Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 49 of 103
Found at i:18472514 original size:50 final size:47
Alignment explanation
Indices: 18472421--18472514 Score: 125
Period size: 50 Copynumber: 1.9 Consensus size: 47
18472411 AAATTTTAAA
* *
18472421 AATTATGTGTAAATTATAAAAAATTAATATTTTAATATTTTAATTAT
1 AATTATGTGTAAATTATAAAAAATTAATATTTTAAAATATTAATTAT
* *
18472468 AATTATGTTTAAATTATAATAAAATATTCATATTTTAAAATATTAAT
1 AATTATGTGTAAATTAT-A-AAAA-ATTAATATTTTAAAATATTAAT
18472515 GTTAAAAGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 16 0.40
48 1 0.03
49 4 0.10
50 19 0.47
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (47 bp):
AATTATGTGTAAATTATAAAAAATTAATATTTTAAAATATTAATTAT
Found at i:18472849 original size:17 final size:17
Alignment explanation
Indices: 18472803--18472849 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
18472793 TATTATAAAA
18472803 ATTAATATTTTAAAATT
1 ATTAATATTTTAAAATT
*
18472820 -TGAA-ATTAATTAAAATT
1 ATTAATATT--TTAAAATT
18472837 ATTAATATTTTAA
1 ATTAATATTTTAA
18472850 TCATAATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
15 3 0.12
16 3 0.12
17 12 0.50
18 3 0.12
19 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
ATTAATATTTTAAAATT
Found at i:18472936 original size:15 final size:16
Alignment explanation
Indices: 18472916--18472949 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18472906 AAATTATAAA
18472916 TAAAA-TATTAATATT
1 TAAAATTATTAATATT
*
18472931 TAAAATTGTTAATATT
1 TAAAATTATTAATATT
18472947 TAA
1 TAA
18472950 TATCTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TAAAATTATTAATATT
Found at i:18489473 original size:15 final size:15
Alignment explanation
Indices: 18489453--18489482 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18489443 TCCAACGGAA
18489453 AATTTCGTTGGAAAT
1 AATTTCGTTGGAAAT
18489468 AATTTCGTTGGAAAT
1 AATTTCGTTGGAAAT
18489483 GCTTTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (15 bp):
AATTTCGTTGGAAAT
Found at i:18489788 original size:26 final size:25
Alignment explanation
Indices: 18489752--18489863 Score: 117
Period size: 26 Copynumber: 4.6 Consensus size: 25
18489742 CTATACTAAA
*
18489752 ATTGCCTGACTAGTTTCTGATAAGGC
1 ATTGCATGACTAGTTT-TGATAAGGC
18489778 ATTGCATGACTAG--TTGAT-AGGC
1 ATTGCATGACTAGTTTTGATAAGGC
* *
18489800 ATTGCGTGATTAGTTTCTGATAAGGC
1 ATTGCATGACTAGTTT-TGATAAGGC
* * *
18489826 ATTGCGTGACTTG-TTAG-TAAGGC
1 ATTGCATGACTAGTTTTGATAAGGC
18489849 ATTGCATGACTAGTT
1 ATTGCATGACTAGTT
18489864 AGTAAAGCAT
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
22 15 0.21
23 21 0.29
24 4 0.05
25 6 0.08
26 27 0.37
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (25 bp):
ATTGCATGACTAGTTTTGATAAGGC
Found at i:18489823 original size:48 final size:49
Alignment explanation
Indices: 18489752--18489863 Score: 156
Period size: 48 Copynumber: 2.3 Consensus size: 49
18489742 CTATACTAAA
*
18489752 ATTGCCTGACTAGTTTCTGATAAGGCATTGCATGACTAGTT-G-ATAGGC
1 ATTGCATGACTAGTTTCTGATAAGGCATTGCATGACTAGTTAGTA-AGGC
* * * *
18489800 ATTGCGTGATTAGTTTCTGATAAGGCATTGCGTGACTTGTTAGTAAGGC
1 ATTGCATGACTAGTTTCTGATAAGGCATTGCATGACTAGTTAGTAAGGC
18489849 ATTGCATGACTAGTT
1 ATTGCATGACTAGTT
18489864 AGTAAAGCAT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
48 37 0.66
49 18 0.32
50 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (49 bp):
ATTGCATGACTAGTTTCTGATAAGGCATTGCATGACTAGTTAGTAAGGC
Found at i:18489850 original size:23 final size:23
Alignment explanation
Indices: 18489772--18489883 Score: 95
Period size: 23 Copynumber: 4.8 Consensus size: 23
18489762 TAGTTTCTGA
* *
18489772 TAAGGCATTGCATGACTAGTT-G
1 TAAGGCATTGCGTGACTTGTTAG
*
18489794 -ATAGGCATTGCGTGA-TTAGTTTCTG
1 TA-AGGCATTGCGTGACTT-G-TT-AG
18489819 ATAAGGCATTGCGTGACTTGTTAG
1 -TAAGGCATTGCGTGACTTGTTAG
* *
18489843 TAAGGCATTGCATGACTAGTTAG
1 TAAGGCATTGCGTGACTTGTTAG
* *
18489866 TAAAGCATTGTGTGACTT
1 TAAGGCATTGCGTGACTT
18489884 AAGCATTACT
Statistics
Matches: 73, Mismatches: 9, Indels: 15
0.75 0.09 0.15
Matches are distributed among these distances:
21 2 0.03
22 13 0.18
23 37 0.51
24 1 0.01
25 3 0.04
26 14 0.19
27 3 0.04
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.35
Consensus pattern (23 bp):
TAAGGCATTGCGTGACTTGTTAG
Found at i:18489929 original size:22 final size:22
Alignment explanation
Indices: 18489894--18489973 Score: 90
Period size: 22 Copynumber: 3.7 Consensus size: 22
18489884 AAGCATTACT
* **
18489894 TAAAAATCAATCACACAATGCC
1 TAAAAACCAATCACGTAATGCC
*
18489916 TAAAAACCAGTCACGTAATGCC
1 TAAAAACCAATCACGTAATGCC
*
18489938 T-AAAACCAATCACGTAATACC
1 TAAAAACCAATCACGTAATGCC
* *
18489959 TAAAAATCAGTCACG
1 TAAAAACCAATCACG
18489974 CAGTGATTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
21 19 0.39
22 30 0.61
ACGTcount: A:0.46, C:0.26, G:0.09, T:0.19
Consensus pattern (22 bp):
TAAAAACCAATCACGTAATGCC
Found at i:18489944 original size:21 final size:22
Alignment explanation
Indices: 18489910--18489973 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 22
18489900 TCAATCACAC
18489910 AATGCCTAAAAACCAGTCACGT
1 AATGCCTAAAAACCAGTCACGT
*
18489932 AATGCCT-AAAACCAATCACGT
1 AATGCCTAAAAACCAGTCACGT
* *
18489953 AATACCTAAAAATCAGTCACG
1 AATGCCTAAAAACCAGTCACG
18489974 CAGTGATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 19 0.51
22 18 0.49
ACGTcount: A:0.44, C:0.27, G:0.11, T:0.19
Consensus pattern (22 bp):
AATGCCTAAAAACCAGTCACGT
Found at i:18493206 original size:15 final size:16
Alignment explanation
Indices: 18493186--18493215 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18493176 GTCAAGAATT
18493186 TGATCTTTT-TTTTAG
1 TGATCTTTTATTTTAG
18493201 TGATCTTTTATTTTA
1 TGATCTTTTATTTTA
18493216 AGGTCACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.17, C:0.07, G:0.10, T:0.67
Consensus pattern (16 bp):
TGATCTTTTATTTTAG
Found at i:18495257 original size:282 final size:279
Alignment explanation
Indices: 18494757--18495294 Score: 654
Period size: 282 Copynumber: 1.9 Consensus size: 279
18494747 GTCAATTATC
* * * * * *
18494757 AAATATTAACAAGTTAAAAAGTAAAGAACTTATCAATTGACTGACAGTAAACAAAACATCTTTTG
1 AAATATTAACAAGCTAAAAAGTAAAGAACTTATCAACTAACAGACAGTAAACAAAACATCTTCTA
* * * *
18494822 ATTTCTAAAGAAAATCCTTGTTTTATCATCATTCATCAATCAATAATTGACTCCAAAGTAATTTT
66 ATTTATAAAGAAAACCCTTGTTTTATCATCATTCATCAATAAATAATTGACTCCAAAGCAATTTT
* * * * *
18494887 AGAAAGATTTAAAAATGTATAGACAAAAATAACAAAACTAAAGACACAAAAAATGAAAGAAAATA
131 AGAAAGATCTAAAAATGCATAAACAAAAATAACAAAAATAAAGACAAAAAAAATGAAAGAAAATA
* * * * * *
18494952 AAGGAATAATAACTT-AAAAAAAAAGGAAAGATTGAATAGTTTGTATGTTTAAAATATTACTATG
196 AAGAAATAAGAACTTAAAAAAAAAAAGAAAGATTAAATAGTATGTATATTTAAAATATTACTATG
18495016 CCAACATTTCCAACTTCTT
261 CCAACATTTCCAACTTCTT
* * *
18495035 AAATATTAACAAGCTAAAAGGTAAAGAACTTGTCAACTAACAGATTCATAGTGAACAAAACATCT
1 AAATATTAACAAGCTAAAAAGTAAAGAACTTATCAACTAACAGA--C--AGTAAACAAAACATCT
* * * *
18495100 TCTAATTTATGAAGATAACCCCTT-TTTTATCATCATTTATCAATAAATAATTGGCTCCAAAGCA
62 TCTAATTTATAAAGA-AAACCCTTGTTTTATCATCATTCATCAATAAATAATTGACTCCAAAGCA
* * * *
18495164 ATTCTT-GAAATATCTACAAATGCATAAACAGAAATAA-AAAATATAAAGATAAACAAAAATGAA
126 ATT-TTAGAAAGATCTAAAAATGCATAAACAAAAATAACAAAA-ATAAAGACAAA-AAAAATGAA
* * *
18495227 AGAAAATTAAGAAATAAGAGCTT-TAAAAAAAAAGAAAGATTAAATAGTATGTATATTTAAAATA
188 AGAAAATAAAGAAATAAGAACTTAAAAAAAAAAAGAAAGATTAAATAGTATGTATATTTAAAATA
18495291 TTAC
253 TTAC
18495295 CTAAATTGAT
Statistics
Matches: 217, Mismatches: 35, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
278 38 0.18
280 1 0.00
281 4 0.02
282 98 0.45
283 76 0.35
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (279 bp):
AAATATTAACAAGCTAAAAAGTAAAGAACTTATCAACTAACAGACAGTAAACAAAACATCTTCTA
ATTTATAAAGAAAACCCTTGTTTTATCATCATTCATCAATAAATAATTGACTCCAAAGCAATTTT
AGAAAGATCTAAAAATGCATAAACAAAAATAACAAAAATAAAGACAAAAAAAATGAAAGAAAATA
AAGAAATAAGAACTTAAAAAAAAAAAGAAAGATTAAATAGTATGTATATTTAAAATATTACTATG
CCAACATTTCCAACTTCTT
Found at i:18496478 original size:36 final size:36
Alignment explanation
Indices: 18496390--18496479 Score: 153
Period size: 36 Copynumber: 2.5 Consensus size: 36
18496380 AGCCGCCAGT
*
18496390 GGAGAAATAGATCACACATGTGTTGAAGTAGCTGGC
1 GGAGAAATAGATCACGCATGTGTTGAAGTAGCTGGC
*
18496426 GGAGAAATAGACCACGCATGTGTTGAAGTAGCTGGC
1 GGAGAAATAGATCACGCATGTGTTGAAGTAGCTGGC
*
18496462 GGAGAAATAAATCACGCA
1 GGAGAAATAGATCACGCA
18496480 CGTGCCAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.19
Consensus pattern (36 bp):
GGAGAAATAGATCACGCATGTGTTGAAGTAGCTGGC
Found at i:18496491 original size:36 final size:36
Alignment explanation
Indices: 18496415--18496491 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
18496405 ACATGTGTTG
* * ***
18496415 AAGTAGCTGGCGGAGAAATAGACCACGCATGTGTTG
1 AAGTAGCTGGCGGAGAAATAAACCACGCACGTGCCA
*
18496451 AAGTAGCTGGCGGAGAAATAAATCACGCACGTGCCA
1 AAGTAGCTGGCGGAGAAATAAACCACGCACGTGCCA
18496487 AAGTA
1 AAGTA
18496492 ATGGGCATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (36 bp):
AAGTAGCTGGCGGAGAAATAAACCACGCACGTGCCA
Found at i:18498867 original size:15 final size:16
Alignment explanation
Indices: 18498830--18498871 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
18498820 ATAATAGTTT
18498830 TTATTGATGTGGCAGA
1 TTATTGATGTGGCAGA
**
18498846 -TGCTGATGTGGCA-A
1 TTATTGATGTGGCAGA
18498860 TTATTGATGTGG
1 TTATTGATGTGG
18498872 TAATAAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.21, C:0.07, G:0.33, T:0.38
Consensus pattern (16 bp):
TTATTGATGTGGCAGA
Found at i:18502139 original size:29 final size:29
Alignment explanation
Indices: 18502078--18502141 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
18502068 GTAAATTTTT
** *
18502078 AAAAATTACACTTTTACCCTCGTAAAGTG
1 AAAAATTACACTTTTACCCTCAAAAACTG
*
18502107 AAAAATTACATTTTTACCC-CAAAAACTG
1 AAAAATTACACTTTTACCCTCAAAAACTG
18502135 AAAAATT
1 AAAAATT
18502142 GCCCATAGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 13 0.42
29 18 0.58
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCTCAAAAACTG
Found at i:18502932 original size:35 final size:35
Alignment explanation
Indices: 18502893--18503001 Score: 164
Period size: 35 Copynumber: 3.1 Consensus size: 35
18502883 ATAAGGCAAT
* * *
18502893 ATCATCGTGTGCACTCCTTACTTGCACACTTCAAC
1 ATCATCATGTGCACTCCCTACTTGCACACATCAAC
* *
18502928 ATCATCATGTGCACTCCCTACTCGCACACAACAAC
1 ATCATCATGTGCACTCCCTACTTGCACACATCAAC
*
18502963 ATCATCATGTGCATTCCCTACTTGCACACATCAAC
1 ATCATCATGTGCACTCCCTACTTGCACACATCAAC
18502998 ATCA
1 ATCA
18503002 CTATCCACAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.28, C:0.36, G:0.09, T:0.27
Consensus pattern (35 bp):
ATCATCATGTGCACTCCCTACTTGCACACATCAAC
Found at i:18502985 original size:70 final size:70
Alignment explanation
Indices: 18502864--18503001 Score: 188
Period size: 70 Copynumber: 2.0 Consensus size: 70
18502854 CATTCAGCCA
* * * * * *
18502864 ATGTGCACTCCCTACACGCATAAGGCAATATCATCGTGTGCACTCCTTACTTGCACACTTCAACA
1 ATGTGCACTCCCTACACGCACAAGACAACATCATCATGTGCACTCCCTACTTGCACACATCAACA
18502929 TCATC
66 TCATC
* *
18502934 ATGTGCACTCCCTACTCGCACACA-ACAACATCATCATGTGCATTCCCTACTTGCACACATCAAC
1 ATGTGCACTCCCTACACGCACA-AGACAACATCATCATGTGCACTCCCTACTTGCACACATCAAC
18502998 ATCA
65 ATCA
18503002 CTATCCACAC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
70 58 0.98
71 1 0.02
ACGTcount: A:0.29, C:0.35, G:0.11, T:0.25
Consensus pattern (70 bp):
ATGTGCACTCCCTACACGCACAAGACAACATCATCATGTGCACTCCCTACTTGCACACATCAACA
TCATC
Found at i:18505642 original size:14 final size:14
Alignment explanation
Indices: 18505623--18505649 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18505613 CAAAATTTAT
18505623 TAATTAACTAAAAC
1 TAATTAACTAAAAC
18505637 TAATTAACTAAAA
1 TAATTAACTAAAA
18505650 TTAAAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATTAACTAAAAC
Found at i:18510100 original size:42 final size:42
Alignment explanation
Indices: 18510034--18510115 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
18510024 TGTTGATGTG
*
18510034 GACCCGGCTATGTGAGAGTAGGAGTGCACATAAGCCGTTGTT
1 GACCCGGCTACGTGAGAGTAGGAGTGCACATAAGCCGTTGTT
* * *
18510076 GACCCGGTTACGTGCGAGTGGGAGTGCACATAAGCCGTTG
1 GACCCGGCTACGTGAGAGTAGGAGTGCACATAAGCCGTTG
18510116 CATATGAGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.22
Consensus pattern (42 bp):
GACCCGGCTACGTGAGAGTAGGAGTGCACATAAGCCGTTGTT
Found at i:18510419 original size:21 final size:21
Alignment explanation
Indices: 18510393--18510435 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18510383 TGCTGGCCGA
*
18510393 GAATCTCGCTGCAGCGAGAAT
1 GAATCTCGCTGCAGCAAGAAT
* *
18510414 GAATCTTGCTGTAGCAAGAAT
1 GAATCTCGCTGCAGCAAGAAT
18510435 G
1 G
18510436 TTACTATAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (21 bp):
GAATCTCGCTGCAGCAAGAAT
Found at i:18514666 original size:14 final size:14
Alignment explanation
Indices: 18514647--18514673 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18514637 CAAAATTTAT
18514647 TAATTAACTAAAAC
1 TAATTAACTAAAAC
18514661 TAATTAACTAAAA
1 TAATTAACTAAAA
18514674 ATAAAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATTAACTAAAAC
Found at i:18521432 original size:36 final size:36
Alignment explanation
Indices: 18521386--18521505 Score: 141
Period size: 36 Copynumber: 3.3 Consensus size: 36
18521376 AAGTTGGTCT
* *
18521386 TGGAGAATCAAATCACGCACGTGTTGAAGCAACGGG
1 TGGAGAATCAAATCACGCACGTGTCGAAGCAACGGA
* *** **
18521422 TGGAGAATCAAATCATGTGGGTGTCGAAGCAACAAA
1 TGGAGAATCAAATCACGCACGTGTCGAAGCAACGGA
* * *
18521458 TGGAAAATCAAATCACGCACGTGTCAAAGCAATGGA
1 TGGAGAATCAAATCACGCACGTGTCGAAGCAACGGA
18521494 TGGAGAATCAAA
1 TGGAGAATCAAA
18521506 GTCATCATCT
Statistics
Matches: 66, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (36 bp):
TGGAGAATCAAATCACGCACGTGTCGAAGCAACGGA
Found at i:18525170 original size:2 final size:2
Alignment explanation
Indices: 18525163--18525188 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18525153 ACCATATACC
18525163 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18525189 CAATCATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18525281 original size:42 final size:42
Alignment explanation
Indices: 18525229--18525352 Score: 176
Period size: 42 Copynumber: 3.0 Consensus size: 42
18525219 CAGCTCATAT
*
18525229 GCATCAGCTTATGCGCACTCCCACTCGCACATAGTCGGGTCA
1 GCATCGGCTTATGCGCACTCCCACTCGCACATAGTCGGGTCA
* **
18525271 GCATCGGCTTATGCGTACTCCCACTCGCACATAGTTAGGTCA
1 GCATCGGCTTATGCGCACTCCCACTCGCACATAGTCGGGTCA
* * * *
18525313 GTATCGGCTTATGCACACTCCTACTCGCACATAGCCGGGT
1 GCATCGGCTTATGCGCACTCCCACTCGCACATAGTCGGGT
18525353 TAATATCATT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.24
Consensus pattern (42 bp):
GCATCGGCTTATGCGCACTCCCACTCGCACATAGTCGGGTCA
Found at i:18536224 original size:20 final size:20
Alignment explanation
Indices: 18536179--18536224 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
18536169 GAAAAACACG
18536179 ATTTTCCCTTTGAATTTTCT
1 ATTTTCCCTTTGAATTTTCT
* **
18536199 AGTTTCCCTTTGGTTTTTCT
1 ATTTTCCCTTTGAATTTTCT
*
18536219 CTTTTC
1 ATTTTC
18536225 TTCCTTTCCT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.22, G:0.09, T:0.61
Consensus pattern (20 bp):
ATTTTCCCTTTGAATTTTCT
Found at i:18538191 original size:2 final size:2
Alignment explanation
Indices: 18538184--18538212 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18538174 ATTGTTTTGG
18538184 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18538213 NACTGTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18538294 original size:106 final size:106
Alignment explanation
Indices: 18538103--18538319 Score: 407
Period size: 106 Copynumber: 2.0 Consensus size: 106
18538093 GTGGAAGATT
18538103 TATAAACTGTTATTGTAAAAAGCATGAGCTGGTAGAAATGCTAGGAAATTGTGGATGCCGTGACT
1 TATAAACTGTTATTGTAAAAAGCATGAGCTGGTAGAAATGCTAGGAAATTGTGGATGCCGTGACT
*
18538168 TTTGCAATTGTTTTGGATATATATATATATATATATATATA
66 TTTGCAATTGGTTTGGATATATATATATATATATATATATA
*
18538209 TATANACTGTTATTGTAAAAAGCATGAGCTGGTAGAAATGCTAGGAAATTGTGGATGCCGTGACT
1 TATAAACTGTTATTGTAAAAAGCATGAGCTGGTAGAAATGCTAGGAAATTGTGGATGCCGTGACT
*
18538274 TTTGCAATTGGTTTGTATATATATATATATATATATATATA
66 TTTGCAATTGGTTTGGATATATATATATATATATATATATA
18538315 TATAA
1 TATAA
18538320 GCTATATATG
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 107 1.00
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.38
Consensus pattern (106 bp):
TATAAACTGTTATTGTAAAAAGCATGAGCTGGTAGAAATGCTAGGAAATTGTGGATGCCGTGACT
TTTGCAATTGGTTTGGATATATATATATATATATATATATA
Found at i:18538328 original size:2 final size:2
Alignment explanation
Indices: 18538289--18538318 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18538279 AATTGGTTTG
18538289 TA TA 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
18538319 AGCTATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18542843 original size:20 final size:20
Alignment explanation
Indices: 18542828--18542893 Score: 107
Period size: 20 Copynumber: 3.3 Consensus size: 20
18542818 AGATCTATTG
18542828 ATAGATGGCCTAATCTATCA
1 ATAGATGGCCTAATCTATCA
18542848 ATAGATGGCCTAATCTATCA
1 ATAGATGGCCTAATCTATCA
*
18542868 ATAGATGGCTCT-ATCTGTCA
1 ATAGATGGC-CTAATCTATCA
18542888 ATAGAT
1 ATAGAT
18542894 AGCAACCAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (20 bp):
ATAGATGGCCTAATCTATCA
Found at i:18551048 original size:50 final size:50
Alignment explanation
Indices: 18550993--18551108 Score: 169
Period size: 50 Copynumber: 2.3 Consensus size: 50
18550983 ACATTGAGGT
*
18550993 AATGTATTGATACATTTCAAGCATAATGATCCCAAGTGCTCTCTACTTCA
1 AATGTATCGATACATTTCAAGCATAATGATCCCAAGTGCTCTCTACTTCA
* *** * *
18551043 AATGTATCAATACATTTTGGGTATAATGGTCCCAAGTGCTCTCTACTTCA
1 AATGTATCGATACATTTCAAGCATAATGATCCCAAGTGCTCTCTACTTCA
18551093 AATGTATCGATACATT
1 AATGTATCGATACATT
18551109 GGGGCAATGT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (50 bp):
AATGTATCGATACATTTCAAGCATAATGATCCCAAGTGCTCTCTACTTCA
Found at i:18552017 original size:21 final size:22
Alignment explanation
Indices: 18551980--18552022 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
18551970 CTTTTATGAT
*
18551980 TTAATTTATAAATTAAA-ATTA
1 TTAATTTATAAAGTAAAGATTA
18552001 TTAATTTA-ATAAGTAAAGATTA
1 TTAATTTATA-AAGTAAAGATTA
18552023 AACACATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 1 0.05
21 14 0.74
22 4 0.21
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (22 bp):
TTAATTTATAAAGTAAAGATTA
Found at i:18552839 original size:37 final size:37
Alignment explanation
Indices: 18552781--18552953 Score: 161
Period size: 37 Copynumber: 4.7 Consensus size: 37
18552771 AAAGTACTTA
* * *
18552781 GCCTTTTTAGGATCAAACACAACCTTTACAAGCCATT
1 GCCTTTTAAGGATCAAGCACAACCTTTACAAGCCAAT
* *
18552818 GCCTTTCAAGGATGAAGCACAACCTTTACAA-CCAAAT
1 GCCTTTTAAGGATCAAGCACAACCTTTACAAGCC-AAT
* * * *
18552855 GCCTTTTAAGGCTCAAGCACAACCTTTGCAAGACACT
1 GCCTTTTAAGGATCAAGCACAACCTTTACAAGCCAAT
* * * * *
18552892 ACCTTTTAAGGTTTAAGCATAACCTTTACAA-CAAAAT
1 GCCTTTTAAGGATCAAGCACAACCTTTACAAGC-CAAT
* * *
18552929 GCCTTTTAAGAATTAAGCATAACCT
1 GCCTTTTAAGGATCAAGCACAACCT
18552954 CTCTACTTTT
Statistics
Matches: 111, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
36 2 0.02
37 108 0.97
38 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (37 bp):
GCCTTTTAAGGATCAAGCACAACCTTTACAAGCCAAT
Found at i:18552910 original size:74 final size:74
Alignment explanation
Indices: 18552781--18552938 Score: 208
Period size: 74 Copynumber: 2.1 Consensus size: 74
18552771 AAAGTACTTA
* * * *
18552781 GCCTTTTTAGGATCAAACACAACCTTTACAAGCCATTGCCTTTCAAGGATGAAGCACAACCTTTA
1 GCCTTTTAAGGATCAAACACAACCTTTACAAGACACTACCTTTCAAGGATGAAGCACAACCTTTA
*
18552846 CAACCAAAT
66 CAACAAAAT
* * * * * * *
18552855 GCCTTTTAAGGCTCAAGCACAACCTTTGCAAGACACTACCTTTTAAGGTTTAAGCATAACCTTTA
1 GCCTTTTAAGGATCAAACACAACCTTTACAAGACACTACCTTTCAAGGATGAAGCACAACCTTTA
18552920 CAACAAAAT
66 CAACAAAAT
18552929 GCCTTTTAAG
1 GCCTTTTAAG
18552939 AATTAAGCAT
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (74 bp):
GCCTTTTAAGGATCAAACACAACCTTTACAAGACACTACCTTTCAAGGATGAAGCACAACCTTTA
CAACAAAAT
Found at i:18554935 original size:21 final size:20
Alignment explanation
Indices: 18554911--18554959 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
18554901 TGTTAAGTAC
18554911 GAGAATCGATTCTATGAAATT
1 GAGAATCGATTCT-TGAAATT
* *
18554932 GAGATGTCGATTCTTGAACTT
1 GAGA-ATCGATTCTTGAAATT
*
18554953 GACAATC
1 GAGAATC
18554960 TTGAAAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 2 0.09
21 13 0.57
22 8 0.35
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (20 bp):
GAGAATCGATTCTTGAAATT
Found at i:18557352 original size:43 final size:43
Alignment explanation
Indices: 18557289--18557396 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
18557279 TATTGACTCG
**
18557289 GCTATGTGCGAGTAGGGAGTGCGCATAAGCC-GAGGATGACCTG
1 GCTATGTGCGAGTAGGGAGTGCGCATAA-CCTGAGGATGACCCA
* * *
18557332 GTTATGTGCGAGTAGGGAGTGCGTATAACCTGATGATGACCCA
1 GCTATGTGCGAGTAGGGAGTGCGCATAACCTGAGGATGACCCA
* *
18557375 GCCATGTGCGAGTGGGGAGTGC
1 GCTATGTGCGAGTAGGGAGTGC
18557397 CCATGTGCTG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 2 0.04
43 54 0.96
ACGTcount: A:0.22, C:0.18, G:0.39, T:0.21
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGCATAACCTGAGGATGACCCA
Found at i:18557783 original size:21 final size:21
Alignment explanation
Indices: 18557751--18557818 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
18557741 TTTGGGTTGC
*
18557751 AATTTCGCTGCAGCGAGATTG
1 AATTTCACTGCAGCGAGATTG
***
18557772 AATTTTGTTGCAGCGAGATTG
1 AATTTCACTGCAGCGAGATTG
18557793 AATTTCACTGCAGCGAGATTG
1 AATTTCACTGCAGCGAGATTG
18557814 AATTT
1 AATTT
18557819 GCTGTAGCGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (21 bp):
AATTTCACTGCAGCGAGATTG
Found at i:18565842 original size:66 final size:66
Alignment explanation
Indices: 18565686--18565845 Score: 195
Period size: 63 Copynumber: 2.5 Consensus size: 66
18565676 GTAAATAGGA
* * * * *
18565686 ATGGTGGTTTTATCCAGCTTGTGATTCTCACCTGCAGTCCGATGATGATTTATGATGCCAACGAG
1 ATGGTGGTTTT-TCCTGTTTATGATTCCCACCTGCAGTACGATGATGATTTATGATGCCAACGAG
18565751 GG
65 GG
* *
18565753 -CGGTGG--TTTCCTGTTTATGATTCCCACCTGCTA-TACGATGATGATTTATGATGCCTAC-AG
1 ATGGTGGTTTTTCCTGTTTATGATTCCCACCTGC-AGTACGATGATGATTTATGATGCCAACGAG
18565813 GG
65 GG
18565815 ATGGTGGTTTTGTCCTGTTTATGATTCCCAC
1 ATGGTGGTTTT-TCCTGTTTATGATTCCCAC
18565846 TTGTAGTGCT
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
62 4 0.05
63 47 0.59
64 3 0.04
65 2 0.03
66 24 0.30
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (66 bp):
ATGGTGGTTTTTCCTGTTTATGATTCCCACCTGCAGTACGATGATGATTTATGATGCCAACGAGG
G
Found at i:18566001 original size:36 final size:36
Alignment explanation
Indices: 18565912--18566004 Score: 89
Period size: 36 Copynumber: 2.6 Consensus size: 36
18565902 ATCATTTGCT
* *
18565912 CAACAATAGGGCATGAC-TAGAGTTCGTCGTTTGTCG
1 CAACAATGGGGCATGACAT-GACTTCGTCGTTTGTCG
*** * * * *
18565948 TGGCAACGAGGCGTGACATGACTTCGTCGTTTGTTG
1 CAACAATGGGGCATGACATGACTTCGTCGTTTGTCG
18565984 CAACAATGGGGCATGACATGA
1 CAACAATGGGGCATGACATGA
18566005 TATTGTATGT
Statistics
Matches: 41, Mismatches: 15, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
36 40 0.98
37 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (36 bp):
CAACAATGGGGCATGACATGACTTCGTCGTTTGTCG
Found at i:18568211 original size:19 final size:20
Alignment explanation
Indices: 18568155--18568214 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
18568145 CTCCTCCACC
18568155 TTCATGCTCCCAATGCCATT
1 TTCATGCTCCCAATGCCATT
** *
18568175 TTCACCCACCCAATGCCATT
1 TTCATGCTCCCAATGCCATT
18568195 TTCATGCTCCC-ATGCCATT
1 TTCATGCTCCCAATGCCATT
18568214 T
1 T
18568215 CACCTGGCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 9 0.26
20 25 0.74
ACGTcount: A:0.20, C:0.38, G:0.08, T:0.33
Consensus pattern (20 bp):
TTCATGCTCCCAATGCCATT
Found at i:18579553 original size:20 final size:20
Alignment explanation
Indices: 18579496--18579558 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
18579486 TATATACCCA
*
18579496 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
18579515 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
18579535 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
18579555 TCAT
1 TCAT
18579559 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:18579605 original size:43 final size:43
Alignment explanation
Indices: 18579557--18579718 Score: 245
Period size: 43 Copynumber: 3.8 Consensus size: 43
18579547 TCACCAGCTC
** *
18579557 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTT
18579600 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTT
*
18579643 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCAC-CGGGTT
* * *
18579686 ATGCACACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
18579719 ACATAATTAC
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
42 1 0.01
43 110 0.99
ACGTcount: A:0.20, C:0.38, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTT
Found at i:18583357 original size:19 final size:19
Alignment explanation
Indices: 18583309--18583358 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
18583299 GATGGAAGGA
18583309 GGAAGAAGAAGAAGCTGTT
1 GGAAGAAGAAGAAGCTGTT
*
18583328 GGAA-ATTGAAGAAGCTGTT
1 GGAAGA-AGAAGAAGCTGTT
*
18583347 GGAAGGAGAAGA
1 GGAAGAAGAAGA
18583359 TATTTATAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 25 0.96
ACGTcount: A:0.42, C:0.04, G:0.38, T:0.16
Consensus pattern (19 bp):
GGAAGAAGAAGAAGCTGTT
Found at i:18587389 original size:2 final size:2
Alignment explanation
Indices: 18587382--18587423 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
18587372 NNNNNNNNTG
*
18587382 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18587424 GGTATATGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18603618 original size:8 final size:8
Alignment explanation
Indices: 18603605--18603682 Score: 50
Period size: 8 Copynumber: 9.4 Consensus size: 8
18603595 CGATGACATN
18603605 TTAATATT
1 TTAATATT
18603613 TTAATATT
1 TTAATATT
*
18603621 TTAATCATA
1 TTAAT-ATT
18603630 TTAATATT
1 TTAATATT
* *
18603638 AATAATGTT
1 -TTAATATT
*
18603647 TAAATTATAT
1 TTAA-TAT-T
* * *
18603657 ATAAAATA
1 TTAATATT
18603665 TTAATATT
1 TTAATATT
18603673 TTAA-ATT
1 TTAATATT
18603680 TTA
1 TTA
18603683 TAAATAATTT
Statistics
Matches: 52, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
7 6 0.12
8 26 0.50
9 17 0.33
10 3 0.06
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (8 bp):
TTAATATT
Found at i:18608736 original size:2 final size:2
Alignment explanation
Indices: 18608729--18608767 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18608719 CCCTAACTTT
18608729 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18608768 TGCTCGCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18614877 original size:36 final size:36
Alignment explanation
Indices: 18614837--18614906 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
18614827 CTTATGGATT
*
18614837 GTGTAAAAGTTATCGCTTGA-TCCTGTGAAAAAGTCA
1 GTGTAAAAGTTATCACTTGATTCC-GTGAAAAAGTCA
** *
18614873 GTGTAAGGGTTATCACTTGATTCCGTTAAAAAGT
1 GTGTAAAAGTTATCACTTGATTCCGTGAAAAAGT
18614907 AAGAATCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 26 0.90
37 3 0.10
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (36 bp):
GTGTAAAAGTTATCACTTGATTCCGTGAAAAAGTCA
Found at i:18615942 original size:31 final size:31
Alignment explanation
Indices: 18615904--18615962 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
18615894 TTTCAAAAAC
18615904 TTTTCTAATTACAAAAGCAAGCAATCCATAT
1 TTTTCTAATTACAAAAGCAAGCAATCCATAT
**
18615935 TTTTCTAATTATGAAAGCAAGCAATCCA
1 TTTTCTAATTACAAAAGCAAGCAATCCA
18615963 AATACACAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (31 bp):
TTTTCTAATTACAAAAGCAAGCAATCCATAT
Found at i:18628982 original size:19 final size:19
Alignment explanation
Indices: 18628958--18628995 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18628948 ATTTCTCAAC
18628958 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
18628977 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
18628996 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:18647482 original size:16 final size:15
Alignment explanation
Indices: 18647463--18647498 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
18647453 TTTCTTCAAA
*
18647463 AATATTTATATAATAT
1 AATATTAATATAA-AT
18647479 AATATTAATATAAAT
1 AATATTAATATAAAT
18647494 AATAT
1 AATAT
18647499 AATCTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTAATATAAAT
Found at i:18650982 original size:36 final size:36
Alignment explanation
Indices: 18650940--18651010 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
18650930 AATAAAACTA
18650940 GTCAAGAACTCAAAAGG-TGTTGAAACAACACAAAAC
1 GTCAAGAACTC-AAAGGTTGTTGAAACAACACAAAAC
18650976 GTCAAGAACTCAAAGGTTGTTGAAACAACACAAAA
1 GTCAAGAACTCAAAGGTTGTTGAAACAACACAAAA
18651011 GCAACGAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 5 0.15
36 29 0.85
ACGTcount: A:0.49, C:0.18, G:0.17, T:0.15
Consensus pattern (36 bp):
GTCAAGAACTCAAAGGTTGTTGAAACAACACAAAAC
Found at i:18657948 original size:2 final size:2
Alignment explanation
Indices: 18657941--18657971 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18657931 TATTGCATAA
18657941 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18657972 CACNNNNNNN
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18658070 original size:2 final size:2
Alignment explanation
Indices: 18658063--18658103 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
18658053 TATTGCAATA
* *
18658063 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18658104 AACACCAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:18664339 original size:18 final size:19
Alignment explanation
Indices: 18664301--18664340 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
18664291 TTTGTTTTTT
*
18664301 TTATTTTAATATTTTTTAA
1 TTATTTTAATATTTATTAA
*
18664320 TTATTTT-ATCTTTATTAA
1 TTATTTTAATATTTATTAA
18664338 TTA
1 TTA
18664341 GGAGTTTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTTAATATTTATTAA
Found at i:18682390 original size:3 final size:3
Alignment explanation
Indices: 18682382--18682411 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
18682372 TGCACCTCTA
18682382 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
18682412 ATACTCACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CTC
Found at i:18687911 original size:15 final size:15
Alignment explanation
Indices: 18687891--18687920 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18687881 ATAAAGATAA
*
18687891 TTAATTAAATTAGAC
1 TTAATTAAAATAGAC
18687906 TTAATTAAAATAGAC
1 TTAATTAAAATAGAC
18687921 CAAAATAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (15 bp):
TTAATTAAAATAGAC
Found at i:18698267 original size:6 final size:6
Alignment explanation
Indices: 18698251--18698283 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
18698241 GTTGGTGGCA
*
18698251 GCAAGG ACAAGG GCAAGG GCAAGG GCAAGG GCA
1 GCAAGG GCAAGG GCAAGG GCAAGG GCAAGG GCA
18698284 TTGGCACTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.45, T:0.00
Consensus pattern (6 bp):
GCAAGG
Found at i:18708285 original size:16 final size:16
Alignment explanation
Indices: 18708260--18708294 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
18708250 CAATCCAAAG
*
18708260 ATTTTGTCTTATAAGT
1 ATTTTATCTTATAAGT
18708276 ATTTTATCTTATAAGT
1 ATTTTATCTTATAAGT
18708292 ATT
1 ATT
18708295 AAACACATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.09, T:0.57
Consensus pattern (16 bp):
ATTTTATCTTATAAGT
Found at i:18711543 original size:281 final size:281
Alignment explanation
Indices: 18711022--18711581 Score: 1012
Period size: 281 Copynumber: 2.0 Consensus size: 281
18711012 AGGTGTTTTA
*
18711022 GAGAGAGAAAAAGAGAGCTTCTATAATAGCTTGAAAACTTTTGGAAAGAAACTCAATTACAAAGC
1 GAGAAAGAAAAAGAGAGCTTCTATAATAGCTTGAAAACTTTTGGAAAGAAACTCAATTACAAAGC
*
18711087 TACCAAGGTGAGTAGTGAATTATAGTTGATTTTTTCTAAGTTGTTGAAAATGGCTAGTGGATAGA
66 TACCAAGGTGAGTAGTGAATTAGAGTTGATTTTTTCTAAGTTGTTGAAAATGGCTAGTGGATAGA
* *
18711152 TTTGTGAAATGTGACTGTGATGAGTTCACGTACTCCTTTATTTCATTGGTATACATACATATGTG
131 TTTGTGAAATGTGACTGTGATGAGTCCACGTACGCCTTTATTTCATTGGTATACATACATATGTG
* *
18711217 TTGTGCCTTGATAGATAATATTGTGTAATAAGTATGACTGTGCGTGTGTGGTGTGGGAGAGCACA
196 TTGTGCCTTGATAGATAATATCGTGTAATAAGTATGACCGTGCGTGTGTGGTGTGGGAGAGCACA
*
18711282 TGCCGGTAATGATGTGGGCGG
261 TGCCGATAATGATGTGGGCGG
* * *
18711303 GAGAAAGAAAGAGGGAGCTTCTATAATAGCTTGAAAATTTTTGGAAAGAAACTCAATTACAAAGC
1 GAGAAAGAAAAAGAGAGCTTCTATAATAGCTTGAAAACTTTTGGAAAGAAACTCAATTACAAAGC
*
18711368 TACCAAGGTGAGTAGTGAATTAGAGTTGATTTTTTTTAAGTTGTTGAAAATGGCTAGTGGATAGA
66 TACCAAGGTGAGTAGTGAATTAGAGTTGATTTTTTCTAAGTTGTTGAAAATGGCTAGTGGATAGA
*
18711433 TTTGTGAAATGTGATTGTGATGAGTCCACGTACGCCTTTATTTCATTGGTATACATACATATGTG
131 TTTGTGAAATGTGACTGTGATGAGTCCACGTACGCCTTTATTTCATTGGTATACATACATATGTG
18711498 TTGTGCCTTGATAGATAATATCGTGTAATAAGTATGACCGTGCGTGTGTGGTGTGGGAGAGCACA
196 TTGTGCCTTGATAGATAATATCGTGTAATAAGTATGACCGTGCGTGTGTGGTGTGGGAGAGCACA
18711563 TGCCGATAATGATGTGGGC
261 TGCCGATAATGATGTGGGC
18711582 AAGAGTGCGT
Statistics
Matches: 267, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
281 267 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (281 bp):
GAGAAAGAAAAAGAGAGCTTCTATAATAGCTTGAAAACTTTTGGAAAGAAACTCAATTACAAAGC
TACCAAGGTGAGTAGTGAATTAGAGTTGATTTTTTCTAAGTTGTTGAAAATGGCTAGTGGATAGA
TTTGTGAAATGTGACTGTGATGAGTCCACGTACGCCTTTATTTCATTGGTATACATACATATGTG
TTGTGCCTTGATAGATAATATCGTGTAATAAGTATGACCGTGCGTGTGTGGTGTGGGAGAGCACA
TGCCGATAATGATGTGGGCGG
Found at i:18714348 original size:251 final size:251
Alignment explanation
Indices: 18713891--18714391 Score: 977
Period size: 251 Copynumber: 2.0 Consensus size: 251
18713881 TGAATTATAT
*
18713891 GTTTCTTATATATATATATATATATCTATATTACTCCATCTATGTCAATTGAATATCTATTTTTG
1 GTTTCTTATATATATATATATATATATATATTACTCCATCTATGTCAATTGAATATCTATTTTTG
18713956 ACTAGATATGGAAAATTAAGAAAAATATTTTTTGAAGATAATATTTTTTGGTATTAAAAATTTTG
66 ACTAGATATGGAAAATTAAGAAAAATATTTTTTGAAGATAATATTTTTTGGTATTAAAAATTTTG
18714021 GAACTTTTTTATGATACTAATTTGCAGCAATTTTTAATGTTAAAATGTAAACATTATTAATAAAT
131 GAACTTTTTTATGATACTAATTTGCAGCAATTTTTAATGTTAAAATGTAAACATTATTAATAAAT
18714086 ATTTAACATATAAAAACTAAGAGCTTTTAGCATTATTGTTGTAATTGGAAGAAACNA
196 ATTTAACATATAAAAACTAAGAGCTTTTAGCATTATTGTTGTAATTGGAAGAAAC-A
18714143 GTTTCTTATATAT-TATATATATATATATATTACTCCATCTATGTCAATTGAATATCTATTTTTG
1 GTTTCTTATATATATATATATATATATATATTACTCCATCTATGTCAATTGAATATCTATTTTTG
18714207 ACTAGATATGGAAAATTAAGAAAAATATTTTTTGAAGATAATATTTTTTGGTATTAAAAATTTTG
66 ACTAGATATGGAAAATTAAGAAAAATATTTTTTGAAGATAATATTTTTTGGTATTAAAAATTTTG
18714272 GAACTTTTTTATGATACTAATTTGCAGCAATTTTTAATGTTAAAATGTAAACATTATTAATAAAT
131 GAACTTTTTTATGATACTAATTTGCAGCAATTTTTAATGTTAAAATGTAAACATTATTAATAAAT
18714337 ATTTAACATATAAAAACTAAGAGCTTTTAGCATTATTGTTGTAATTGGAAGAAAC
196 ATTTAACATATAAAAACTAAGAGCTTTTAGCATTATTGTTGTAATTGGAAGAAAC
18714392 CTTGGGTTAA
Statistics
Matches: 248, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
251 235 0.95
252 13 0.05
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (251 bp):
GTTTCTTATATATATATATATATATATATATTACTCCATCTATGTCAATTGAATATCTATTTTTG
ACTAGATATGGAAAATTAAGAAAAATATTTTTTGAAGATAATATTTTTTGGTATTAAAAATTTTG
GAACTTTTTTATGATACTAATTTGCAGCAATTTTTAATGTTAAAATGTAAACATTATTAATAAAT
ATTTAACATATAAAAACTAAGAGCTTTTAGCATTATTGTTGTAATTGGAAGAAACA
Found at i:18717689 original size:32 final size:32
Alignment explanation
Indices: 18717643--18717709 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
18717633 CACTTGCAGA
*
18717643 TCTGGTGCCGCGCCAGCTGCCG-TTCCTCTCTC
1 TCTGGTGCCGCGCCAGCCGCCGCTT-CTCTCTC
*
18717675 TCTGTTGCCGCGCCAGCCGCCGCTTCTCTCTC
1 TCTGGTGCCGCGCCAGCCGCCGCTTCTCTCTC
18717707 TCT
1 TCT
18717710 TCCTCCGTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 30 0.94
33 2 0.06
ACGTcount: A:0.03, C:0.45, G:0.22, T:0.30
Consensus pattern (32 bp):
TCTGGTGCCGCGCCAGCCGCCGCTTCTCTCTC
Found at i:18717801 original size:30 final size:30
Alignment explanation
Indices: 18717766--18717834 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 30
18717756 CTGCTCCCTT
*
18717766 TCTCTCTAGTGCCGCGCCAGTCGCCGCTCC
1 TCTCTCTAGTGCCGCGCCAGCCGCCGCTCC
*
18717796 TCTCTCTTTGGTGCCGCGCCAGCCGCCGCTCC
1 TCTCTC--TAGTGCCGCGCCAGCCGCCGCTCC
*
18717828 ACTCTCT
1 TCTCTCT
18717835 CTTCCCCCGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.21
32 27 0.79
ACGTcount: A:0.06, C:0.46, G:0.22, T:0.26
Consensus pattern (30 bp):
TCTCTCTAGTGCCGCGCCAGCCGCCGCTCC
Found at i:18717810 original size:32 final size:32
Alignment explanation
Indices: 18717774--18717834 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
18717764 TTTCTCTCTA
* *
18717774 GTGCCGCGCCAGTCGCCGCTCCTCTCTCTTTG
1 GTGCCGCGCCAGCCGCCGCTCCACTCTCTTTG
18717806 GTGCCGCGCCAGCCGCCGCTCCACTCTCT
1 GTGCCGCGCCAGCCGCCGCTCCACTCTCT
18717835 CTTCCCCCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.05, C:0.48, G:0.25, T:0.23
Consensus pattern (32 bp):
GTGCCGCGCCAGCCGCCGCTCCACTCTCTTTG
Found at i:18717811 original size:127 final size:127
Alignment explanation
Indices: 18717647--18718092 Score: 779
Period size: 127 Copynumber: 3.5 Consensus size: 127
18717637 TGCAGATCTG
* * * * *
18717647 GTGCCGCGCCAG-CTGCCGTTCCTCTCTCTCTGTTGCCGCGCCAGCCGCCGCTTCTCTCTCTCTT
1 GTGCCGCGCCAGTC-GCCGCTCCTCTCTCTTTGGTGCCGCGCCAGCCGCCGCTCCACTCTCTCTT
* * * *
18717711 CCTCCGTTCGGTGCTCCTTCCTCTCGCGCCAGATCTTCACTGTTGCTGCTCCCTTTCTCTCTA
65 CCCCCGTTCGGTGCTCCTTCCCCTCTCGCCAGATCTTCACTGCTGCTGCTCCCTTTCTCTCTA
18717774 GTGCCGCGCCAGTCGCCGCTCCTCTCTCTTTGGTGCCGCGCCAGCCGCCGCTCCACTCTCTCTTC
1 GTGCCGCGCCAGTCGCCGCTCCTCTCTCTTTGGTGCCGCGCCAGCCGCCGCTCCACTCTCTCTTC
18717839 CCCCGTTCGGTGCTCCTTCCCCTCTCGCCAGATCTTCACTGCTGCTGCTCCCTTTCTCTCTA
66 CCCCGTTCGGTGCTCCTTCCCCTCTCGCCAGATCTTCACTGCTGCTGCTCCCTTTCTCTCTA
18717901 GTGCCGCGCCAGTCGCCGCTCCTCTCTCTTTGGTGCCGCGCCAGCCGCCGCTCCACTCTCTCTTC
1 GTGCCGCGCCAGTCGCCGCTCCTCTCTCTTTGGTGCCGCGCCAGCCGCCGCTCCACTCTCTCTTC
18717966 CCCCGTTCGGTGCTCCTTCCCCTCTCGCCAGATCTTCACTGCTGCTGCTCCCTTTCTCTCTA
66 CCCCGTTCGGTGCTCCTTCCCCTCTCGCCAGATCTTCACTGCTGCTGCTCCCTTTCTCTCTA
*
18718028 GTGCCGCGCCAGTCGCCGCTCCTCTCTCTTTGGTGCCGCGCCAGCCGCCGCT-CTCTCTCTCTTC
1 GTGCCGCGCCAGTCGCCGCTCCTCTCTCTTTGGTGCCGCGCCAGCCGCCGCTCCACTCTCTCTTC
18718092 C
66 C
18718093 TCCTCCGATT
Statistics
Matches: 308, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
126 12 0.04
127 295 0.96
128 1 0.00
ACGTcount: A:0.05, C:0.46, G:0.20, T:0.30
Consensus pattern (127 bp):
GTGCCGCGCCAGTCGCCGCTCCTCTCTCTTTGGTGCCGCGCCAGCCGCCGCTCCACTCTCTCTTC
CCCCGTTCGGTGCTCCTTCCCCTCTCGCCAGATCTTCACTGCTGCTGCTCCCTTTCTCTCTA
Found at i:18717928 original size:30 final size:30
Alignment explanation
Indices: 18717893--18717961 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 30
18717883 CTGCTCCCTT
*
18717893 TCTCTCTAGTGCCGCGCCAGTCGCCGCTCC
1 TCTCTCTAGTGCCGCGCCAGCCGCCGCTCC
*
18717923 TCTCTCTTTGGTGCCGCGCCAGCCGCCGCTCC
1 TCTCTC--TAGTGCCGCGCCAGCCGCCGCTCC
*
18717955 ACTCTCT
1 TCTCTCT
18717962 CTTCCCCCGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.21
32 27 0.79
ACGTcount: A:0.06, C:0.46, G:0.22, T:0.26
Consensus pattern (30 bp):
TCTCTCTAGTGCCGCGCCAGCCGCCGCTCC
Found at i:18717937 original size:32 final size:32
Alignment explanation
Indices: 18717901--18717961 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
18717891 TTTCTCTCTA
* *
18717901 GTGCCGCGCCAGTCGCCGCTCCTCTCTCTTTG
1 GTGCCGCGCCAGCCGCCGCTCCACTCTCTTTG
18717933 GTGCCGCGCCAGCCGCCGCTCCACTCTCT
1 GTGCCGCGCCAGCCGCCGCTCCACTCTCT
18717962 CTTCCCCCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.05, C:0.48, G:0.25, T:0.23
Consensus pattern (32 bp):
GTGCCGCGCCAGCCGCCGCTCCACTCTCTTTG
Found at i:18718064 original size:32 final size:33
Alignment explanation
Indices: 18718028--18718090 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
18718018 TTTCTCTCTA
*
18718028 GTGCCGCGCCAGTCGCCGCTC-CTCTCTCTTTG
1 GTGCCGCGCCAGCCGCCGCTCTCTCTCTCTTTG
18718060 GTGCCGCGCCAGCCGCCGCTCTCTCTCTCTT
1 GTGCCGCGCCAGCCGCCGCTCTCTCTCTCTT
18718091 CCTCCTCCGA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 20 0.69
33 9 0.31
ACGTcount: A:0.03, C:0.46, G:0.24, T:0.27
Consensus pattern (33 bp):
GTGCCGCGCCAGCCGCCGCTCTCTCTCTCTTTG
Found at i:18718365 original size:7 final size:7
Alignment explanation
Indices: 18718353--18718383 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
18718343 ACCTCTCTCT
18718353 TTTTTCA
1 TTTTTCA
18718360 TTTTTCA
1 TTTTTCA
18718367 TTTTTCA
1 TTTTTCA
18718374 TTTTTCA
1 TTTTTCA
18718381 TTT
1 TTT
18718384 ATATATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:18721141 original size:23 final size:24
Alignment explanation
Indices: 18721091--18721142 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
18721081 CTCATTGCCT
*
18721091 CAAAA-GTATCGACACATTATTAA
1 CAAAATGTATCGACACATTATCAA
*
18721114 C-AAATGTATCGATACATT-TCAA
1 CAAAATGTATCGACACATTATCAA
18721136 CAAAATG
1 CAAAATG
18721143 CTCACTGCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (24 bp):
CAAAATGTATCGACACATTATCAA
Found at i:18721154 original size:62 final size:62
Alignment explanation
Indices: 18721052--18721171 Score: 170
Period size: 62 Copynumber: 1.9 Consensus size: 62
18721042 TACAGTCTTA
* *
18721052 AAATGTATCGATAGAAATTTACCAAAATACTCATTGCCTCAAAAGTATCGACACATTATTAAC
1 AAATGTATCGATA-AAATTTAACAAAATACTCACTGCCTCAAAAGTATCGACACATTATTAAC
* * *
18721115 AAATGTATCGAT-ACATTTCAACAAAATGCTCACTGCCTCAAAAGTATCGATACATTA
1 AAATGTATCGATAAAATTT-AACAAAATACTCACTGCCTCAAAAGTATCGACACATTA
18721172 ACAAATGTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
61 5 0.10
62 34 0.67
63 12 0.24
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (62 bp):
AAATGTATCGATAAAATTTAACAAAATACTCACTGCCTCAAAAGTATCGACACATTATTAAC
Found at i:18721206 original size:20 final size:20
Alignment explanation
Indices: 18721158--18721230 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
18721148 TGCCTCAAAA
*
18721158 GTATCGATACATTAACAAAT
1 GTATCGATACATTAACAGAT
* *
18721178 GTGTTGATACATTAACAGAT
1 GTATCGATACATTAACAGAT
* *
18721198 ATATCGATATATTAACAGAT
1 GTATCGATACATTAACAGAT
18721218 GTATCGATACATT
1 GTATCGATACATT
18721231 CTTAATAGAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (20 bp):
GTATCGATACATTAACAGAT
Found at i:18721814 original size:36 final size:36
Alignment explanation
Indices: 18721769--18721839 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
18721759 AATATAAATT
* *
18721769 GGTTGTGCTTGAAACATAAAAGGCATTGAATTGAAA
1 GGTTATGCTTGAAACACAAAAGGCATTGAATTGAAA
** *
18721805 GGTTATGCTTGATCCACAAAAGGCATTGTATTGAA
1 GGTTATGCTTGAAACACAAAAGGCATTGAATTGAA
18721840 CTTTATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (36 bp):
GGTTATGCTTGAAACACAAAAGGCATTGAATTGAAA
Found at i:18730578 original size:24 final size:24
Alignment explanation
Indices: 18730551--18730597 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
18730541 CCTGATTCTC
*
18730551 CTCCTACAGCTCTTCATGGTGCTT
1 CTCCTACAGCTCATCATGGTGCTT
* * *
18730575 CTCCTGCTGCTCATCATGTTGCT
1 CTCCTACAGCTCATCATGGTGCT
18730598 ACTTCTGCTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.34, G:0.17, T:0.38
Consensus pattern (24 bp):
CTCCTACAGCTCATCATGGTGCTT
Found at i:18730605 original size:24 final size:24
Alignment explanation
Indices: 18730559--18730610 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
18730549 TCCTCCTACA
* *
18730559 GCTCTTCATGGTGCTTCTCCTGCT
1 GCTCATCATGGTGCTACTCCTGCT
* *
18730583 GCTCATCATGTTGCTACTTCTGCT
1 GCTCATCATGGTGCTACTCCTGCT
18730607 GCTC
1 GCTC
18730611 CTCCTCTTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.33, G:0.19, T:0.40
Consensus pattern (24 bp):
GCTCATCATGGTGCTACTCCTGCT
Found at i:18730620 original size:24 final size:24
Alignment explanation
Indices: 18730578--18730654 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 24
18730568 GGTGCTTCTC
* * * *
18730578 CTGCTGCTCATCATGTTGCTACTT
1 CTGCTGCTCCTCCTCTTGCTACTG
*
18730602 CTGCTGCTCCTCCTCTTGCTTCTG
1 CTGCTGCTCCTCCTCTTGCTACTG
* **
18730626 CTGCTGCCCCTCCTCTTGCTTTTG
1 CTGCTGCTCCTCCTCTTGCTACTG
18730650 CTGCT
1 CTGCT
18730655 ACCACTTCTC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.04, C:0.38, G:0.17, T:0.42
Consensus pattern (24 bp):
CTGCTGCTCCTCCTCTTGCTACTG
Found at i:18733296 original size:42 final size:43
Alignment explanation
Indices: 18733209--18733299 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
18733199 AGCATCCCAC
* *
18733209 CATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCTACACGCACATAGCTAGGT
18733252 CATCATCAGCTCATGTGCACTCCC-ACACGCACATAGCTAGGT
1 CATCATCAGCTCATGTGCACTCCCTACACGCACATAGCTAGGT
18733294 CATCAT
1 CATCAT
18733300 TATCACATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 22 0.48
43 24 0.52
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.24
Consensus pattern (43 bp):
CATCATCAGCTCATGTGCACTCCCTACACGCACATAGCTAGGT
Found at i:18735135 original size:26 final size:26
Alignment explanation
Indices: 18735095--18735146 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
18735085 AACATTATTC
*
18735095 TGTATCATTTCCATATTATTCTTTGT
1 TGTATCATTTACATATTATTCTTTGT
18735121 TGTATCATTTACATATTATTCTTTGT
1 TGTATCATTTACATATTATTCTTTGT
18735147 ATTCATTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.58
Consensus pattern (26 bp):
TGTATCATTTACATATTATTCTTTGT
Found at i:18735146 original size:23 final size:23
Alignment explanation
Indices: 18735088--18735153 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 23
18735078 TGTAAATAAC
*
18735088 ATTATTC--TGTATCATTTCCAT
1 ATTATTCTTTGTATCATTTACAT
18735109 ATTATTCTTTGTTGTATCATTTACAT
1 ATTATTC--T-TTGTATCATTTACAT
18735135 ATTATTCTTTGTATTCATT
1 ATTATTCTTTGTA-TCATT
18735154 CATGTGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 7 0.18
23 5 0.13
24 6 0.16
26 20 0.53
ACGTcount: A:0.23, C:0.14, G:0.06, T:0.58
Consensus pattern (23 bp):
ATTATTCTTTGTATCATTTACAT
Found at i:18735547 original size:23 final size:24
Alignment explanation
Indices: 18735512--18735565 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
18735502 GAGTAGTACA
*
18735512 TATGG-AGTGGCATTACTAGTTAT
1 TATGGAAGTGGCATGACTAGTTAT
* *
18735535 TATGGAAGT-GCATGATTAGTTTT
1 TATGGAAGTGGCATGACTAGTTAT
*
18735558 TGTGGAAG
1 TATGGAAG
18735566 CATGTGACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.26, C:0.06, G:0.30, T:0.39
Consensus pattern (24 bp):
TATGGAAGTGGCATGACTAGTTAT
Found at i:18735621 original size:23 final size:23
Alignment explanation
Indices: 18735594--18735650 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
18735584 TGACTCGCGC
*
18735594 GAGTAA-TATATATGGAGTGGCGT
1 GAGTAATTAT-TATGGAATGGCGT
* *
18735617 TAGTAGTTATTATGGAATGGCGT
1 GAGTAATTATTATGGAATGGCGT
*
18735640 GAGTATTTATT
1 GAGTAATTATT
18735651 CTAAAATAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 25 0.89
24 3 0.11
ACGTcount: A:0.28, C:0.04, G:0.30, T:0.39
Consensus pattern (23 bp):
GAGTAATTATTATGGAATGGCGT
Found at i:18735790 original size:23 final size:23
Alignment explanation
Indices: 18735764--18735814 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
18735754 TACCAATTCT
*
18735764 TATGGAATTGCATGACAAGATGA
1 TATGGAATCGCATGACAAGATGA
* ** *
18735787 TATGGGATCGGGTGACTAGATGA
1 TATGGAATCGCATGACAAGATGA
18735810 TATGG
1 TATGG
18735815 GGTCGCGTCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.33, T:0.27
Consensus pattern (23 bp):
TATGGAATCGCATGACAAGATGA
Found at i:18737351 original size:61 final size:61
Alignment explanation
Indices: 18737256--18737374 Score: 177
Period size: 61 Copynumber: 2.0 Consensus size: 61
18737246 GATGAAAGAA
* * *
18737256 ATTTCGAATGGTTCGAAGATGAAACGGTAGCTATCGATATGTTTATAATG-TATCGATAGCT
1 ATTTCGAATGCTTCGAAGATGAAACGGAAGCTATCGATATATTTATAA-GCTATCGATAGCT
* *
18737317 ATTTCGATTGCTTGGAAGATGAAACGGAAGCTATCGATATATTTATAAGCTATCGATA
1 ATTTCGAATGCTTCGAAGATGAAACGGAAGCTATCGATATATTTATAAGCTATCGATA
18737375 TAAATTGCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
60 1 0.02
61 51 0.98
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.34
Consensus pattern (61 bp):
ATTTCGAATGCTTCGAAGATGAAACGGAAGCTATCGATATATTTATAAGCTATCGATAGCT
Found at i:18743160 original size:22 final size:22
Alignment explanation
Indices: 18743132--18743190 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
18743122 CCACCACTCT
*
18743132 CGCAATACATAACAAT-AGGTCA
1 CGCAATACATAAAAATCA-GTCA
*
18743154 CGCAATATATAAAAATCAGTCA
1 CGCAATACATAAAAATCAGTCA
* *
18743176 CGCAATGCCTAAAAA
1 CGCAATACATAAAAA
18743191 ACTACTGAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 30 0.97
23 1 0.03
ACGTcount: A:0.47, C:0.22, G:0.12, T:0.19
Consensus pattern (22 bp):
CGCAATACATAAAAATCAGTCA
Found at i:18743213 original size:119 final size:118
Alignment explanation
Indices: 18743104--18743355 Score: 405
Period size: 119 Copynumber: 2.1 Consensus size: 118
18743094 ACAAGAGGCA
* * * *
18743104 AATTGCACAAGTCACGCGCCACCACTCTCGCAATACATAACAATAGGTCACGCAATATATAAAAA
1 AATTACACAAGTCACGCGCCACCACTCTCGCAATACATAACAACAAGTAACGCAATATATAAAAA
*
18743169 TCAGTCACGCAATGCCTAAAAAACTACTGAACAAAAACCTCAAAACAACACATG
66 CCAGTCACGCAATGCCTAAAAAACTACTGAACAAAAACCTCAAAACAACACA-G
18743223 AATTACACAAGTCACGCGCCACCACTCTCGCAATACATAACAACAAGTAACGCAATATATAAAAA
1 AATTACACAAGTCACGCGCCACCACTCTCGCAATACATAACAACAAGTAACGCAATATATAAAAA
* *
18743288 CCAGTCACGCAATGCCTAAAAAAGTACTGAACAAAAGCCTCAAAACAACACATG
66 CCAGTCACGCAATGCCTAAAAAACTACTGAACAAAAACCTCAAAACAACACA-G
* *
18743342 AATTGCATAAGTCA
1 AATTACACAAGTCA
18743356 GTCACGCACT
Statistics
Matches: 124, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 124 1.00
ACGTcount: A:0.45, C:0.27, G:0.11, T:0.17
Consensus pattern (118 bp):
AATTACACAAGTCACGCGCCACCACTCTCGCAATACATAACAACAAGTAACGCAATATATAAAAA
CCAGTCACGCAATGCCTAAAAAACTACTGAACAAAAACCTCAAAACAACACAG
Found at i:18743279 original size:22 final size:22
Alignment explanation
Indices: 18743251--18743309 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
18743241 CCACCACTCT
*
18743251 CGCAATACATAACAACAAGTAA
1 CGCAATACATAAAAACAAGTAA
* * *
18743273 CGCAATATATAAAAACCAGTCA
1 CGCAATACATAAAAACAAGTAA
* *
18743295 CGCAATGCCTAAAAA
1 CGCAATACATAAAAA
18743310 AGTACTGAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.51, C:0.24, G:0.10, T:0.15
Consensus pattern (22 bp):
CGCAATACATAAAAACAAGTAA
Found at i:18743475 original size:83 final size:86
Alignment explanation
Indices: 18743322--18743478 Score: 205
Period size: 87 Copynumber: 1.8 Consensus size: 86
18743312 TACTGAACAA
*
18743322 AAGCCTCAAAACAACACATGAATTGCATAAGTCAGTCACGCACTGCTAGGCTCGCAACACCTAAG
1 AAGCCTCAAAACAACACATGAATTGCACAAGTCAGTCACGCAC-GCTAGGCTCGCAACACCTAAG
18743387 AATAAGTCACTCAATGAATAAT
65 AATAAGTCACTCAATGAATAAT
* ** * * *
18743409 AAGCCTCAAAACAAGAGGTGAATTGCACAAGTCACG-CAC-CAC-C-AGTCTCGCAATACCTAAT
1 AAGCCTCAAAACAACACATGAATTGCACAAGTCA-GTCACGCACGCTAGGCTCGCAACACCTAAG
18743470 AATAAGTCA
65 AATAAGTCA
18743479 ATCGATGCCT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
83 24 0.39
84 1 0.02
86 3 0.05
87 33 0.53
88 1 0.02
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.18
Consensus pattern (86 bp):
AAGCCTCAAAACAACACATGAATTGCACAAGTCAGTCACGCACGCTAGGCTCGCAACACCTAAGA
ATAAGTCACTCAATGAATAAT
Found at i:18746180 original size:13 final size:13
Alignment explanation
Indices: 18746162--18746187 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18746152 ATCAAGAGTA
18746162 AGGATTTTTGGTT
1 AGGATTTTTGGTT
18746175 AGGATTTTTGGTT
1 AGGATTTTTGGTT
18746188 TATTTACCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (13 bp):
AGGATTTTTGGTT
Found at i:18747872 original size:20 final size:20
Alignment explanation
Indices: 18747844--18747881 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18747834 CTCACTATCT
18747844 CAAAAGTATCGATACATTAA
1 CAAAAGTATCGATACATTAA
* *
18747864 CAAATGTATTGATACATT
1 CAAAAGTATCGATACATT
18747882 CTCAACAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.32
Consensus pattern (20 bp):
CAAAAGTATCGATACATTAA
Found at i:18747887 original size:60 final size:60
Alignment explanation
Indices: 18747762--18747893 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 60
18747752 TCGATAGAAA
* * * **** *
18747762 TTCAACAAAATGCTCAGTGTCTTAAAAGTATCGATACATTTGTTAACGTATCGATGCACT
1 TTCAACAAAATGCTCACTATCTCAAAAGTATCGATACATTAACAAACGTATCGATACACT
* * *
18747822 TTCAACAGAATGCTCACTATCTCAAAAGTATCGATACATTAACAAATGTATTGATACA-T
1 TTCAACAAAATGCTCACTATCTCAAAAGTATCGATACATTAACAAACGTATCGATACACT
18747881 TCTCAACAAAATG
1 T-TCAACAAAATG
18747894 GTCAAACCTT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 2 0.03
60 57 0.97
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (60 bp):
TTCAACAAAATGCTCACTATCTCAAAAGTATCGATACATTAACAAACGTATCGATACACT
Found at i:18749437 original size:34 final size:34
Alignment explanation
Indices: 18749399--18749481 Score: 123
Period size: 34 Copynumber: 2.4 Consensus size: 34
18749389 AAGGTTGATG
*
18749399 AATATTAATATTTAA-TTTAAAATATTAAAAATAA
1 AATATTAATATTTAACTTTAAAAAATT-AAAATAA
**
18749433 AATATTAATATTTAACTTTAAAAAATTAATTTAA
1 AATATTAATATTTAACTTTAAAAAATTAAAATAA
18749467 AATATTAATATTTAA
1 AATATTAATATTTAA
18749482 ACTATATCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
34 35 0.78
35 10 0.22
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (34 bp):
AATATTAATATTTAACTTTAAAAAATTAAAATAA
Found at i:18749643 original size:74 final size:74
Alignment explanation
Indices: 18749562--18749776 Score: 315
Period size: 74 Copynumber: 2.9 Consensus size: 74
18749552 ATAAATAGAA
* * *
18749562 TAAATCTTACTAATAATTAAAATGAAAAATATTTAAATGATTATCATTTGATGAATACGCATTTA
1 TAAATCTTACTAATAATTAAAATAAAAAATATTTAAATGATCATCATTTGATGAATACACATTTA
18749627 TAATAGGTT
66 TAATAGGTT
* * *
18749636 TAAATCTTGCTAATAATTAAAATAAAAAATATTTTAATGATCATTATTTGATGAATACACATTTA
1 TAAATCTTACTAATAATTAAAATAAAAAATATTTAAATGATCATCATTTGATGAATACACATTTA
18749701 TAATAGGTT
66 TAATAGGTT
* * * * * *
18749710 TAAATCTTACTAATAATTACAACAACAAATATTTCAATGATCGTCATTT-ATGAATACATATTTA
1 TAAATCTTACTAATAATTAAAATAAAAAATATTTAAATGATCATCATTTGATGAATACACATTTA
18749774 TAA
66 TAA
18749777 GTATAGGTTT
Statistics
Matches: 127, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 17 0.13
74 110 0.87
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (74 bp):
TAAATCTTACTAATAATTAAAATAAAAAATATTTAAATGATCATCATTTGATGAATACACATTTA
TAATAGGTT
Found at i:18750068 original size:1 final size:1
Alignment explanation
Indices: 18750062--18750144 Score: 139
Period size: 1 Copynumber: 83.0 Consensus size: 1
18750052 CAATAAAATT
*
18750062 AAAAAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
18750127 AAAAAATAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAA
18750145 CAAAGGAGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.96, C:0.00, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:18750455 original size:18 final size:17
Alignment explanation
Indices: 18750422--18750462 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
18750412 AAAGCCTGTG
18750422 CTTTTC-TTTTCTCTCT
1 CTTTTCTTTTTCTCTCT
18750438 CTTTTCTTTTTCCTCTCT
1 CTTTTCTTTTT-CTCTCT
*
18750456 CTCTTCT
1 CTTTTCT
18750463 CCTTTTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.27
17 4 0.18
18 12 0.55
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (17 bp):
CTTTTCTTTTTCTCTCT
Found at i:18750468 original size:20 final size:20
Alignment explanation
Indices: 18750431--18750469 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18750421 GCTTTTCTTT
* *
18750431 TCTCTCTCTTTTCTTTTTCC
1 TCTCTCTCTTCTCCTTTTCC
18750451 TCTCTCTCTTCTCCTTTTC
1 TCTCTCTCTTCTCCTTTTC
18750470 AAAAAGCGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (20 bp):
TCTCTCTCTTCTCCTTTTCC
Found at i:18760737 original size:66 final size:66
Alignment explanation
Indices: 18760653--18760850 Score: 378
Period size: 66 Copynumber: 3.0 Consensus size: 66
18760643 ACAAAGAAAG
* *
18760653 GAGAGAACCTTTTCTAATTGCTTTGTTTGCGAGTAAGAAAAACAAAGAGAGTCAGCTAGTCACCA
1 GAGAGAACCTTTTTTAATTGCTTTGTTTGCGAGTAAGGAAAACAAAGAGAGTCAGCTAGTCACCA
18760718 A
66 A
18760719 GAGAGAACCTTTTTTAATTGCTTTGTTTGCGAGTAAGGAAAACAAAGAGAGTCAGCTAGTCACCA
1 GAGAGAACCTTTTTTAATTGCTTTGTTTGCGAGTAAGGAAAACAAAGAGAGTCAGCTAGTCACCA
18760784 A
66 A
18760785 GAGAGAACCTTTTTTAATTGCTTTGTTTGCGAGTAAGGAAAACAAAGAGAGTCAGCTAGTCACCA
1 GAGAGAACCTTTTTTAATTGCTTTGTTTGCGAGTAAGGAAAACAAAGAGAGTCAGCTAGTCACCA
18760850 A
66 A
18760851 TTGTTTTAAA
Statistics
Matches: 130, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 130 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (66 bp):
GAGAGAACCTTTTTTAATTGCTTTGTTTGCGAGTAAGGAAAACAAAGAGAGTCAGCTAGTCACCA
A
Found at i:18769742 original size:14 final size:14
Alignment explanation
Indices: 18769723--18769760 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
18769713 CTAAAGAAAC
*
18769723 AAAGACAAATAGTA
1 AAAGACAAATACTA
18769737 AAAGACAAATACTA
1 AAAGACAAATACTA
*
18769751 CAAGACAAAT
1 AAAGACAAAT
18769761 GAGCATTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.63, C:0.13, G:0.11, T:0.13
Consensus pattern (14 bp):
AAAGACAAATACTA
Found at i:18781752 original size:2 final size:2
Alignment explanation
Indices: 18781739--18781768 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18781729 ACTGTAATAA
*
18781739 AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18781769 GGAGAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18782272 original size:23 final size:23
Alignment explanation
Indices: 18782246--18782296 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
18782236 GTTTAGAGTT
* *
18782246 TGTGAAATGGCATGTTGGGAATG
1 TGTGAAACGGCATGGTGGGAATG
* * *
18782269 TGTGACACGTCTTGGTGGGAATG
1 TGTGAAACGGCATGGTGGGAATG
18782292 TGTGA
1 TGTGA
18782297 CACGACTGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.08, G:0.39, T:0.31
Consensus pattern (23 bp):
TGTGAAACGGCATGGTGGGAATG
Found at i:18782374 original size:47 final size:47
Alignment explanation
Indices: 18782302--18782687 Score: 412
Period size: 47 Copynumber: 8.2 Consensus size: 47
18782292 TGTGACACGA
* * * * **
18782302 CTGTGACACAGCAGTGTTTAGAGTTTGTGACACTCCATAAAGGGAAT
1 CTGTGACACGGCAGGGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
* * * * *
18782349 CTGTGACATGGTAGGGTTCAAAGTTTGTGACATGCTATGGAGGGAAT
1 CTGTGACACGGCAGGGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
* ** * *
18782396 TTGTGACACAACAGGGTTTAGAGTTTGTGACACGCTATGGAGGGAAT
1 CTGTGACACGGCAGGGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
*** * * *
18782443 CTGTGTTTCGACAGCGTTCAAAGTTTGTGACACGCCATGGAGGGAAT
1 CTGTGACACGGCAGGGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
* *** * *
18782490 TTGTGACACGGCAACATTTAGAGTTTGTGACACGCCATGAAGGGAAT
1 CTGTGACACGGCAGGGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
* * *
18782537 CTGTGACACAGCAGGGTTCAAAGTTTGTGACACGACATGGAGGGAAT
1 CTGTGACACGGCAGGGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
* * **
18782584 CTGTGACATGGTAGCATTCAGAGTTTGTGACACGCCATGGAGGGAAT
1 CTGTGACACGGCAGGGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
* * * **
18782631 CTATGACACGGTAGGGTTCAGAGTTTGTGATACGCCATGGAAAGAAT
1 CTGTGACACGGCAGGGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
18782678 CTGTGACACG
1 CTGTGACACG
18782688 ACATGAAGGG
Statistics
Matches: 277, Mismatches: 62, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 277 1.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (47 bp):
CTGTGACACGGCAGGGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
Found at i:18782492 original size:23 final size:23
Alignment explanation
Indices: 18782466--18782591 Score: 78
Period size: 23 Copynumber: 5.4 Consensus size: 23
18782456 GCGTTCAAAG
18782466 TTTGTGACACGCCATGGAGGGAA
1 TTTGTGACACGCCATGGAGGGAA
** *
18782489 TTTGTGACACGGCAACATTTA--GAG
1 TTTGTGACAC-GC--CATGGAGGGAA
*
18782513 TTTGTGACACGCCATGAAGGGAA
1 TTTGTGACACGCCATGGAGGGAA
* * ****
18782536 TCTGTGACACAG-CAGGGTTCAAA
1 TTTGTGACAC-GCCATGGAGGGAA
*
18782559 GTTTGTGACACGACATGGAGGGAA
1 -TTTGTGACACGCCATGGAGGGAA
*
18782583 TCTGTGACA
1 TTTGTGACA
18782592 TGGTAGCATT
Statistics
Matches: 75, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
21 4 0.05
23 37 0.49
24 30 0.40
26 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (23 bp):
TTTGTGACACGCCATGGAGGGAA
Found at i:18782739 original size:70 final size:70
Alignment explanation
Indices: 18782609--18782756 Score: 190
Period size: 70 Copynumber: 2.1 Consensus size: 70
18782599 ATTCAGAGTT
* * * * *
18782609 TGTGACACGCCATGGAGGGAATCTATGACACGGTAGGGTTCAGAGTTTGTGATACGCCATGGAA-
1 TGTGACACGACATGAAGGGAATCTATGACACGGTAGGGTTCAAAGTTTGTCAAACGCCAT-GAAG
*
18782673 AGAATC
65 AAAATC
* * *
18782679 TGTGACACGACATGAAGGGAATCTATGACATGGTAGTGTTCAAAGTTTGTCAAACTCCATGAAGA
1 TGTGACACGACATGAAGGGAATCTATGACACGGTAGGGTTCAAAGTTTGTCAAACGCCATGAAGA
18782744 AAATC
66 AAATC
*
18782749 TATGACAC
1 TGTGACAC
18782757 AATAGGGTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
69 3 0.04
70 64 0.96
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (70 bp):
TGTGACACGACATGAAGGGAATCTATGACACGGTAGGGTTCAAAGTTTGTCAAACGCCATGAAGA
AAATC
Found at i:18782809 original size:117 final size:117
Alignment explanation
Indices: 18782562--18782786 Score: 297
Period size: 117 Copynumber: 1.9 Consensus size: 117
18782552 GTTCAAAGTT
* * * * * * *
18782562 TGTGACACGACATGGAGGGAATCTGTGACATGGTAGCATTCAGAGTTTGTGACACGCCATGGAGG
1 TGTGACACGACATGAAGGGAATCTATGACATGGTAGCATTCAAAGTTTGTCAAACGCCATGAAGA
* ** * *
18782627 GAATCTATGACACGGTAGGGTTCAGAGTTTGTGATACGCCATGGAAAGAATC
66 AAATCTATGACACAATAGGGTTCAGAGTGTGTGACACGCCATGGAAAGAATC
** *
18782679 TGTGACACGACATGAAGGGAATCTATGACATGGTAGTGTTCAAAGTTTGTCAAACTCCATGAAGA
1 TGTGACACGACATGAAGGGAATCTATGACATGGTAGCATTCAAAGTTTGTCAAACGCCATGAAGA
* *
18782744 AAATCTATGACACAATAGGGTTTAGAGTGTGTGACACGGCATG
66 AAATCTATGACACAATAGGGTTCAGAGTGTGTGACACGCCATG
18782787 ACTTGAACAT
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
117 91 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.25
Consensus pattern (117 bp):
TGTGACACGACATGAAGGGAATCTATGACATGGTAGCATTCAAAGTTTGTCAAACGCCATGAAGA
AAATCTATGACACAATAGGGTTCAGAGTGTGTGACACGCCATGGAAAGAATC
Found at i:18783459 original size:31 final size:31
Alignment explanation
Indices: 18783421--18783696 Score: 371
Period size: 31 Copynumber: 8.9 Consensus size: 31
18783411 TCAGCGTTAA
*
18783421 CGTGTAACAACATTTGACTTGATATGCATGG
1 CGTGTAACAACATTTTACTTGATATGCATGG
*
18783452 CGTGTAACAACATTTTACTTAATATGCATGG
1 CGTGTAACAACATTTTACTTGATATGCATGG
* * *
18783483 CGTGTAACAACATTTGACTTGATACGCATCG
1 CGTGTAACAACATTTTACTTGATATGCATGG
*
18783514 CGTGTTACAACATTTTACGTT-ATATGCATGG
1 CGTGTAACAACATTTTAC-TTGATATGCATGG
18783545 CGTGTAACAACATTTTACATT-ATATGCATGG
1 CGTGTAACAACATTTTAC-TTGATATGCATGG
* *
18783576 CGTGTAACAATATTTTACTTGATACGCATGG
1 CGTGTAACAACATTTTACTTGATATGCATGG
*
18783607 CGTGTAACAACATTTTACGTT-ATATGCATGA
1 CGTGTAACAACATTTTAC-TTGATATGCATGG
* *
18783638 CATGTAACAACATTGTACATTG-TATGCATGG
1 CGTGTAACAACATTTTAC-TTGATATGCATGG
* *
18783669 CCTGTAACAACATTTTACTAGATATGCA
1 CGTGTAACAACATTTTACTTGATATGCA
18783697 GTGAAGCGTA
Statistics
Matches: 216, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
30 4 0.02
31 208 0.96
32 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (31 bp):
CGTGTAACAACATTTTACTTGATATGCATGG
Found at i:18783580 original size:93 final size:93
Alignment explanation
Indices: 18783421--18783692 Score: 413
Period size: 93 Copynumber: 2.9 Consensus size: 93
18783411 TCAGCGTTAA
*
18783421 CGTGTAACAACATTTGAC-TTGATATGCATGGCGTGTAACAACATTTTAC-TTAATATGCATGGC
1 CGTGTAACAACATTTTACGTT-ATATGCATGGCGTGTAACAACATTTTACATT-ATATGCATGGC
*
18783484 GTGTAACAACATTTGACTTGATACGCATCG
64 GTGTAACAACATTTTACTTGATACGCATCG
*
18783514 CGTGTTACAACATTTTACGTTATATGCATGGCGTGTAACAACATTTTACATTATATGCATGGCGT
1 CGTGTAACAACATTTTACGTTATATGCATGGCGTGTAACAACATTTTACATTATATGCATGGCGT
* *
18783579 GTAACAATATTTTACTTGATACGCATGG
66 GTAACAACATTTTACTTGATACGCATCG
* * * * *
18783607 CGTGTAACAACATTTTACGTTATATGCATGACATGTAACAACATTGTACATTGTATGCATGGCCT
1 CGTGTAACAACATTTTACGTTATATGCATGGCGTGTAACAACATTTTACATTATATGCATGGCGT
*
18783672 GTAACAACATTTTACTAGATA
66 GTAACAACATTTTACTTGATA
18783693 TGCAGTGAAG
Statistics
Matches: 164, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
93 160 0.98
94 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (93 bp):
CGTGTAACAACATTTTACGTTATATGCATGGCGTGTAACAACATTTTACATTATATGCATGGCGT
GTAACAACATTTTACTTGATACGCATCG
Found at i:18785097 original size:145 final size:146
Alignment explanation
Indices: 18784916--18785392 Score: 473
Period size: 145 Copynumber: 3.2 Consensus size: 146
18784906 AGGATGATTT
* * *
18784916 TAACGGTTTGTGTTCAACAATTTCATATGTGATTATCGAATAACATATTTGTGTTTGCAGTTGGA
1 TAACGGTTTGTGTTCAACAATTTCACATATGATTATCGAATAACATATTTATGTTTGCAGTTGGA
* * * * *
18784981 CCATGAGACAACAACTCCACAACCACTGAGAAGTCCTCCTCAGACTCACAGTGCTAACGAGCC-A
66 CCATGCGACGACAACTCCTCAACCACTGAGAAGTCCTCCTCAGACGCACAGTGCTAATGAGCCGA
*
18785045 TCAGTAAGATCAGTTC
131 TCGGTAAGATCAGTTC
* * * * *
18785061 TAATGGTTTGTGTTCAACATTTTCACATATGTTTATCGAGTAACATAGTAATTTCTGTTATTGCA
1 TAACGGTTTGTGTTCAACAATTTCACATATGATTATCGAATAAC--A-T-ATTTATG-T-TTGCA
* * * * * * *
18785126 GTTGAGA-GAGGCGACGATAGCTCCTCAACCA-TCGA-AAGGTCCTCTTTAAACGCACAGTGCTA
60 GTTG-GACCATGCGACGACAACTCCTCAACCACT-GAGAA-GTCCTCCTCAGACGCACAGTGCTA
*
18785188 ATGAGCCGAT-GGTAAGACCAGTTC
122 ATGAGCCGATCGGTAAGATCAGTTC
* * * * * *
18785212 TAACGATTTATGTTCAACAATTTCATATGTGATTATCGAACAACATATCTATGTTTGCAGTTGGA
1 TAACGGTTTGTGTTCAACAATTTCACATATGATTATCGAATAACATATTTATGTTTGCAGTTGGA
* * * *
18785277 CCATGCGACGACAACTCCTCAACCACCGAGAGGTCTTCCTCAGACGCACAGTGTTAATGA-CCTG
66 CCATGCGACGACAACTCCTCAACCACTGAGAAGTCCTCCTCAGACGCACAGTGCTAATGAGCC-G
*
18785341 -TCGGTAAGATCAATTC
130 ATCGGTAAGATCAGTTC
* * * * *
18785357 TAACAGTTTGTGCTCAACATTTTTACATATGTTTAT
1 TAACGGTTTGTGTTCAACAATTTCACATATGATTAT
18785393 TGAGTAATAC
Statistics
Matches: 263, Mismatches: 54, Indels: 30
0.76 0.16 0.09
Matches are distributed among these distances:
144 5 0.02
145 132 0.50
146 2 0.01
147 6 0.02
148 2 0.01
149 7 0.03
150 4 0.02
151 101 0.38
152 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (146 bp):
TAACGGTTTGTGTTCAACAATTTCACATATGATTATCGAATAACATATTTATGTTTGCAGTTGGA
CCATGCGACGACAACTCCTCAACCACTGAGAAGTCCTCCTCAGACGCACAGTGCTAATGAGCCGA
TCGGTAAGATCAGTTC
Found at i:18785203 original size:151 final size:151
Alignment explanation
Indices: 18784916--18785456 Score: 452
Period size: 145 Copynumber: 3.7 Consensus size: 151
18784906 AGGATGATTT
* * * * * *
18784916 TAACGGTTTGTGTTCAACAATTTCATATGTGATTATCGAATAAC-A-T-ATTTGTG-T-TTGCAG
1 TAACGGTTTGTGTTCAACATTTTCACATATGTTTATCGAGTAACAAGTAATTTCTGTTATTGCAG
* * * * * * * *
18784976 TTG-GACCATGAGACAACAACTCCACAACCA-CTGAGAA-GTCCTCCTCAGACTCACAGTGCTAA
66 TTGAGA-GAGGCGACGACAGCTCCTCAACCATC-GA-AAGGTCCTCCTCAAACGCACAGTGCTAA
* *
18785038 CGAGCC-ATCAGTAAGATCAGTTC
128 TGAGCCGATCGGTAAGATCAGTTC
*
18785061 TAATGGTTTGTGTTCAACATTTTCACATATGTTTATCGAGTAACATAGTAATTTCTGTTATTGCA
1 TAACGGTTTGTGTTCAACATTTTCACATATGTTTATCGAGTAACA-AGTAATTTCTGTTATTGCA
* * *
18785126 GTTGAGAGAGGCGACGATAGCTCCTCAACCATCGAAAGGTCCTCTTTAAACGCACAGTGCTAATG
65 GTTGAGAGAGGCGACGACAGCTCCTCAACCATCGAAAGGTCCTCCTCAAACGCACAGTGCTAATG
*
18785191 AGCCGAT-GGTAAGACCAGTTC
130 AGCCGATCGGTAAGATCAGTTC
* * * * * * ** * *
18785212 TAACGATTTATGTTCAACAATTTCATATGTGATTATCGAACAAC-A-T-ATCTATG-T-TTGCAG
1 TAACGGTTTGTGTTCAACATTTTCACATATGTTTATCGAGTAACAAGTAATTTCTGTTATTGCAG
* * * * * * * *
18785272 TTG-GACCATGCGACGACAACTCCTCAACCACCGAGAGGTCTTCCTCAGACGCACAGTGTTAATG
66 TTGAGA-GAGGCGACGACAGCTCCTCAACCATCGAAAGGTCCTCCTCAAACGCACAGTGCTAATG
*
18785336 A-CCTG-TCGGTAAGATCAATTC
130 AGCC-GATCGGTAAGATCAGTTC
* * * * * * *
18785357 TAACAGTTTGTGCTCAACATTTTTACATATGTTTATTGAGTAATACAGTAATTTCTATTATTGTA
1 TAACGGTTTGTGTTCAACATTTTCACATATGTTTATCGAGTAACA-AGTAATTTCTGTTATTGCA
* *
18785422 GTTGAGGGAGGCGACAACAGCTCCTCAACCATCGA
65 GTTGAGAGAGGCGACGACAGCTCCTCAACCATCGA
18785457 TCGGTCTTGC
Statistics
Matches: 308, Mismatches: 68, Indels: 34
0.75 0.17 0.08
Matches are distributed among these distances:
144 5 0.02
145 139 0.45
146 1 0.00
147 7 0.02
148 3 0.01
149 11 0.04
150 4 0.01
151 132 0.43
152 6 0.02
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (151 bp):
TAACGGTTTGTGTTCAACATTTTCACATATGTTTATCGAGTAACAAGTAATTTCTGTTATTGCAG
TTGAGAGAGGCGACGACAGCTCCTCAACCATCGAAAGGTCCTCCTCAAACGCACAGTGCTAATGA
GCCGATCGGTAAGATCAGTTC
Found at i:18785478 original size:151 final size:147
Alignment explanation
Indices: 18785027--18785480 Score: 403
Period size: 151 Copynumber: 3.0 Consensus size: 147
18785017 TCCTCAGACT
* * * *
18785027 CACAGTGCTAACGAGCC-ATCAGTAAGATCAGTTCTAATGGTTTGTGTTCAACATTTTCACATAT
1 CACAGTGCTAATGAGCCGAT-GGTAAGATCAGTTCTAA-CGTTTGTGTTCAACATTTTTACATAT
* * *
18785091 GTTTATCGAGTAACATAGTAATTTCTGTTATTGCAGTTGAGAGAGGCGACGATAGCTCCTCAACC
64 GTTTATCGAGTAA-ACAGTAATTTCTATTATTGCAGTTGAGAGAGGCGACGACAGCTCCTCAACC
* *
18785156 ATCGAAAGGTCCTCTTTAAACG
128 ATCGAAAGGT-CT-TCTCAACG
* * *
18785178 CACAGTGCTAATGAGCCGATGGTAAGACCAGTTCTAACGATTTATGTTCAACA-ATTT-CATATG
1 CACAGTGCTAATGAGCCGATGGTAAGATCAGTTCTAACG-TTTGTGTTCAACATTTTTACATATG
* * *
18785241 TGATTATCGA--ACAACA-T-A--TCTATGT-TTGCAGTTG-GACCATGCGACGACAACTCCTCA
65 T--TTATCGAGTA-AACAGTAATTTCTAT-TATTGCAGTTGAGA-GAGGCGACGACAGCTCCTCA
* *
18785298 ACCACCGAGAGGTCTTCCTCAGACG
125 ACCATCGAAAGGTCTT-CTCA-ACG
* * *
18785323 CACAGTGTTAATGA-CCTG-TCGGTAAGATCAATTCTAACAGTTTGTGCTCAACATTTTTACATA
1 CACAGTGCTAATGAGCC-GAT-GGTAAGATCAGTTCTAAC-GTTTGTGTTCAACATTTTTACATA
* * * *
18785386 TGTTTATTGAGTAATACAGTAATTTCTATTATTGTAGTTGAGGGAGGCGACAACAGCTCCTCAAC
63 TGTTTATCGAGTAA-ACAGTAATTTCTATTATTGCAGTTGAGAGAGGCGACGACAGCTCCTCAAC
** *
18785451 CATCGATCGGTCTTGCTCAACTA
127 CATCGAAAGGTCTT-CTCAAC-G
18785474 CACAGTG
1 CACAGTG
18785481 GTAACAAGCC
Statistics
Matches: 244, Mismatches: 35, Indels: 48
0.75 0.11 0.15
Matches are distributed among these distances:
143 1 0.00
144 9 0.04
145 90 0.37
146 6 0.02
147 12 0.05
148 2 0.01
149 11 0.05
150 7 0.03
151 103 0.42
152 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (147 bp):
CACAGTGCTAATGAGCCGATGGTAAGATCAGTTCTAACGTTTGTGTTCAACATTTTTACATATGT
TTATCGAGTAAACAGTAATTTCTATTATTGCAGTTGAGAGAGGCGACGACAGCTCCTCAACCATC
GAAAGGTCTTCTCAACG
Found at i:18785480 original size:296 final size:296
Alignment explanation
Indices: 18784916--18785456 Score: 787
Period size: 296 Copynumber: 1.8 Consensus size: 296
18784906 AGGATGATTT
* * * * *
18784916 TAACGGTTTGTGTTCAACAATTTCATATGTGATTATCGAATAACATATTTGTGTTTGCAGTTGGA
1 TAACGATTTATGTTCAACAATTTCATATGTGATTATCGAACAACATATCTATGTTTGCAGTTGGA
* *
18784981 CCATGAGACAACAACTCCACAACCACTGAGAAGTCCTCCTCAGACTCACAGTGCTAACGAGCCAT
66 CCATGAGACAACAACTCCACAACCACCGAGAAGTCCTCCTCAGACGCACAGTGCTAACGAGCCAT
* ** * *
18785046 CAGTAAGATCAGTTCTAATGGTTTGTGTTCAACATTTTCACATATGTTTATCGAGTAACATAGTA
131 CAGTAAGATCAATTCTAACAGTTTGTGCTCAACATTTTCACATATGTTTATCGAGTAACACAGTA
* * * *
18785111 ATTTCTGTTATTGCAGTTGAGAGAGGCGACGATAGCTCCTCAACCATCGAAAGGTCCTCTTTAAA
196 ATTTCTATTATTGCAGTTGAGAGAGGCGACAACAGCTCCTCAACCATCGAAAGGTCCTCTCTAAA
*
18785176 CGCACAGTGCTAATGAGCCGATGGTAAGACCAGTTC
261 CACACAGTGCTAATGAGCCGATGGTAAGACCAGTTC
18785212 TAACGATTTATGTTCAACAATTTCATATGTGATTATCGAACAACATATCTATGTTTGCAGTTGGA
1 TAACGATTTATGTTCAACAATTTCATATGTGATTATCGAACAACATATCTATGTTTGCAGTTGGA
* * * * * * * *
18785277 CCATGCGACGACAACTCCTCAACCACCGAGAGGTCTTCCTCAGACGCACAGTGTTAATGA-CCTG
66 CCATGAGACAACAACTCCACAACCACCGAGAAGTCCTCCTCAGACGCACAGTGCTAACGAGCC-A
* * * *
18785341 TCGGTAAGATCAATTCTAACAGTTTGTGCTCAACATTTTTACATATGTTTATTGAGTAATACAGT
130 TCAGTAAGATCAATTCTAACAGTTTGTGCTCAACATTTTCACATATGTTTATCGAGTAACACAGT
* *
18785406 AATTTCTATTATTGTAGTTGAGGGAGGCGACAACAGCTCCTCAACCATCGA
195 AATTTCTATTATTGCAGTTGAGAGAGGCGACAACAGCTCCTCAACCATCGA
18785457 TCGGTCTTGC
Statistics
Matches: 215, Mismatches: 29, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
295 2 0.01
296 213 0.99
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (296 bp):
TAACGATTTATGTTCAACAATTTCATATGTGATTATCGAACAACATATCTATGTTTGCAGTTGGA
CCATGAGACAACAACTCCACAACCACCGAGAAGTCCTCCTCAGACGCACAGTGCTAACGAGCCAT
CAGTAAGATCAATTCTAACAGTTTGTGCTCAACATTTTCACATATGTTTATCGAGTAACACAGTA
ATTTCTATTATTGCAGTTGAGAGAGGCGACAACAGCTCCTCAACCATCGAAAGGTCCTCTCTAAA
CACACAGTGCTAATGAGCCGATGGTAAGACCAGTTC
Found at i:18786087 original size:75 final size:75
Alignment explanation
Indices: 18786002--18786160 Score: 230
Period size: 75 Copynumber: 2.1 Consensus size: 75
18785992 ATGGAAACCT
* * *
18786002 TGTTCTTGAGGCTGATTAGGATGATGCTGTGGCAAG-GGATGTGACCCTTCAATCAGATGATGCT
1 TGTTCCTGAGGCCGATTAGGATGATGCTGTGG-AAGAGGATGTGACCCTTCAACCAGATGATGCT
18786066 AAAGGAGACCC
65 AAAGGAGACCC
* * * *
18786077 TGTTCCTGAGGCCGATTCGGATGATGCTGTGGTAGAGGATGTGACCTTTCAACCAGATGATGCTG
1 TGTTCCTGAGGCCGATTAGGATGATGCTGTGGAAGAGGATGTGACCCTTCAACCAGATGATGCTA
18786142 AAGGAGACCC
66 AAGGAGACCC
*
18786152 TATTCCTGA
1 TGTTCCTGA
18786161 AGTGGATTCG
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
74 2 0.03
75 73 0.97
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (75 bp):
TGTTCCTGAGGCCGATTAGGATGATGCTGTGGAAGAGGATGTGACCCTTCAACCAGATGATGCTA
AAGGAGACCC
Found at i:18788464 original size:38 final size:40
Alignment explanation
Indices: 18788422--18788524 Score: 131
Period size: 38 Copynumber: 2.6 Consensus size: 40
18788412 ATAGTGCCCG
*
18788422 TGTGCACGATGTGGGGGGATGTACACGAT-G-GCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGC-CGGATA
* * * *
18788460 TGTGCACAATGTGAGGGGATGCACACGATGGTGCCGGTTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
18788500 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
18788525 TGAGCCAGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 26 0.48
39 4 0.07
40 24 0.44
ACGTcount: A:0.21, C:0.16, G:0.40, T:0.23
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
Found at i:18788923 original size:21 final size:21
Alignment explanation
Indices: 18788890--18788931 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18788880 TTCATCAGCT
*
18788890 GAATTTCGCTGCAACGAGAAA
1 GAATCTCGCTGCAACGAGAAA
* *
18788911 GAATCTCGTTGCAGCGAGAAA
1 GAATCTCGCTGCAACGAGAAA
18788932 CCTTCTGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (21 bp):
GAATCTCGCTGCAACGAGAAA
Found at i:18789193 original size:22 final size:22
Alignment explanation
Indices: 18789168--18789211 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18789158 CCAACGTCGC
18789168 TACAACGAAAATTCATTCTCGT
1 TACAACGAAAATTCATTCTCGT
* * *
18789190 TACAGCGAAGATTCATTGTCGT
1 TACAACGAAAATTCATTCTCGT
18789212 ATTTGACTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (22 bp):
TACAACGAAAATTCATTCTCGT
Found at i:18790456 original size:62 final size:62
Alignment explanation
Indices: 18790372--18790490 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 62
18790362 GTTACCGTTG
* * ** *
18790372 AATACTACAATAAGTCAGCGTGTCACGCCACGTATCTGCTTCCACTTAACGTGTCACTCCAT
1 AATACTACAACAAGTCAACGTGTCACGCCACAAATCTACTTCCACTTAACGTGTCACTCCAT
* * * **
18790434 AATACTGCAACAAGTCAACGTGTCATGCCATAAATCTACTTCCACTTAGTGTGTCAC
1 AATACTACAACAAGTCAACGTGTCACGCCACAAATCTACTTCCACTTAACGTGTCAC
18790491 CACAATTGGG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
62 47 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (62 bp):
AATACTACAACAAGTCAACGTGTCACGCCACAAATCTACTTCCACTTAACGTGTCACTCCAT
Found at i:18790608 original size:62 final size:62
Alignment explanation
Indices: 18790506--18790639 Score: 169
Period size: 62 Copynumber: 2.2 Consensus size: 62
18790496 TTGGGGAATG
* * * ** *
18790506 GCGTGTCACCCCACAATATTGCAACAAGTCAGCGTGTCACGCCACGTATCTGCTTCCATTCA
1 GCGTGTCACCCCACAATACTACAACAAGTCAACGTGTCACGCCACAAATCTGCTTCCACTCA
* * * *
18790568 GCGTTTCACCCTACAATACTACAACAAGTCAATGTGTCACGCCATAAATCTGCTTCCACTCA
1 GCGTGTCACCCCACAATACTACAACAAGTCAACGTGTCACGCCACAAATCTGCTTCCACTCA
*
18790630 GTGTGTCACC
1 GCGTGTCACC
18790640 ATAATTGGGG
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (62 bp):
GCGTGTCACCCCACAATACTACAACAAGTCAACGTGTCACGCCACAAATCTGCTTCCACTCA
Found at i:18790615 original size:148 final size:148
Alignment explanation
Indices: 18790337--18790685 Score: 470
Period size: 148 Copynumber: 2.4 Consensus size: 148
18790327 ACCACGTTAC
* * * **** * *
18790337 GTGTCACC-CTATTGGGGCATGGCGTGTTACCGTTGAATACTACAATAAGTCAGCGTGTCACGCC
1 GTGTCACCACAATTGGGGAATGGCGTGTCACCCCACAATACTGCAACAAGTCAGCGTGTCACGCC
* * *
18790401 ACGTATCTGCTTCCACTTAACGTGTCACTCCATAATACTGCAACAAGTCAACGTGTCATGCCATA
66 ACGTATCTGCTTCCACTTAACGTGTCACTCCACAATACTACAACAAGTCAACGTGTCACGCCATA
*
18790466 AATCTACTTCCACTTAGT
131 AATCTACTTCCACTCAGT
*
18790484 GTGTCACCACAATTGGGGAATGGCGTGTCACCCCACAATATTGCAACAAGTCAGCGTGTCACGCC
1 GTGTCACCACAATTGGGGAATGGCGTGTCACCCCACAATACTGCAACAAGTCAGCGTGTCACGCC
* * *
18790549 ACGTATCTGCTTCCA-TTCAGCGTTTCAC-CCTACAATACTACAACAAGTCAATGTGTCACGCCA
66 ACGTATCTGCTTCCACTT-AACGTGTCACTCC-ACAATACTACAACAAGTCAACGTGTCACGCCA
*
18790612 TAAATCTGCTTCCACTCAGT
129 TAAATCTACTTCCACTCAGT
* **
18790632 GTGTCACCATAATTGGGGCGTGGCGTGTCACCCCACAATACTGCAACAAGTCAG
1 GTGTCACCACAATTGGGGAATGGCGTGTCACCCCACAATACTGCAACAAGTCAG
18790686 TGTGCCACAT
Statistics
Matches: 177, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
147 12 0.07
148 165 0.93
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (148 bp):
GTGTCACCACAATTGGGGAATGGCGTGTCACCCCACAATACTGCAACAAGTCAGCGTGTCACGCC
ACGTATCTGCTTCCACTTAACGTGTCACTCCACAATACTACAACAAGTCAACGTGTCACGCCATA
AATCTACTTCCACTCAGT
Found at i:18790723 original size:86 final size:86
Alignment explanation
Indices: 18790568--18790726 Score: 219
Period size: 86 Copynumber: 1.8 Consensus size: 86
18790558 CTTCCATTCA
* * * * * * **
18790568 GCGTTTCACCCTACAATACTACAACAAGTCAATGTGTCACGCCATAAATCTGCTTCCACTCAGTG
1 GCGTGTCACCCCACAATACTACAACAAGTCAATGTGCCACACCATAAATATGCTACCACTCAGCA
18790633 TGTCACCATAATTGGGGCGTG
66 TGTCACCATAATTGGGGCGTG
* * *
18790654 GCGTGTCACCCCACAATACTGCAACAAGTCAGTGTGCCACATCATAAATATGCTACCACTCAGCA
1 GCGTGTCACCCCACAATACTACAACAAGTCAATGTGCCACACCATAAATATGCTACCACTCAGCA
18790719 TGTCACCA
66 TGTCACCA
18790727 CAAGATGACA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 62 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (86 bp):
GCGTGTCACCCCACAATACTACAACAAGTCAATGTGCCACACCATAAATATGCTACCACTCAGCA
TGTCACCATAATTGGGGCGTG
Found at i:18790725 original size:148 final size:148
Alignment explanation
Indices: 18790337--18790725 Score: 395
Period size: 148 Copynumber: 2.6 Consensus size: 148
18790327 ACCACGTTAC
* * * **** * * * *
18790337 GTGTCACC-CTATTGGGGCATGGCGTGTTACCGTTGAATACTACAATAAGTCAGCGTGTCACGCC
1 GTGTCACCACAATTGGGGAATGGCGTGTCACCCCACAATACTGCAACAAGTCAGCGTGCCACACC
** * * * * * * * *
18790401 ACGTATCTGCTTCCACTTAACGTGTCACTCC-ATAATACTGCAACAAGTCAACGTGTCATGCCAT
66 ACAAATATGCTACCACTCAGCATGTCAC-CCTACAATACTACAACAAGTCAACGTGTCACGCCAT
*
18790465 AAATCTACTTCCACTTAGT
130 AAATCTACTTCCACTCAGT
* * *
18790484 GTGTCACCACAATTGGGGAATGGCGTGTCACCCCACAATATTGCAACAAGTCAGCGTGTCACGCC
1 GTGTCACCACAATTGGGGAATGGCGTGTCACCCCACAATACTGCAACAAGTCAGCGTGCCACACC
** * * * * * *
18790549 ACGTATCTGCTTCCATTCAGCGTTTCACCCTACAATACTACAACAAGTCAATGTGTCACGCCATA
66 ACAAATATGCTACCACTCAGCATGTCACCCTACAATACTACAACAAGTCAACGTGTCACGCCATA
*
18790614 AATCTGCTTCCACTCAGT
131 AATCTACTTCCACTCAGT
* ** * *
18790632 GTGTCACCATAATTGGGGCGTGGCGTGTCACCCCACAATACTGCAACAAGTCAGTGTGCCACATC
1 GTGTCACCACAATTGGGGAATGGCGTGTCACCCCACAATACTGCAACAAGTCAGCGTGCCACACC
*
18790697 ATAAATATGCTACCACTCAGCATGTCACC
66 ACAAATATGCTACCACTCAGCATGTCACC
18790726 ACAAGATGAC
Statistics
Matches: 204, Mismatches: 36, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
147 10 0.05
148 194 0.95
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (148 bp):
GTGTCACCACAATTGGGGAATGGCGTGTCACCCCACAATACTGCAACAAGTCAGCGTGCCACACC
ACAAATATGCTACCACTCAGCATGTCACCCTACAATACTACAACAAGTCAACGTGTCACGCCATA
AATCTACTTCCACTCAGT
Found at i:18790849 original size:106 final size:107
Alignment explanation
Indices: 18790642--18790839 Score: 272
Period size: 106 Copynumber: 1.9 Consensus size: 107
18790632 GTGTCACCAT
* * *
18790642 AATTGGGGCGTGGCGTGTCACCCCACAATACTGCAACAAGTCAGTGTGCCACATCATAAATATGC
1 AATTGGGGCGTGGCGTGTCACCCCACAATACTGCAACAAGTCAGCGTGCCACACCATAAATATAC
*
18790707 TACCACTCAGCATGTCACCACAAGATGACACCGACATATGAA
66 TACCACTCAACATGTCACCACAAGATGACACCGACATATGAA
* * * * * * *
18790749 AATTGGGGCGTGGCGTGTCACCCCATAATACTG-GAGAAGTTAGCGTGTCACGCCATAAATCTAC
1 AATTGGGGCGTGGCGTGTCACCCCACAATACTGCAACAAGTCAGCGTGCCACACCATAAATATAC
* *
18790813 TTCCACTCAACGTGTCACCACAAGATG
66 TACCACTCAACATGTCACCACAAGATG
18790840 TCATTGACAT
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
106 46 0.59
107 32 0.41
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (107 bp):
AATTGGGGCGTGGCGTGTCACCCCACAATACTGCAACAAGTCAGCGTGCCACACCATAAATATAC
TACCACTCAACATGTCACCACAAGATGACACCGACATATGAA
Found at i:18794622 original size:31 final size:31
Alignment explanation
Indices: 18794581--18794689 Score: 157
Period size: 31 Copynumber: 3.5 Consensus size: 31
18794571 TTTGTCAGTC
*
18794581 ATGTTGTTACACGCCATGCATAT-AACATAAA
1 ATGTTGTTACACGCCATGCATATCAA-GTAAA
* *
18794612 ATGTTATTACACGCCATGCGTATCAAGTAAA
1 ATGTTGTTACACGCCATGCATATCAAGTAAA
* *
18794643 ATGTTGTTACACGCCATACATATCAAGTCAA
1 ATGTTGTTACACGCCATGCATATCAAGTAAA
18794674 ATGTTGTTACACGCCA
1 ATGTTGTTACACGCCA
18794690 ACACTGACAT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
31 68 0.97
32 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (31 bp):
ATGTTGTTACACGCCATGCATATCAAGTAAA
Found at i:18795104 original size:63 final size:63
Alignment explanation
Indices: 18795036--18795158 Score: 183
Period size: 63 Copynumber: 2.0 Consensus size: 63
18795026 CCATAGCCCG
18795036 ATGACAATGGTGCTCAACAAAGAGTTGACAGAGCTCATATAGTTCAGAGAGCTGAGAGAGCTT
1 ATGACAATGGTGCTCAACAAAGAGTTGACAGAGCTCATATAGTTCAGAGAGCTGAGAGAGCTT
* * * * * * *
18795099 ATGACAATGGTGTTTAATAGAGAGTTGACAGAGTTGATATAGTTCAGAGAGTTGAGAGAG
1 ATGACAATGGTGCTCAACAAAGAGTTGACAGAGCTCATATAGTTCAGAGAGCTGAGAGAG
18795159 AAAGATGAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.35, C:0.11, G:0.29, T:0.25
Consensus pattern (63 bp):
ATGACAATGGTGCTCAACAAAGAGTTGACAGAGCTCATATAGTTCAGAGAGCTGAGAGAGCTT
Found at i:18798673 original size:21 final size:22
Alignment explanation
Indices: 18798635--18798675 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
18798625 ATTATATCAT
**
18798635 TAAATAAATAATGCTATTTTTA
1 TAAATAAATAATAATATTTTTA
18798657 TAAA-AAATAATAATATTTT
1 TAAATAAATAATAATATTTT
18798676 AAATAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TAAATAAATAATAATATTTTTA
Done.