Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 44 of 97
Found at i:17924070 original size:28 final size:30
Alignment explanation
Indices: 17924029--17924088 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
17924019 GTCTATAGGC
17924029 AATTTTTCAATTTT-T-AGGGCAAAAATGT
1 AATTTTTCAATTTTATGAGGGCAAAAATGT
* * * *
17924057 AATTTTTGACTTTTATGGGGGCAAAAGTGT
1 AATTTTTCAATTTTATGAGGGCAAAAATGT
17924087 AA
1 AA
17924089 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
29 1 0.04
30 13 0.50
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (30 bp):
AATTTTTCAATTTTATGAGGGCAAAAATGT
Found at i:17926706 original size:33 final size:34
Alignment explanation
Indices: 17926631--17926706 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 34
17926621 AAATTAGTAT
* *
17926631 GTCATATAATTATCAATTATGATATGTCATCATA
1 GTCATATCATTATCAATTATGATATGTCACCATA
* * * *
17926665 -CCACATCATTTTCAATTATGATATGTTACCA-A
1 GTCATATCATTATCAATTATGATATGTCACCATA
17926697 GTCATATCAT
1 GTCATATCAT
17926707 AGTCACGTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (34 bp):
GTCATATCATTATCAATTATGATATGTCACCATA
Found at i:17926842 original size:29 final size:29
Alignment explanation
Indices: 17926810--17926865 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
17926800 TTTTGCTCAA
17926810 AATAAAAGTATAATGA-TTTAATTGAATAC
1 AATAAAAGTATAA-GAGTTTAATTGAATAC
*
17926839 AATAAAAGTATAAGAGTTTATTTGAAT
1 AATAAAAGTATAAGAGTTTAATTGAAT
17926866 TTTTTTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (29 bp):
AATAAAAGTATAAGAGTTTAATTGAATAC
Found at i:17937840 original size:10 final size:11
Alignment explanation
Indices: 17937810--17937844 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
17937800 TATGGCCGGC
17937810 CAAAGCAAGAA
1 CAAAGCAAGAA
*
17937821 CAAAGGAAGAA
1 CAAAGCAAGAA
17937832 -AAAGCAAGAA
1 CAAAGCAAGAA
17937842 CAA
1 CAA
17937845 GAACCCTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.66, C:0.14, G:0.20, T:0.00
Consensus pattern (11 bp):
CAAAGCAAGAA
Found at i:17943122 original size:28 final size:28
Alignment explanation
Indices: 17943079--17943132 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
17943069 CGAGGTTTCA
17943079 ATTGACATTCCAGGTAATGAATGTCTCG
1 ATTGACATTCCAGGTAATGAATGTCTCG
* *
17943107 ATTGACATTCCGGGTAATGATTGTCT
1 ATTGACATTCCAGGTAATGAATGTCT
17943133 ATCGGGACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (28 bp):
ATTGACATTCCAGGTAATGAATGTCTCG
Found at i:17943308 original size:5 final size:5
Alignment explanation
Indices: 17943274--17943304 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
17943264 AGTGTGGCCC
*
17943274 AAGTT AAGTT AAGTT AAGTT AAGTT AGGTT A
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT A
17943305 GGTTGAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (5 bp):
AAGTT
Found at i:17983306 original size:35 final size:36
Alignment explanation
Indices: 17983258--17983352 Score: 111
Period size: 36 Copynumber: 2.7 Consensus size: 36
17983248 GTTTTGATTG
* * *
17983258 AGGTTATGCTTGATCTTG-TGAAAGACATGTTGTTA
1 AGGTTACGCTTGATCTTGTTAAAAGACATGTTGTAA
* *
17983293 AGGTTACGTTTGATCTTGTTAAAAGGCATGTTGTAA
1 AGGTTACGCTTGATCTTGTTAAAAGACATGTTGTAA
* * *
17983329 AGGTTACGCCTAACCTTGTTAAAA
1 AGGTTACGCTTGATCTTGTTAAAA
17983353 AGGCAAGTTG
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 16 0.32
36 34 0.68
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (36 bp):
AGGTTACGCTTGATCTTGTTAAAAGACATGTTGTAA
Found at i:17983347 original size:36 final size:37
Alignment explanation
Indices: 17983278--17983362 Score: 100
Period size: 36 Copynumber: 2.3 Consensus size: 37
17983268 TGATCTTGTG
* * ** * *
17983278 AAAGACATGTTGTTAAGGTTACGTTTGATCTTGTT-A
1 AAAGGCATGTTGTAAAGGTTACGCCTAACCTTGTTAA
17983314 AAAGGCATGTTGTAAAGGTTACGCCTAACCTTGTTAA
1 AAAGGCATGTTGTAAAGGTTACGCCTAACCTTGTTAA
*
17983351 AAAGGCAAGTTG
1 AAAGGCATGTTG
17983363 ATAATGGATT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 29 0.71
37 12 0.29
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.33
Consensus pattern (37 bp):
AAAGGCATGTTGTAAAGGTTACGCCTAACCTTGTTAA
Found at i:17984175 original size:285 final size:284
Alignment explanation
Indices: 17983644--17984502 Score: 1261
Period size: 285 Copynumber: 3.0 Consensus size: 284
17983634 GTGGAAGGAA
* * * *
17983644 ATTAATAGAGTTTGATTGAATAATTTGATTACTTTAGGTTCCCTGGAAGCTACAAGGTCTAATAG
1 ATTATTAGAGCTTGATTGAATAATTTGATTACTTTAAGTTCCCTTGAAGCTACAAGGTCTAATAG
* * *
17983709 CTAGTGGAGCTTGCTAAATGGTGTTGATTTTAAAAAAGTGGCATCAAATTGGTGAGTGGGCTTGC
66 CTAGTGGAGCTTGCTAAGTGGTGTTGATTTTAAAGAGGTGGCATCAAATTGGTGAGTGGGCTTGC
* * ** *
17983774 TTTCAAATTATTTTAATAAAAGAATGTGTGATATATGTAAACTTAATGATTTCCAAATATGCACT
131 ATTCAAATTATTTTAATAGAAGAATGCATGAAATATGTAAACTTAATGATTTCCAAATATGCACT
* *
17983839 TTTAGCAATTATGCCTATAAATGCTTTGATGTGGTTTTACTATAATGTTGGTAGGCCTGAGTATG
196 TTTAGCAATTGTGCCTATAAATGCTTTGATGTGGTTTTACTATAATGTTGGTAGGAC-GAGTATG
17983904 TATATGTATAATTGAATATATGTAT
260 TATATGTATAATTGAATATATGTAT
* * * *
17983929 ATTATTAGAGCTTGATTGAATAATTTGTTTGCTTTAAGTTCCTTTGAAGCTTCAAGGTCTAATAG
1 ATTATTAGAGCTTGATTGAATAATTTGATTACTTTAAGTTCCCTTGAAGCTACAAGGTCTAATAG
*
17983994 CTAGTGAAGCTTGCTAAGTGGTGTTGATTTTAAAGAGGTGGCATCAAATTGGTGAGTGGGCTTGC
66 CTAGTGGAGCTTGCTAAGTGGTGTTGATTTTAAAGAGGTGGCATCAAATTGGTGAGTGGGCTTGC
* *
17984059 ATTCAAATTATTTTAATAGAAGAATACATTAAATATGTAAACTTAATGATTTCCAAATATGCACT
131 ATTCAAATTATTTTAATAGAAGAATGCATGAAATATGTAAACTTAATGATTTCCAAATATGCACT
* * * *
17984124 TTTACCAATTGTGCCTATAAATGCTTTGATGTGGTTTTACTGTAGTGTTGGTAGGTACAAGTATG
196 TTTAGCAATTGTGCCTATAAATGCTTTGATGTGGTTTTACTATAATGTTGGTAGG-ACGAGTATG
17984189 TATATGTATAATTGAATATATGTAT
260 TATATGTATAATTGAATATATGTAT
* * * *
17984214 ATTATTAAAGCTTGATTGAATAATTTGATTACTTTGAGTTCCCTTGAAGCTCCAAGGTCTAATAA
1 ATTATTAGAGCTTGATTGAATAATTTGATTACTTTAAGTTCCCTTGAAGCTACAAGGTCTAATAG
* * * * *
17984279 CTAGTGGAGCTTGTTAAGTGGTGTTGATTTTAAAGAGGTTGCGTCAAATTGGTAAGTGGGCTTAC
66 CTAGTGGAGCTTGCTAAGTGGTGTTGATTTTAAAGAGGTGGCATCAAATTGGTGAGTGGGCTTGC
* * * * * * ***
17984344 ATTCAAATTATGTTAATAGAAAAATGCATGAAATATGGAAACATAATGCTTTTCAAAT-TGTGTT
131 ATTCAAATTATTTTAATAGAAGAATGCATGAAATATGTAAACTTAATGATTTCCAAATATGCACT
* * * *
17984408 TTTAGCAATTGTGCCTATATATGCTTTGATATGGTTTTCCTATAATGTTGATTAGGACGAGTATG
196 TTTAGCAATTGTGCCTATAAATGCTTTGATGTGGTTTTACTATAATGTTG-GTAGGACGAGTATG
17984473 TATATGTATAATTGAATATATGTAT
260 TATATGTATAATTGAATATATGTAT
17984498 ATTAT
1 ATTAT
17984503 CTAGTCTACT
Statistics
Matches: 515, Mismatches: 57, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
284 85 0.17
285 429 0.83
286 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (284 bp):
ATTATTAGAGCTTGATTGAATAATTTGATTACTTTAAGTTCCCTTGAAGCTACAAGGTCTAATAG
CTAGTGGAGCTTGCTAAGTGGTGTTGATTTTAAAGAGGTGGCATCAAATTGGTGAGTGGGCTTGC
ATTCAAATTATTTTAATAGAAGAATGCATGAAATATGTAAACTTAATGATTTCCAAATATGCACT
TTTAGCAATTGTGCCTATAAATGCTTTGATGTGGTTTTACTATAATGTTGGTAGGACGAGTATGT
ATATGTATAATTGAATATATGTAT
Found at i:17992696 original size:12 final size:12
Alignment explanation
Indices: 17992679--17992703 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17992669 TTAAGGTATG
17992679 ATTAGTTAATGT
1 ATTAGTTAATGT
17992691 ATTAGTTAATGT
1 ATTAGTTAATGT
17992703 A
1 A
17992704 ATCATCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (12 bp):
ATTAGTTAATGT
Found at i:17992832 original size:60 final size:60
Alignment explanation
Indices: 17992768--17992883 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 60
17992758 TTATTCAATT
* *
17992768 ACCCAATAGTACATGCTTATATATAGATATGAGCTGAGAATAGAAAAAGAAAAAAAAAAG
1 ACCCAATAGTACATGCTTATATACAAATATGAGCTGAGAATAGAAAAAGAAAAAAAAAAG
* * * *
17992828 ACCCAATGGTACATGCTTATATACAAATATGAGTTGGGAATAGAAAAGGAAAAAAA
1 ACCCAATAGTACATGCTTATATACAAATATGAGCTGAGAATAGAAAAAGAAAAAAA
17992884 GGACTATAGC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.21
Consensus pattern (60 bp):
ACCCAATAGTACATGCTTATATACAAATATGAGCTGAGAATAGAAAAAGAAAAAAAAAAG
Found at i:17993623 original size:12 final size:12
Alignment explanation
Indices: 17993606--17993630 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17993596 TTAAGGTATG
17993606 ATTAGTTAATGT
1 ATTAGTTAATGT
17993618 ATTAGTTAATGT
1 ATTAGTTAATGT
17993630 A
1 A
17993631 ATCATCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (12 bp):
ATTAGTTAATGT
Found at i:17993757 original size:59 final size:59
Alignment explanation
Indices: 17993694--17993809 Score: 205
Period size: 59 Copynumber: 2.0 Consensus size: 59
17993684 TTATTCAATT
17993694 ACCCAATAGTACATGCTTATATATAGATATGAGCTGGGAATAGAAAAAGAAAAAAAAAG
1 ACCCAATAGTACATGCTTATATATAGATATGAGCTGGGAATAGAAAAAGAAAAAAAAAG
* * *
17993753 ACCCAATGGTACATGCTTATATATAGATATGAGTTGGGAATAGAAAAGGAAAAAAAA
1 ACCCAATAGTACATGCTTATATATAGATATGAGCTGGGAATAGAAAAAGAAAAAAAA
17993810 GACTATAGCT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.22
Consensus pattern (59 bp):
ACCCAATAGTACATGCTTATATATAGATATGAGCTGGGAATAGAAAAAGAAAAAAAAAG
Found at i:18006708 original size:40 final size:40
Alignment explanation
Indices: 18006639--18006716 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
18006629 ACTTAAATAT
* * *
18006639 TACGTACATATAAAATGATAAGTGATATTTTGATTAATGA
1 TACGTACATATAAAATGACAAGAGATATTTTAATTAATGA
18006679 TACGTACATATAAAATGACAAGAGATATTTTAATTAAT
1 TACGTACATATAAAATGACAAGAGATATTTTAATTAAT
18006717 TATTATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (40 bp):
TACGTACATATAAAATGACAAGAGATATTTTAATTAATGA
Found at i:18006769 original size:21 final size:22
Alignment explanation
Indices: 18006740--18006785 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
18006730 AATTAATTGT
18006740 ATTTAAATTAAAAA-ATATAAAA
1 ATTTAAATTAAAAATA-ATAAAA
*
18006762 ATTT-AATTAAATATAATAAAA
1 ATTTAAATTAAAAATAATAAAA
18006783 ATT
1 ATT
18006786 AAAAATTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTTAAATTAAAAATAATAAAA
Found at i:18012433 original size:16 final size:16
Alignment explanation
Indices: 18012409--18012445 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
18012399 AACAAATTAT
*
18012409 TAATTTATTGATTAAA
1 TAATATATTGATTAAA
*
18012425 TAATATATTGATTAAT
1 TAATATATTGATTAAA
18012441 TAATA
1 TAATA
18012446 AATTTTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (16 bp):
TAATATATTGATTAAA
Found at i:18013312 original size:22 final size:21
Alignment explanation
Indices: 18013259--18013312 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
18013249 GCATGCATGT
18013259 TTCATATTTTGAACATTTAAA
1 TTCATATTTTGAACATTTAAA
18013280 TT-A-AGTTTTGAAC-TTGTATAA
1 TTCATA-TTTTGAACATT-TA-AA
18013301 TTCATATTTTGA
1 TTCATATTTTGA
18013313 TGTTCTGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
19 3 0.11
20 11 0.39
21 6 0.21
22 7 0.25
23 1 0.04
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.50
Consensus pattern (21 bp):
TTCATATTTTGAACATTTAAA
Found at i:18020341 original size:20 final size:20
Alignment explanation
Indices: 18020316--18020353 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
18020306 TATTTAAATC
18020316 TTGGTCTATTCTAAACTCCT
1 TTGGTCTATTCTAAACTCCT
18020336 TTGGTCTATTCTAAACTC
1 TTGGTCTATTCTAAACTC
18020354 TTTTTGTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (20 bp):
TTGGTCTATTCTAAACTCCT
Found at i:18021104 original size:21 final size:20
Alignment explanation
Indices: 18021060--18021101 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
18021050 TTTGAAGTAG
18021060 TTAATTTAAGTTATTTTAGT
1 TTAATTTAAGTTATTTTAGT
*
18021080 TTAATTTTATGTTATTTT-GT
1 TTAA-TTTAAGTTATTTTAGT
18021100 TT
1 TT
18021102 TAAGTTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.67
Consensus pattern (20 bp):
TTAATTTAAGTTATTTTAGT
Found at i:18025253 original size:19 final size:19
Alignment explanation
Indices: 18025226--18025263 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18025216 TCATTTGACT
18025226 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
*
18025245 TATTTGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
18025264 GTTTAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:18026514 original size:13 final size:13
Alignment explanation
Indices: 18026496--18026520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18026486 GGAGAAATTG
18026496 TGATTTTATAAAA
1 TGATTTTATAAAA
18026509 TGATTTTATAAA
1 TGATTTTATAAA
18026521 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:18039317 original size:2 final size:2
Alignment explanation
Indices: 18039310--18039338 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18039300 ATGATGATTG
18039310 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
18039339 CATACATAGA
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:18047554 original size:22 final size:23
Alignment explanation
Indices: 18047505--18047554 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
18047495 TCAGTTATCA
18047505 ACAGCAAAATACCATGAACATAT
1 ACAGCAAAATACCATGAACATAT
*
18047528 A-AGCAAAGTACCAT-AA-ATAT
1 ACAGCAAAATACCATGAACATAT
18047548 ACCAGCA
1 A-CAGCA
18047555 TCCATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.21
21 2 0.08
22 16 0.67
23 1 0.04
ACGTcount: A:0.52, C:0.22, G:0.10, T:0.16
Consensus pattern (23 bp):
ACAGCAAAATACCATGAACATAT
Found at i:18062156 original size:20 final size:19
Alignment explanation
Indices: 18062105--18062157 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
18062095 AGAGAATGTT
* *
18062105 AATAATTTAATAATTAAATA
1 AATAAATTAA-AAATAAATA
*
18062125 AATAAAAATAAAAATAAACTA
1 AAT-AAATTAAAAATAAA-TA
18062146 AATAAATTAAAA
1 AATAAATTAAAA
18062158 GAAAGTGAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (19 bp):
AATAAATTAAAAATAAATA
Found at i:18071828 original size:37 final size:38
Alignment explanation
Indices: 18071711--18071828 Score: 116
Period size: 37 Copynumber: 3.1 Consensus size: 38
18071701 CACACCCGAC
*
18071711 TCATGTACATCCCCCCACGTCGTGCACATAGCCG-GCACCA
1 TCATGTACATCCCCCCACATCGTGCACA-A--CGAGCACCA
* * ** **
18071751 TCATGTGCAT-CCCCCAGATCGTGCACAATTAGTGCCA
1 TCATGTACATCCCCCCACATCGTGCACAACGAGCACCA
*
18071788 TCATGTACATCCCCCCACATCGTGCAC-ACGAGCACTA
1 TCATGTACATCCCCCCACATCGTGCACAACGAGCACCA
18071825 TCAT
1 TCAT
18071829 CATCCATCTC
Statistics
Matches: 62, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
37 22 0.35
38 16 0.26
39 15 0.24
40 9 0.15
ACGTcount: A:0.25, C:0.38, G:0.16, T:0.21
Consensus pattern (38 bp):
TCATGTACATCCCCCCACATCGTGCACAACGAGCACCA
Found at i:18078874 original size:22 final size:22
Alignment explanation
Indices: 18078834--18078877 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18078824 TTTAACACTA
*
18078834 CTTTAAAACTAAAAACTTTGAT
1 CTTTAAAACCAAAAACTTTGAT
**
18078856 CTTTAAAACCAAATGCTTTGAT
1 CTTTAAAACCAAAAACTTTGAT
18078878 ACCAATCGAA
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:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTTTGAT
Found at i:18090068 original size:18 final size:19
Alignment explanation
Indices: 18090040--18090087 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
18090030 GTGATAGGCA
*
18090040 AAAAGAATATTTT-GGAAT
1 AAAATAATATTTTAGGAAT
* *
18090058 GAAATAATATTTTATGAAT
1 AAAATAATATTTTAGGAAT
18090077 AAAATAATATT
1 AAAATAATATT
18090088 AAAATATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
AAAATAATATTTTAGGAAT
Found at i:18091049 original size:4 final size:4
Alignment explanation
Indices: 18091040--18091084 Score: 58
Period size: 4 Copynumber: 11.5 Consensus size: 4
18091030 GAGAAAGGGG
*
18091040 AAGA AAGA AAG- AAGA AA-A TAGA AAGGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA-GA AAGA AAGA AAGA AAGA AA
18091085 AAGAGAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
3 5 0.14
4 27 0.75
5 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (4 bp):
AAGA
Found at i:18091053 original size:23 final size:24
Alignment explanation
Indices: 18091027--18091087 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 24
18091017 GCCAAAGAGG
* *
18091027 GAAGAGAAAGGGGAA-GAAAGAAA
1 GAAGAGAAAGAGAAAGGAAAGAAA
*
18091050 GAAGA-AAATAGAAAGGAAAGAAA
1 GAAGAGAAAGAGAAAGGAAAGAAA
*
18091073 GAA-AGAAAGAAAAAG
1 GAAGAGAAAGAGAAAG
18091088 AGAGAAAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 7 0.23
23 24 0.77
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (24 bp):
GAAGAGAAAGAGAAAGGAAAGAAA
Found at i:18091079 original size:27 final size:29
Alignment explanation
Indices: 18091031--18091085 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
18091021 AAGAGGGAAG
*
18091031 AGAAAGGGGAAGAAAGAAAG-AAGAAAAT
1 AGAAAGGGAAAGAAAGAAAGAAAGAAAAT
18091059 AGAAA-GGAAAGAAAGAAAGAAAGAAAA
1 AGAAAGGGAAAGAAAGAAAGAAAGAAAA
18091086 AGAGAGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (29 bp):
AGAAAGGGAAAGAAAGAAAGAAAGAAAAT
Found at i:18091096 original size:27 final size:27
Alignment explanation
Indices: 18091040--18091097 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
18091030 GAGAAAGGGG
*
18091040 AAGAAAGAAAGAAGAAAATAGAAAGGA
1 AAGAAAGAAAGAAGAAAATAGAAAGAA
*
18091067 AAGAAAGAAAGAAAGAAAA-AGAGAGAA
1 AAGAAAGAAAG-AAGAAAATAGAAAGAA
18091094 AAGA
1 AAGA
18091098 GGGAAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (27 bp):
AAGAAAGAAAGAAGAAAATAGAAAGAA
Found at i:18098948 original size:316 final size:315
Alignment explanation
Indices: 18098375--18102266 Score: 4406
Period size: 316 Copynumber: 12.4 Consensus size: 315
18098365 ATCAATAATG
* * * *
18098375 TCTACCAACATCTCATTCTCACTCTTTCCTTATGCTTTGACAGTAGATATAACTACTCTTGGATT
1 TCTACCAACAACTCATTCTCACTTTTTCC-TATGCTTTGACAGTAGACATAACTGCTCTTGGATT
* * ** *
18098440 CAAAGATCTTCTTAATTAATTTTTAAGATACCTCCTCATATGAATTTGACTTAGTTTCCTTCTTC
65 CAAAGATCTTCTTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTC
* * * *
18098505 ATCAACAACTATTGAATAAACAAATCCTCATCATAATCC-TCGATATCCAATTCTATGACCTTCT
130 ATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTG-TATCCAATTCTATGACCTTCT
* * ** *
18098569 TTCTTTCCTTATATAGCCTTTTTAACTCAACATTAATCCTTTATGTCTTTTCATCTAATTATTTC
194 TTCTTTCCTTATATAGCCCTTTTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATTTC
* * * * * *
18098634 AACCCTTCGTATATGACAATCATTAATTTCTTAAACTAGCTTTGTTGGGTAATAATT
259 AACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATT
* * * *
18098691 TCTACCAACAACTCATTCTTACATTTTTCCTATGCTTTGACAATAAACCA-AACTACTCTTGGAT
1 TCTACCAACAACTCATTCTCAC-TTTTTCCTATGCTTTGACAGTAGA-CATAACTGCTCTTGGAT
* * * * *
18098755 TCAAAGGTCTTCATAATCAATTTTTAGGATACCTCCTTATATGAATTT-AGCTTAGTTTCCTTTT
64 TCAAAGATCTTCTTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGA-CTCAGTTTCCTTCT
* ** ** * * * *
18098819 TCATCAACAACTATTGAACCGATGAATCCTCATTATAAT-CTTCTATATCCAATTCTATAACCTT
128 TCATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTT-TGTATCCAATTCTATGACCTT
* * * * *
18098883 CTTTCTTTCTTTATATAGCCCTTGTAACTCAACATTAATCCTTTATATATTTTCATCTGATTATT
192 CTTTCTTTCCTTATATAGCCCTTTTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATT
* * *
18098948 TCAACCCTTCGTATATGGCCATCATTAATTTCTTGAACTAACTTTGCTGGGCAATGATT
257 TCAACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATT
* * * * * *
18099007 TCTACCATCAACTCATTCTCACTCTTTTCCTTTTCTTTAATAGTAGACATAATTGCTCTTGGATT
1 TCTACCAACAACTCATTCTCACT-TTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
* * *
18099072 CAAAGATCTTCTTAATCAACTTTTATGATATCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTC
65 CAAAGATCTTCTTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTC
* * * * *** *
18099137 ATCAATAACTTTTGAACAAATAAATCCTCATCATCCTTCTACATATCCAATTTTATGACC--C-T
130 ATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCCAATTCTATGACCTTCTT
* ** *
18099199 TCTTTCCTTATATAGCCCTATTAACTCAACACCAATCCTCTAAATCTTTTCATCT-AGTTATGTC
195 TCTTTCCTTATATAGCCCTTTTAACTCAACATTAATCCTCTAAATCTTTTCATCTGA-TTATTTC
* * * * * *
18099263 AACCTTTGGTCTGTGGCAATCATTAATTTCTTGAACTAACTTTATTAGGCAATGACT
259 AACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATT
* * * * *
18099320 TCTACCAACAACTCATTCTCACTTTTTTCCTATGCTTTGATAGTAAACATAACTACTATTGAATT
1 TCTACCAACAACTCATTCTCAC-TTTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
* * * * * *
18099385 CAAAGATATTCTTAATCAATTTTTAAGATACCTCATTGTATGAATTTGACTTAATTTCCTTCTTA
65 CAAAGATCTTCTTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTC
* * * ** * *
18099450 ATCAATAACTTTTGGACAGACAAATCCTCATCATCATCCTTAATATCAAATTCTAT-AAC--CTT
130 ATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCCAATTCTATGACCTTCTT
* * *
18099512 TCTTTCCTTATATA-CCCTTATTAATTTAACATTAATCCTCTAAATATTTTCATCTGATTATTTC
195 TCTTTCCTTATATAGCCCTT-TTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATTTC
* * * * *
18099576 AGCCCTTCATCTATGGCAATCAATAATTTCTTGAACTAACTTTGTTGGCCGATGATT
259 AACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATT
* * * * *
18099633 TCTACTAACACCTCACTCTCACTCTTTTCCTATGCTTTGATAGTAGACATAACTGCTATTGGATT
1 TCTACCAACAACTCATTCTCACT-TTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
* * * * * *
18099698 TAAAGATCTTCTTCATCAATTTTTAAGATACCACCTCGTATTAATTTGACTCAGTTTCCTTCTTC
65 CAAAGATCTTCTTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTC
* * * * *** *
18099763 ATCAATAACTTTTGAATAGACAAATTCCTCATCGTCATCCTCAATGTCCAATT-TCATGACCTTC
130 ATCAACAACTTTTGAACAAACAAA-TCCTCATCATCATCCTTTGTATCCAATTCT-ATGACCTTC
* * * * *
18099827 TTTCTTTCCTTATATAGCCCTATTAAGTAAACATTAATCCTCTAAATCTTTCCATCTGATTTTTT
193 TTTCTTTCCTTATATAGCCCTTTTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATTT
** * * *
18099892 CAACCCTTTATATATGCCAATCATTAATTTCTTGAACTAACATTTTTTGGGCAATGATT
258 CAACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAAC-TTTGTTGGGCAATGATT
* * * * *
18099951 TCAACCAACAACTCATTCTCACTCTTTTCTTATGCTTTGAAAGTAGACCTAACTCCTCTTGGATT
1 TCTACCAACAACTCATTCTCACT-TTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
* * * *
18100016 CAAAGGTCTTCTTAATCAATTTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTTTTC
65 CAAAGATCTTCTTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTC
* * * * * *
18100081 ATCAACAACTATTGAATAGACAAATCCTCATCATAATCCTCTGTATCCAATTCTATGACTTTCTT
130 ATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCCAATTCTATGACCTTCTT
* * * *
18100146 TCTTTCCTTAAATAG-CCTTGTTAACTCAGCATTAATCCTCTAAATCTTTTTATTTGATTATTTC
195 TCTTTCCTTATATAGCCCTT-TTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATTTC
* * * * * **
18100210 AACCCTTTGTTTGTGGCAATCATTAACTTCTT-AAGTTAACTTTGTTAAGCAATGATT
259 AACCCTTCGTCTATGGCAATCATTAATTTCTTGAA-CTAACTTTGTTGGGCAATGATT
* * * *
18100267 TCTACCAATAACTCATTCTCACACTTTTCCTATGCTTTGACAGTAGACATAACTGCTTTTAGATT
1 TCTACCAACAACTCATTCTCAC-TTTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
* * * * **
18100332 TAAAGATCTTCTTAATCAATATTTAAGACACCTATTTGTATGAATTTGACTCAGTTTCCTTCTTC
65 CAAAGATCTTCTTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTC
** * * *
18100397 ATCATTAACTTTTGAACAAACAAATCCTAATCATCATCCTTTCTATCCAATTCAATGACCTTCTT
130 ATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCCAATTCTATGACCTTCTT
* ** *** * *
18100462 TCTTTCCTTATATAACTGTAACAACTCAAAATTAATCCTCTAAATCTATTCATCTGATTATTTCA
195 TCTTTCCTTATATAGCCCTTTTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATTTCA
* * * * * *
18100527 ACCCTTGGTCTATGGGAAACATTAGTTTCTTGAACTAACTTTCTTGGGTAATGATT
260 ACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATT
* * * * * ** * * *
18100583 TTTGCCAATAACTCATTCTCACTCTTTTACTATGCATTGATGGTCGACATAACTACTTTTGGATT
1 TCTACCAACAACTCATTCTCACT-TTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
* * * * *
18100648 CCAAGATCTTTTTAATCAA-TTTTACGATACCTCTTTGTATGAATTTGACTCAGTTTCTTTCTTC
65 CAAAGATCTTCTTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTC
* * * *
18100712 ATCAACAACTTTTAAACAAACAAATCCTAATCATCATCCTTTGTATCAAATTCTATGACCATCTT
130 ATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCCAATTCTATGACCTTCTT
* * * *
18100777 TCTTTCCTTATATA-ACCTTATTAACACAACATTAATCCTCTAAATCTTTTAATCTAATTATTTC
195 TCTTTCCTTATATAGCCCTT-TTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATTTC
* * * *
18100841 AACCCTTCGTCTATGACAATCATTAATTTCTTGGA-GAGACTTTGTTGGGAAATGATT
259 AACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTA-ACTTTGTTGGGCAATGATT
* *
18100898 TCTACCAACAACTCATTCTCACTTTTTTCCTATGCTTTGACAGTAGACATCACTGCTCTTAGATT
1 TCTACCAACAACTCATTCTCAC-TTTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
*
18100963 CAAAGATCTCCTTAATCAATTTTTAAGG-TACCTCCTAT-TATGAATTTGACTCAGTTTCCTTC-
65 CAAAGATCTTCTTAATCAATTTTT-AGGATACCTCCT-TGTATGAATTTGACTCAGTTTCCTTCT
* * * * *
18101025 TCAATCAACAACTTTTGAACAGACAAATCCTAATCATCATCCTATGTATCCAATTTTAT-AGCTT
128 TC-ATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCCAATTCTATGA-CCT
* ** * * * * *
18101089 TCTTTCTTTCTTTATATAGCCCTACTAACACAACATTAACCCACTAAATATTTTCATCTAATTAT
191 TCTTTCTTTCCTTATATAGCCCTTTTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTAT
* * * * *
18101154 TTTAATCCTTTGTCTATGGCAATCATTACTTTCTTGAACTACCTTTGTTGGGCAATGATT
256 TTCAACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATT
* * *
18101214 TCTACCAAGAACTCATTCTCACTTTTTCCTATGCTTTAACAGTAGACATAACTGCTTTTGGATTC
1 TCTACCAACAACTCATTCTCACTTTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATTC
* * *
18101279 AAAGATCTTCTTAATCAATTTTTAGGATACCTCTTTATATGAATTTGACTCAATTTCCTTCTTCA
66 AAAGATCTTCTTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTCA
* * * ** * *
18101344 TCAACAAATTTTGAACAAACAAATCTTCAACATCATCCTTTGTATTTAATTATATGACATTCTTT
131 TCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCCAATTCTATGACCTTCTTT
* * * * *
18101409 CTTTCCTTATATAG-CCTTATTAACTCAAGATTAATTCTTTAAATCTTTTTATCTAATTATTTCA
196 CTTTCCTTATATAGCCCTT-TTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATTTCA
* * *
18101473 ACCAC-TCGTCCATGGAAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATA
260 ACC-CTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATT
* *
18101529 TCGACCAACAACTCATTCTCAATTTTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
1 TCTACCAACAACTCATTCTC-ACTTTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
* * * *
18101594 TAATGATCTTTTTAATCAATTTTTAGGATACC-CCTTTGTATGAATTTGACTCAATTTCCTT-TT
65 CAAAGATCTTCTTAATCAATTTTTAGGATACCTCC-TTGTATGAATTTGACTCAGTTTCCTTCTT
* * *
18101657 ACATCAGCAACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCTAATTCTATGACATTC
129 -CATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCCAATTCTATGACCTTC
* * * * * *
18101722 TTTCTTTTCTTATATAGCTCTATTAACTCAACATTAATCCTCTAAATCCTTTCATTTGACT-TTT
193 TTTCTTTCCTTATATAGCCCTTTTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATTT
** ** *
18101786 CAACAGTTCGTCTATCACAATCATTAATTTCTTGAACTAAATTTGTTGGGCAATGATT
258 CAACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATT
** * * *
18101844 TCTATGAACAACTCATTCTCACTATTTTCCTATCCTTTGATAAT-GA-ATAACTGCTCTTGGATT
1 TCTACCAACAACTCATTCTCACT-TTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
* * * *
18101907 CAAAGATTTTCATAATCAATTTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTCTTC
65 CAAAGATCTTCTTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTC
* * * **
18101972 ATTAACAACTTTTGAGCAAACAAATCCTTATCATCATCCTTTGTATTAAATTCTATGACCTTCTT
130 ATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCCAATTCTATGACCTTCTT
* ** * * * * *
18102037 TCTTTCTTTATATAGCCCTAATAACACAACATTAATCTTCTAAATATTTCCATCTTATTATTTCA
195 TCTTTCCTTATATAGCCCTTTTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATTTCA
* * * * * *
18102102 ACCCTTTGTTTATGGCAA-C---CA--TCTGGAACGAACTTTGTTAGGCAATGATT
260 ACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATT
* *
18102152 TCTACCAACAACTCATTCTCACTTTGTTTCTATGCTTTGACAGTAGACATAA-TACGTCTTGGAT
1 TCTACCAACAACTCATTCTCACTTT-TTCCTATGCTTTGACAGTAGACATAACTGC-TCTTGGAT
* * * * *
18102216 TCAAAGA---TCTTAATAAATTTTTAAGATACCTTCTTGAATGAATTTTACTCA
64 TCAAAGATCTTCTTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGACTCA
18102267 TTTTTTTTGT
Statistics
Matches: 3041, Mismatches: 477, Indels: 125
0.83 0.13 0.03
Matches are distributed among these distances:
307 39 0.01
308 60 0.02
309 4 0.00
310 20 0.01
312 9 0.00
313 669 0.22
314 62 0.02
315 619 0.20
316 1179 0.39
317 228 0.07
318 152 0.05
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (315 bp):
TCTACCAACAACTCATTCTCACTTTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATTC
AAAGATCTTCTTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTCA
TCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCCAATTCTATGACCTTCTTT
CTTTCCTTATATAGCCCTTTTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATTTCAA
CCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATT
Found at i:18100346 original size:947 final size:944
Alignment explanation
Indices: 18098375--18102266 Score: 4547
Period size: 947 Copynumber: 4.1 Consensus size: 944
18098365 ATCAATAATG
* * *
18098375 TCTACCAACATCTCATTCTCACTCTTTCCTTATGCTTTGACAGTAGATATAACTACTCTTGGATT
1 TCTACCAACAACTCATTCTCACTTTTTCC-TATGCTTTGACAGTAGACATAACTACTCTTGGATT
* * ** * *
18098440 CAAAGATCTTCTTAATTAATTTTTAAGATACCTCCTCATATGAATTTGACTTAGTTTCCTTCTTC
65 CAAAGATCTTCTTAATCAATTTTTAAGATACCTCATTGTATGAATTTGACTCAATTTCCTTCTTC
* * * ** *
18098505 ATCAACAACTATTGAATAAACAAATCCTCATCATAATCCTCGATATCCAATTCTATGACCTTCTT
130 ATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTATATCCAATTCTATGAAC-TCTT
* * **
18098570 TCTTTCCTTATATAGCCTTTTTAACTCAACATTAATCCTTTATGTCTTTTCATCTAATTATTTCA
194 TCTTTCCTTATATAGCCTTATTAACTCAACATTAATCCTCTAAATCTTTTCATCTAATTATTTCA
* * * * * *
18098635 ACCCTTCGTATATGACAATCATTAATTTCTTAAACTAGCTTTGTTGGGTAATAATTTCTACCAAC
259 ACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATTTCTACCAAC
* * * *
18098700 AACTCATTCTTACAT-TTTTCCTATGCTTTGACAATAAACCA-AACTACTCTTGGATTCAAAGGT
324 AACTCATTCTCAC-TCTTTTCCTATGCTTTGACAGTAGA-CATAACTACTCTTGGATTCAAAGAT
* * * *
18098763 CTTCATAATCAATTTTTAGGATACCTCCTTATATGAATTT-AGCTTAGTTTCCTTTTTCATCAAC
387 CTTCTTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGA-CTCAGTTTCCTTCTTCATCAAC
* ** ** * * * *
18098827 AACTATTGAACCGATGAATCCTCATTATAATCTTCTATATCCAATTCTATAACCTTCTTTCTTTC
451 AACTTTTGAACAAACAAATCCTCATCATCATCCTCTATATCCAATTCTATGACCTTCTTTCTTTC
* * * * *
18098892 TTTATATAGCCCT-TGTAACTCAACATTAATCCTTTATATATTTTCATCTGATTATTTCAACCCT
516 CTTATATAGCCCTAT-TAACTAAACATTAATCCTCTAAATCTTTTCATCTGATTATTTCAACCCT
* *
18098956 TCGTATATGGCC-ATCATTAATTTCTTGAACTAACTTTGCTGGGCAATGATTTCTACCATCAACT
580 TCGTATAT-GCCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATTTCTACCAACAACT
* * *
18099020 CATTCTCACTCTTTTCCTTTTCTTT-AATAGTAGACATAATTGCTCTTGGATTCAAAGATCTTCT
644 CATTCTCACTCTTTTCCTATGCTTTGAA-AGTAGACATAACTGCTCTTGGATTCAAAGATCTTCT
* * * * * *
18099084 TAATCAACTTTTATGATATCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTCATCAATAACTTT
708 TAATCAATTTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTCTTCATCAACAACTTT
* * * * * *
18099149 TGAACAAATAAATCCTCATCATCCTTCTAC-ATATCCAATTTTATGAC---CCTTCTTTCCTTAT
773 TGAACAAACAAATCCTCATCATCATCCT-CTGTATCCAATTCTATGACTTTCTTTCTTTCCTTAT
* ** * *
18099210 ATAGCCCTATTAACTCAACACCAATCCTCTAAATCTTTTCATCTAGTTATGTCAA-CCTTTGGTC
837 ATAGCCCTATTAACACAACATTAATCCTCTAAATATTTTCATCTA-TTATTTCAACCCTTT-GTC
* * * *
18099274 TGTGGCAATCATTAATTTCTTGAACTAACTTTATTAGGCAATGACT
900 TATGGCAATCATT-ACTTCTTGAACTAACTTTGTTAGGCAATGATT
* * * *
18099320 TCTACCAACAACTCATTCTCACTTTTTTCCTATGCTTTGATAGTAAACATAACTACTATTGAATT
1 TCTACCAACAACTCATTCTCAC-TTTTTCCTATGCTTTGACAGTAGACATAACTACTCTTGGATT
* * *
18099385 CAAAGATATTCTTAATCAATTTTTAAGATACCTCATTGTATGAATTTGACTTAATTTCCTTCTTA
65 CAAAGATCTTCTTAATCAATTTTTAAGATACCTCATTGTATGAATTTGACTCAATTTCCTTCTTC
* * * * *
18099450 ATCAATAACTTTTGGACAGACAAATCCTCATCATCATCCTTAATATCAAATTCTAT-AAC-CTTT
130 ATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTATATCCAATTCTATGAACTCTTT
* * * * * *
18099513 CTTTCCTTATATACCCTTATTAATTTAACATTAATCCTCTAAATATTTTCATCTGATTATTTCAG
195 CTTTCCTTATATAGCCTTATTAACTCAACATTAATCCTCTAAATCTTTTCATCTAATTATTTCAA
* * * * *
18099578 CCCTTCATCTATGGCAATCAATAATTTCTTGAACTAACTTTGTTGGCCGATGATTTCTACTAACA
260 CCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATTTCTACCAACA
* * * * * *
18099643 CCTCACTCTCACTCTTTTCCTATGCTTTGATAGTAGACATAACTGCTATTGGATTTAAAGATCTT
325 ACTCATTCTCACTCTTTTCCTATGCTTTGACAGTAGACATAACTACTCTTGGATTCAAAGATCTT
* * * * * *
18099708 CTTCATCAATTTTTAAGATACCACCTCGTATTAATTTGACTCAGTTTCCTTCTTCATCAATAACT
390 CTTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTCATCAACAACT
* * * * *
18099773 TTTGAATAGACAAATTCCTCATCGTCATCCTCAATGTCCAATT-TCATGACCTTCTTTCTTTCCT
455 TTTGAACAAACAAA-TCCTCATCATCATCCTCTATATCCAATTCT-ATGACCTTCTTTCTTTCCT
* * * **
18099837 TATATAGCCCTATTAAGTAAACATTAATCCTCTAAATCTTTCCATCTGATTTTTTCAACCCTTTA
518 TATATAGCCCTATTAACTAAACATTAATCCTCTAAATCTTTTCATCTGATTATTTCAACCCTTCG
* *
18099902 TATATGCCAATCATTAATTTCTTGAACTAACATTTTTTGGGCAATGATTTCAACCAACAACTCAT
583 TATATGCCAATCATTAATTTCTTGAACTAAC-TTTGTTGGGCAATGATTTCTACCAACAACTCAT
* * * *
18099967 TCTCACTCTTTTCTTATGCTTTGAAAGTAGACCTAACTCCTCTTGGATTCAAAGGTCTTCTTAAT
647 TCTCACTCTTTTCCTATGCTTTGAAAGTAGACATAACTGCTCTTGGATTCAAAGATCTTCTTAAT
* *
18100032 CAATTTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTTTTCATCAACAACTATTGAA
712 CAATTTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTCTTCATCAACAACTTTTGAA
* * * *
18100097 TAGACAAATCCTCATCATAATCCTCTGTATCCAATTCTATGACTTTCTTTCTTTCCTTAAATAGC
777 CAAACAAATCCTCATCATCATCCTCTGTATCCAATTCTATGACTTTCTTTCTTTCCTTATATAGC
* * * * * * * * *
18100162 CTTGTTAACTCAGCATTAATCCTCTAAATCTTTTTATTTGATTATTTCAACCCTTTGTTTGTGGC
842 CCTATTAACACAACATTAATCCTCTAAATATTTTCATCT-ATTATTTCAACCCTTTGTCTATGGC
* *
18100227 AATCATTAACTTCTT-AAGTTAACTTTGTTAAGCAATGATT
906 AATCATT-ACTTCTTGAA-CTAACTTTGTTAGGCAATGATT
* * * * *
18100267 TCTACCAATAACTCATTCTCACACTTTTCCTATGCTTTGACAGTAGACATAACTGCTTTTAGATT
1 TCTACCAACAACTCATTCTCAC-TTTTTCCTATGCTTTGACAGTAGACATAACTACTCTTGGATT
* * * *
18100332 TAAAGATCTTCTTAATCAATATTTAAGACACCT-ATTTGTATGAATTTGACTCAGTTTCCTTCTT
65 CAAAGATCTTCTTAATCAATTTTTAAGATACCTCA-TTGTATGAATTTGACTCAATTTCCTTCTT
** * * * *
18100396 CATCATTAACTTTTGAACAAACAAATCCTAATCATCATCCTTTCTATCCAATTCAATGACCTTCT
129 CATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTATATCCAATTCTATGAAC-TCT
* ** * * *
18100461 TTCTTTCCTTATATA-ACTGTAACAACTCAAAATTAATCCTCTAAATCTATTCATCTGATTATTT
193 TTCTTTCCTTATATAGCCT-TATTAACTCAACATTAATCCTCTAAATCTTTTCATCTAATTATTT
* * * * * * * *
18100525 CAACCCTTGGTCTATGGGAAACATTAGTTTCTTGAACTAACTTTCTTGGGTAATGATTTTTGCCA
257 CAACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATTTCTACCA
* * * ** * * *
18100590 ATAACTCATTCTCACTCTTTTACTATGCATTGATGGTCGACATAACTACTTTTGGATTCCAAGAT
322 ACAACTCATTCTCACTCTTTTCCTATGCTTTGACAGTAGACATAACTACTCTTGGATTCAAAGAT
* * * *
18100655 CTTTTTAATCAA-TTTTACGATACCTCTTTGTATGAATTTGACTCAGTTTCTTTCTTCATCAACA
387 CTTCTTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTCATCAACA
* * * * * *
18100719 ACTTTTAAACAAACAAATCCTAATCATCATCCTTTGTATCAAATTCTATGACCATCTTTCTTTCC
452 ACTTTTGAACAAACAAATCCTCATCATCATCCTCTATATCCAATTCTATGACCTTCTTTCTTTCC
* * * *
18100784 TTATATAACCTTATTAAC-ACAACATTAATCCTCTAAATCTTTTAATCTAATTATTTCAACCCTT
517 TTATATAGCCCTATTAACTA-AACATTAATCCTCTAAATCTTTTCATCTGATTATTTCAACCCTT
* * * * *
18100848 CGTCTATGACAATCATTAATTTCTTGGA-GAGACTTTGTTGGGAAATGATTTCTACCAACAACTC
581 CGTATATGCCAATCATTAATTTCTTGAACTA-ACTTTGTTGGGCAATGATTTCTACCAACAACTC
* * * * *
18100912 ATTCTCACTTTTTTCCTATGCTTTGACAGTAGACATCACTGCTCTTAGATTCAAAGATCTCCTTA
645 ATTCTCACTCTTTTCCTATGCTTTGAAAGTAGACATAACTGCTCTTGGATTCAAAGATCTTCTTA
* *
18100977 ATCAATTTTTAAGG-TACCTCCTAT-TATGAATTTGACTCAGTTTCCTTC-TCAATCAACAACTT
710 ATCAATTTTT-AGGATACCT-CTTTGTATGAATTTGACTCAATTTCCTTCTTC-ATCAACAACTT
* * * * *
18101039 TTGAACAGACAAATCCTAATCATCATCCTATGTATCCAATTTTAT-AGCTTTCTTTCTTTCTTTA
772 TTGAACAAACAAATCCTCATCATCATCCTCTGTATCCAATTCTATGA-CTTTCTTTCTTTCCTTA
* * * * *
18101103 TATAGCCCTACTAACACAACATTAACCCACTAAATATTTTCATCTAATTATTTTAATCCTTTGTC
836 TATAGCCCTATTAACACAACATTAATCCTCTAAATATTTTCATCT-ATTATTTCAACCCTTTGTC
* *
18101168 TATGGCAATCATTACTTTCTTGAACTACCTTTGTTGGGCAATGATT
900 TATGGCAATCATTAC-TTCTTGAACTAACTTTGTTAGGCAATGATT
* * * *
18101214 TCTACCAAGAACTCATTCTCACTTTTTCCTATGCTTTAACAGTAGACATAACTGCTTTTGGATTC
1 TCTACCAACAACTCATTCTCACTTTTTCCTATGCTTTGACAGTAGACATAACTACTCTTGGATTC
* * *
18101279 AAAGATCTTCTTAATCAATTTTTAGGATACCTCTTTATATGAATTTGACTCAATTTCCTTCTTCA
66 AAAGATCTTCTTAATCAATTTTTAAGATACCTCATTGTATGAATTTGACTCAATTTCCTTCTTCA
* * * * ** * *
18101344 TCAACAAATTTTGAACAAACAAATCTTCAACATCATCCTTTGTATTTAATTATATGACATTCTTT
131 TCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTATATCCAATTCTATGA-ACTCTTT
* * * *
18101409 CTTTCCTTATATAGCCTTATTAACTCAAGATTAATTCTTTAAATCTTTTTATCTAATTATTTCAA
195 CTTTCCTTATATAGCCTTATTAACTCAACATTAATCCTCTAAATCTTTTCATCTAATTATTTCAA
* * * *
18101474 CCAC-TCGTCCATGGAAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATATCGACCAAC
260 CC-CTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATTTCTACCAAC
* * * * *
18101538 AACTCATTCTCAATTTTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATTTAATGATCT
324 AACTCATTCTCACTCTTTTCCTATGCTTTGACAGTAGACATAACTACTCTTGGATTCAAAGATCT
* * *
18101603 TTTTAATCAATTTTTAGGATACC-CCTTTGTATGAATTTGACTCAATTTCCTT-TTACATCAGCA
389 TCTTAATCAATTTTTAGGATACCTCC-TTGTATGAATTTGACTCAGTTTCCTTCTT-CATCAACA
* * * * *
18101666 ACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCTAATTCTATGACATTCTTTCTTTTC
452 ACTTTTGAACAAACAAATCCTCATCATCATCCTCTATATCCAATTCTATGACCTTCTTTCTTTCC
* * * * * **
18101731 TTATATAGCTCTATTAACTCAACATTAATCCTCTAAATCCTTTCATTTGACT-TTTCAACAGTTC
517 TTATATAGCCCTATTAACTAAACATTAATCCTCTAAATCTTTTCATCTGATTATTTCAACCCTTC
* * **
18101795 GTCTAT-CACAATCATTAATTTCTTGAACTAAATTTGTTGGGCAATGATTTCTATGAACAACTCA
582 GTATATGC-CAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATTTCTACCAACAACTCA
* * * *
18101859 TTCTCACTATTTTCCTATCCTTTGATAA-T-GA-ATAACTGCTCTTGGATTCAAAGATTTTCATA
646 TTCTCACTCTTTTCCTATGCTTTGA-AAGTAGACATAACTGCTCTTGGATTCAAAGATCTTCTTA
*
18101921 ATCAATTTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTCTTCATTAACAACTTTTG
710 ATCAATTTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTCTTCATCAACAACTTTTG
* * * ** * *
18101986 AGCAAACAAATCCTTATCATCATCCTTTGTATTAAATTCTATGACCTTCTTTCTTTCTTTATATA
775 AACAAACAAATCCTCATCATCATCCTCTGTATCCAATTCTATGACTTTCTTTCTTTCCTTATATA
* * * *
18102051 GCCCTAATAACACAACATTAATCTTCTAAATATTTCCATCTTATTATTTCAACCCTTTGTTTATG
840 GCCCTATTAACACAACATTAATCCTCTAAATATTTTCATC-TATTATTTCAACCCTTTGTCTATG
* * *
18102116 GCAA-C----CATCTGGAACGAACTTTGTTAGGCAATGATT
904 GCAATCATTACTTCTTGAACTAACTTTGTTAGGCAATGATT
*
18102152 TCTACCAACAACTCATTCTCACTTTGTTTCTATGCTTTGACAGTAGACATAA-TACGTCTTGGAT
1 TCTACCAACAACTCATTCTCACTTT-TTCCTATGCTTTGACAGTAGACATAACTAC-TCTTGGAT
* * *
18102216 TCAAAGA---TCTTAATAAATTTTTAAGATACCTTC-TTGAATGAATTTTACTCA
64 TCAAAGATCTTCTTAATCAATTTTTAAGATACC-TCATTGTATGAATTTGACTCA
18102267 TTTTTTTTGT
Statistics
Matches: 2506, Mismatches: 391, Indels: 109
0.83 0.13 0.04
Matches are distributed among these distances:
936 36 0.01
937 2 0.00
938 51 0.02
939 39 0.02
941 3 0.00
942 229 0.09
943 129 0.05
944 368 0.15
945 164 0.07
946 419 0.17
947 700 0.28
948 134 0.05
949 62 0.02
950 170 0.07
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (944 bp):
TCTACCAACAACTCATTCTCACTTTTTCCTATGCTTTGACAGTAGACATAACTACTCTTGGATTC
AAAGATCTTCTTAATCAATTTTTAAGATACCTCATTGTATGAATTTGACTCAATTTCCTTCTTCA
TCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTATATCCAATTCTATGAACTCTTTC
TTTCCTTATATAGCCTTATTAACTCAACATTAATCCTCTAAATCTTTTCATCTAATTATTTCAAC
CCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATTTCTACCAACAA
CTCATTCTCACTCTTTTCCTATGCTTTGACAGTAGACATAACTACTCTTGGATTCAAAGATCTTC
TTAATCAATTTTTAGGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTCATCAACAACTT
TTGAACAAACAAATCCTCATCATCATCCTCTATATCCAATTCTATGACCTTCTTTCTTTCCTTAT
ATAGCCCTATTAACTAAACATTAATCCTCTAAATCTTTTCATCTGATTATTTCAACCCTTCGTAT
ATGCCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATTTCTACCAACAACTCATTCTC
ACTCTTTTCCTATGCTTTGAAAGTAGACATAACTGCTCTTGGATTCAAAGATCTTCTTAATCAAT
TTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTCTTCATCAACAACTTTTGAACAAA
CAAATCCTCATCATCATCCTCTGTATCCAATTCTATGACTTTCTTTCTTTCCTTATATAGCCCTA
TTAACACAACATTAATCCTCTAAATATTTTCATCTATTATTTCAACCCTTTGTCTATGGCAATCA
TTACTTCTTGAACTAACTTTGTTAGGCAATGATT
Found at i:18100885 original size:631 final size:631
Alignment explanation
Indices: 18098375--18102266 Score: 4582
Period size: 631 Copynumber: 6.2 Consensus size: 631
18098365 ATCAATAATG
* * *
18098375 TCTACCAACATCTCATTCTCACTC-TTTCCTTATGCTTTGACAGTAGATATAACTACTCTTGGAT
1 TCTACCAACAACTCATTCTCACTCTTTTCC-TATGCTTTGACAGTAGACATAACTGCTCTTGGAT
* ** *
18098439 TCAAAGATCTTCTTAATTAATTTTTAAGATACCTCCTCATATGAATTTGACTTAGTTTCCTTCTT
65 TCAAAGATCTTCTTAATCAATTTTTAAGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTT
* * * **
18098504 CATCAACAACTATTGAATAAACAAATCCTCATCATAATCCTCGATATCCAATTCTATGACCTTCT
130 CATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTATATCCAATTCTATGACCTTCT
* * * ** *
18098569 TTCTTTCCTTATATAGCCTTTTTAACTCAACATTAATCCTTTATGTCTTTTCATCTAATTATTTC
195 TTCTTTCCTTATATAGCCCTATTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATTTC
* * * * * *
18098634 AACCCTTCGTATATGACAATCATTAATTTCTTAAACTAGCTTTGTTGGGTAATAATTTCTACCAA
260 AACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATTTCTACCAA
* * * * *
18098699 CAACTCATTCTTACATTTTTCCTATGCTTTGACAATAAACCA-AACTACTCTTGGATTCAAAGGT
325 CAACTCATTCTCAC-TTTTTCCTATGCTTTGATAGTAGA-CATAACTACTCTTGGATTCAAAGAT
* * * * * *
18098763 CTTCATAATCAATTTTTAGGATACCTCCTTATATGAATTT-AGCTTAGTTTCCTTTTTCATCAAC
388 CTTCTTAATCAATTTTTAGGATACCTCTTTGTATGAATTTGA-CTCAATTTCCTTCTTCATCAAC
* ** ** * * * * * *
18098827 AACTATTGAACCGATGAATCCTCATTATAAT-CTTCTATATCCAATTCTATAACCTTCTTTCTTT
452 AACTTTTGAACAAACAAATCCTCATCATCATCCTT-TGTATCAAATTCTATGACCATCTTTCTTT
* * * *
18098891 CTTTATATAGCCCTT-GTAACTCAACATTAATCCTTTATATATTTTCATCTGATTATTTCAACCC
516 CCTTATATAG-CCTTATTAACTCAACATTAATCCTCTAAATATTTTCATCTGATTATTTCAACCC
* * *
18098955 TTCGTATATGGCCATCATTAATTTCTTGAACTAACTTTGCTGGGCAATGATT
580 TTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATT
* * * * * *
18099007 TCTACCATCAACTCATTCTCACTCTTTTCCTTTTCTTTAATAGTAGACATAATTGCTCTTGGATT
1 TCTACCAACAACTCATTCTCACTCTTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
* * *
18099072 CAAAGATCTTCTTAATCAACTTTTATGATATCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTC
66 CAAAGATCTTCTTAATCAATTTTTAAGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTC
* * * * ** *
18099137 ATCAATAACTTTTGAACAAATAAATCCTCATCATCCTTCTACATATCCAATTTTATGACC--C-T
131 ATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTATATCCAATTCTATGACCTTCTT
** *
18099199 TCTTTCCTTATATAGCCCTATTAACTCAACACCAATCCTCTAAATCTTTTCATCT-AGTTATGTC
196 TCTTTCCTTATATAGCCCTATTAACTCAACATTAATCCTCTAAATCTTTTCATCTGA-TTATTTC
* * * * * *
18099263 AACCTTTGGTCTGTGGCAATCATTAATTTCTTGAACTAACTTTATTAGGCAATGACTTCTACCAA
260 AACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATTTCTACCAA
* * * *
18099328 CAACTCATTCTCACTTTTTTCCTATGCTTTGATAGTAAACATAACTACTATTGAATTCAAAGATA
325 CAACTCATTCTCAC-TTTTTCCTATGCTTTGATAGTAGACATAACTACTCTTGGATTCAAAGATC
* * * * *
18099393 TTCTTAATCAATTTTTAAGATACCTCATTGTATGAATTTGACTTAATTTCCTTCTTAATCAATAA
389 TTCTTAATCAATTTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTCTTCATCAACAA
* * ** *
18099458 CTTTTGGACAGACAAATCCTCATCATCATCCTTAATATCAAATTCTAT-A--ACCTTTCTTTCCT
454 CTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCAAATTCTATGACCATCTTTCTTTCCT
* * * * *
18099520 TATATACCCTTATTAATTTAACATTAATCCTCTAAATATTTTCATCTGATTATTTCAGCCCTTCA
519 TATATAGCCTTATTAACTCAACATTAATCCTCTAAATATTTTCATCTGATTATTTCAACCCTTCG
* * *
18099585 TCTATGGCAATCAATAATTTCTTGAACTAACTTTGTTGGCCGATGATT
584 TCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATT
* * * * *
18099633 TCTACTAACACCTCACTCTCACTCTTTTCCTATGCTTTGATAGTAGACATAACTGCTATTGGATT
1 TCTACCAACAACTCATTCTCACTCTTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
* * * * *
18099698 TAAAGATCTTCTTCATCAATTTTTAAGATACCACCTCGTATTAATTTGACTCAGTTTCCTTCTTC
66 CAAAGATCTTCTTAATCAATTTTTAAGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTC
* * * * ** *
18099763 ATCAATAACTTTTGAATAGACAAATTCCTCATCGTCATCCTCAATGTCCAATT-TCATGACCTTC
131 ATCAACAACTTTTGAACAAACAAA-TCCTCATCATCATCCTTTATATCCAATTCT-ATGACCTTC
* * * *
18099827 TTTCTTTCCTTATATAGCCCTATTAAGTAAACATTAATCCTCTAAATCTTTCCATCTGATTTTTT
194 TTTCTTTCCTTATATAGCCCTATTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATTT
** * * * *
18099892 CAACCCTTTATATATGCCAATCATTAATTTCTTGAACTAACATTTTTTGGGCAATGATTTCAACC
259 CAACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAAC-TTTGTTGGGCAATGATTTCTACC
* * * * *
18099957 AACAACTCATTCTCACTCTTTTCTTATGCTTTGAAAGTAGACCTAACTCCTCTTGGATTCAAAGG
323 AACAACTCATTCTCACT-TTTTCCTATGCTTTGATAGTAGACATAACTACTCTTGGATTCAAAGA
*
18100022 TCTTCTTAATCAATTTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTTTTCATCAAC
387 TCTTCTTAATCAATTTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTCTTCATCAAC
* * * * * * **
18100087 AACTATTGAATAGACAAATCCTCATCATAATCCTCTGTATCCAATTCTATGACTTTCTTTCTTTC
452 AACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCAAATTCTATGACCATCTTTCTTTC
* * * * * *
18100152 CTTAAATAGCCTTGTTAACTCAGCATTAATCCTCTAAATCTTTTTATTTGATTATTTCAACCCTT
517 CTTATATAGCCTTATTAACTCAACATTAATCCTCTAAATATTTTCATCTGATTATTTCAACCCTT
* * * * * **
18100217 TGTTTGTGGCAATCATTAACTTCTT-AAGTTAACTTTGTTAAGCAATGATT
582 CGTCTATGGCAATCATTAATTTCTTGAA-CTAACTTTGTTGGGCAATGATT
* * * *
18100267 TCTACCAATAACTCATTCTCACACTTTTCCTATGCTTTGACAGTAGACATAACTGCTTTTAGATT
1 TCTACCAACAACTCATTCTCACTCTTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
* * * **
18100332 TAAAGATCTTCTTAATCAATATTTAAGACACCTATTTGTATGAATTTGACTCAGTTTCCTTCTTC
66 CAAAGATCTTCTTAATCAATTTTTAAGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTC
** * * *
18100397 ATCATTAACTTTTGAACAAACAAATCCTAATCATCATCCTTTCTATCCAATTCAATGACCTTCTT
131 ATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTATATCCAATTCTATGACCTTCTT
* ** ** * *
18100462 TCTTTCCTTATATAACTGTAACAACTCAAAATTAATCCTCTAAATCTATTCATCTGATTATTTCA
196 TCTTTCCTTATATAGCCCTATTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATTTCA
* * * * * * * * *
18100527 ACCCTTGGTCTATGGGAAACATTAGTTTCTTGAACTAACTTTCTTGGGTAATGATTTTTGCCAAT
261 ACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATTTCTACCAAC
* * * * * *
18100592 AACTCATTCTCACTCTTTTACTATGCATTGATGGTCGACATAACTACTTTTGGATTCCAAGATCT
326 AACTCATTCTCACT-TTTTCCTATGCTTTGATAGTAGACATAACTACTCTTGGATTCAAAGATCT
* * * *
18100657 TTTTAATCAA-TTTTACGATACCTCTTTGTATGAATTTGACTCAGTTTCTTTCTTCATCAACAAC
390 TCTTAATCAATTTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTCTTCATCAACAAC
* *
18100721 TTTTAAACAAACAAATCCTAATCATCATCCTTTGTATCAAATTCTATGACCATCTTTCTTTCCTT
455 TTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCAAATTCTATGACCATCTTTCTTTCCTT
* * * * *
18100786 ATATAACCTTATTAACACAACATTAATCCTCTAAATCTTTTAATCTAATTATTTCAACCCTTCGT
520 ATATAGCCTTATTAACTCAACATTAATCCTCTAAATATTTTCATCTGATTATTTCAACCCTTCGT
* * * *
18100851 CTATGACAATCATTAATTTCTTGGA-GAGACTTTGTTGGGAAATGATT
585 CTATGGCAATCATTAATTTCTTGAACTA-ACTTTGTTGGGCAATGATT
* * *
18100898 TCTACCAACAACTCATTCTCACTTTTTTCCTATGCTTTGACAGTAGACATCACTGCTCTTAGATT
1 TCTACCAACAACTCATTCTCACTCTTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
* *
18100963 CAAAGATCTCCTTAATCAATTTTTAAGGTACCTCCTAT-TATGAATTTGACTCAGTTTCCTTC-T
66 CAAAGATCTTCTTAATCAATTTTTAAGATACCTCCT-TGTATGAATTTGACTCAGTTTCCTTCTT
* * * * * *
18101026 CAATCAACAACTTTTGAACAGACAAATCCTAATCATCATCCTATGTATCCAATTTTAT-AGCTTT
130 C-ATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTATATCCAATTCTATGA-CCTT
* * * * * * *
18101090 CTTTCTTTCTTTATATAGCCCTACTAACACAACATTAACCCACTAAATATTTTCATCTAATTATT
193 CTTTCTTTCCTTATATAGCCCTATTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATT
* * * * *
18101155 TTAATCCTTTGTCTATGGCAATCATTACTTTCTTGAACTACCTTTGTTGGGCAATGATTTCTACC
258 TCAACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATTTCTACC
* * * * *
18101220 AAGAACTCATTCTCACTTTTTCCTATGCTTTAACAGTAGACATAACTGCTTTTGGATTCAAAGAT
323 AACAACTCATTCTCACTTTTTCCTATGCTTTGATAGTAGACATAACTACTCTTGGATTCAAAGAT
*
18101285 CTTCTTAATCAATTTTTAGGATACCTCTTTATATGAATTTGACTCAATTTCCTTCTTCATCAACA
388 CTTCTTAATCAATTTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTCTTCATCAACA
* * * ** *
18101350 AATTTTGAACAAACAAATCTTCAACATCATCCTTTGTATTTAATTATATGA-CATTCTTTCTTTC
453 ACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCAAATTCTATGACCA-TCTTTCTTTC
* * * * * *
18101414 CTTATATAGCCTTATTAACTCAAGATTAATTCTTTAAATCTTTTTATCTAATTATTTCAACCAC-
517 CTTATATAGCCTTATTAACTCAACATTAATCCTCTAAATATTTTCATCTGATTATTTCAACC-CT
* * *
18101478 TCGTCCATGGAAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATA
581 TCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATT
* * *
18101529 TCGACCAACAACTCATTCTCAATTTTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
1 TCTACCAACAACTCATTCTCACTCTTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
* * * * *
18101594 TAATGATCTTTTTAATCAATTTTTAGGATACC-CCTTTGTATGAATTTGACTCAATTTCCTT-TT
66 CAAAGATCTTCTTAATCAATTTTTAAGATACCTCC-TTGTATGAATTTGACTCAGTTTCCTTCTT
* * * *
18101657 ACATCAGCAACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCTAATTCTATGACATTC
130 -CATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTATATCCAATTCTATGACCTTC
* * * * *
18101722 TTTCTTTTCTTATATAGCTCTATTAACTCAACATTAATCCTCTAAATCCTTTCATTTGACT-TTT
194 TTTCTTTCCTTATATAGCCCTATTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATTT
** ** * **
18101786 CAACAGTTCGTCTATCACAATCATTAATTTCTTGAACTAAATTTGTTGGGCAATGATTTCTATGA
259 CAACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATTTCTACCA
* * *
18101851 ACAACTCATTCTCACTATTTTCCTATCCTTTGATAAT-GA-ATAACTGCTCTTGGATTCAAAGAT
324 ACAACTCATTCTCACT-TTTTCCTATGCTTTGATAGTAGACATAACTACTCTTGGATTCAAAGAT
* * *
18101914 TTTCATAATCAATTTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTCTTCATTAACA
388 CTTCTTAATCAATTTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTCTTCATCAACA
* * * * *
18101979 ACTTTTGAGCAAACAAATCCTTATCATCATCCTTTGTATTAAATTCTATGACCTTCTTTCTTTCT
453 ACTTTTGAACAAACAAATCCTCATCATCATCCTTTGTATCAAATTCTATGACCATCTTTCTTTCC
* * * * * * *
18102044 TTATATAGCCCTAATAACACAACATTAATCTTCTAAATATTTCCATCTTATTATTTCAACCCTTT
518 TTATATAGCCTTATTAACTCAACATTAATCCTCTAAATATTTTCATCTGATTATTTCAACCCTTC
* * * * *
18102109 GTTTATGGCAA-C---CA--TCTGGAACGAACTTTGTTAGGCAATGATT
583 GTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATT
* *
18102152 TCTACCAACAACTCATTCTCACT-TTGTTTCTATGCTTTGACAGTAGACATAA-TACGTCTTGGA
1 TCTACCAACAACTCATTCTCACTCTT-TTCCTATGCTTTGACAGTAGACATAACTGC-TCTTGGA
* * * *
18102215 TTCAAAGA---TCTTAATAAATTTTTAAGATACCTTCTTGAATGAATTTTACTCA
64 TTCAAAGATCTTCTTAATCAATTTTTAAGATACCTCCTTGTATGAATTTGACTCA
18102267 TTTTTTTTGT
Statistics
Matches: 2778, Mismatches: 443, Indels: 90
0.84 0.13 0.03
Matches are distributed among these distances:
620 36 0.01
621 1 0.00
622 4 0.00
623 84 0.03
625 5 0.00
626 239 0.09
627 28 0.01
628 6 0.00
629 450 0.16
630 230 0.08
631 1086 0.39
632 248 0.09
633 126 0.05
634 235 0.08
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (631 bp):
TCTACCAACAACTCATTCTCACTCTTTTCCTATGCTTTGACAGTAGACATAACTGCTCTTGGATT
CAAAGATCTTCTTAATCAATTTTTAAGATACCTCCTTGTATGAATTTGACTCAGTTTCCTTCTTC
ATCAACAACTTTTGAACAAACAAATCCTCATCATCATCCTTTATATCCAATTCTATGACCTTCTT
TCTTTCCTTATATAGCCCTATTAACTCAACATTAATCCTCTAAATCTTTTCATCTGATTATTTCA
ACCCTTCGTCTATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATTTCTACCAAC
AACTCATTCTCACTTTTTCCTATGCTTTGATAGTAGACATAACTACTCTTGGATTCAAAGATCTT
CTTAATCAATTTTTAGGATACCTCTTTGTATGAATTTGACTCAATTTCCTTCTTCATCAACAACT
TTTGAACAAACAAATCCTCATCATCATCCTTTGTATCAAATTCTATGACCATCTTTCTTTCCTTA
TATAGCCTTATTAACTCAACATTAATCCTCTAAATATTTTCATCTGATTATTTCAACCCTTCGTC
TATGGCAATCATTAATTTCTTGAACTAACTTTGTTGGGCAATGATT
Found at i:18106709 original size:316 final size:315
Alignment explanation
Indices: 18106128--18106936 Score: 960
Period size: 316 Copynumber: 2.6 Consensus size: 315
18106118 GTTGCATTTT
* * * *
18106128 TTCTTCATCAGCAACTTTTGAACAGACAAATCCTCACCATCATCCTCTATATCCAATTCTATGAT
1 TTCTTCATCAACAACTTTTGAATAGACAAATCCTCATCATCATCCTCTATATCCAATTCTATGAC
* * *
18106193 CTTCTTTCTTTCCTTATATAGCCCTATCAGCTCAACATTAATCCTTTAAATCTTTTCATCTCATT
66 CTTCTTTCTTTCCTTATATAGCCCTATTAACTCAACATTAATCCTTTAAATCTTTTCATCTGATT
* * ** * * * * *
18106258 TTTTCAATTCTTTGTCTATGGTAATCACTAATTTCTTGAGCTAACTCTGTTGGACAATGATTTCT
131 ATTTCAA-CCTTCATCTATGGCAATCATTAATTTCTTGAACTAACTCTGTTGGACAATAATGTCT
* * ** * *
18106323 ATCAACAACGCATTCTCACTCTTTTCCTATGTTTTCATAGAAGACATAACTGTTTTTGGATTCAA
195 ATCAACAACGCATGCTCACTATTTTCCTATGTTGACATAGAAGACATAACTGCTCTTGGATTCAA
*
18106388 AGATCTTCTTAATCAATTTTTAGGAAACCTCCTTGTATGAATAGGACTCAATTTCC
260 AGATCTTCTTAATCAATTTTTAAGAAACCTCCTTGTATGAATAGGACTCAATTTCC
* *
18106444 TTTTTCATCAACAACTTTTGAATAGACAAATCCTCTTCATCATCCTCTATATCCAATTCTATGAC
1 TTCTTCATCAACAACTTTTGAATAGACAAATCCTCATCATCATCCTCTATATCCAATTCTATGAC
* * *
18106509 CTTTTTTCTTTCCTTATATAGCTCTATTAACTCAACATTAATCCTTTAAATCTTTTCATCGGATT
66 CTTCTTTCTTTCCTTATATAGCCCTATTAACTCAACATTAATCCTTTAAATCTTTTCATCTGATT
* * **
18106574 ATTTCAACCATTCATCTATGGCAATCATTAATTTCTTGAACTAATTTTGTTTGG-TGATAATGTC
131 ATTTCAACC-TTCATCTATGGCAATCATTAATTTCTTGAACTAACTCTG-TTGGACAATAATGTC
* *** * *
18106638 TA-CAAATAACTTGTGCTCACTATTTTCTTATGCTTAGACA-ATAA-ACATAACTGCTCTTGGAT
194 TATC-AACAACGCATGCTCACTATTTTCCTATG-TT-GACATAGAAGACATAACTGCTCTTGGAT
* * ***
18106700 TCGAAGATCTTCTTAATCAATTTTTAAGATACCTCCTTGTATGAATTTTACTCAATTTCC
256 TCAAAGATCTTCTTAATCAATTTTTAAGAAACCTCCTTGTATGAATAGGACTCAATTTCC
* * * * * * * *
18106760 TTCTTCATCAACAACTTTTGAATAAACTAATTCTCATCGTAATCTTCTGTATCCAATTCTATGGC
1 TTCTTCATCAACAACTTTTGAATAGACAAATCCTCATCATCATCCTCTATATCCAATTCTATGAC
* * * * * * * * * *
18106825 CTTCTTTCTTTCTTTACATAACCCTGTTAATTCAACATTAATGCTCTAACTCTTTTTATTTGATT
66 CTTCTTTCTTTCCTTATATAGCCCTATTAACTCAACATTAATCCTTTAAATCTTTTCATCTGATT
*
18106890 ATTTCAACCCTTCATCTAATGGCAATCATTAATTTCATGAACTAACT
131 ATTTCAA-CCTTCATCT-ATGGCAATCATTAATTTCTTGAACTAACT
18106937 TCATTAGGTA
Statistics
Matches: 418, Mismatches: 68, Indels: 13
0.84 0.14 0.03
Matches are distributed among these distances:
315 2 0.00
316 376 0.90
317 38 0.09
318 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (315 bp):
TTCTTCATCAACAACTTTTGAATAGACAAATCCTCATCATCATCCTCTATATCCAATTCTATGAC
CTTCTTTCTTTCCTTATATAGCCCTATTAACTCAACATTAATCCTTTAAATCTTTTCATCTGATT
ATTTCAACCTTCATCTATGGCAATCATTAATTTCTTGAACTAACTCTGTTGGACAATAATGTCTA
TCAACAACGCATGCTCACTATTTTCCTATGTTGACATAGAAGACATAACTGCTCTTGGATTCAAA
GATCTTCTTAATCAATTTTTAAGAAACCTCCTTGTATGAATAGGACTCAATTTCC
Found at i:18111106 original size:90 final size:90
Alignment explanation
Indices: 18110982--18111310 Score: 468
Period size: 90 Copynumber: 3.7 Consensus size: 90
18110972 CAACAGCCAG
* *
18110982 GTTGTTAAAGAACGTTTCCCCGAGACAACACCTCAAAAAGAATCCAGCAGCAACCATGGAGAACT
1 GTTGTTAAAGAACTTTTCCCCGAGACAACACCTCAAAAAGAATCCAGCAACAACCATGGAGAACT
18111047 TTCAGCATCTCCTTTAAATAACCAA
66 TTCAGCATCTCCTTTAAATAACCAA
*
18111072 GTTGTTAAAGACCTTTTCCCCGAGACAACACCTCAAAAAGAATCCAGCAACAACCATGGAGAACT
1 GTTGTTAAAGAACTTTTCCCCGAGACAACACCTCAAAAAGAATCCAGCAACAACCATGGAGAACT
* **
18111137 TCCAGCATCTCCTTTAAATAACCGG
66 TTCAGCATCTCCTTTAAATAACCAA
*
18111162 GTTGTTAAA-AACCTTTTCCCCGAGACAACACCTC-AAAAGAATCCAGCAGCAACCATGGAGAAC
1 GTTGTTAAAGAA-CTTTTCCCCGAGACAACACCTCAAAAAGAATCCAGCAACAACCATGGAGAAC
* ** * * *
18111225 -TTCTAGCACCTCCAATCAACAACTAA
65 TTTC-AGCATCTCCTTTAAATAACCAA
* *
18111251 GTTGTTAACA-AACTTTTCCCCGAGACAACACCTCAAAAAGAATCCATCAACAACTATGGA
1 GTTGTTAA-AGAACTTTTCCCCGAGACAACACCTCAAAAAGAATCCAGCAACAACCATGGA
18111311 AAACAATCAC
Statistics
Matches: 215, Mismatches: 20, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
88 2 0.01
89 73 0.34
90 140 0.65
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.21
Consensus pattern (90 bp):
GTTGTTAAAGAACTTTTCCCCGAGACAACACCTCAAAAAGAATCCAGCAACAACCATGGAGAACT
TTCAGCATCTCCTTTAAATAACCAA
Found at i:18111282 original size:179 final size:180
Alignment explanation
Indices: 18110981--18111310 Score: 515
Period size: 179 Copynumber: 1.8 Consensus size: 180
18110971 TCAACAGCCA
18110981 GGTTGTTAAAGAACGTTTCCCCGAGACAACACCTCAAAAAGAATCCAGCAGCAACCATGGAGAAC
1 GGTTGTTAAAGAACGTTTCCCCGAGACAACACCTCAAAAAGAATCCAGCAGCAACCATGGAGAAC
* ** * *
18111046 TTTCAGCATCTCCTTTAAATAACCAAGTTGTTAAAGACCTTTTCCCCGAGACAACACCTCAAAAA
66 TTTCAGCACCTCCAATAAACAACCAAGTTGTTAAAGAACTTTTCCCCGAGACAACACCTCAAAAA
18111111 GAATCCAGCAACAACCATGGAGAACTTCCAGCATCTCCTTTAAATAACCG
131 GAATCCAGCAACAACCATGGAGAACTTCCAGCATCTCCTTTAAATAACCG
*
18111161 GGTTGTTAAA-AACCTTTTCCCCGAGACAACACCTC-AAAAGAATCCAGCAGCAACCATGGAGAA
1 GGTTGTTAAAGAA-CGTTTCCCCGAGACAACACCTCAAAAAGAATCCAGCAGCAACCATGGAGAA
* *
18111224 C-TTCTAGCACCTCCAATCAACAACTAAGTTGTTAACA-AACTTTTCCCCGAGACAACACCTCAA
65 CTTTC-AGCACCTCCAATAAACAACCAAGTTGTTAA-AGAACTTTTCCCCGAGACAACACCTCAA
* *
18111287 AAAGAATCCATCAACAACTATGGA
128 AAAGAATCCAGCAACAACCATGGA
18111311 AAACAATCAC
Statistics
Matches: 137, Mismatches: 10, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
178 3 0.02
179 102 0.74
180 32 0.23
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (180 bp):
GGTTGTTAAAGAACGTTTCCCCGAGACAACACCTCAAAAAGAATCCAGCAGCAACCATGGAGAAC
TTTCAGCACCTCCAATAAACAACCAAGTTGTTAAAGAACTTTTCCCCGAGACAACACCTCAAAAA
GAATCCAGCAACAACCATGGAGAACTTCCAGCATCTCCTTTAAATAACCG
Found at i:18114169 original size:25 final size:25
Alignment explanation
Indices: 18114141--18114204 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
18114131 ACTTGAAGTG
*
18114141 ATATTTTTTTCCATCCAATTCAATA
1 ATATTTTTTTCCACCCAATTCAATA
*
18114166 ATATTTTTTTCCACCCAATTCAATG
1 ATATTTTTTTCCACCCAATTCAATA
* *
18114191 ACATTTTCTTCCAC
1 ATATTTTTTTCCAC
18114205 TTAATCTATC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.28, C:0.25, G:0.02, T:0.45
Consensus pattern (25 bp):
ATATTTTTTTCCACCCAATTCAATA
Found at i:18116051 original size:2 final size:2
Alignment explanation
Indices: 18116044--18116069 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18116034 CGAATAATCA
18116044 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
18116070 GTGACATCGT
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:18118424 original size:22 final size:23
Alignment explanation
Indices: 18118388--18118434 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
18118378 GTCAAGTTAA
*
18118388 ATTTTAGTTTTAATTA-ATC-AT
1 ATTTTAGTCTTAATTATATCGAT
18118409 ATTTTATGTCTTAATTATATCGAT
1 ATTTTA-GTCTTAATTATATCGAT
18118433 AT
1 AT
18118435 AATTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 9 0.41
23 3 0.14
24 4 0.18
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (23 bp):
ATTTTAGTCTTAATTATATCGAT
Found at i:18121088 original size:30 final size:32
Alignment explanation
Indices: 18121054--18121123 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 32
18121044 CTATATGGTG
*
18121054 TAGGCATTTC-CTAAATTACATAACAT-T-GGA
1 TAGGCATTTCAC-AAATCACATAACATATAGGA
*
18121084 TAGGCATTTCACAAATCACATGACATATAGGA
1 TAGGCATTTCACAAATCACATAACATATAGGA
18121116 TAGGCATT
1 TAGGCATT
18121124 CTTACGACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 22 0.63
31 2 0.06
32 11 0.31
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (32 bp):
TAGGCATTTCACAAATCACATAACATATAGGA
Found at i:18139691 original size:35 final size:35
Alignment explanation
Indices: 18139657--18139842 Score: 165
Period size: 35 Copynumber: 5.5 Consensus size: 35
18139647 TGGCTTTTAC
* *
18139657 CAGGCTTAGCCAAAACCTTTCATAATGGTTTTT-A
1 CAGGCTCAACCAAAACCTTTCATAATGGTTTTTCA
* *
18139691 CCGGGATCAACCAAAACC---CA-AAGTGGTTTTTCA
1 -CAGGCTCAACCAAAACCTTTCATAA-TGGTTTTTCA
* *
18139724 AAGGCTCAACCAAAACCTTTCATAGTGGTTTTTCA
1 CAGGCTCAACCAAAACCTTTCATAATGGTTTTTCA
18139759 CAGGCTCAACCAAAACC---CA-AAGTGGTTTTTCA
1 CAGGCTCAACCAAAACCTTTCATAA-TGGTTTTTCA
* * * * *
18139791 AAGGCTCAACCACAACCTATAACAATGGTTTTTCA
1 CAGGCTCAACCAAAACCTTTCATAATGGTTTTTCA
* *
18139826 CGGGATCAACCAAAACC
1 CAGGCTCAACCAAAACC
18139843 CAACAACTAA
Statistics
Matches: 123, Mismatches: 17, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
31 3 0.02
32 51 0.41
33 1 0.01
35 65 0.53
36 3 0.02
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (35 bp):
CAGGCTCAACCAAAACCTTTCATAATGGTTTTTCA
Found at i:18139733 original size:32 final size:32
Alignment explanation
Indices: 18139697--18139845 Score: 172
Period size: 35 Copynumber: 4.5 Consensus size: 32
18139687 TTTACCGGGA
18139697 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* *
18139729 TCAACCAAAACCTTTCATAGTGGTTTTTCACAGGC
1 TCAACCAAAACC---CAAAGTGGTTTTTCAAAGGC
18139764 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* * * ** *
18139796 TCAACCACAACCTATAACAATGGTTTTTCACGGGA
1 TCAACCAAAACC--CAA-AGTGGTTTTTCAAAGGC
18139831 TCAACCAAAACCCAA
1 TCAACCAAAACCCAA
18139846 CAACTAACTT
Statistics
Matches: 99, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
32 41 0.41
33 2 0.02
34 2 0.02
35 54 0.55
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.23
Consensus pattern (32 bp):
TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
Found at i:18139768 original size:67 final size:67
Alignment explanation
Indices: 18139666--18139845 Score: 281
Period size: 67 Copynumber: 2.7 Consensus size: 67
18139656 CCAGGCTTAG
18139666 CCAAAACCTTTCATAATGGTTTTT-ACCGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCT
1 CCAAAACCTTTCATAATGGTTTTTCA-CGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCT
18139730 CAA
65 CAA
* * *
18139733 CCAAAACCTTTCATAGTGGTTTTTCACAGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTC
1 CCAAAACCTTTCATAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTC
18139798 AA
66 AA
* * * *
18139800 CCACAACCTATAACAATGGTTTTTCACGGGATCAACCAAAACCCAA
1 CCAAAACCTTTCATAATGGTTTTTCACGGGATCAACCAAAACCCAA
18139846 CAACTAACTT
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
67 101 0.99
68 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (67 bp):
CCAAAACCTTTCATAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTC
AA
Found at i:18140731 original size:17 final size:17
Alignment explanation
Indices: 18140709--18140745 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
18140699 AAATGGGGAT
18140709 TGCTCCCCCTAAGTGTG
1 TGCTCCCCCTAAGTGTG
**
18140726 TGCTCCCCCTTGGTGTG
1 TGCTCCCCCTAAGTGTG
18140743 TGC
1 TGC
18140746 ATTTTTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.05, C:0.35, G:0.27, T:0.32
Consensus pattern (17 bp):
TGCTCCCCCTAAGTGTG
Found at i:18150418 original size:32 final size:32
Alignment explanation
Indices: 18150382--18150530 Score: 156
Period size: 35 Copynumber: 4.5 Consensus size: 32
18150372 TTTATCGAGA
18150382 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* *
18150414 TCAACCACAACCTTTCATAA-TGGTTTTTCATAGGC
1 TCAACCAAAACC---CA-AAGTGGTTTTTCAAAGGC
*
18150449 TCAACCAAAACCCAAAGTGGTTTTTCAAAAGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* * ** *
18150481 TCAACCACAACCTACAACAATGGTTTTTCACGGGA
1 TCAACCAAAACC--CAA-AGTGGTTTTTCAAAGGC
18150516 TCAACCAAAACCCAA
1 TCAACCAAAACCCAA
18150531 CAACCAACTT
Statistics
Matches: 97, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
31 2 0.02
32 37 0.38
33 3 0.03
34 3 0.03
35 50 0.52
36 2 0.02
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.23
Consensus pattern (32 bp):
TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
Found at i:18150463 original size:67 final size:67
Alignment explanation
Indices: 18150355--18150530 Score: 248
Period size: 67 Copynumber: 2.6 Consensus size: 67
18150345 GCTTAGCCAA
* * *
18150355 AACCTTTCACAATAGTTTTT-ATCGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
1 AACCTTTCACAATGGTTTTTCATAG-GATCAACCAAAACCCAAAGTGGTTTTTCAAAAGCTCAAC
18150419 CAC
65 CAC
* *
18150422 AACCTTTCATAATGGTTTTTCATAGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAAGCTCAACC
1 AACCTTTCACAATGGTTTTTCATAGGATCAACCAAAACCCAAAGTGGTTTTTCAAAAGCTCAACC
18150487 AC
66 AC
* **
18150489 AACC-TACAACAATGGTTTTTCACGGGATCAACCAAAACCCAA
1 AACCTTTC-ACAATGGTTTTTCATAGGATCAACCAAAACCCAA
18150531 CAACCAACTT
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
66 2 0.02
67 92 0.95
68 3 0.03
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCATAGGATCAACCAAAACCCAAAGTGGTTTTTCAAAAGCTCAACC
AC
Found at i:18152259 original size:36 final size:34
Alignment explanation
Indices: 18152219--18152311 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 34
18152209 AGAAATGTGT
*
18152219 TTTTTACAAGATCAAGCATTAAACTCTCACAATAGC
1 TTTTTACAAGATCAACCA-T-AACTCTCACAATAGC
* * *
18152255 TTTTTACGAGATCAACCATAACTCTTACAATGGC
1 TTTTTACAAGATCAACCATAACTCTCACAATAGC
* * * *
18152289 TTTTCATAGGAGCAACCATAACT
1 TTTTTACAAGATCAACCATAACT
18152312 TAAACAATGG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
34 31 0.65
35 1 0.02
36 16 0.33
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (34 bp):
TTTTTACAAGATCAACCATAACTCTCACAATAGC
Found at i:18152285 original size:34 final size:36
Alignment explanation
Indices: 18152219--18152292 Score: 98
Period size: 34 Copynumber: 2.1 Consensus size: 36
18152209 AGAAATGTGT
*
18152219 TTTTTACAAGATCAAGCATTAAACTCTCACAATAGC
1 TTTTTACAAGATCAACCATTAAACTCTCACAATAGC
* * *
18152255 TTTTTACGAGATCAACCA-T-AACTCTTACAATGGC
1 TTTTTACAAGATCAACCATTAAACTCTCACAATAGC
18152289 TTTT
1 TTTT
18152293 CATAGGAGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 17 0.50
35 1 0.03
36 16 0.47
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (36 bp):
TTTTTACAAGATCAACCATTAAACTCTCACAATAGC
Found at i:18152305 original size:34 final size:34
Alignment explanation
Indices: 18152247--18152339 Score: 109
Period size: 34 Copynumber: 2.7 Consensus size: 34
18152237 TTAAACTCTC
* * * * *
18152247 ACAATAGCTTTTTACGAGATCAACCATAACTCT-T
1 ACAATGGCTTTTCATGAGAGCAACCATAACT-TAA
18152281 ACAATGGCTTTTCAT-AGGAGCAACCATAACTTAA
1 ACAATGGCTTTTCATGA-GAGCAACCATAACTTAA
18152315 ACAATGGCTTTTCATGAGAGCAACC
1 ACAATGGCTTTTCATGAGAGCAACC
18152340 GTAAACCATG
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
33 2 0.04
34 48 0.94
35 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (34 bp):
ACAATGGCTTTTCATGAGAGCAACCATAACTTAA
Found at i:18162668 original size:14 final size:14
Alignment explanation
Indices: 18162649--18162675 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18162639 AACATAATTA
18162649 TAATATTTTTCAAT
1 TAATATTTTTCAAT
18162663 TAATATTTTTCAA
1 TAATATTTTTCAA
18162676 CATAATTATA
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:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (14 bp):
TAATATTTTTCAAT
Found at i:18162681 original size:15 final size:14
Alignment explanation
Indices: 18162648--18162681 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18162638 CAACATAATT
18162648 ATAATATTTTTCAA
1 ATAATATTTTTCAA
*
18162662 TTAATATTTTTCAA
1 ATAATATTTTTCAA
18162676 CATAAT
1 -ATAAT
18162682 TATAATGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAATATTTTTCAA
Found at i:18195427 original size:16 final size:17
Alignment explanation
Indices: 18195402--18195436 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
18195392 CTGGTCTCAC
*
18195402 ATTATGATAATTAA-GA
1 ATTATCATAATTAATGA
18195418 ATTATCATAATTAATGA
1 ATTATCATAATTAATGA
18195435 AT
1 AT
18195437 AAAAACAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.40
Consensus pattern (17 bp):
ATTATCATAATTAATGA
Found at i:18201428 original size:2 final size:2
Alignment explanation
Indices: 18201421--18201447 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18201411 GAAAAAGATG
18201421 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
18201448 CTTAGAGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18212107 original size:13 final size:13
Alignment explanation
Indices: 18212089--18212113 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18212079 GAACCAATTT
18212089 AGTCGACTAAGTC
1 AGTCGACTAAGTC
18212102 AGTCGACTAAGT
1 AGTCGACTAAGT
18212114 GCTCTCTGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (13 bp):
AGTCGACTAAGTC
Found at i:18218435 original size:13 final size:13
Alignment explanation
Indices: 18218417--18218441 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18218407 ATTTTCAAAA
18218417 ATTTTATAAAATT
1 ATTTTATAAAATT
18218430 ATTTTATAAAAT
1 ATTTTATAAAAT
18218442 CCCATTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:18219656 original size:29 final size:29
Alignment explanation
Indices: 18219595--18219658 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
18219585 GTAAATTTTT
** *
18219595 AAAAATTACACTTTTGCCCCCGTAAAGTG
1 AAAAATTACACTTTTGCCCCCAAAAACTG
*
18219624 AAAAATTACATTTTTG-CCCCAAAAACTG
1 AAAAATTACACTTTTGCCCCCAAAAACTG
18219652 AAAAATT
1 AAAAATT
18219659 GCCCATAGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.28
Consensus pattern (29 bp):
AAAAATTACACTTTTGCCCCCAAAAACTG
Found at i:18223211 original size:13 final size:13
Alignment explanation
Indices: 18223193--18223217 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18223183 ATTTTCAAAA
18223193 ATTTTATAAAATT
1 ATTTTATAAAATT
18223206 ATTTTATAAAAT
1 ATTTTATAAAAT
18223218 CTCATTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:18239367 original size:16 final size:16
Alignment explanation
Indices: 18239329--18239361 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
18239319 GGTATATATA
18239329 TTTAT-AATTAATAAT
1 TTTATAAATTAATAAT
18239344 TTTATAAATT-ATAAT
1 TTTATAAATTAATAAT
18239359 TTT
1 TTT
18239362 TGTAAAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTATAAATTAATAAT
Found at i:18240028 original size:11 final size:11
Alignment explanation
Indices: 18239995--18240028 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
18239985 TTTAATTATC
18239995 TATTATATAAA
1 TATTATATAAA
18240006 TATTA-ATAAAA
1 TATTATAT-AAA
18240017 TATTATATAAA
1 TATTATATAAA
18240028 T
1 T
18240029 GGGTATAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 2 0.10
11 17 0.81
12 2 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTATATAAA
Found at i:18247137 original size:6 final size:6
Alignment explanation
Indices: 18247114--18247166 Score: 70
Period size: 6 Copynumber: 8.8 Consensus size: 6
18247104 AGCCACTAAC
* * * *
18247114 ATATAC ATACAT ACATAT GTATAT ATATAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
18247162 ATATA
1 ATATA
18247167 GTAGTAGNNN
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (6 bp):
ATATAT
Found at i:18247140 original size:4 final size:4
Alignment explanation
Indices: 18247114--18247166 Score: 70
Period size: 4 Copynumber: 13.2 Consensus size: 4
18247104 AGCCACTAAC
* * * *
18247114 ATAT ACAT ACAT ACAT ATGT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
18247162 ATAT A
1 ATAT A
18247167 GTAGTAGNNN
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (4 bp):
ATAT
Found at i:18248439 original size:2 final size:2
Alignment explanation
Indices: 18248432--18248486 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
18248422 NNNNNNNNNN
*
18248432 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
18248474 AA AG AA AG AG AG A
1 AG AG AG AG AG AG A
18248487 ATAATGAGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18260573 original size:73 final size:73
Alignment explanation
Indices: 18260462--18260626 Score: 179
Period size: 73 Copynumber: 2.2 Consensus size: 73
18260452 GACTTACATA
* * * * * *
18260462 CTTCTTAGTCATTAAGTCATCTTTGTCTTCTAATCCTAGTTTCTGGCAATGAGCTCTTAATCGAC
1 CTTCTTAGTCATTAAGTTATCTCTGTCTTCTAAACCTAGTTTCTGACAATAAGCACTTAATCGAC
18260527 TAACAATG
66 TAACAATG
* * * * * * *
18260535 CTTCTCAGTCGATTAAGTTGTCTCTGTC-TCTAAACCTAGTTTTTGATAGTAAGCACTTAGTTGA
1 CTTCTTAGTC-ATTAAGTTATCTCTGTCTTCTAAACCTAGTTTCTGACAATAAGCACTTAATCGA
*
18260599 CTAACCATG
65 CTAACAATG
18260608 CTTCTTAGTCCATTAAGTT
1 CTTCTTAGT-CATTAAGTT
18260627 CCTTCTATCT
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
73 60 0.80
74 15 0.20
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (73 bp):
CTTCTTAGTCATTAAGTTATCTCTGTCTTCTAAACCTAGTTTCTGACAATAAGCACTTAATCGAC
TAACAATG
Found at i:18260676 original size:74 final size:73
Alignment explanation
Indices: 18260513--18260687 Score: 174
Period size: 73 Copynumber: 2.4 Consensus size: 73
18260503 TCTGGCAATG
* * * * * *
18260513 AGCTCTTAATCGACTAACAATGCTTCTCAGTCGATTAAGTTGTCTCTGTCTCTAAACCTAGTTTT
1 AGCTCTTAGTCGACTAACCATGCTTCTCAGTCCATTAAGTTCTCTCTATCTCTAAACCTAGTTTA
18260578 TGATAGTA
66 TGATAGTA
* * * * *
18260586 AGCACTTAGTTGACTAACCATGCTTCTTAGTCCATTAAGTTC-CTTCTATCT-TGTAATCTAGAT
1 AGCTCTTAGTCGACTAACCATGCTTCTCAGTCCATTAAGTTCTC-TCTATCTCT-AAACCTAG-T
*
18260649 TTATGGTAGTA
63 TTATGATAGTA
* * *
18260660 GGCTCTTAGTCGACTAATCATCCTTCTC
1 AGCTCTTAGTCGACTAACCATGCTTCTC
18260688 GGTTGACTAA
Statistics
Matches: 81, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
72 2 0.02
73 47 0.58
74 32 0.40
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.39
Consensus pattern (73 bp):
AGCTCTTAGTCGACTAACCATGCTTCTCAGTCCATTAAGTTCTCTCTATCTCTAAACCTAGTTTA
TGATAGTA
Found at i:18261900 original size:25 final size:25
Alignment explanation
Indices: 18261845--18261902 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
18261835 ATGTGTATAA
* *
18261845 ATGTTCAAGAAAAATAGCATTTATG
1 ATGTTCAAGAAAAATAGCATTAAAG
* *
18261870 AAGTTCAAGAAAGATAAGCA-TAAAG
1 ATGTTCAAGAAAAAT-AGCATTAAAG
18261895 ATGTTCAA
1 ATGTTCAA
18261903 TAAGCACATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (25 bp):
ATGTTCAAGAAAAATAGCATTAAAG
Found at i:18262680 original size:23 final size:23
Alignment explanation
Indices: 18262654--18262711 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 23
18262644 TCATTAGTCT
* *
18262654 TCAAGCATTATTCTCAATTATCA
1 TCAAGCATTATTATCAATCATCA
18262677 TCAAG---TATTATCAATCATCA
1 TCAAGCATTATTATCAATCATCA
18262697 TCAAGCATTCATTAT
1 TCAAGCATT-ATTAT
18262712 TTATTCCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 18 0.62
23 6 0.21
24 5 0.17
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (23 bp):
TCAAGCATTATTATCAATCATCA
Found at i:18266604 original size:21 final size:22
Alignment explanation
Indices: 18266558--18266607 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
18266548 ATGCTAAATC
*
18266558 TTCAAAAGCATCATGTAATTCG
1 TTCAAAAGCATCATGTAATTAG
18266580 -TCAAAAGCAT-ATG-AATTAAG
1 TTCAAAAGCATCATGTAATT-AG
18266600 TTCAAAAG
1 TTCAAAAG
18266608 ATGAAGAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 4 0.16
21 17 0.68
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (22 bp):
TTCAAAAGCATCATGTAATTAG
Found at i:18268064 original size:73 final size:72
Alignment explanation
Indices: 18267943--18268124 Score: 229
Period size: 73 Copynumber: 2.5 Consensus size: 72
18267933 GACAGAATAT
* * * * * * * *
18267943 TCTTAGTCGACTAACATACTTCTTAGTCGATTTAGTCATCTCTATCTCTGATCCCAGTTTCTGGT
1 TCTTAGTTGACTAACATGCTTTTTAGTCGATTAAGTCATCTCTATCTCTAAACACAGTTTCTGGG
*
18268008 AGTGAGC
66 AGTAAGC
* * *
18268015 TCTTAGTTGACTAACAATGCTTTTTAGTCGATTAAGTCATCTCTGTCTCTAAACATAGTTTTTGG
1 TCTTAGTTGACTAAC-ATGCTTTTTAGTCGATTAAGTCATCTCTATCTCTAAACACAGTTTCTGG
18268080 GAGTAAGC
65 GAGTAAGC
*
18268088 TCTTAGTTGACTAACCACGCTTTTTAGTCGATTAAGT
1 TCTTAGTTGACTAA-CATGCTTTTTAGTCGATTAAGT
18268125 TCCTTCGGTC
Statistics
Matches: 95, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
72 14 0.15
73 80 0.84
74 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.40
Consensus pattern (72 bp):
TCTTAGTTGACTAACATGCTTTTTAGTCGATTAAGTCATCTCTATCTCTAAACACAGTTTCTGGG
AGTAAGC
Found at i:18268175 original size:74 final size:74
Alignment explanation
Indices: 18267998--18268178 Score: 199
Period size: 73 Copynumber: 2.4 Consensus size: 74
18267988 CTCTGATCCC
* * *
18267998 AGTTTCTGGTAGT-GAGCTCTTAGTTGACTAACAATGCTTTTTAGTCGATTAAGTCATCTCTGTC
1 AGTTT-TGGTAGTAG-GCTCTTAGTTGACTAACCACGCTTTTTAGTCGATTAAGTCATCTCGGTC
18268062 TCTAAACATAG
64 TCTAAACATAG
* * * *
18268073 -TTTTTGGGAGTAAGCTCTTAGTTGACTAACCACGCTTTTTAGTCGATTAAGTTCCT-TCGGTCT
1 AGTTTTGGTAGTAGGCTCTTAGTTGACTAACCACGCTTTTTAGTCGATTAAG-TCATCTCGGTCT
* **
18268136 -TGTAATTTAG
65 CT-AAACATAG
*
18268146 AGTTTTGGTAGTAGGCTCTTAGTCGACTAACCA
1 AGTTTTGGTAGTAGGCTCTTAGTTGACTAACCA
18268179 TCCTTCTTGG
Statistics
Matches: 88, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
72 1 0.01
73 53 0.60
74 34 0.39
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (74 bp):
AGTTTTGGTAGTAGGCTCTTAGTTGACTAACCACGCTTTTTAGTCGATTAAGTCATCTCGGTCTC
TAAACATAG
Found at i:18269268 original size:20 final size:20
Alignment explanation
Indices: 18269243--18269306 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
18269233 TGCAATTTTC
*
18269243 AATATTGTGGTTGAACGTTG
1 AATATTGTGGTTGAATGTTG
* * *
18269263 AATATTGGGGTTAAATTTTG
1 AATATTGTGGTTGAATGTTG
*
18269283 CATATTGTGGATTGAATGTTG
1 AATATTGTGG-TTGAATGTTG
18269304 AAT
1 AAT
18269307 GTTGGATATT
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
20 24 0.71
21 10 0.29
ACGTcount: A:0.28, C:0.03, G:0.27, T:0.42
Consensus pattern (20 bp):
AATATTGTGGTTGAATGTTG
Found at i:18270070 original size:70 final size:70
Alignment explanation
Indices: 18269959--18270116 Score: 194
Period size: 70 Copynumber: 2.2 Consensus size: 70
18269949 GCACCCATGG
* * * * * *
18269959 CTACAAGGATCGATCCCAAGGTTTTTAAGATTGATCGTTATTGGACATAAG-CCAAAGAATCCCT
1 CTACTAGGATCGATCCTAAGGTTTTTAAGATCGATCCTTATTAGACAAAAGCCCAAA-AATCCCT
18270023 TACTAC
65 TACTAC
* *
18270029 TTACTAGGATCAATCCTAAGG-TTTTAAGGATCGATCCTTATTAGACAAAAGCCCAAAAATCCCT
1 CTACTAGGATCGATCCTAAGGTTTTTAA-GATCGATCCTTATTAGACAAAAGCCCAAAAATCCCT
*
18270093 TACTGC
65 TACTAC
18270099 CTACTAGGGATCGATCCT
1 CTACTA-GGATCGATCCT
18270117 CCGTTCACAT
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
69 6 0.08
70 53 0.72
71 15 0.20
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (70 bp):
CTACTAGGATCGATCCTAAGGTTTTTAAGATCGATCCTTATTAGACAAAAGCCCAAAAATCCCTT
ACTAC
Found at i:18270519 original size:30 final size:30
Alignment explanation
Indices: 18270485--18270541 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
18270475 GTTGTGTAAT
* *
18270485 AGGTTTTATCTTAACCTTAAAAAGATAGAG
1 AGGTTATACCTTAACCTTAAAAAGATAGAG
18270515 AGGTTATACCTTAACCTTAAAAAGATA
1 AGGTTATACCTTAACCTTAAAAAGATA
18270542 TTTGTATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (30 bp):
AGGTTATACCTTAACCTTAAAAAGATAGAG
Found at i:18275325 original size:35 final size:35
Alignment explanation
Indices: 18275286--18275418 Score: 114
Period size: 35 Copynumber: 3.9 Consensus size: 35
18275276 TTTTGAGTTT
* *
18275286 TGGTTGATCCCTTGAAAAATCATTGTTAAAGGTTG
1 TGGTTGATCCTTTGAAAAACCATTGTTAAAGGTTG
* * * *
18275321 TGGTTGAGCCTTTGAAAAGCCATT-TT--GGGTTT
1 TGGTTGATCCTTTGAAAAACCATTGTTAAAGGTTG
*
18275353 TGGTTGAT-CTTGTGAAAAACCATTGTGAAAGGTTG
1 TGGTTGATCCTT-TGAAAAACCATTGTTAAAGGTTG
* * * *
18275388 TGGCTGA-GCTTGTGAAAAGCCATTGTAAAAG
1 TGGTTGATCCTT-TGAAAAACCATTGTTAAAG
18275419 CTTGGTGGAA
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
31 3 0.04
32 22 0.28
33 1 0.01
34 2 0.03
35 51 0.65
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (35 bp):
TGGTTGATCCTTTGAAAAACCATTGTTAAAGGTTG
Found at i:18275359 original size:67 final size:67
Alignment explanation
Indices: 18275276--18275411 Score: 195
Period size: 67 Copynumber: 2.0 Consensus size: 67
18275266 GAAAAGTTAG
* * *
18275276 TTTTGAGTTTTGGTTGATCCCT-TGAAAAATCATTGTTAAAGGTTGTGGTTGAGCCTT-TGAAAA
1 TTTTGAGTTTTGGTTGAT-CCTGTGAAAAACCATTGTGAAAGGTTGTGGCTGAG-CTTGTGAAAA
18275339 GCCA
64 GCCA
* *
18275343 TTTTGGGTTTTGGTTGATCTTGTGAAAAACCATTGTGAAAGGTTGTGGCTGAGCTTGTGAAAAGC
1 TTTTGAGTTTTGGTTGATCCTGTGAAAAACCATTGTGAAAGGTTGTGGCTGAGCTTGTGAAAAGC
18275408 CA
66 CA
18275410 TT
1 TT
18275412 GTAAAAGCTT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
66 5 0.08
67 57 0.92
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.38
Consensus pattern (67 bp):
TTTTGAGTTTTGGTTGATCCTGTGAAAAACCATTGTGAAAGGTTGTGGCTGAGCTTGTGAAAAGC
CA
Found at i:18276287 original size:13 final size:13
Alignment explanation
Indices: 18276269--18276295 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18276259 ACCATGAGCC
18276269 CCTCTCTCTCTCT
1 CCTCTCTCTCTCT
18276282 CCTCTCTCTCTCT
1 CCTCTCTCTCTCT
18276295 C
1 C
18276296 ACCGTTAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (13 bp):
CCTCTCTCTCTCT
Found at i:18279478 original size:2 final size:2
Alignment explanation
Indices: 18279471--18279521 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
18279461 TAGTTGTCAT
18279471 TA TA TA TA TA TA 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 TA TA TA TA TA TA
18279513 TA TA TA TA T
1 TA TA TA TA T
18279522 TGCATGGGGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18285326 original size:11 final size:11
Alignment explanation
Indices: 18285310--18285334 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18285300 TTTTCCTTAT
18285310 GGAATTTTGTA
1 GGAATTTTGTA
18285321 GGAATTTTGTA
1 GGAATTTTGTA
18285332 GGA
1 GGA
18285335 TTGACCCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (11 bp):
GGAATTTTGTA
Found at i:18285554 original size:72 final size:69
Alignment explanation
Indices: 18285465--18285615 Score: 176
Period size: 72 Copynumber: 2.1 Consensus size: 69
18285455 AAGGGAAGCC
* *
18285465 ATTGAAAATTGGTAGGATAAACCCTTCAAGCTAAAAAAGTCGATCTTAAAAGAAAACAAAAAAGA
1 ATTGAAAATTGGAAGGATAAACCCTTCAAACTAAAAAAGTCGATC-TAAAAG--AACAAAAAAGA
18285530 AATAGCT
63 AATAGCT
* ** * * * * * *
18285537 ATTGGAAATTGGAAGGATCGACCCTTTAAACTAAAAAGGTCGATCTCAAAGAATAGAAGAGAAAT
1 ATTGAAAATTGGAAGGATAAACCCTTCAAACTAAAAAAGTCGATCTAAAAGAACAAAAAAGAAAT
18285602 AGCT
66 AGCT
18285606 ATTGAAAATT
1 ATTGAAAATT
18285616 CATAGGATCG
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
69 24 0.36
71 5 0.07
72 38 0.57
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.23
Consensus pattern (69 bp):
ATTGAAAATTGGAAGGATAAACCCTTCAAACTAAAAAAGTCGATCTAAAAGAACAAAAAAGAAAT
AGCT
Found at i:18288769 original size:133 final size:133
Alignment explanation
Indices: 18288531--18288789 Score: 509
Period size: 133 Copynumber: 1.9 Consensus size: 133
18288521 CAAATAAGCC
18288531 TTTATGACTAGTAATTGACTAATTGCCATTAATTCAAATGCTATTTATCATTTCATATCCATATG
1 TTTATGACTAGTAATTGACTAATTGCCATTAATTCAAATGCTATTTATCATTTCATATCCATATG
18288596 ACACTAAAATGACGTTAATGAGAAATATAAAAAATATCACATAATCATATTATCATGCTAATTTA
66 ACACTAAAATGACGTTAATGAGAAATATAAAAAATATCACATAATCATATTATCATGCTAATTTA
18288661 GCA
131 GCA
18288664 TTTATGACTAGTAATTGACTAATTGCCATTAATTCAAATGCTATTTATCATTTCATATCCATATG
1 TTTATGACTAGTAATTGACTAATTGCCATTAATTCAAATGCTATTTATCATTTCATATCCATATG
*
18288729 ACACTAAAATGGCGTTAATGAGAAATATAAAAAATATCACATAATCATATTATCATGCTAA
66 ACACTAAAATGACGTTAATGAGAAATATAAAAAATATCACATAATCATATTATCATGCTAA
18288790 CTTAACATGT
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 125 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (133 bp):
TTTATGACTAGTAATTGACTAATTGCCATTAATTCAAATGCTATTTATCATTTCATATCCATATG
ACACTAAAATGACGTTAATGAGAAATATAAAAAATATCACATAATCATATTATCATGCTAATTTA
GCA
Found at i:18293687 original size:2 final size:2
Alignment explanation
Indices: 18293680--18293704 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18293670 TGTACAGCTG
18293680 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
18293705 ATACATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:18294324 original size:4 final size:4
Alignment explanation
Indices: 18294315--18294439 Score: 101
Period size: 4 Copynumber: 30.8 Consensus size: 4
18294305 TTTTCATAGT
* * *
18294315 ATAC ATAC ATAC ATGC ATAC ATAC AGAC TTAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
18294363 AT-- ATAC ATAT ATAT ATAT ATAC ATAC ATAC ATAT ATAT ATAC ATATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA--C
* * *
18294411 ATAT ATAT ATAC ATATGC ATAT ATAC ATA
1 ATAC ATAC ATAC ATA--C ATAC ATAC ATA
18294440 TGCATATGTA
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
2 2 0.02
4 91 0.90
6 8 0.08
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (4 bp):
ATAC
Found at i:18294370 original size:6 final size:6
Alignment explanation
Indices: 18294359--18294464 Score: 81
Period size: 6 Copynumber: 17.3 Consensus size: 6
18294349 ACATACATAC
* *
18294359 ATACAT ATACAT AT--AT ATATAT ATACAT ACATACAT ATATAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT --ATACAT ATACAT ATACAT
* * * * **
18294407 ATGCAT ATATAT ATACAT ATGCATAT ATACAT ATGCAT ATGTAT ATACAT
1 ATACAT ATACAT ATACAT AT--ACAT ATACAT ATACAT ATACAT ATACAT
*
18294457 ATGCAT AT
1 ATACAT AT
18294465 GTATAAGGAA
Statistics
Matches: 80, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
4 4 0.05
6 65 0.81
8 11 0.14
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (6 bp):
ATACAT
Found at i:18294395 original size:38 final size:37
Alignment explanation
Indices: 18294344--18294453 Score: 127
Period size: 38 Copynumber: 2.9 Consensus size: 37
18294334 CATACAGACT
18294344 TACATACATACATACATACATATACATATATATATATA
1 TACATACATACATA-ATACATATACATATATATATATA
*
18294382 TACATACATACAT-ATATATATACATATGCATATATATA
1 TACATACATACATAATACATATACATAT--ATATATATA
* * *
18294420 TACAT--ATGCATATATACATATGCATATGTATATA
1 TACATACATACATA-ATACATATACATATATATATA
18294454 CATATGCATA
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
36 24 0.38
38 39 0.62
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (37 bp):
TACATACATACATAATACATATACATATATATATATA
Found at i:18294413 original size:18 final size:18
Alignment explanation
Indices: 18294363--18294469 Score: 127
Period size: 18 Copynumber: 6.2 Consensus size: 18
18294353 ACATACATAC
18294363 ATATACATAT--ATATAT
1 ATATACATATGCATATAT
*
18294379 ATATACATACATACATATAT
1 ATATACAT--ATGCATATAT
18294399 ATATACATATGCATATAT
1 ATATACATATGCATATAT
18294417 ATATACATATGC----AT
1 ATATACATATGCATATAT
*
18294431 ATATACATATGCATATGT
1 ATATACATATGCATATAT
*
18294449 ATATACATATGCATATGT
1 ATATACATATGCATATAT
18294467 ATA
1 ATA
18294470 AGGAAAATAT
Statistics
Matches: 81, Mismatches: 2, Indels: 14
0.84 0.02 0.14
Matches are distributed among these distances:
14 14 0.17
16 8 0.10
18 45 0.56
20 14 0.17
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (18 bp):
ATATACATATGCATATAT
Found at i:18294432 original size:14 final size:14
Alignment explanation
Indices: 18294371--18294446 Score: 75
Period size: 14 Copynumber: 5.3 Consensus size: 14
18294361 ACATATACAT
* *
18294371 ATATATATATATAC
1 ATATATACATATGC
*
18294385 ATACATACATAT--
1 ATATATACATATGC
18294397 ATATATACATATGC
1 ATATATACATATGC
18294411 ATATATATATACATATGC
1 ----ATATATACATATGC
18294429 ATATATACATATGC
1 ATATATACATATGC
18294443 ATAT
1 ATAT
18294447 GTATATACAT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
12 11 0.21
14 28 0.53
18 14 0.26
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (14 bp):
ATATATACATATGC
Found at i:18294434 original size:20 final size:20
Alignment explanation
Indices: 18294359--18294458 Score: 96
Period size: 20 Copynumber: 5.0 Consensus size: 20
18294349 ACATACATAC
*
18294359 ATACATATACATATATATAT
1 ATACATATGCATATATATAT
* * *
18294379 ATATACATACATACATATATAT
1 ATACATATGCAT--ATATATAT
18294401 ATACATATGC--ATATATAT
1 ATACATATGCATATATATAT
*
18294419 ATACATATGCATATATACAT
1 ATACATATGCATATATATAT
* * *
18294439 ATGCATATGTATATACATAT
1 ATACATATGCATATATATAT
18294459 GCATATGTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
18 18 0.27
20 33 0.50
22 15 0.23
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (20 bp):
ATACATATGCATATATATAT
Found at i:18294724 original size:2 final size:2
Alignment explanation
Indices: 18294717--18294742 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18294707 ATATTAATCC
18294717 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
18294743 TGTTTATAAC
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:18294976 original size:2 final size:2
Alignment explanation
Indices: 18294971--18295000 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18294961 GTTTTCTTTG
18294971 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
18295001 CACCTAGCCT
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:18308257 original size:28 final size:28
Alignment explanation
Indices: 18308225--18308304 Score: 115
Period size: 28 Copynumber: 2.9 Consensus size: 28
18308215 ATTAATGAAA
*
18308225 AACACAAATATCCATAATAATATTCAAG
1 AACACAAACATCCATAATAATATTCAAG
* * *
18308253 AACACAAACATTCTTAATATTATTCAAG
1 AACACAAACATCCATAATAATATTCAAG
*
18308281 AACATAAACATCCATAATAATATT
1 AACACAAACATCCATAATAATATT
18308305 GTTGTCATAG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (28 bp):
AACACAAACATCCATAATAATATTCAAG
Found at i:18322461 original size:28 final size:28
Alignment explanation
Indices: 18322409--18322467 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
18322399 CGACAAATGT
** *
18322409 CCTGGTGGTGGAAAATTACTGTTTTGCC
1 CCTGGTGGTGGAAAATTACCATTTTACC
18322437 CCTGG-GGTGGCAAAATTACCATTTTACC
1 CCTGGTGGTGG-AAAATTACCATTTTACC
18322465 CCT
1 CCT
18322468 ATGCTCCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CCTGGTGGTGGAAAATTACCATTTTACC
Found at i:18400242 original size:23 final size:23
Alignment explanation
Indices: 18400212--18400260 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
18400202 ATACTGTAAA
18400212 TTTTAAAACAACTTTAAAACAAC
1 TTTTAAAACAACTTTAAAACAAC
*
18400235 TTTTAAAACAACTTTAAACCAAC
1 TTTTAAAACAACTTTAAAACAAC
18400258 TTT
1 TTT
18400261 AAACCCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (23 bp):
TTTTAAAACAACTTTAAAACAAC
Found at i:18400268 original size:12 final size:11
Alignment explanation
Indices: 18400213--18400263 Score: 84
Period size: 11 Copynumber: 4.5 Consensus size: 11
18400203 TACTGTAAAT
18400213 TTTAAAACAAC
1 TTTAAAACAAC
18400224 TTTAAAACAAC
1 TTTAAAACAAC
18400235 TTTTAAAACAAC
1 -TTTAAAACAAC
*
18400247 TTTAAACCAAC
1 TTTAAAACAAC
18400258 TTTAAA
1 TTTAAA
18400264 CCCAAAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
11 27 0.71
12 11 0.29
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:18403056 original size:19 final size:19
Alignment explanation
Indices: 18403032--18403069 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18403022 CTGCCAAACC
*
18403032 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
18403051 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
18403070 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:18410048 original size:19 final size:19
Alignment explanation
Indices: 18410024--18410061 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18410014 CTGCCAAACC
*
18410024 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
18410043 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
18410062 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:18411186 original size:30 final size:28
Alignment explanation
Indices: 18411126--18411186 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 28
18411116 CGCAATTATT
*
18411126 AATAATTTTTTTCACACCTATTTTTAAC
1 AATAATTTTTTTCACACCTATTCTTAAC
*
18411154 AATAATTTCTTTTTCACCCACTATTCTT-AC
1 AATAA-TT-TTTTTCACAC-CTATTCTTAAC
18411184 AAT
1 AAT
18411187 GTAGAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 5 0.18
29 2 0.07
30 14 0.50
31 7 0.25
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (28 bp):
AATAATTTTTTTCACACCTATTCTTAAC
Found at i:18412635 original size:24 final size:26
Alignment explanation
Indices: 18412607--18412662 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
18412597 TAGAGTTCTA
18412607 TTTTTCTTTAG-TTC-TCTTTATACT
1 TTTTTCTTTAGTTTCATCTTTATACT
* *
18412631 TTTTTGTTTAGTTTCAATGTTTATACT
1 TTTTTCTTTAGTTTC-ATCTTTATACT
18412658 TTTTT
1 TTTTT
18412663 GGATGATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 10 0.37
25 3 0.11
27 14 0.52
ACGTcount: A:0.14, C:0.11, G:0.07, T:0.68
Consensus pattern (26 bp):
TTTTTCTTTAGTTTCATCTTTATACT
Found at i:18414365 original size:18 final size:18
Alignment explanation
Indices: 18414344--18414378 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18414334 ATATATACAT
18414344 ATACATATATATGTATAC
1 ATACATATATATGTATAC
* *
18414362 ATACATGTATGTGTATA
1 ATACATATATATGTATA
18414379 TATGTGTATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (18 bp):
ATACATATATATGTATAC
Found at i:18423035 original size:19 final size:19
Alignment explanation
Indices: 18423011--18423048 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18423001 CCATTTGACT
18423011 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
18423030 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
18423049 GTTTAGAAGT
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:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:18424299 original size:13 final size:13
Alignment explanation
Indices: 18424281--18424305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18424271 GGAGAAATTG
18424281 TGATTTTATAAAA
1 TGATTTTATAAAA
18424294 TGATTTTATAAA
1 TGATTTTATAAA
18424306 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:18430186 original size:23 final size:23
Alignment explanation
Indices: 18430160--18430204 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
18430150 ATATAAGGGT
18430160 AGTTTTGAAAATTAACATTACAC
1 AGTTTTGAAAATTAACATTACAC
* * *
18430183 AGTTTTGGAATTTAATATTACA
1 AGTTTTGAAAATTAACATTACA
18430205 TACCCTGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (23 bp):
AGTTTTGAAAATTAACATTACAC
Found at i:18430324 original size:15 final size:15
Alignment explanation
Indices: 18430304--18430349 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
18430294 TGTTATCTTC
18430304 CCTGCAATCACATTA
1 CCTGCAATCACATTA
18430319 CCTGCAATCACATTA
1 CCTGCAATCACATTA
* *
18430334 CTTGTAATCACATTA
1 CCTGCAATCACATTA
18430349 C
1 C
18430350 ATTTGTCACG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (15 bp):
CCTGCAATCACATTA
Found at i:18435091 original size:6 final size:6
Alignment explanation
Indices: 18435082--18435121 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
18435072 GGAATGGGTG
18435082 GAGGTA GAGGTA GAGGTA GAGGTA GAGGTA GAGGTA GAGG
1 GAGGTA GAGGTA GAGGTA GAGGTA GAGGTA GAGGTA GAGG
18435122 GATGGGTAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.53, T:0.15
Consensus pattern (6 bp):
GAGGTA
Found at i:18440773 original size:14 final size:14
Alignment explanation
Indices: 18440754--18440786 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
18440744 TTTATAAGAA
18440754 ATATAATTACTATT
1 ATATAATTACTATT
18440768 ATATAATTACTATT
1 ATATAATTACTATT
18440782 ATATA
1 ATATA
18440787 TATTTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATAATTACTATT
Found at i:18441148 original size:17 final size:21
Alignment explanation
Indices: 18441105--18441149 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
18441095 TTACTAAATT
18441105 ATATATATACTAATACTTTTA
1 ATATATATACTAATACTTTTA
*
18441126 ATATATATA-T-ATACTTTAA
1 ATATATATACTAATACTTTTA
18441145 ATATA
1 ATATA
18441150 AACATATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.57
20 1 0.04
21 9 0.39
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATATATACTAATACTTTTA
Found at i:18441156 original size:19 final size:19
Alignment explanation
Indices: 18441117--18441156 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18441107 ATATATACTA
* * *
18441117 ATACTTTTAATATATATAT
1 ATACTTTAAATATAAACAT
18441136 ATACTTTAAATATAAACAT
1 ATACTTTAAATATAAACAT
18441155 AT
1 AT
18441157 TTATTTTCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (19 bp):
ATACTTTAAATATAAACAT
Found at i:18441266 original size:2 final size:2
Alignment explanation
Indices: 18441259--18441311 Score: 83
Period size: 2 Copynumber: 27.0 Consensus size: 2
18441249 ATAATATAAC
18441259 AT AT AT AT AT AT AT AT AT AT AT AGT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
18441301 AT AT A- AT AT AT
1 AT AT AT AT AT AT
18441312 TAATGTGGTG
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.04
2 44 0.92
3 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18441268 original size:13 final size:13
Alignment explanation
Indices: 18441249--18441311 Score: 83
Period size: 13 Copynumber: 4.7 Consensus size: 13
18441239 AACTTNAGAA
*
18441249 ATAATATA-ACAT
1 ATAATATATATAT
18441261 ATATATATATATAT
1 ATA-ATATATATAT
18441275 ATATATAGTATATAT
1 ATA-ATA-TATATAT
18441290 ATAATATATATAT
1 ATAATATATATAT
18441303 ATAATATAT
1 ATAATATAT
18441312 TAATGTGGTG
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
12 3 0.06
13 21 0.45
14 13 0.28
15 10 0.21
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (13 bp):
ATAATATATATAT
Found at i:18442720 original size:19 final size:20
Alignment explanation
Indices: 18442683--18442720 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
18442673 ATGCATAAAC
18442683 AAAAATGAATTAAAAGAAAT
1 AAAAATGAATTAAAAGAAAT
18442703 AAAAAT-AA-TAAAATGAAA
1 AAAAATGAATTAAAA-GAAA
18442721 AATTATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (20 bp):
AAAAATGAATTAAAAGAAAT
Found at i:18446591 original size:22 final size:22
Alignment explanation
Indices: 18446564--18446638 Score: 96
Period size: 22 Copynumber: 3.4 Consensus size: 22
18446554 TGTTACTAGC
* *
18446564 TTTTAGGCATTACGTCATTGGT
1 TTTTAGGCATTATGTCATTGAT
* **
18446586 TTTTAGGCATTGTGAGATTGAT
1 TTTTAGGCATTATGTCATTGAT
*
18446608 TTTTAGGCATTATGTCACTGAT
1 TTTTAGGCATTATGTCATTGAT
18446630 TTTTAGGCA
1 TTTTAGGCA
18446639 ATACATGACT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.45
Consensus pattern (22 bp):
TTTTAGGCATTATGTCATTGAT
Found at i:18446653 original size:16 final size:16
Alignment explanation
Indices: 18446632--18446666 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18446622 TCACTGATTT
18446632 TTAGGCAATACATGAC
1 TTAGGCAATACATGAC
* *
18446648 TTAGGCATTGCATGAC
1 TTAGGCAATACATGAC
18446664 TTA
1 TTA
18446667 ATCATTGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (16 bp):
TTAGGCAATACATGAC
Found at i:18446725 original size:25 final size:26
Alignment explanation
Indices: 18446687--18446736 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
18446677 CCTTCGAACT
18446687 TAGGCATTGCGTGACT-AGTTTTAGA
1 TAGGCATTGCGTGACTGAGTTTTAGA
* * *
18446712 TAGGTATTGTGTGACTGATTTTTAG
1 TAGGCATTGCGTGACTGAGTTTTAG
18446737 GTACTGTGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.22, C:0.08, G:0.28, T:0.42
Consensus pattern (26 bp):
TAGGCATTGCGTGACTGAGTTTTAGA
Found at i:18446817 original size:38 final size:38
Alignment explanation
Indices: 18446775--18446871 Score: 90
Period size: 38 Copynumber: 2.6 Consensus size: 38
18446765 TAGATTGTAG
*
18446775 GCATTGCATGACTTAGGCATTGCGA-GACTA-TCTTTTAA
1 GCATTGCATGACTTAGGCATTAC-ATGACTAGT-TTTTAA
* * *** * *
18446813 GCATTACGTGACTTAATAATTACATGTCTAGTTTTTAG
1 GCATTGCATGACTTAGGCATTACATGACTAGTTTTTAA
18446851 GCATTGCATGACTTAGGCATT
1 GCATTGCATGACTTAGGCATT
18446872 TCGTTACTGA
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
37 1 0.02
38 42 0.95
39 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (38 bp):
GCATTGCATGACTTAGGCATTACATGACTAGTTTTTAA
Found at i:18448929 original size:35 final size:35
Alignment explanation
Indices: 18448902--18449083 Score: 204
Period size: 35 Copynumber: 5.1 Consensus size: 35
18448892 TTAATTGTTT
18448902 AATTTAAATAATTAGGCCCAATAACTTAATTAAAC
1 AATTTAAATAATTAGGCCCAATAACTTAATTAAAC
* * * * *
18448937 AATTTAATTAATTAAGCCAAATAATTTAATTGAAC
1 AATTTAAATAATTAGGCCCAATAACTTAATTAAAC
* * *
18448972 AGTATT-AATCAATTAGGCCCAATGACTTAATTAAAT
1 AAT-TTAAAT-AATTAGGCCCAATAACTTAATTAAAC
* * *
18449008 AATTTTAATCAACTAGGCCCAATGACTTAATTAAAC
1 AATTTAAAT-AATTAGGCCCAATAACTTAATTAAAC
* * *
18449044 AATTTAATTAATTAGGCCCAATGACTAAATTAAAC
1 AATTTAAATAATTAGGCCCAATAACTTAATTAAAC
18449079 AATTT
1 AATTT
18449084 TAATCAAGTG
Statistics
Matches: 124, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
35 65 0.52
36 59 0.48
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.34
Consensus pattern (35 bp):
AATTTAAATAATTAGGCCCAATAACTTAATTAAAC
Found at i:18448989 original size:71 final size:70
Alignment explanation
Indices: 18448902--18449090 Score: 227
Period size: 71 Copynumber: 2.7 Consensus size: 70
18448892 TTAATTGTTT
* * * *
18448902 AATTTAAAT-AATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCAAATAATTTAA
1 AATTT-AATCAATTAGGCCCAATGACTTAATTAAACAATTTAATCAACTAAGCCAAATAACTTAA
*
18448966 TTGAAC
65 TTAAAC
* * * * *
18448972 AGTATTAATCAATTAGGCCCAATGACTTAATTAAATAATTTTAATCAACTAGGCCCAATGACTTA
1 AAT-TTAATCAATTAGGCCCAATGACTTAATTAAACAA-TTTAATCAACTAAGCCAAATAACTTA
18449037 ATTAAAC
64 ATTAAAC
* *
18449044 AATTTAATTAATTAGGCCCAATGACTAAATTAAACAATTTTAATCAA
1 AATTTAATCAATTAGGCCCAATGACTTAATTAAACAA-TTTAATCAA
18449091 GTGTTTGAGA
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
70 5 0.05
71 69 0.68
72 28 0.27
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (70 bp):
AATTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAATCAACTAAGCCAAATAACTTAAT
TAAAC
Found at i:18449002 original size:36 final size:35
Alignment explanation
Indices: 18448902--18449090 Score: 227
Period size: 36 Copynumber: 5.3 Consensus size: 35
18448892 TTAATTGTTT
*
18448902 AATTTAAAT-AATTAGGCCCAATAACTTAATTAAAC
1 AATTT-AATCAATTAGGCCCAATGACTTAATTAAAC
* * * * * *
18448937 AATTTAATTAATTAAGCCAAATAATTTAATTGAAC
1 AATTTAATCAATTAGGCCCAATGACTTAATTAAAC
* *
18448972 AGTATTAATCAATTAGGCCCAATGACTTAATTAAAT
1 AAT-TTAATCAATTAGGCCCAATGACTTAATTAAAC
*
18449008 AATTTTAATCAACTAGGCCCAATGACTTAATTAAAC
1 AA-TTTAATCAATTAGGCCCAATGACTTAATTAAAC
* *
18449044 AATTTAATTAATTAGGCCCAATGACTAAATTAAAC
1 AATTTAATCAATTAGGCCCAATGACTTAATTAAAC
18449079 AATTTTAATCAA
1 AA-TTTAATCAA
18449091 GTGTTTGAGA
Statistics
Matches: 131, Mismatches: 19, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
34 3 0.02
35 61 0.47
36 66 0.50
37 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATGACTTAATTAAAC
Found at i:18452736 original size:20 final size:21
Alignment explanation
Indices: 18452711--18452765 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
18452701 GATGTTCCTC
* * *
18452711 ATCTATCGATAGTTG-AACTT
1 ATCTATCGATAGATGAAAATA
18452731 ATCTATCGATAGATGAAAATA
1 ATCTATCGATAGATGAAAATA
18452752 ATCTATCGATAGAT
1 ATCTATCGATAGAT
18452766 AAATGACAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (21 bp):
ATCTATCGATAGATGAAAATA
Found at i:18453041 original size:22 final size:22
Alignment explanation
Indices: 18453013--18453063 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
18453003 TCACGATCGA
18453013 AACAATAATCAGTAAAGATGTC
1 AACAATAATCAGTAAAGATGTC
18453035 AACAATAATCAGTAAAGATGTC
1 AACAATAATCAGTAAAGATGTC
18453057 AACAATA
1 AACAATA
18453064 TCCAGCATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.22
Consensus pattern (22 bp):
AACAATAATCAGTAAAGATGTC
Found at i:18455948 original size:36 final size:36
Alignment explanation
Indices: 18455908--18455978 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
18455898 GAGCATGCTA
* *
18455908 TGGGGCCTCAAGCGAAGTTGTGTTATGAGTAGGATG
1 TGGGGCCTCAAGCGAAGTTGAGTTATGAGGAGGATG
*
18455944 TGGGGCCTCAATCGAAGTTGAGTTATGAGGAGGAT
1 TGGGGCCTCAAGCGAAGTTGAGTTATGAGGAGGAT
18455979 CTATGTACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.24, C:0.11, G:0.38, T:0.27
Consensus pattern (36 bp):
TGGGGCCTCAAGCGAAGTTGAGTTATGAGGAGGATG
Found at i:18458042 original size:11 final size:11
Alignment explanation
Indices: 18458026--18458050 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18458016 TTCATATGCG
18458026 ATAAAATAATA
1 ATAAAATAATA
18458037 ATAAAATAATA
1 ATAAAATAATA
18458048 ATA
1 ATA
18458051 TCTTATTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAAATAATA
Done.