA
1 GA
35956809 CGGTGTCTTC
Statistics
Matches: 454, Mismatches: 98, Indels: 57
0.75 0.16 0.09
Matches are distributed among these distances:
37 24 0.05
38 226 0.50
39 129 0.28
40 37 0.08
41 3 0.01
42 35 0.08
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (38 bp):
GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTA
Found at i:35956384 original size:77 final size:77
Alignment explanation
Indices: 35956230--35956709 Score: 613
Period size: 77 Copynumber: 6.2 Consensus size: 77
35956220 GAGATTGGTT
* ** * *
35956230 GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACCCTCTGATT
1 GATG-CTTCAATTTGCCCCATGATCGGGGTAAGAGATT-GCATGTCTTCAATCTGCCTTCTGATT
* *
35956295 AGGGTATAAGATTA
64 AAGGTAAAAGATTA
*
35956309 GATGCTTTAATTTGCCCCATGATCGGGGTAAGAGATTGCATGTCTTCAATCTGCCTTCTGATTAA
1 GATGCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGCATGTCTTCAATCTGCCTTCTGATTAA
35956374 GGTAAAAGATTA
66 GGTAAAAGATTA
* * * *
35956386 GATGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGTATGTCTTCAATCTGCCTTCTAATTAA
1 GATGCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGCATGTCTTCAATCTGCCTTCTGATTAA
* *
35956451 GGTAAGAGATTG
66 GGTAAAAGATTA
* * *
35956463 GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTACATGTCTTTAATCTGCCTTCTGATTAA
1 GATGCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGCATGTCTTCAATCTGCCTTCTGATTAA
*
35956528 GGTAAAAGATTG
66 GGTAAAAGATTA
* *
35956540 GATGCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGCATGGCTTCAATCTGCCTTCTAATTAA
1 GATGCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGCATGTCTTCAATCTGCCTTCTGATTAA
* *
35956605 GATAAGAGATTA
66 GGTAAAAGATTA
** * * * * **
35956617 GATGCTTCAATTTATCCCATGATCAGGGTAAAAGATTGGATG-CTTCAATCTGTCC-TATGATCG
1 GATGCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGCATGTCTTCAATCTG-CCTTCTGATTA
*
35956680 AGGTAAGAGATTA
65 AGGTAAAAGATTA
* *
35956693 CATGTCTTCAATCTGCC
1 GATG-CTTCAATTTGCC
35956710 TCTGATTAAG
Statistics
Matches: 356, Mismatches: 43, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
76 29 0.08
77 292 0.82
78 31 0.09
79 4 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (77 bp):
GATGCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGCATGTCTTCAATCTGCCTTCTGATTAA
GGTAAAAGATTA
Found at i:35956597 original size:231 final size:232
Alignment explanation
Indices: 35956215--35956709 Score: 683
Period size: 231 Copynumber: 2.1 Consensus size: 232
35956205 CCATGATCGG
***
35956215 GGTAAGAGATTGGTTGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCA
1 GGTAAGAGATT-G--GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGACATGTCTTCA
* * *
35956280 ATCTACCCTCTGATTAGGGTATAAGATTAGATGCTTTAATTTGCCCCATGATCGGGGTAAGAGAT
63 ATCTACCCTCTGATTAAGGTAAAAGATTAGATGCTTCAATTTGCCCCATGATCGGGGTAAGAGAT
* * * *
35956345 TGCATGTCTTCAATCTGCCTTCTGATTAAGGTAAAAGATTAGATGCTTCAATCTGCCCCATGATC
128 TGCATGGCTTCAATCTGCCTTCTAATTAAGATAAAAGATTAGATGCTTCAATCTACCCCATGATC
* * * *
35956410 -GAGGTAAGAGATTGTATGTCTTCAATCTG-CCTTCTAATTAA
193 AG-GGTAAAAGATTGGATG-CTTCAATCTGTCC-TATAATCAA
*
35956451 GGTAAGAGATTGGATG-CTTCAATCTGCCCCATGATCGGGGTAAGAGATT-ACATGTCTTTAATC
1 GGTAAGAGATTGGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGACATGTCTTCAATC
* * *
35956514 TGCCTTCTGATTAAGGTAAAAGATTGGATGCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGC
66 TACCCTCTGATTAAGGTAAAAGATTAGATGCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGC
* * *
35956579 ATGGCTTCAATCTGCCTTCTAATTAAGATAAGAGATTAGATGCTTCAATTTATCCCATGATCAGG
131 ATGGCTTCAATCTGCCTTCTAATTAAGATAAAAGATTAGATGCTTCAATCTACCCCATGATCAGG
* *
35956644 GTAAAAGATTGGATGCTTCAATCTGTCCTATGATCGA
196 GTAAAAGATTGGATGCTTCAATCTGTCCTATAATCAA
**
35956681 GGTAAGAGATTACATGTCTTCAATCTGCC
1 GGTAAGAGATTGGATGTCTTCAATCTGCC
35956710 TCTGATTAAG
Statistics
Matches: 231, Mismatches: 25, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
230 29 0.13
231 152 0.66
232 34 0.15
233 4 0.02
235 1 0.00
236 11 0.05
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.33
Consensus pattern (232 bp):
GGTAAGAGATTGGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGACATGTCTTCAATC
TACCCTCTGATTAAGGTAAAAGATTAGATGCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGC
ATGGCTTCAATCTGCCTTCTAATTAAGATAAAAGATTAGATGCTTCAATCTACCCCATGATCAGG
GTAAAAGATTGGATGCTTCAATCTGTCCTATAATCAA
Found at i:35957121 original size:99 final size:99
Alignment explanation
Indices: 35957013--35957855 Score: 761
Period size: 99 Copynumber: 8.6 Consensus size: 99
35957003 CGTCGCTGCA
* * *
35957013 GCCTCAATCCTTCCCATCACATTTTCTAAGGTACCGGGTTCACCGTTGCGACCTCAATCTTTCCC
1 GCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCC
* * ** ****
35957078 TTTATATATTCATGGTACCAAATTTGTTGTTACG
66 TTCATATCTTCATGGTACCGGATTCACCGTTACG
* *
35957112 GCCTCAATCCTTCCCATCGCATCTTCTAAGGTACCGGGTTCATCGTTGCGGCCTCAACCTTTCCC
1 GCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCC
* ** ** **
35957177 TTCATGTCTTCATGGTATTGGATTCGTCGTTGTG
66 TTCATATCTTCATGGTACCGGATTCACCGTTACG
* * * * ** * *
35957211 GCCTAAATCTTTCCTATCGCATCTTCTAAGGTACCGGGTTCGTCATTGTGGCCTCAACCTTTCCC
1 GCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCC
* * *
35957276 TTCATATCTTCATGGTACCAGATTTACCGTTGCG
66 TTCATATCTTCATGGTACCGGATTCACCGTTACG
* * * * * * *
35957310 ACCTCAATCCTTCCTATCACATCTTCAAAGGTATCGGATTCACCGTTGCGGCTTCAACTTTTCCC
1 GCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCC
* * *
35957375 TTCATATCTACATGGTACCGAATTTACCGTTACG
66 TTCATATCTTCATGGTACCGGATTCACCGTTACG
* * * * *
35957409 GTCTTAATCCTTCCCATCACATCTTCTAAGGTAGCGGGTTCGCCGTTGCGGCCTCAACTTTTCCC
1 GCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCC
* * * * *
35957474 TTCATGTCTTCATGGTACCGGGTTCGCCATTATG
66 TTCATATCTTCATGGTACCGGATTCACCGTTACG
* * * * *
35957508 GCCTCAA-CCTTTTCCATCACATCTTCCAAGGTATCAGGTTCACCGTTGCGACCTCAACCTTTCC
1 GCCTCAATCC-TTCCCATCACATCTTCTAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCC
* *
35957572 CTTC--ATCTTCATGGTATCGGGTTCACCGTTACG
65 CTTCATATCTTCATGGTACCGGATTCACCGTTACG
* *
35957605 GCCTCAA-CCTTTCCCATCACATCTT-TCAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTC
1 GCCTCAATCC-TTCCCATCACATCTTCT-AAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTC
* ** **
35957668 CTTTC--ATCTTCATGGTACC-GAGTTCGTCGTTGTG
64 CCTTCATATCTTCATGGTACCGGA-TTCACCGTTACG
* * * * * * *
35957702 GTCTCAA-CCTTTCCTTCAC--CTTC-ATA-GTACCAGGTTCGCCATTGCGGCCTTAACCTTTCC
1 GCCTCAATCCTTCCCATCACATCTTCTA-AGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCC
* * * * * *
35957762 CTTC--ACCTTCATAGTATCGGGTTCGCCGTTGCG
65 CTTCATATCTTCATGGTACCGGATTCACCGTTACG
* * * *
35957795 ACCTCAA-CCTTTCCC-T-ACACCTTC-ATGATACCGGGTTCACCGTTGCGGCCTCAACCTTTCC
1 GCCTCAATCC-TTCCCATCACATCTTCTAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCC
35957856 AATTACATCT
Statistics
Matches: 621, Mismatches: 113, Indels: 25
0.82 0.15 0.03
Matches are distributed among these distances:
92 2 0.00
93 63 0.10
94 43 0.07
96 9 0.01
97 114 0.18
98 2 0.00
99 388 0.62
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.34
Consensus pattern (99 bp):
GCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCC
TTCATATCTTCATGGTACCGGATTCACCGTTACG
Found at i:35957223 original size:49 final size:49
Alignment explanation
Indices: 35957064--35957855 Score: 371
Period size: 50 Copynumber: 16.3 Consensus size: 49
35957054 ACCGTTGCGA
* * * ** * * **
35957064 CCTCAATCTTTCCCTTTATATATTCATGGTACCAAATTTGTTGTTACGG
1 CCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCGTTGTGG
* ** * * * *
35957113 CCTCAATCC-TTCCCATCGCATCTTCTAAGGTACCGGGTTCATCGTTGCGG
1 CCTCAA-CCTTTCCCTTCATATCTTC-ATGGTACCGGATTCGTCGTTGTGG
* **
35957163 CCTCAACCTTTCCCTTCATGTCTTCATGGTATTGGATTCGTCGTTGTGG
1 CCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCGTTGTGG
* * ** * * *
35957212 CCTAAATCTTT-CCTATCGCATCTTCTAAGGTACCGGGTTCGTCATTGTGG
1 CCTCAACCTTTCCCT-TCATATCTTC-ATGGTACCGGATTCGTCGTTGTGG
* *** * *
35957262 CCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTTACCGTTGCGA
1 CCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCGTTGTGG
* * * ** *
35957311 CCTCAATCC-TT-CCTATCACATCTTCAAAGGTATCGGATTCACCGTTGCGG
1 CCTCAA-CCTTTCCCT-TCATATCTTC-ATGGTACCGGATTCGTCGTTGTGG
* * * * *** **
35957361 CTTCAACTTTTCCCTTCATATCTACATGGTACCGAATTTACCGTTACGG
1 CCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCGTTGTGG
* * * * * * * * *
35957410 TCTTAATCC-TTCCCATCACATCTTCTAAGGTAGCGGGTTCGCCGTTGCGG
1 CCTCAA-CCTTTCCCTTCATATCTTC-ATGGTACCGGATTCGTCGTTGTGG
* * * * * *
35957460 CCTCAACTTTTCCCTTCATGTCTTCATGGTACCGGGTTCGCCATTATGG
1 CCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCGTTGTGG
* * * * * ** * *
35957509 CCTCAACCTTTTCCATCACATCTTCCAAGGTATCAGG-TTCACCGTTGCGA
1 CCTCAACCTTTCCCTTCATATCTT-CATGGTA-CCGGATTCGTCGTTGTGG
* * ** **
35957559 CCTCAACCTTTCCCTTC--ATCTTCATGGTATCGGGTTCACCGTTACGG
1 CCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCGTTGTGG
* * * * * * *
35957606 CCTCAACCTTTCCCATCACATCTTTCAAGGTATCGGGTTCGCCGTTGCGG
1 CCTCAACCTTTCCCTTCATATC-TTCATGGTACCGGATTCGTCGTTGTGG
*
35957656 CCTCAACCTTTCCTTTC--ATCTTCATGGTACC-GAGTTCGTCGTTGTGG
1 CCTCAACCTTTCCCTTCATATCTTCATGGTACCGGA-TTCGTCGTTGTGG
* * * * * *
35957703 TCTCAACCTTT-CCTTC--ACCTTCATAGTACCAGG-TTCGCCATTGCGG
1 CCTCAACCTTTCCCTTCATATCTTCATGGTACC-GGATTCGTCGTTGTGG
* * * * * * * *
35957749 CCTTAACCTTTCCCTTC--ACCTTCATAGTATCGGGTTCGCCGTTGCGA
1 CCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCGTTGTGG
* * * * ** *
35957796 CCTCAACCTTTCCC-T-ACACCTTCATGATACCGGGTTCACCGTTGCGG
1 CCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCGTTGTGG
35957843 CCTCAACCTTTCC
1 CCTCAACCTTTCC
35957856 AATTACATCT
Statistics
Matches: 581, Mismatches: 135, Indels: 56
0.75 0.17 0.07
Matches are distributed among these distances:
46 41 0.07
47 143 0.25
48 15 0.03
49 163 0.28
50 210 0.36
51 9 0.02
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (49 bp):
CCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCGTTGTGG
Found at i:35957565 original size:297 final size:293
Alignment explanation
Indices: 35957014--35957870 Score: 939
Period size: 297 Copynumber: 2.9 Consensus size: 293
35957004 GTCGCTGCAG
* * *
35957014 CCTCAATCCTTCCCATCACATTTTCTAAGGTACCGGGTTCACCGTTGCGACCTCAA-TCTTTCCC
1 CCTCAATCCTTCCCATCACATCTTC-AAGGTATCGGGTTCACCGTTGCGGCCTCAACT-TTTCCC
* * * * * *
35957078 TTTATATATTCATGGTACCAAATTTGTTGTTACGGCCTCAATCCTTCCCATCGCATCTTCTAAGG
64 TTCATATCTTCATGGTACCGAATTTGTCGTTACGGTCTCAATCCTTCCCATCACATCTTCTAAGG
** * * *
35957143 TACCGGGTTCATCGTTGCGGCCTCAACCTTTCCCTTCATGTCTTCATGGTATTGGATTCGTCGTT
129 TACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATGTCTTCATGGTATCGGGTTCGCCGTT
* * * * ** * *
35957208 GTGGCCTAAATCTTTCCTATCGCATCTTCTAAGGTACCGGGTTCGTCATTGTGGCCTCAACCTTT
194 GTGGCCTCAACCTTTCC-ATCACATCTTCCAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTT
* *
35957273 CCCTTCATATCTTCATGGTACCAGATTTACCGTTGCGA
258 CCCTTC--ATCTTCATGGTACCAGATTCACCGTTACGA
* * *
35957311 CCTCAATCCTTCCTATCACATCTTCAAAGGTATCGGATTCACCGTTGCGGCTTCAACTTTTCCCT
1 CCTCAATCCTTCCCATCACATCTTC-AAGGTATCGGGTTCACCGTTGCGGCCTCAACTTTTCCCT
* ** *
35957376 TCATATCTACATGGTACCGAATTTACCGTTACGGTCTTAATCCTTCCCATCACATCTTCTAAGGT
65 TCATATCTTCATGGTACCGAATTTGTCGTTACGGTCTCAATCCTTCCCATCACATCTTCTAAGGT
* * * * *
35957441 AGCGGGTTCGCCGTTGCGGCCTCAACTTTTCCCTTCATGTCTTCATGGTACCGGGTTCGCCATTA
130 ACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATGTCTTCATGGTATCGGGTTCGCCGTTG
* * *
35957506 TGGCCTCAACCTTTTCCATCACATCTTCCAAGGTATCAGGTTCACCGTTGCGACCTCAACCTTTC
195 TGGCCTCAACC-TTTCCATCACATCTTCCAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTC
* * * *
35957571 CCTTCATCTTCATGGTATCGGGTTCACCGTTACGG
259 CCTTCATCTTCATGGTACCAGATTCACCGTTACGA
* * *
35957606 CCTCAA-CCTTTCCCATCACATCTTTCAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCT
1 CCTCAATCC-TTCCCATCACATC-TTCAAGGTATCGGGTTCACCGTTGCGGCCTCAACTTTTCCC
* * ** * *
35957670 TTC--ATCTTCATGGTACCGAGTTCGTCGTTGTGGTCTCAA-CCTTTCCTTCAC--CTTC-ATA-
64 TTCATATCTTCATGGTACCGAATTTGTCGTTACGGTCTCAATCCTTCCCATCACATCTTCTA-AG
* * * * *
35957728 GTACCAGGTTCGCCATTGCGGCCTTAACCTTTCCCTTCA--CCTTCATAGTATCGGGTTCGCCGT
128 GTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATGTCTTCATGGTATCGGGTTCGCCGT
* * * * * *
35957791 TGCGACCTCAACCTTTCCCT-ACACCTT-CATGATACCGGGTTCACCGTTGCGGCCTCAACCTTT
193 TGTGGCCTCAACCTTTCCATCACATCTTCCAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTT
*
35957854 CCAATTACATCTTCATG
258 CC-CTT-CATCTTCATG
35957871 TTTTCTTGGT
Statistics
Matches: 473, Mismatches: 80, Indels: 25
0.82 0.14 0.04
Matches are distributed among these distances:
284 33 0.07
285 8 0.02
286 16 0.03
287 30 0.06
289 35 0.07
290 5 0.01
292 10 0.02
293 28 0.06
294 2 0.00
295 78 0.16
296 3 0.01
297 219 0.46
298 6 0.01
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.34
Consensus pattern (293 bp):
CCTCAATCCTTCCCATCACATCTTCAAGGTATCGGGTTCACCGTTGCGGCCTCAACTTTTCCCTT
CATATCTTCATGGTACCGAATTTGTCGTTACGGTCTCAATCCTTCCCATCACATCTTCTAAGGTA
CCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATGTCTTCATGGTATCGGGTTCGCCGTTGT
GGCCTCAACCTTTCCATCACATCTTCCAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCC
TTCATCTTCATGGTACCAGATTCACCGTTACGA
Found at i:35957808 original size:140 final size:142
Alignment explanation
Indices: 35957545--35957855 Score: 394
Period size: 140 Copynumber: 2.2 Consensus size: 142
35957535 AAGGTATCAG
* * * * * *
35957545 GTTCACCGTTGCGACCTCAACCTTTCCCTTCATCTTCATGGTATCGGGTTCACCGTTACGGCCTC
1 GTTCACCGTTGCGGCCTCAACCTTT-CCTTCACCTTCATAGTACCAGGTTCACCATTACGGCCTC
* * * *
35957610 AACCTTTCCCATCACATCTTTCAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCTTTCAT
65 AACCTTTCCCATCACA-CTTTCAAGGTATCGGGTTCGCCGTTGCGACCTCAACCTTTCCCTACAC
*
35957675 CTTCATGGTACCGA
129 CTTCATGATACCGA
** * * * * *
35957689 GTTCGTCGTTGTGGTCTCAACCTTTCCTTCACCTTCATAGTACCAGGTTCGCCATTGCGGCCTTA
1 GTTCACCGTTGCGGCCTCAACCTTTCCTTCACCTTCATAGTACCAGGTTCACCATTACGGCCTCA
*
35957754 ACCTTTCCCTTCAC-C-TTCATA-GTATCGGGTTCGCCGTTGCGACCTCAACCTTTCCCTACACC
66 ACCTTTCCCATCACACTTTCA-AGGTATCGGGTTCGCCGTTGCGACCTCAACCTTTCCCTACACC
*
35957816 TTCATGATACCGG
130 TTCATGATACCGA
35957829 GTTCACCGTTGCGGCCTCAACCTTTCC
1 GTTCACCGTTGCGGCCTCAACCTTTCC
35957856 AATTACATCT
Statistics
Matches: 142, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
140 75 0.53
141 2 0.01
143 45 0.32
144 20 0.14
ACGTcount: A:0.15, C:0.35, G:0.17, T:0.32
Consensus pattern (142 bp):
GTTCACCGTTGCGGCCTCAACCTTTCCTTCACCTTCATAGTACCAGGTTCACCATTACGGCCTCA
ACCTTTCCCATCACACTTTCAAGGTATCGGGTTCGCCGTTGCGACCTCAACCTTTCCCTACACCT
TCATGATACCGA
Found at i:35958791 original size:14 final size:13
Alignment explanation
Indices: 35958772--35958820 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 13
35958762 GTCGATTACA
35958772 TTTGTCTTCTTGCT
1 TTTGTCTT-TTGCT
*
35958786 TTTGTCTTGTTGTT
1 TTTGTCTT-TTGCT
35958800 CTTTGTCTTTTGCT
1 -TTTGTCTTTTGCT
35958814 TTTGTCT
1 TTTGTCT
35958821 CTGTGTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 7 0.23
14 16 0.52
15 8 0.26
ACGTcount: A:0.00, C:0.16, G:0.16, T:0.67
Consensus pattern (13 bp):
TTTGTCTTTTGCT
Found at i:35959043 original size:23 final size:21
Alignment explanation
Indices: 35958993--35959050 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 21
35958983 GGGCTCCTTT
35958993 GTAATTGGGTTTTAGGTTTAG
1 GTAATTGGGTTTTAGGTTTAG
* *
35959014 GTCATTGGGTATTTGGGTTATAG
1 GTAATTGGGT-TTTAGGTT-TAG
35959037 GTAATTGGGTTTTA
1 GTAATTGGGTTTTA
35959051 ATTTGGGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 9 0.29
22 10 0.32
23 12 0.39
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.47
Consensus pattern (21 bp):
GTAATTGGGTTTTAGGTTTAG
Found at i:35960541 original size:41 final size:40
Alignment explanation
Indices: 35960304--35960585 Score: 203
Period size: 41 Copynumber: 6.9 Consensus size: 40
35960294 AATATGGGAA
* * * *
35960304 AGAGCATTAGCGACGTTTTTCCCATAAACGCCACTAAAGGTC
1 AGAGCATTAGCGGCGTTTAT--CAAAAACGCCGCTAAAGGTC
* * *
35960346 AG-GCATTAGTGGCGTTTAT-AAGAAAGCACCGCGAAAGGTC
1 AGAGCATTAGCGGCGTTTATCAA-AAA-CGCCGCTAAAGGTC
* * * * * *
35960386 AAAGTAATAGCGGTGCTTATGGGAAAAACGCCGCTAAAGGTC
1 AGAGCATTAGCGGCGTTTAT--CAAAAACGCCGCTAAAGGTC
* * * *
35960428 AGAACATTAGCGGCGTGTATGAAAAAGCGCCGCTAAATGTC
1 AGAGCATTAGCGGCGTTTATCAAAAA-CGCCGCTAAAGGTC
* *
35960469 AGAGCACTAGCGGCGTTTATGAAAAAGCGCCGCTAAAGGTC
1 AGAGCATTAGCGGCGTTTATCAAAAA-CGCCGCTAAAGGTC
* * * *
35960510 AGAGCATTAGTGGCGCTTTCTCATAAACGCCGCTAAAGGTT
1 AGAGCATTAGCGGCG-TTTATCAAAAACGCCGCTAAAGGTC
* * *
35960551 A-AGAAATAGCGGCGTTT-TCCCATAAACGCCGCTAA
1 AGAGCATTAGCGGCGTTTAT--CAAAAACGCCGCTAA
35960586 TGCTCTTTTT
Statistics
Matches: 194, Mismatches: 36, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
38 2 0.01
39 6 0.03
40 43 0.22
41 103 0.53
42 35 0.18
43 3 0.02
44 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (40 bp):
AGAGCATTAGCGGCGTTTATCAAAAACGCCGCTAAAGGTC
Found at i:35960541 original size:82 final size:82
Alignment explanation
Indices: 35960329--35960564 Score: 246
Period size: 82 Copynumber: 2.9 Consensus size: 82
35960319 TTTTTCCCAT
* * * * *
35960329 AAACGCCACTAAAGGTCAG-GCATTAGTGGCGTTTATAAGAAAGCACCGCGAAAGGTCAAAGTAA
1 AAACGCCGCTAAAGGTCAGAGCATTAGTGGCGTTTATAAAAAAGCGCCGCTAAAGGTCAAAGCAA
*
35960393 TAGCGGTGCTTATGGGAA
66 TAGCGGCGCTTAT-GGAA
* * * * * * *
35960411 AAACGCCGCTAAAGGTCAGAACATTAGCGGCGTGTATGAAAAAGCGCCGCTAAATGTCAGAGCAC
1 AAACGCCGCTAAAGGTCAGAGCATTAGTGGCGTTTATAAAAAAGCGCCGCTAAAGGTCAAAGCAA
*
35960476 TAGCGGCGTTTAT-GAA
66 TAGCGGCGCTTATGGAA
* * * * *
35960492 AAAGCGCCGCTAAAGGTCAGAGCATTAGTGGCGCTTTCTCATAAA-CGCCGCTAAAGGT-TAAGA
1 AAA-CGCCGCTAAAGGTCAGAGCATTAGTGGCG-TTTATAAAAAAGCGCCGCTAAAGGTCAAAGC
35960555 AATAGCGGCG
64 AATAGCGGCG
35960565 TTTTCCCATA
Statistics
Matches: 126, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
81 17 0.13
82 57 0.45
83 52 0.41
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (82 bp):
AAACGCCGCTAAAGGTCAGAGCATTAGTGGCGTTTATAAAAAAGCGCCGCTAAAGGTCAAAGCAA
TAGCGGCGCTTATGGAA
Found at i:35972510 original size:25 final size:25
Alignment explanation
Indices: 35972482--35972546 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 25
35972472 TTCAAAACTG
35972482 TTTATATTTTAAATATATTAATAT-A
1 TTTATATTTTAAAT-TATTAATATCA
* *
35972507 TTTAT-TTATTATATTATTAATGTCA
1 TTTATATT-TTAAATTATTAATATCA
35972532 TTTATTATTTCTAAA
1 TTTA-TATTT-TAAA
35972547 CATGTATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 10 0.31
25 15 0.47
26 2 0.06
27 5 0.16
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTATATTTTAAATTATTAATATCA
Found at i:35972521 original size:21 final size:21
Alignment explanation
Indices: 35972495--35972539 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
35972485 ATATTTTAAA
*
35972495 TATATTAATATAT-TTATTTAT
1 TATATTAATA-ATGTCATTTAT
*
35972516 TATATTATTAATGTCATTTAT
1 TATATTAATAATGTCATTTAT
35972537 TAT
1 TAT
35972540 TTCTAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TATATTAATAATGTCATTTAT
Found at i:35972584 original size:13 final size:13
Alignment explanation
Indices: 35972566--35972602 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
35972556 AATGTATATT
35972566 TAATAAATAAATA
1 TAATAAATAAATA
* *
35972579 TAATAAAGATATA
1 TAATAAATAAATA
35972592 TAATAAATAAA
1 TAATAAATAAA
35972603 AAGAAACTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (13 bp):
TAATAAATAAATA
Found at i:35973555 original size:30 final size:29
Alignment explanation
Indices: 35973519--35973826 Score: 90
Period size: 30 Copynumber: 10.3 Consensus size: 29
35973509 CCCAATAAGT
35973519 CCCTAAACATTC-CAGAAATCATATTTTGAC
1 CCCTAAAC-TTCTCA-AAATCATATTTTGAC
*
35973549 CCCTAAACTTCTTCAAAATTATATTTTGA-
1 CCCTAAACTTC-TCAAAATCATATTTTGAC
* * * * *
35973578 -CGTGAAACTTTTCCAAAATTACATTTTGATA
1 CCCT-AAACTTCT-CAAAATCATATTTTGA-C
* * *** *
35973609 GCC-AAACTTTTCCAAAATTGCATTTTGAA
1 CCCTAAACTTCT-CAAAATCATATTTTGAC
* * * * *
35973638 CCCTAAAC-TCTTCCAAAT-TTTTGTTTTAT
1 CCCTAAACTTC-TCAAAATCATAT-TTTGAC
* * * *
35973667 CCCTAAACTTTTCAAAAATTACATTTTAAC
1 CCCTAAACTTCTC-AAAATCATATTTTGAC
* * * * * *
35973697 CCATAAAATTTTCTAAAATTACATTTTAAC
1 CCCTAAACTTCTC-AAAATCATATTTTGAC
* *
35973727 CCCTAAACTTTTCCAAAATCATATTTTCAC
1 CCCTAAACTTCT-CAAAATCATATTTTGAC
* * * * *
35973757 CCTTAAACTTTTCCAAAATTACATTTTGGC
1 CCCTAAACTTCT-CAAAATCATATTTTGAC
* * *
35973787 CCTTAAACATTCGT-AAAATCACATTTTAAC
1 CCCTAAAC-TTC-TCAAAATCATATTTTGAC
*
35973817 CCTTAAACTT
1 CCCTAAACTT
35973827 TAACATTTTT
Statistics
Matches: 224, Mismatches: 38, Indels: 33
0.76 0.13 0.11
Matches are distributed among these distances:
28 4 0.02
29 49 0.22
30 163 0.73
31 6 0.03
32 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (29 bp):
CCCTAAACTTCTCAAAATCATATTTTGAC
Found at i:35973692 original size:89 final size:90
Alignment explanation
Indices: 35973541--35973868 Score: 263
Period size: 89 Copynumber: 3.7 Consensus size: 90
35973531 CAGAAATCAT
* * * * *
35973541 ATTTTGACCCCTAAACTTCTT-CAAAATTATATTTTGA-CGTGAAACTTTTCCAAAATTACATTT
1 ATTTTAACCCCTAAAC-TCTTCCAAAATCATATTTTCACCCTTAAACTTTTCCAAAATTACATTT
* * *
35973604 TGATAGCC-AAACTTTTCCAAAATTGC
65 TGA-ACCCAAAAATTTTCCAAAATTAC
* ** * *
35973630 ATTTTGAA-CCCTAAACTCTTCCAAATTTTTGTTTT-ATCCC-TAAACTTTTCAAAAATTACATT
1 ATTTT-AACCCCTAAACTCTTCCAAAATCATATTTTCA-CCCTTAAACTTTTCCAAAATTACATT
*
35973692 TT-AACCCATAAAATTTTCTAAAATTAC
64 TTGAACCCA-AAAATTTTCCAAAATTAC
*
35973719 ATTTTAACCCCTAAACTTTTCCAAAATCATATTTTCACCCTTAAACTTTTCCAAAATTACATTTT
1 ATTTTAACCCCTAAACTCTTCCAAAATCATATTTTCACCCTTAAACTTTTCCAAAATTACATTTT
* ** ** * *
35973784 G-GCCCTTAAACATTCGTAAAATCAC
66 GAACCCAAAAATTTTC-CAAAATTAC
* * * *
35973809 ATTTTAACCCTTAAACT-TT----AA-CAT-TTTTAACCCTAAAACTTTTCTAAAATTACATTTT
1 ATTTTAACCCCTAAACTCTTCCAAAATCATATTTTCACCCTTAAACTTTTCCAAAATTACATTTT
35973867 GA
66 GA
35973869 CCTTAAACTT
Statistics
Matches: 200, Mismatches: 27, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
83 32 0.16
84 3 0.01
85 2 0.01
87 3 0.01
88 8 0.04
89 99 0.50
90 53 0.26
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (90 bp):
ATTTTAACCCCTAAACTCTTCCAAAATCATATTTTCACCCTTAAACTTTTCCAAAATTACATTTT
GAACCCAAAAATTTTCCAAAATTAC
Found at i:35973738 original size:60 final size:59
Alignment explanation
Indices: 35973541--35973931 Score: 234
Period size: 60 Copynumber: 6.7 Consensus size: 59
35973531 CAGAAATCAT
* * * * *
35973541 ATTTTGACCCCTAAACTTCTTC-AAAATTATATTTTGA-CGTGAAACTTTTCCAAAATTAC
1 ATTTTAACCCCTAAACTT-TTCTAAAATTACATTTTAACCCT-AAAATTTTCCAAAATTAC
* * * * * * **
35973600 ATTTTGATA-GCC-AAACTTTTCCAAAATTGCATTTTGAACCCTAAACTCTTCCAAATTTTT
1 ATTTT-A-ACCCCTAAACTTTTCTAAAATTACATTTT-AACCCTAAAATTTTCCAAAATTAC
* * * *
35973660 GTTTT-ATCCCTAAACTTTTCAAAAATTACATTTTAACCCATAAAATTTTCTAAAATTAC
1 ATTTTAACCCCTAAACTTTTCTAAAATTACATTTTAACCC-TAAAATTTTCCAAAATTAC
* * * * *
35973719 ATTTTAACCCCTAAACTTTTCCAAAATCATATTTTCACCCTTAAACTTTTCCAAAATTAC
1 ATTTTAACCCCTAAACTTTTCTAAAATTACATTTTAACCC-TAAAATTTTCCAAAATTAC
** * * * * * *
35973779 ATTTTGGCCCTTAAAC-ATTCGTAAAATCACATTTTAACCCTTAAACTTT--AACA-T--
1 ATTTTAACCCCTAAACTTTTC-TAAAATTACATTTTAACCCTAAAATTTTCCAAAATTAC
* * * * *
35973833 -TTTTAA-CCCTAAAACTTTTCTAAAATTACATTTTGA-CCTTAAACTTTCATAAAATTTC
1 ATTTTAACCCCT-AAACTTTTCTAAAATTACATTTTAACCCTAAAATTTTC-CAAAATTAC
** * *
35973891 ATTTTTGCCCTCTAAACATTTCTAAAATTACGTTTTAACCC
1 ATTTTAACCC-CTAAACTTTTCTAAAATTACATTTTAACCC
35973932 CGAATTCTTC
Statistics
Matches: 258, Mismatches: 52, Indels: 42
0.73 0.15 0.12
Matches are distributed among these distances:
52 14 0.05
53 22 0.09
54 3 0.01
55 3 0.01
56 2 0.01
57 4 0.02
58 10 0.04
59 73 0.28
60 120 0.47
61 7 0.03
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.40
Consensus pattern (59 bp):
ATTTTAACCCCTAAACTTTTCTAAAATTACATTTTAACCCTAAAATTTTCCAAAATTAC
Found at i:35973866 original size:113 final size:113
Alignment explanation
Indices: 35973720--35973931 Score: 279
Period size: 113 Copynumber: 1.9 Consensus size: 113
35973710 TAAAATTACA
*
35973720 TTTTAACCCCTAAACTTTTCCAAAATCATATTTTCACCCTTAAACTTTTC-CAAAATTACATTTT
1 TTTTAACCCCTAAACTTTTCCAAAATCACATTTTCA-CCTTAAAC-TTTCACAAAATTACATTTT
35973784 GGCCCT-TAAACA-TTCGTAAAATCACATTTTAACCCTTAAACTTTAACAT
64 GGCCCTCTAAACATTTC-TAAAATCACATTTTAACCCTTAAACTTTAACAT
* * * * * *
35973833 TTTTAA-CCCTAAAACTTTTCTAAAATTACATTTTGACCTTAAACTTTCATAAAATTTCATTTTT
1 TTTTAACCCCT-AAACTTTTCCAAAATCACATTTTCACCTTAAACTTTCACAAAATTACATTTTG
* *
35973897 GCCCTCTAAACATTTCTAAAATTACGTTTTAACCC
65 GCCCTCTAAACATTTCTAAAATCACATTTTAACCC
35973932 CGAATTCTTC
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
111 4 0.05
112 29 0.34
113 50 0.58
114 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (113 bp):
TTTTAACCCCTAAACTTTTCCAAAATCACATTTTCACCTTAAACTTTCACAAAATTACATTTTGG
CCCTCTAAACATTTCTAAAATCACATTTTAACCCTTAAACTTTAACAT
Found at i:35973879 original size:29 final size:29
Alignment explanation
Indices: 35973844--35973926 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 29
35973834 TTTAACCCTA
35973844 AAACTTTTCTAAAATTACATTTTGACCT-T
1 AAAC-TTTCTAAAATTACATTTTGACCTCT
* *
35973873 AAACTTTCATAAAATTTCATTTTTGCCCTCT
1 AAACTTTC-TAAAATTACA-TTTTGACCTCT
*
35973904 AAACATTTCTAAAATTACGTTTT
1 AAAC-TTTCTAAAATTACATTTT
35973927 AACCCCGAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
28 4 0.09
29 13 0.28
30 12 0.26
31 13 0.28
32 4 0.09
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.45
Consensus pattern (29 bp):
AAACTTTCTAAAATTACATTTTGACCTCT
Found at i:35981705 original size:49 final size:49
Alignment explanation
Indices: 35981632--35981802 Score: 225
Period size: 49 Copynumber: 3.5 Consensus size: 49
35981622 ACCAAATCCG
* * * *
35981632 TCTTACTGATGAGATAAAGAGAAGCAGATTAAAACCAGTGATGCGGTCA
1 TCTTCCTGATGAGATATAGAGAAGCGGATTAAAACAAGTGATGCGGTCA
* * * * *
35981681 TCTTCCTGATGAGTTATAGTGAAGCGGATTAAAACAAATGAAGCGATCA
1 TCTTCCTGATGAGATATAGAGAAGCGGATTAAAACAAGTGATGCGGTCA
* * *
35981730 TCTTCCTGATGAGATACAAAGAAGCGGATTAAAACAAGTGATACGGTCA
1 TCTTCCTGATGAGATATAGAGAAGCGGATTAAAACAAGTGATGCGGTCA
*
35981779 TCTTCCTGATAAGATATAGAGAAG
1 TCTTCCTGATGAGATATAGAGAAG
35981803 TAGACCAAAT
Statistics
Matches: 102, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 102 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (49 bp):
TCTTCCTGATGAGATATAGAGAAGCGGATTAAAACAAGTGATGCGGTCA
Found at i:35982097 original size:210 final size:210
Alignment explanation
Indices: 35981730--35982762 Score: 1397
Period size: 210 Copynumber: 4.9 Consensus size: 210
35981720 GAAGCGATCA
* * * ** * *
35981730 TCTTCCTGATGAGATACAAAGAAGCGGATTAAAACAAGTGATACGGTCATCTTCCTGATAAGATA
1 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAATGAGGCGATCATCTTCCTGATGAGATA
* ** *
35981795 TAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACTTATAACCCTCATCTTC
66 CAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACTTCGAACCCCCATCTTC
* * ** * *
35981860 CTGATAAGATACTGAGAAGTAGGTCAAAGCAATAAAATGGTCATCTTTTTGATGAGATACAGAGA
131 CTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGGTCGTCTTTCTGATGAGATACAGAGA
*
35981925 AGTGGACCAAATCTG
196 AGTGAACCAAATCTG
* *
35981940 TCTTCCTAATGAGATACAGAGAAGTGGATTGAAACAAATGAGGCGATCATCTTCCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAATGAGGCGATCATCTTCCTGATGAGATA
** ** *
35982005 CAGAGAAGTAGACCAAATCGATGAAATGAAGCTCAATGTGAGTGAAACTTCGAACCCTTATTTTC
66 CAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACTTCGAACCCCCATCTTC
* * *
35982070 CTGATAAGACACTGAGAAGTGGGTCAAAGCAATAAAGCGGTCGTCTTCCTGATGAGATACAGAGA
131 CTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGGTCGTCTTTCTGATGAGATACAGAGA
* * *
35982135 AGTGAACTAAATATC
196 AGTGAACCAAATCTG
* * * * * *
35982150 TCTTTCTAATGAAATACAGATAAGTGGATTAAAACAAGTGATGC-AGTCATCTTCCTGATGAGAT
1 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAATGAGGCGA-TCATCTTCCTGATGAGAT
* * *
35982214 ACAGAGAAGTAGACCAAATCGATTAAGTGAAGCTCAATGTGAGTGAAAGTTCGAACCCCCATCTT
65 ACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACTTCGAACCCCCATCTT
* * *
35982279 CCTGATGAGATACTGAGAAGTGAGTCAAAGCAATAAAACGATCGT-TTTCCTGATGAGATACAGA
130 CCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGGTCGTCTTT-CTGATGAGATACAGA
**
35982343 GAAGTGAACCAAATCCA
194 GAAGTGAACCAAATCTG
* * * *
35982360 TCTTCTTGATGAGATATAGAGAAGTGGATTAAAACAAATAAGAC-AGTCATCTTCCTGATGAGAT
1 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAATGAGGCGA-TCATCTTCCTGATGAGAT
* *
35982424 ACAGAGAAGTAGATCAAATCGATGAAGCAAAGCTCAATGTGAGTGAAACTTCGAACCCCCATCTT
65 ACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACTTCGAACCCCCATCTT
* * * * * *
35982489 CCTAATGAGATACTAAAAAGTGGGTCAAAGCAATAAAGCGGTCGTCTTCCAGATGAGATATAGAG
130 CCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGGTCGTCTTTCTGATGAGATACAGAG
*
35982554 AAGTGGACCAAATCTG
195 AAGTGAACCAAATCTG
* * * * *
35982570 TCTTTCTGATGAGATACAGAGAAGTTGATTAAAATAAATGAGGCGGTCATCTTTCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAATGAGGCGATCATCTTCCTGATGAGATA
* * *
35982635 CAGAGAAGTACACCAAATCGATGAAGCGAAGCTCAATGTGAGTAAAACTTCGAACCCCTATCTTC
66 CAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACTTCGAACCCCCATCTTC
* * *
35982700 TTGATGAGATACTGAGAAGTGGGTCGAAGCAATAAAGCGGTCATCTTTCTGATGAGATACAGA
131 CTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGGTCGTCTTTCTGATGAGATACAGA
35982763 TAAGCAGACC
Statistics
Matches: 720, Mismatches: 99, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
209 3 0.00
210 715 0.99
211 2 0.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (210 bp):
TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAATGAGGCGATCATCTTCCTGATGAGATA
CAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACTTCGAACCCCCATCTTC
CTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGGTCGTCTTTCTGATGAGATACAGAGA
AGTGAACCAAATCTG
Found at i:35983136 original size:14 final size:15
Alignment explanation
Indices: 35983114--35983147 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
35983104 AATATTCAAC
35983114 ACAAAGTCCAA-ATT
1 ACAAAGTCCAAGATT
*
35983128 ACAATGTCCAAGATT
1 ACAAAGTCCAAGATT
35983143 ACAAA
1 ACAAA
35983148 ATAGTCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.50, C:0.21, G:0.09, T:0.21
Consensus pattern (15 bp):
ACAAAGTCCAAGATT
Found at i:35983620 original size:21 final size:22
Alignment explanation
Indices: 35983594--35983647 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
35983584 ATATTTTAAA
*
35983594 TATATTAATATAT-TTATTTAT
1 TATATTAATATATGTCATTTAT
*
35983615 TATATTATTA-ATGTCATTTAT
1 TATATTAATATATGTCATTTAT
*
35983636 TATTTCTAATAT
1 TATAT-TAATAT
35983648 TCAATGCATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.08
21 20 0.77
22 4 0.15
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (22 bp):
TATATTAATATATGTCATTTAT
Found at i:35985551 original size:201 final size:201
Alignment explanation
Indices: 35984918--35985619 Score: 1273
Period size: 201 Copynumber: 3.5 Consensus size: 201
35984908 GGAGTAGTTC
* *
35984918 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTTAGTGCTCAAACAC
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAACAC
*
35984983 GAGCAAATCTTCGAACCCAGCTTCTTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGT
66 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGT
*
35985048 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGAAGATCCAGAGAACCG
131 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAACCG
35985113 AATCAA
196 AATCAA
*
35985119 AACAAGCGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGAACACCAACTCAGCGCTCAAACAC
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAACAC
*
35985184 GAGCAAATCTTCGAACCCAACTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAAT-AAAAGGT
66 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGT
35985248 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAACCG
131 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAACCG
35985313 AATCAA
196 AATCAA
35985319 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAACAC
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAACAC
*
35985384 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAACAATAAAAAGGT
66 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGT
*
35985449 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
131 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAACCG
35985514 AATCAA
196 AATCAA
* * *
35985520 AACAAGCGAGGCGGTCATCTTCTTGATGAGATACAGAGAAGAACACTAACTCAGCGCTCAGA-AC
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAACAC
* *
35985584 GAGCAAATCTTCGAACCCAGCTTCCAGATAAGACAC
66 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACAC
35985620 AGGGAAGTGG
Statistics
Matches: 485, Mismatches: 15, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
200 232 0.48
201 253 0.52
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.18
Consensus pattern (201 bp):
AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAACAC
GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGT
TAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAACCG
AATCAA
Found at i:35986107 original size:17 final size:17
Alignment explanation
Indices: 35986051--35986112 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
35986041 GCCCAGTGAG
*
35986051 ATAAATTTAGATTTATT
1 ATAAATTTAAATTTATT
* *
35986068 TTGAATTTAAATTTGCA-T
1 ATAAATTTAAATTT--ATT
35986086 A-AAATTTAAATTTATT
1 ATAAATTTAAATTTATT
35986102 ATAAATTTAAA
1 ATAAATTTAAA
35986113 ATTAAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
15 1 0.03
16 2 0.06
17 31 0.86
18 1 0.03
19 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (17 bp):
ATAAATTTAAATTTATT
Found at i:35988043 original size:58 final size:59
Alignment explanation
Indices: 35987977--35988235 Score: 362
Period size: 59 Copynumber: 4.4 Consensus size: 59
35987967 CTTAAACTGT
*
35987977 CCAAAAATTACCATTTTCCCCCTGAACTTTCCAAAATCCCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTCCCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTCA
* *
35988036 CC-AAAATTACCATTTTGCCCCC-AAACTTTCCAAAATCCCAATTTTAA-CCTCGATTTTA
1 CCAAAAATTACCATTTT-CCCCCTAAACTTTCCAAAATCCCATTTTTAACCCT-GATTTCA
* *
35988094 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTTA
1 CCAAAAATTACCATTTTCCCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTCA
* * * * *
35988153 CCAAAAACTACTATTTTACCCCTAAACTTTCCAAAATCTCATTTTTAAACCCCGATTTCA
1 CCAAAAATTACCATTTTCCCCCTAAACTTTCCAAAATCCCATTTTT-AACCCTGATTTCA
*
35988213 CAAAAAATTACCATTTTACCCCC
1 CCAAAAATTACCATTTT-CCCCC
35988236 AGAAGTCAAA
Statistics
Matches: 179, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
57 3 0.02
58 49 0.27
59 95 0.53
60 28 0.16
61 4 0.02
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.33
Consensus pattern (59 bp):
CCAAAAATTACCATTTTCCCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTCA
Found at i:35988197 original size:117 final size:119
Alignment explanation
Indices: 35987977--35988234 Score: 387
Period size: 117 Copynumber: 2.2 Consensus size: 119
35987967 CTTAAACTGT
* *
35987977 CCAAAAATTACCATTTTCCCCCTGAACTTTCCAAAATCCCATTTTTAACCCTGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTCACCAAAA
* * * *
35988042 TTACCATTTTGCCCCCAAACTTTCCAAAATCCCAA-TTTT-AACCTCGATTTTA
66 CTACCATTTTACCCCCAAACTTTCCAAAATCCCAATTTTTAAACCCCGATTTCA
*
35988094 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTTACCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTCACC-AAA
* * *
35988159 ACTACTATTTTACCCCTAAACTTTCCAAAATCTC-ATTTTTAAACCCCGATTTCA
65 ACTACCATTTTACCCCCAAACTTTCCAAAATCCCAATTTTTAAACCCCGATTTCA
*
35988213 CAAAAAATTACCATTTTACCCC
1 CCAAAAATTACCATTTTACCCC
35988235 CAGAAGTCAA
Statistics
Matches: 127, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
117 59 0.46
118 36 0.28
119 32 0.25
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.33
Consensus pattern (119 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTCACCAAAA
CTACCATTTTACCCCCAAACTTTCCAAAATCCCAATTTTTAAACCCCGATTTCA
Found at i:35988199 original size:29 final size:29
Alignment explanation
Indices: 35988107--35988199 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
35988097 AAAATTACCA
*
35988107 TTTTACCCCTAAACTTTCCAAAATCCCAT
1 TTTTACCCCTAAACTTTCCAAAATCTCAT
* * * *
35988136 TTTTAACCCT-GATTTTACCAAAAACT-ACT
1 TTTTACCCCTAAACTTT-CCAAAATCTCA-T
35988165 ATTTTACCCCTAAACTTTCCAAAATCTCAT
1 -TTTTACCCCTAAACTTTCCAAAATCTCAT
35988195 TTTTA
1 TTTTA
35988200 AACCCCGATT
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
28 5 0.10
29 22 0.44
30 18 0.36
31 5 0.10
ACGTcount: A:0.32, C:0.28, G:0.01, T:0.39
Consensus pattern (29 bp):
TTTTACCCCTAAACTTTCCAAAATCTCAT
Found at i:35989744 original size:29 final size:30
Alignment explanation
Indices: 35989709--35990056 Score: 277
Period size: 29 Copynumber: 11.8 Consensus size: 30
35989699 TAACCTTCTT
*
35989709 TAAAATTATATTTTAACCTC-AAACTTTTC
1 TAAAATTACATTTTAACCTCTAAACTTTTC
* * *
35989738 TAAAATTACATTTTAACCCCTTAATTTTTC
1 TAAAATTACATTTTAACCTCTAAACTTTTC
* * * * * *
35989768 CAAAATTATATTTTGACCACCAAACTTTTT
1 TAAAATTACATTTTAACCTCTAAACTTTTC
* * *
35989798 TCAAAATTGCATTTTGACCCCTAAACTCTTTC
1 T-AAAATTACATTTTAACCTCTAAACT-TTTC
* *
35989830 -AAAATTATATTTTATCCT-TAAACTTTTC
1 TAAAATTACATTTTAACCTCTAAACTTTTC
* * * *
35989858 CAAAGTCATATTTTCAACCTC-AAAC-TTTC
1 TAAAATTACATTTT-AACCTCTAAACTTTTC
* * * *
35989887 CAAAATCACATTTTGACC-CTAAACTTTCC
1 TAAAATTACATTTTAACCTCTAAACTTTTC
* * *
35989916 CAAAATCACATTTTAACCCCTAAAC-TTTC
1 TAAAATTACATTTTAACCTCTAAACTTTTC
* * *
35989945 TTAAAATAACA-TTTGACC-ATAAGACTTTTC
1 -TAAAATTACATTTTAACCTCTAA-ACTTTTC
*
35989975 TAAAATTACATTTTAACC-CTAAACTTTCC
1 TAAAATTACATTTTAACCTCTAAACTTTTC
**
35990004 TAAAATTACATTTTTCCCTCTAAACTTTTC
1 TAAAATTACATTTTAACCTCTAAACTTTTC
*
35990034 TAAAATTATATTTTAACC-CTAAA
1 TAAAATTACATTTTAACCTCTAAA
35990057 TTCTCTGAAA
Statistics
Matches: 259, Mismatches: 46, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
27 1 0.00
28 14 0.05
29 118 0.46
30 102 0.39
31 21 0.08
32 3 0.01
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (30 bp):
TAAAATTACATTTTAACCTCTAAACTTTTC
Found at i:35989980 original size:59 final size:59
Alignment explanation
Indices: 35989669--35990056 Score: 287
Period size: 59 Copynumber: 6.6 Consensus size: 59
35989659 AATAGGTCCC
* * * * * * *
35989669 TAAAC-TTTCTAGAAATCATATTTTGA-CCCTTAACCTTCTTTAAAATTATATTTTAACC-
1 TAAACTTTTCTA-AAATTACATTTTAACCCCTAAACTTTC-TTAAAATTACATTTTGACCA
* *
35989727 TCAAACTTTTCTAAAATTACATTTTAACCCCTTAA-TTT-TTCCAAAATTATATTTTGACCA
1 T-AAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTCTT--AAAATTACATTTTGACCA
* * * * * * *
35989787 CCAAACTTTTTTCAAAATTGCATTTTGACCCCTAAACTCTT-TCAAAATTATATTTT-ATCCT
1 -TAAACTTTTCT-AAAATTACATTTTAACCCCTAAACT-TTCTTAAAATTACATTTTGA-CCA
* * * * * * * *
35989848 TAAACTTTTCCAAAGTCATATTTTCAACCTC-AAACTTTC-CAAAATCACATTTTGACCC
1 TAAACTTTTCTAAAATTACATTTT-AACCCCTAAACTTTCTTAAAATTACATTTTGACCA
* * * *
35989906 TAAACTTTCCCAAAATCACATTTTAACCCCTAAACTTTCTTAAAATAACA-TTTGACCA
1 TAAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTCTTAAAATTACATTTTGACCA
* ** *
35989964 TAAGACTTTTCTAAAATTACATTTTAA-CCCTAAACTTTCCTAAAATTACATTTTTCCCTC
1 TAA-ACTTTTCTAAAATTACATTTTAACCCCTAAACTTTCTTAAAATTACATTTTGACC-A
*
35990024 TAAACTTTTCTAAAATTATATTTTAA-CCCTAAA
1 TAAACTTTTCTAAAATTACATTTTAACCCCTAAA
35990057 TTCTCTGAAA
Statistics
Matches: 271, Mismatches: 40, Indels: 37
0.78 0.11 0.11
Matches are distributed among these distances:
57 7 0.03
58 77 0.28
59 110 0.41
60 38 0.14
61 35 0.13
62 1 0.00
63 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.40
Consensus pattern (59 bp):
TAAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTCTTAAAATTACATTTTGACCA
Found at i:35994008 original size:50 final size:50
Alignment explanation
Indices: 35993941--35994080 Score: 158
Period size: 50 Copynumber: 2.8 Consensus size: 50
35993931 GACGAGTCCT
* ** * *
35993941 ATACCCCTAAAGCTGTAGAGGAACGGATTGAAGTCGTAATGGCAAATCTC
1 ATACACCTAAAGCTGTAGAGGAACAAATTGAAGCCGCAATGGCAAATCTC
* ***
35993991 ATACACCTAAAGTTGTAGAGGGGTAAATTGAAGCCGCAATGGCAAATCTC
1 ATACACCTAAAGCTGTAGAGGAACAAATTGAAGCCGCAATGGCAAATCTC
*
35994041 ATACACCTAAAGCTGTAGAATGG--CAGATTGAAGCCGCAAT
1 ATACACCTAAAGCTGTAG-A-GGAACAAATTGAAGCCGCAAT
35994081 CTCATTCACC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
50 73 0.96
51 1 0.01
52 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (50 bp):
ATACACCTAAAGCTGTAGAGGAACAAATTGAAGCCGCAATGGCAAATCTC
Found at i:35994096 original size:43 final size:43
Alignment explanation
Indices: 35994035--35994122 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 43
35994025 CGCAATGGCA
*
35994035 AATCTCATACACCTAAAGCTGTAGAA-TGGCAGATTGAAGCCGC
1 AATCTCATACACCTAAAGCTGTA-AAGGGGCAGATTGAAGCCGC
* *
35994078 AATCTCATTCACCTAAAGCTGTAAAGGGGCAGATTGAAGTCGC
1 AATCTCATACACCTAAAGCTGTAAAGGGGCAGATTGAAGCCGC
35994121 AA
1 AA
35994123 GGACGAATCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 2 0.05
43 39 0.95
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (43 bp):
AATCTCATACACCTAAAGCTGTAAAGGGGCAGATTGAAGCCGC
Found at i:35994236 original size:39 final size:39
Alignment explanation
Indices: 35994169--35994296 Score: 109
Period size: 39 Copynumber: 3.3 Consensus size: 39
35994159 AAGACCATCC
* * * *
35994169 AATCTTTTACCTCGACCATGGGGCAGATTGAAGCAATCT
1 AATCTTTTACCACAACTATGGGCCAGATTGAAGCAATCT
* * *
35994208 AATCTTTTACC-CTAACTA-GAGGCTAGATTAAAGACCATC-
1 AATCTTTTACCAC-AACTATG-GGCCAGATTGAAG-CAATCT
* * *
35994247 AGATCTCTTACCACAACTATGGGCCAAATTGAAACAATCT
1 A-ATCTTTTACCACAACTATGGGCCAGATTGAAGCAATCT
35994287 AATCTTTTAC
1 AATCTTTTAC
35994297 ACTTAAAATT
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
38 2 0.03
39 37 0.54
40 28 0.41
41 2 0.03
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (39 bp):
AATCTTTTACCACAACTATGGGCCAGATTGAAGCAATCT
Found at i:35995677 original size:28 final size:28
Alignment explanation
Indices: 35995646--35995709 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
35995636 GGCTTGACAA
* *
35995646 AAAAAAAAGGAATG-AAAAGGTTTTTTTT
1 AAAAAAAAGGAA-GCAAAAGATTTTTTTG
* * *
35995674 AAAACAAATGAAGCAAATGATTTTTTTG
1 AAAAAAAAGGAAGCAAAAGATTTTTTTG
35995702 AAAAAAAA
1 AAAAAAAA
35995710 ATCACTTATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.55, C:0.03, G:0.14, T:0.28
Consensus pattern (28 bp):
AAAAAAAAGGAAGCAAAAGATTTTTTTG
Done.