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 74 of 97
Found at i:29502757 original size:36 final size:34
Alignment explanation
Indices: 29502699--29502778 Score: 81
Period size: 36 Copynumber: 2.3 Consensus size: 34
29502689 GGTTTTTCAG
* * * *
29502699 AATATTTTGTAACGTTCATTTTACCTAGTCTTCCAA
1 AATATTTTATAACCTTCATTTTA--TAATCTTACAA
*
29502735 AATATTTTATAACCTT-ATTTTTATAATGTTACAA
1 AATATTTTATAACCTTCA-TTTTATAATCTTACAA
29502769 AATATTTTAT
1 AATATTTTAT
29502779 CTTGATTCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
34 18 0.47
35 1 0.03
36 19 0.50
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (34 bp):
AATATTTTATAACCTTCATTTTATAATCTTACAA
Found at i:29514474 original size:30 final size:33
Alignment explanation
Indices: 29514440--29514505 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 33
29514430 AAATTGAGTC
29514440 AAATAAGATTTTGT-AAAAA-AAAAT-TTAAAA
1 AAATAAGATTTTGTAAAAAATAAAATCTTAAAA
** *
29514470 AAATAATTTTTTTTAAAAAATAAAATCTTAAAA
1 AAATAAGATTTTGTAAAAAATAAAATCTTAAAA
29514503 AAA
1 AAA
29514506 AGTTTAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 11 0.37
31 5 0.17
32 5 0.17
33 9 0.30
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (33 bp):
AAATAAGATTTTGTAAAAAATAAAATCTTAAAA
Found at i:29516933 original size:24 final size:24
Alignment explanation
Indices: 29516869--29516934 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
29516859 GTCGCTCGTC
* *
29516869 CTTTCTCTCAAATGCTCTTTCCCT
1 CTTTCTCTCAACTGCTCTTCCCCT
*
29516893 CTTTCTCTCAACCGCTCTTCCCCT
1 CTTTCTCTCAACTGCTCTTCCCCT
**
29516917 CTTTCTCTCCGCTGCTCT
1 CTTTCTCTCAACTGCTCT
29516935 ACCATTCATC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.08, C:0.44, G:0.06, T:0.42
Consensus pattern (24 bp):
CTTTCTCTCAACTGCTCTTCCCCT
Found at i:29565239 original size:35 final size:35
Alignment explanation
Indices: 29565176--29565285 Score: 114
Period size: 35 Copynumber: 3.1 Consensus size: 35
29565166 TATGAAGTGG
* * ** *
29565176 TTATTCTACGTGAAGTAATACTTTACTTGTTCTAA
1 TTATTCTACATAAAGTAGCACTTCACTTGTTCTAA
* ** *
29565211 TTATTCTGCATGAAA-TAGCGTTTCACTTGTTCTAG
1 TTATTCTACAT-AAAGTAGCACTTCACTTGTTCTAA
*
29565246 TTATTCTACGTAAAGTAGCACTTCACTTGTTCTAA
1 TTATTCTACATAAAGTAGCACTTCACTTGTTCTAA
29565281 TTATT
1 TTATT
29565286 TCACGTAAAA
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
34 3 0.05
35 54 0.92
36 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (35 bp):
TTATTCTACATAAAGTAGCACTTCACTTGTTCTAA
Found at i:29565304 original size:70 final size:70
Alignment explanation
Indices: 29565175--29565311 Score: 179
Period size: 70 Copynumber: 2.0 Consensus size: 70
29565165 ATATGAAGTG
* * * * *
29565175 GTTATTCTACGTGAAGTAATACTTTACTTGTTCTAATTATTCTGCATGAAATAGCGTTTCACTTG
1 GTTATTCTACGTAAAGTAACACTTCACTTGTTCTAATTATTCTGCATAAAACAGCGTTTCACTTG
29565240 TTCTA
66 TTCTA
* *
29565245 GTTATTCTACGTAAAGTAGCACTTCACTTGTTCTAATTATT-T-CACGTAAAACAGTGTTTCACT
1 GTTATTCTACGTAAAGTAACACTTCACTTGTTCTAATTATTCTGCA--TAAAACAGCGTTTCACT
29565308 TGTT
64 TGTT
29565312 ATAATTTTCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
68 2 0.03
69 1 0.02
70 55 0.95
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (70 bp):
GTTATTCTACGTAAAGTAACACTTCACTTGTTCTAATTATTCTGCATAAAACAGCGTTTCACTTG
TTCTA
Found at i:29565306 original size:35 final size:35
Alignment explanation
Indices: 29565200--29565317 Score: 116
Period size: 35 Copynumber: 3.4 Consensus size: 35
29565190 GTAATACTTT
*
29565200 ACTTGTTCTAATTATTCTGCA--TGAAATAGCGTTTC
1 ACTTGTTCTAATTATT-T-CACGTAAAATAGCGTTTC
* * **
29565235 ACTTGTTCTAGTTA-TTCTACGTAAAGTAGCACTTC
1 ACTTGTTCTAATTATTTC-ACGTAAAATAGCGTTTC
* *
29565270 ACTTGTTCTAATTATTTCACGTAAAACAGTGTTTC
1 ACTTGTTCTAATTATTTCACGTAAAATAGCGTTTC
*
29565305 ACTTGTTATAATT
1 ACTTGTTCTAATT
29565318 TTCTTCATTA
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
32 1 0.01
33 2 0.03
34 1 0.01
35 60 0.90
36 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (35 bp):
ACTTGTTCTAATTATTTCACGTAAAATAGCGTTTC
Found at i:29567066 original size:29 final size:29
Alignment explanation
Indices: 29567021--29567138 Score: 143
Period size: 29 Copynumber: 4.1 Consensus size: 29
29567011 AGAAGAGGTA
*
29567021 TACGTGAA-AAGGCACAAGAGAAGAAGCTAG
1 TACGTGAACAA-GTACAAGAGAAGAAGCT-G
*
29567051 -ACGTGAACAAGTACAAGAAAAGAAGCTG
1 TACGTGAACAAGTACAAGAGAAGAAGCTG
* *
29567079 TACGTGAGCAAGTACAA-AGGAAAAAGCTG
1 TACGTGAACAAGTACAAGA-GAAGAAGCTG
*
29567108 TACGTGAACAAGTACAAGAGAAGAAGGTG
1 TACGTGAACAAGTACAAGAGAAGAAGCTG
29567137 TA
1 TA
29567139 TGTGCACAGT
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
28 2 0.03
29 71 0.93
30 3 0.04
ACGTcount: A:0.47, C:0.13, G:0.28, T:0.13
Consensus pattern (29 bp):
TACGTGAACAAGTACAAGAGAAGAAGCTG
Found at i:29567399 original size:35 final size:35
Alignment explanation
Indices: 29567337--29567446 Score: 107
Period size: 35 Copynumber: 3.1 Consensus size: 35
29567327 GAAGTGGTCA
*
29567337 TTCTGTGTGAAATAGTTG-TTCGACTTGTAT-TAGTTG
1 TTCTGTATGAAATAG-TGCTTC-ACTTGT-TCTAGTTG
*
29567373 TTCTGTATGAAGTAGTGCTTCACTTGTTCTAGTTG
1 TTCTGTATGAAATAGTGCTTCACTTGTTCTAGTTG
*** * * *
29567408 TTCCACATGAATTAGTGCTTCACTTATTCTAATTG
1 TTCTGTATGAAATAGTGCTTCACTTGTTCTAGTTG
29567443 TTCT
1 TTCT
29567447 CATTATTCTA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
34 1 0.02
35 46 0.73
36 16 0.25
ACGTcount: A:0.20, C:0.15, G:0.19, T:0.46
Consensus pattern (35 bp):
TTCTGTATGAAATAGTGCTTCACTTGTTCTAGTTG
Found at i:29569623 original size:102 final size:102
Alignment explanation
Indices: 29569447--29569733 Score: 330
Period size: 102 Copynumber: 2.8 Consensus size: 102
29569437 AGGGCCAAGA
* * *
29569447 AATGAGTGATAAAGTTTGCAACCAATAGCATAACATCATTATAGCCAAA-TCATGAAAGATAAAG
1 AATGAGCGATAAAGTTTGCAACCAATAGCATAATATCATTATAGCCAAAGT-ATGAGAGATAAAG
* *
29569511 CTAATGGTTGAAATATGAATGATG-ACTTATGGTTAAAG
65 CTAACGGTTGAAATATGAATGATGAAC-TATGGCTAAAG
* ** * * * *
29569549 AATGAGCGATAAAGCTTGTGACCAATAGCATAATGTCATTGTAGTCAAAGTATGAGCGATAAAGC
1 AATGAGCGATAAAGTTTGCAACCAATAGCATAATATCATTATAGCCAAAGTATGAGAGATAAAGC
* * *
29569614 TTACAGTTGAAATA-AAAGTGATGAACTATGGCTAAAG
66 TAACGGTTGAAATATGAA-TGATGAACTATGGCTAAAG
* * * * * *
29569651 AATAAGCGATAAAGTTTGCAACCAATAGTATAATATAATTACAGCCAAAGTATAAGTGATAAAGC
1 AATGAGCGATAAAGTTTGCAACCAATAGCATAATATCATTATAGCCAAAGTATGAGAGATAAAGC
29569716 TAACGGTTG-AATATGAAT
66 TAACGGTTGAAATATGAAT
29569734 TTCTTTTCTT
Statistics
Matches: 151, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
101 7 0.05
102 141 0.93
103 3 0.02
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (102 bp):
AATGAGCGATAAAGTTTGCAACCAATAGCATAATATCATTATAGCCAAAGTATGAGAGATAAAGC
TAACGGTTGAAATATGAATGATGAACTATGGCTAAAG
Found at i:29571755 original size:29 final size:29
Alignment explanation
Indices: 29571709--29571804 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 29
29571699 GAGGTATACG
* * * *
29571709 TGAAAAGGCACAAAAGAAGAAGTTGTATA
1 TGAATAGGTACAAGAGAAGAAGCTGTATA
**
29571738 TGAATAGGTACAAGAGAAGAAGCTGTGCA
1 TGAATAGGTACAAGAGAAGAAGCTGTATA
* * * * *
29571767 TGTATAAGTATAAGAGAAGAAGGTGTATG
1 TGAATAGGTACAAGAGAAGAAGCTGTATA
29571796 TG-ATAGGTA
1 TGAATAGGTA
29571805 TATGAGAACA
Statistics
Matches: 53, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
28 6 0.11
29 47 0.89
ACGTcount: A:0.44, C:0.05, G:0.29, T:0.22
Consensus pattern (29 bp):
TGAATAGGTACAAGAGAAGAAGCTGTATA
Found at i:29573374 original size:13 final size:12
Alignment explanation
Indices: 29573353--29573413 Score: 54
Period size: 13 Copynumber: 5.0 Consensus size: 12
29573343 ACTAAAATTA
29573353 AATTAAAATTTT
1 AATTAAAATTTT
*
29573365 AATTATAAATTAT
1 AATTA-AAATTTT
*
29573378 AA--AAAATTCAT
1 AATTAAAATT-TT
*
29573389 ATTTAAAATTTT
1 AATTAAAATTTT
29573401 AATTATAAATTTT
1 AATTA-AAATTTT
29573414 TAATATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
10 5 0.12
11 4 0.10
12 10 0.25
13 21 0.52
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTAAAATTTT
Found at i:29573449 original size:12 final size:12
Alignment explanation
Indices: 29573432--29573462 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
29573422 TAATATTTTA
*
29573432 AAAATAAAAATT
1 AAAATAAAAAAT
29573444 AAAATAAAAAAT
1 AAAATAAAAAAT
29573456 AAAATAA
1 AAAATAA
29573463 TCATATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:29576748 original size:2 final size:2
Alignment explanation
Indices: 29576741--29576775 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
29576731 TACCCTAACC
29576741 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
29576776 ACAGATGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:29578694 original size:24 final size:22
Alignment explanation
Indices: 29578663--29578716 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
29578653 TGGTGAGTCC
*
29578663 AAGAGAGAGTGATGCAGAGAGGAG
1 AAGAGAGAGAG-TGCAG-GAGGAG
* *
29578687 GAGAGAGAGAGTGGAGGAGGAG
1 AAGAGAGAGAGTGCAGGAGGAG
29578709 AAGAGAGA
1 AAGAGAGA
29578717 AAATAGTGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 13 0.50
23 4 0.15
24 9 0.35
ACGTcount: A:0.43, C:0.02, G:0.50, T:0.06
Consensus pattern (22 bp):
AAGAGAGAGAGTGCAGGAGGAG
Found at i:29578697 original size:16 final size:16
Alignment explanation
Indices: 29578678--29578715 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
29578668 AGAGTGATGC
29578678 AGAGAGGAGGA-GAGA
1 AGAGAGGAGGAGGAGA
*
29578693 GAGAGTGGAGGAGGAGA
1 -AGAGAGGAGGAGGAGA
29578710 AGAGAG
1 AGAGAG
29578716 AAAATAGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.55, T:0.03
Consensus pattern (16 bp):
AGAGAGGAGGAGGAGA
Found at i:29585455 original size:28 final size:28
Alignment explanation
Indices: 29585401--29585457 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
29585391 TAACGGGCCT
* *
29585401 AGACATATTCTTCATTATCTATTTGAAA
1 AGACATATGCTTCATTATCTATCTGAAA
* * *
29585429 AGACATATGCTTCCTTGTTTATCTGAAA
1 AGACATATGCTTCATTATCTATCTGAAA
29585457 A
1 A
29585458 AAAGAAGAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (28 bp):
AGACATATGCTTCATTATCTATCTGAAA
Found at i:29588635 original size:60 final size:60
Alignment explanation
Indices: 29588540--29588653 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
29588530 TTCTACGTCA
* * * * *
29588540 GATTTTGTTGACGATTGATTTCTTATGTAATTTGTTTAATTTGCCAAAGGATGTTAATTT
1 GATTTTGTTGACGACTGATTTCCTACGTAACTTGTTCAATTTGCCAAAGGATGTTAATTT
* **
29588600 GATTTTGTTGATGACTGATTTCCTACGTAACTTGTTCAATTTTTCAAAGGATGT
1 GATTTTGTTGACGACTGATTTCCTACGTAACTTGTTCAATTTGCCAAAGGATGT
29588654 CATTGAGTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.47
Consensus pattern (60 bp):
GATTTTGTTGACGACTGATTTCCTACGTAACTTGTTCAATTTGCCAAAGGATGTTAATTT
Found at i:29597459 original size:12 final size:12
Alignment explanation
Indices: 29597442--29597466 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29597432 AGTGTAGAAG
29597442 CAGATCATTCAT
1 CAGATCATTCAT
29597454 CAGATCATTCAT
1 CAGATCATTCAT
29597466 C
1 C
29597467 TGAAGAACAG
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:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CAGATCATTCAT
Found at i:29601763 original size:21 final size:21
Alignment explanation
Indices: 29601739--29601783 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
29601729 TACAGAAAGG
* *
29601739 AAATTCTAAATATTTTATTAA
1 AAATTATAAAGATTTTATTAA
* *
29601760 AAATTATAGAGATTTTCTTAA
1 AAATTATAAAGATTTTATTAA
29601781 AAA
1 AAA
29601784 AATTATCAGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (21 bp):
AAATTATAAAGATTTTATTAA
Found at i:29601999 original size:47 final size:48
Alignment explanation
Indices: 29601903--29601999 Score: 119
Period size: 48 Copynumber: 2.0 Consensus size: 48
29601893 TCCATTTTCT
* *
29601903 ATTTTTGTAGAATTTTTAAAAATAAAAAATTAGTTTTGATTTTTTAAA
1 ATTTTTGTAGAATTTCTAAAAATAAAAAATTAGTTTTGATTATTTAAA
* *
29601951 ATTTTT-TCAGAATTTCTAAGAATAAAAAATTTA-TTTTTA-TATTTAAA
1 ATTTTTGT-AGAATTTCTAAAAATAAAAAA-TTAGTTTTGATTATTTAAA
29601998 AT
1 AT
29602000 ATTAAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
47 10 0.23
48 30 0.70
49 3 0.07
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (48 bp):
ATTTTTGTAGAATTTCTAAAAATAAAAAATTAGTTTTGATTATTTAAA
Found at i:29602567 original size:24 final size:24
Alignment explanation
Indices: 29602526--29602571 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
29602516 ATTTTTAATA
29602526 AAAGTATAAATTTATAAAATTTTTT
1 AAAGTATAAATTTAT-AAATTTTTT
* *
29602551 AAAGTA-AGATTTGTAAATTTT
1 AAAGTATAAATTTATAAATTTT
29602572 GAATTTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 6 0.32
25 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (24 bp):
AAAGTATAAATTTATAAATTTTTT
Found at i:29602803 original size:12 final size:12
Alignment explanation
Indices: 29602786--29602814 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
29602776 TATAAATAAT
29602786 TCAAATGTGGAA
1 TCAAATGTGGAA
29602798 TCAAATGTGGAA
1 TCAAATGTGGAA
29602810 TCAAA
1 TCAAA
29602815 GTTACATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (12 bp):
TCAAATGTGGAA
Found at i:29603095 original size:13 final size:14
Alignment explanation
Indices: 29603059--29603104 Score: 76
Period size: 14 Copynumber: 3.4 Consensus size: 14
29603049 ATGGCTACAT
29603059 TATAATGCAACAAG
1 TATAATGCAACAAG
*
29603073 TATGATGCAACAA-
1 TATAATGCAACAAG
29603086 TATAATGCAACAAG
1 TATAATGCAACAAG
29603100 TATAA
1 TATAA
29603105 AACTTTGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 12 0.41
14 17 0.59
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.24
Consensus pattern (14 bp):
TATAATGCAACAAG
Found at i:29606627 original size:21 final size:21
Alignment explanation
Indices: 29606577--29606628 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
29606567 TAGATTTGTA
*
29606577 AATTTTGA-ATTTTAAACTTTT
1 AATTTT-ATATTTTAAAATTTT
***
29606598 AAACATATATTTTAAAATTTT
1 AATTTTATATTTTAAAATTTT
29606619 AATTTTATAT
1 AATTTTATAT
29606629 AATGTTTTGA
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (21 bp):
AATTTTATATTTTAAAATTTT
Found at i:29608077 original size:24 final size:24
Alignment explanation
Indices: 29608034--29608098 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
29608024 AGGGCATAAG
29608034 AAAAAAGA-G-AAAAAGA-AAAGA
1 AAAAAAGAGGTAAAAAGAGAAAGA
29608055 AAAAAAGAGGTAAAAAGAGAAAGA
1 AAAAAAGAGGTAAAAAGAGAAAGA
* *
29608079 AAAAAACAGATAAAAAGAGA
1 AAAAAAGAGGTAAAAAGAGA
29608099 TCCGTGTGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
21 8 0.21
22 1 0.03
23 7 0.18
24 23 0.59
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.03
Consensus pattern (24 bp):
AAAAAAGAGGTAAAAAGAGAAAGA
Found at i:29622038 original size:26 final size:27
Alignment explanation
Indices: 29622000--29622074 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 27
29621990 AGGATGATCG
* *
29622000 ATTACCTTATTTATATATTCATT-ATT
1 ATTATCTTTTTTATATATTCATTAATT
**
29622026 ATTATCTTTTTTAT-TATTTTTTAATT
1 ATTATCTTTTTTATATATTCATTAATT
*
29622052 ATTAT-TTTTTTATTATATACATT
1 ATTATCTTTTTTA-TATATTCATT
29622075 TTTTGCTTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 13 0.33
26 21 0.54
27 5 0.13
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTATCTTTTTTATATATTCATTAATT
Found at i:29622055 original size:14 final size:13
Alignment explanation
Indices: 29622021--29622067 Score: 60
Period size: 12 Copynumber: 3.5 Consensus size: 13
29622011 TATATATTCA
*
29622021 TTATTATTATCTT
1 TTATTATTATTTT
29622034 TT-TTATTATTTT
1 TTATTATTATTTT
29622046 TTAATTATTATTTTT
1 TT-ATTATTA-TTTT
29622061 TTATTAT
1 TTATTAT
29622068 ATACATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 11 0.37
13 2 0.07
14 11 0.37
15 6 0.20
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:29622936 original size:13 final size:14
Alignment explanation
Indices: 29622910--29622939 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
29622900 CGCTAACCTT
29622910 TTTTTCTCTAACTC
1 TTTTTCTCTAACTC
29622924 TTTTTCTCT-ACTC
1 TTTTTCTCTAACTC
29622937 TTT
1 TTT
29622940 CACCAACTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.10, C:0.27, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTCTCTAACTC
Found at i:29623357 original size:13 final size:12
Alignment explanation
Indices: 29623336--29623374 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
29623326 ATGGCTATTA
29623336 TTTTTTTATTTT
1 TTTTTTTATTTT
29623348 TTTTTCTTATTTT
1 TTTTT-TTATTTT
29623361 TTTTATTT-TTTT
1 TTTT-TTTATTTT
29623373 TT
1 TT
29623375 GGATTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.44
13 13 0.52
14 1 0.04
ACGTcount: A:0.08, C:0.03, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTATTTT
Found at i:29623380 original size:21 final size:22
Alignment explanation
Indices: 29623336--29623382 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
29623326 ATGGCTATTA
**
29623336 TTTTTTTATTTTTTTTTCTTAT
1 TTTTTTTATTTTTTTTTCGGAT
29623358 TTTTTTTATTTTTTTTT-GGAT
1 TTTTTTTATTTTTTTTTCGGAT
29623379 TTTT
1 TTTT
29623383 CTCTTGTGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.09, C:0.02, G:0.04, T:0.85
Consensus pattern (22 bp):
TTTTTTTATTTTTTTTTCGGAT
Found at i:29623382 original size:12 final size:10
Alignment explanation
Indices: 29623331--29623374 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
29623321 TTTCAATGGC
29623331 TATTATTTTTT
1 TATT-TTTTTT
29623342 TATTTTTTTT
1 TATTTTTTTT
*
29623352 TCTTATTTTTTT
1 T-AT-TTTTTTT
29623364 TATTTTTTTT
1 TATTTTTTTT
29623374 T
1 T
29623375 GGATTTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 15 0.52
11 6 0.21
12 8 0.28
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.86
Consensus pattern (10 bp):
TATTTTTTTT
Found at i:29624494 original size:68 final size:67
Alignment explanation
Indices: 29624379--29624512 Score: 214
Period size: 68 Copynumber: 2.0 Consensus size: 67
29624369 TTGAGATTTT
* * *
29624379 AATTTTATATAATGTTTTGAAAAATAACATCAAAATTGAATTTATTTGACCACAAAAGTAAATAA
1 AATTTTATATAATGTTTTGAAAAAAAACATCAAAATTGAATTCATTTGACCACAAAAATAAATAA
29624444 GC
66 GC
* *
29624446 AATTTTATATAATGTTTTGAAAAAAAAGGATCAAAATTGAATTCATTTGACCATAAAAATAAATA
1 AATTTTATATAATGTTTTGAAAAAAAA-CATCAAAATTGAATTCATTTGACCACAAAAATAAATA
29624511 AG
65 AG
29624513 GGGCAAATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
67 26 0.43
68 35 0.57
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (67 bp):
AATTTTATATAATGTTTTGAAAAAAAACATCAAAATTGAATTCATTTGACCACAAAAATAAATAA
GC
Found at i:29626842 original size:2 final size:2
Alignment explanation
Indices: 29626835--29626864 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
29626825 TCAAATTAGT
29626835 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
29626865 ATTTTCTTCT
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:29627284 original size:68 final size:69
Alignment explanation
Indices: 29627168--29627299 Score: 221
Period size: 68 Copynumber: 1.9 Consensus size: 69
29627158 GAAGGATCGC
* *
29627168 ATAAATACGTAGGTATTTACTTTTTCTAGTCATAATTGATACATATAAAATTCTTTTCAAGATTA
1 ATAAATACGTAAGTATTTACTTTTTCTAGTCATAATTGATACATATAAAATCCTTTTCAAGATTA
29627233 CAAT
66 CAAT
* *
29627237 ATAAATACGTAAGTGTTTACTTTTT-TTGTCATAATTGATACATATAAAATCCTTTTCAAGATT
1 ATAAATACGTAAGTATTTACTTTTTCTAGTCATAATTGATACATATAAAATCCTTTTCAAGATT
29627300 GGGATTTTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
68 36 0.61
69 23 0.39
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (69 bp):
ATAAATACGTAAGTATTTACTTTTTCTAGTCATAATTGATACATATAAAATCCTTTTCAAGATTA
CAAT
Found at i:29627567 original size:24 final size:24
Alignment explanation
Indices: 29627535--29627597 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
29627525 CTTTTCATAC
** *
29627535 ATAAATAACAAGTGTTTACCAATT
1 ATAAATAACAAGTGTGCACCAAAT
29627559 ATAAATAACAAGTGTGCACCAAAT
1 ATAAATAACAAGTGTGCACCAAAT
*
29627583 ATGAATAACAAGTGT
1 ATAAATAACAAGTGT
29627598 CTGTTATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.27
Consensus pattern (24 bp):
ATAAATAACAAGTGTGCACCAAAT
Found at i:29637392 original size:25 final size:25
Alignment explanation
Indices: 29637364--29637414 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
29637354 CCAATATCAG
*
29637364 AGACCTTGGCATTAGCTATTCCCTC
1 AGACCTTGACATTAGCTATTCCCTC
*
29637389 AGACCTTGACATTAGCTATTTCCTC
1 AGACCTTGACATTAGCTATTCCCTC
29637414 A
1 A
29637415 TCTCTTTGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (25 bp):
AGACCTTGACATTAGCTATTCCCTC
Found at i:29638457 original size:21 final size:19
Alignment explanation
Indices: 29638421--29638461 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
29638411 ACATGTTGAA
29638421 TAGTTAATTTAAGTTATTT
1 TAGTTAATTTAAGTTATTT
*
29638440 TAGTTAAGTTTTATGTTATTT
1 TAGTTAA--TTTAAGTTATTT
29638461 T
1 T
29638462 CTTTTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (19 bp):
TAGTTAATTTAAGTTATTT
Found at i:29658947 original size:25 final size:24
Alignment explanation
Indices: 29658906--29658958 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
29658896 CAGAGTGCAC
* *
29658906 TAACATTTTTTTTAACATGGTGTG
1 TAACATTTTTTTCAACATGATGTG
29658930 TAACAATTTTTTTCAACATGATGTG
1 TAAC-ATTTTTTTCAACATGATGTG
29658955 TAAC
1 TAAC
29658959 TTAGTTTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.45
Consensus pattern (24 bp):
TAACATTTTTTTCAACATGATGTG
Found at i:29659145 original size:125 final size:123
Alignment explanation
Indices: 29658830--29659277 Score: 483
Period size: 123 Copynumber: 3.6 Consensus size: 123
29658820 AAATATGACA
* * * * * *
29658830 TGTAACTTGATTTTTATTTTTGTATTTCACTAGGACATAAACTCTTGGAGTTAAACACTTTAAAT
1 TGTAACTTGGTTTCTATCTTTGTATTTCACTA--AAATAAACTCTTGGAGTTAAACACCTTAAAC
** * * * **
29658895 ACAGAGTGCACTAACATTTTTTTT-AACATGGTGTGTAACAA--TTTTTTTCAACATGATG
64 ATGGCGTGTAATAATTTTTTTTTTCAACATGGTGTGTAACAACTTTTTTTTCAACATG-TG
* * *
29658953 TGTAACTTAGTTTCTATCTTTGTATTTCACTAGGATATAAACTGTTGGAGTTAAACACCTTAAAC
1 TGTAACTTGGTTTCTATCTTTGTATTTCACTA--AAATAAACTCTTGGAGTTAAACACCTTAAAC
*
29659018 ATGGCGTGTAATAACTTTTTTTTTTTCAACATGGTGTGTAACAACTTTTTTTTCAACATAGTA
64 ATGGCGTGTAATAA--TTTTTTTTTTCAACATGGTGTGTAACAACTTTTTTTTCAACAT-GTG
* * *
29659081 TGTAACTTGGTTTCTATCTTTAT-TTTCACTAAAACAAACTCTTGAAGTTAAACACCTTAAACAT
1 TGTAACTTGGTTTCTATCTTTGTATTTCACTAAAATAAACTCTTGGAGTTAAACACCTTAAACAT
* * * * *
29659145 GACGTGTAATAATTTCTTTTTTCAACATGGCT-TATAACAACTTTTTTTTCATCATGGCG
66 GGCGTGTAATAATTTTTTTTTTCAACATGG-TGTGTAACAACTTTTTTTTCAACAT-GTG
* * * * *
29659204 TGTAACTTGGTCTCTATTTTTGTATTTCACTAAGACATAAACTTTTGGAGTTAAACGCCTTAAAT
1 TGTAACTTGGTTTCTATCTTTGTATTTCACTAA-A-ATAAACTCTTGGAGTTAAACACCTTAAAC
29659269 ATGGCGTGT
64 ATGGCGTGT
29659278 TGCATACCAC
Statistics
Matches: 277, Mismatches: 38, Indels: 17
0.83 0.11 0.05
Matches are distributed among these distances:
123 125 0.45
124 10 0.04
125 49 0.18
126 49 0.18
127 8 0.03
128 35 0.13
129 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (123 bp):
TGTAACTTGGTTTCTATCTTTGTATTTCACTAAAATAAACTCTTGGAGTTAAACACCTTAAACAT
GGCGTGTAATAATTTTTTTTTTCAACATGGTGTGTAACAACTTTTTTTTCAACATGTG
Found at i:29659209 original size:27 final size:28
Alignment explanation
Indices: 29659140--29659209 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
29659130 AAACACCTTA
* * *
29659140 AACATGACGTGTAATAATTTCTTTTTTC
1 AACATGGCGTGTAACAACTTCTTTTTTC
* *
29659168 AACATGGCTTATAACAACTT-TTTTTTC
1 AACATGGCGTGTAACAACTTCTTTTTTC
*
29659195 ATCATGGCGTGTAAC
1 AACATGGCGTGTAAC
29659210 TTGGTCTCTA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 19 0.56
28 15 0.44
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (28 bp):
AACATGGCGTGTAACAACTTCTTTTTTC
Found at i:29669247 original size:37 final size:37
Alignment explanation
Indices: 29669171--29669249 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 37
29669161 TTTATTACAT
*
29669171 ATAA-TTATTTATTTTTATTTTATATTTTAAATATTA
1 ATAATTTATTTATTTTTATTTTATATTTAAAATATTA
29669207 ATAATNTTATTTATTTTTAATTTTATA-TTAAAAT-TTA
1 ATAAT-TTATTTATTTTT-ATTTTATATTTAAAATATTA
29669244 ATAATT
1 ATAATT
29669250 GTATAATATA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
36 5 0.13
37 8 0.21
38 18 0.46
39 8 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.61
Consensus pattern (37 bp):
ATAATTTATTTATTTTTATTTTATATTTAAAATATTA
Found at i:29669271 original size:8 final size:8
Alignment explanation
Indices: 29669260--29669289 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
29669250 GTATAATATA
29669260 ATTAAAAT
1 ATTAAAAT
29669268 ATTAAAAT
1 ATTAAAAT
29669276 ATTAAAAAT
1 ATT-AAAAT
29669285 ATTAA
1 ATTAA
29669290 TATTAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATTAAAAT
Found at i:29669329 original size:15 final size:14
Alignment explanation
Indices: 29669286--29669360 Score: 63
Period size: 15 Copynumber: 5.6 Consensus size: 14
29669276 ATTAAAAATA
29669286 TTAATATTAATATT
1 TTAATATTAATATT
29669300 TTAATA-T-A-A-T
1 TTAATATTAATATT
29669310 TTAATTATTAATATT
1 TTAA-TATTAATATT
*
29669325 TTAATTAATAATATT
1 TTAA-TATTAATATT
* *
29669340 TT--TATTTATAAT
1 TTAATATTAATATT
29669352 TTAATATTA
1 TTAATATTA
29669361 TTTTGATTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
10 5 0.10
11 3 0.06
12 11 0.22
13 2 0.04
14 11 0.22
15 17 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAATATTAATATT
Found at i:29669344 original size:27 final size:27
Alignment explanation
Indices: 29669276--29669356 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
29669266 ATATTAAAAT
* *
29669276 ATTAAAAATATTAATATTAATATTTTA
1 ATTAATAATATTATTATTAATATTTTA
29669303 A-T-ATAAT-TTAATTATTAATATTTTA
1 ATTAATAATATT-ATTATTAATATTTTA
* * *
29669328 ATTAATAATATTTTTATTTATAATTTA
1 ATTAATAATATTATTATTAATATTTTA
29669355 AT
1 AT
29669357 ATTATTTTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
24 2 0.04
25 19 0.42
26 2 0.04
27 20 0.44
28 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
ATTAATAATATTATTATTAATATTTTA
Found at i:29669347 original size:20 final size:20
Alignment explanation
Indices: 29669324--29669389 Score: 51
Period size: 23 Copynumber: 3.1 Consensus size: 20
29669314 TTATTAATAT
29669324 TTTAATTAATAATATTTTTA
1 TTTAATTAATAATATTTTTA
* *
29669344 TTTATAATTTAATATTATTTTGA
1 -TT-TAA-TTAATAATATTTTTA
* * * *
29669367 TTAAAATATTAATAATTTTA
1 TTTAATTAATAATATTTTTA
29669387 TTT
1 TTT
29669390 TTTATTTATA
Statistics
Matches: 34, Mismatches: 9, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
20 12 0.35
21 4 0.12
22 5 0.15
23 13 0.38
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTAATTAATAATATTTTTA
Found at i:29669378 original size:23 final size:24
Alignment explanation
Indices: 29669328--29669382 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
29669318 TAATATTTTA
* *
29669328 ATTAATAATATTTTTATTTATAAT
1 ATTAATAATATTTTGATTTAAAAT
*
29669352 -TTAATATTATTTTGA-TTAAAAT
1 ATTAATAATATTTTGATTTAAAAT
29669374 ATTAATAAT
1 ATTAATAAT
29669383 TTTATTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTAATAATATTTTGATTTAAAAT
Found at i:29669426 original size:14 final size:14
Alignment explanation
Indices: 29669407--29669438 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
29669397 ATACTCATTA
29669407 AAAATTTAATAAAT
1 AAAATTTAATAAAT
29669421 AAAATTTAATAAAT
1 AAAATTTAATAAAT
29669435 AAAA
1 AAAA
29669439 CATTAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATTTAATAAAT
Found at i:29669455 original size:10 final size:9
Alignment explanation
Indices: 29669440--29669516 Score: 56
Period size: 8 Copynumber: 8.6 Consensus size: 9
29669430 TAAATAAAAC
29669440 ATTAATAGTT
1 ATTAATA-TT
29669450 ATTAATATT
1 ATTAATATT
29669459 -TTAATATT
1 ATTAATATT
29669467 -TTAATCA-T
1 ATTAAT-ATT
*
29669475 ATTAATAAT
1 ATTAATATT
29669484 ATTTAA-ATT
1 A-TTAATATT
*
29669493 ATATATATAAT
1 AT-TA-ATATT
29669504 ATTAATATT
1 ATTAATATT
29669513 -TTAA
1 ATTAA
29669517 ATTTTACAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
8 20 0.35
9 19 0.33
10 14 0.25
11 4 0.07
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (9 bp):
ATTAATATT
Found at i:29669485 original size:20 final size:20
Alignment explanation
Indices: 29669460--29669506 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
29669450 ATTAATATTT
*
29669460 TAATATTTTAATCATAT-TAA
1 TAATATTTAAATCATATAT-A
*
29669480 TAATATTTAAATTATATATA
1 TAATATTTAAATCATATATA
29669500 TAATATT
1 TAATATT
29669507 AATATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATATTTAAATCATATATA
Found at i:29681150 original size:59 final size:58
Alignment explanation
Indices: 29681052--29681167 Score: 153
Period size: 59 Copynumber: 2.0 Consensus size: 58
29681042 TCACTTTCGG
*
29681052 TTGATTTTCTTTGACTTTGAGGCTTCTAATTTTCCAAAAATTTAGACAATCGGGTTCNA
1 TTGATTTTCTTTGACTTTGAGGCTTCTAATTGTCCAAAAATTTAGACAATCGGGTTC-A
* * * * *
29681111 TTGATTTTCTTTGAC-TTGAAGGCTTTTTATTGTCTAAAAATTTGGACAATTGGGTTC
1 TTGATTTTCTTTGACTTTG-AGGCTTCTAATTGTCCAAAAATTTAGACAATCGGGTTC
29681168 TATAAGAACC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
58 3 0.06
59 47 0.94
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.45
Consensus pattern (58 bp):
TTGATTTTCTTTGACTTTGAGGCTTCTAATTGTCCAAAAATTTAGACAATCGGGTTCA
Found at i:29689533 original size:23 final size:23
Alignment explanation
Indices: 29689487--29689534 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
29689477 TATTTGACTC
* ** *
29689487 ATTAGTTATTGTATGATTTTCCT
1 ATTAGTTAGTGTATGACCTCCCT
29689510 ATTAGTTAGTGTATGACCTCCCT
1 ATTAGTTAGTGTATGACCTCCCT
29689533 AT
1 AT
29689535 CTAAAGAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.48
Consensus pattern (23 bp):
ATTAGTTAGTGTATGACCTCCCT
Found at i:29705919 original size:31 final size:31
Alignment explanation
Indices: 29705884--29705954 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
29705874 CATGCTGTTT
*
29705884 AAATAAATCTCTAAACTATTTAAAAAAATTC
1 AAATAAACCTCTAAACTATTTAAAAAAATTC
* *
29705915 AAATAAACCTCTAAATTATTTAAGAAAATTC
1 AAATAAACCTCTAAACTATTTAAAAAAATTC
29705946 AAATAAACC
1 AAATAAACC
29705955 CTTATTCTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (31 bp):
AAATAAACCTCTAAACTATTTAAAAAAATTC
Found at i:29706360 original size:30 final size:31
Alignment explanation
Indices: 29706277--29706399 Score: 114
Period size: 30 Copynumber: 4.1 Consensus size: 31
29706267 TAAAGGTTTA
* * * *
29706277 TTGGATTCAAAATAAAAGTACAATAGCTTAT
1 TTGGATTCAAAATAAAAATATAAAAACTTAT
*
29706308 TT-GATTCAAAATAAAAGA-ATAAAAGCTTAT
1 TTGGATTCAAAATAAAA-ATATAAAAACTTAT
29706338 TTGGA-TCAAAATAAAAATATAAAAACTTAAT
1 TTGGATTCAAAATAAAAATATAAAAACTT-AT
* * *
29706369 TT-AACTC--AATAAAAATATAAAAATTTAT
1 TTGGATTCAAAATAAAAATATAAAAACTTAT
29706397 TTG
1 TTG
29706400 AATTTTCCTA
Statistics
Matches: 80, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
28 4 0.05
29 19 0.24
30 47 0.59
31 10 0.12
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (31 bp):
TTGGATTCAAAATAAAAATATAAAAACTTAT
Found at i:29710364 original size:23 final size:23
Alignment explanation
Indices: 29710334--29710382 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
29710324 TCAATATGTC
29710334 ATGTCAATTCCATGTGGTATAGA
1 ATGTCAATTCCATGTGGTATAGA
*
29710357 ATGTCAATTCCATGTGGTATATA
1 ATGTCAATTCCATGTGGTATAGA
29710380 ATG
1 ATG
29710383 ACAAGTAATA
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:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (23 bp):
ATGTCAATTCCATGTGGTATAGA
Found at i:29721669 original size:15 final size:16
Alignment explanation
Indices: 29721649--29721681 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29721639 TTTAAAATTT
*
29721649 TGAAAG-ATTTTGAAA
1 TGAAAGCATTTTAAAA
29721664 TGAAAGCATTTTAAAA
1 TGAAAGCATTTTAAAA
29721680 TG
1 TG
29721682 CGTCAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.33
Consensus pattern (16 bp):
TGAAAGCATTTTAAAA
Found at i:29729002 original size:146 final size:146
Alignment explanation
Indices: 29728737--29729018 Score: 440
Period size: 146 Copynumber: 1.9 Consensus size: 146
29728727 AGACCTATCT
* * *
29728737 ATTATCTAGGACCATAGCAGAATCCTCAAGGTACTAAATAGGTAAGTGGCATTAATTGAATTTGT
1 ATTATCTAGGACCATAGCAGAATCCTCAAGGCACTAAATAGGTAAGGGGCATTAATTGAATTTGG
* * *
29728802 TGCCTAAGTAACCCATAGCTATGAGAAATCAGAAACTACAGCATGAGTAATTCTTCAGTTAGTTC
66 TGCCTAAGTAACCCAAAGCTATGAGAAATCAAAAACTACAACATGAGTAATTCTTCAGTTAGTTC
29728867 AAACTAAAACCTTTCA
131 AAACTAAAACCTTTCA
* *
29728883 ATTATCTAGTACCATAGCAGAATCCTCAAGGCACTAAATATGTAAGGGGCATTAATTGAATTTGG
1 ATTATCTAGGACCATAGCAGAATCCTCAAGGCACTAAATAGGTAAGGGGCATTAATTGAATTTGG
* * *
29728948 TG-CTCAAGTAACCCAAAGCTATGAGAATTCAAAAACTACAACATGAGTATTTCTTCAGTTTGTT
66 TGCCT-AAGTAACCCAAAGCTATGAGAAATCAAAAACTACAACATGAGTAATTCTTCAGTTAGTT
*
29729012 TAAACTA
130 CAAACTA
29729019 GAAATGAAAT
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
145 2 0.02
146 121 0.98
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.29
Consensus pattern (146 bp):
ATTATCTAGGACCATAGCAGAATCCTCAAGGCACTAAATAGGTAAGGGGCATTAATTGAATTTGG
TGCCTAAGTAACCCAAAGCTATGAGAAATCAAAAACTACAACATGAGTAATTCTTCAGTTAGTTC
AAACTAAAACCTTTCA
Found at i:29730183 original size:50 final size:50
Alignment explanation
Indices: 29730125--29730241 Score: 189
Period size: 50 Copynumber: 2.3 Consensus size: 50
29730115 ATATAAGCAT
*
29730125 CAAGAATGAAATAAACAACAGATAGTTCAATTGGAAAACGTAAAGGCTTA
1 CAAGAATGAAATAAACAACAGATAGTTCAATTGGAAAACATAAAGGCTTA
* * *
29730175 CAAGAATGAAATAAACAACAGATAGTTCAATTGGAAGACATAAATGCTTT
1 CAAGAATGAAATAAACAACAGATAGTTCAATTGGAAAACATAAAGGCTTA
*
29730225 CAACAATGAAATAAACA
1 CAAGAATGAAATAAACA
29730242 TACTTCTCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (50 bp):
CAAGAATGAAATAAACAACAGATAGTTCAATTGGAAAACATAAAGGCTTA
Found at i:29735050 original size:19 final size:20
Alignment explanation
Indices: 29735013--29735053 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
29735003 GTTTTTATAT
29735013 TTTTATATTTTTACAAAAAA
1 TTTTATATTTTTACAAAAAA
29735033 TTTTA-ATTATTT-CAAAAAA
1 TTTTATATT-TTTACAAAAAA
29735052 TT
1 TT
29735054 AAATAAATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTATATTTTTACAAAAAA
Found at i:29736946 original size:21 final size:21
Alignment explanation
Indices: 29736920--29736965 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
29736910 CATTTCTTAC
29736920 CAACCTACTCACTAAATAGAT
1 CAACCTACTCACTAAATAGAT
29736941 CAACCTACTCACTAAATAGAT
1 CAACCTACTCACTAAATAGAT
29736962 CAAC
1 CAAC
29736966 AGAGCCCCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.30, G:0.04, T:0.22
Consensus pattern (21 bp):
CAACCTACTCACTAAATAGAT
Found at i:29739066 original size:21 final size:21
Alignment explanation
Indices: 29739040--29739080 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
29739030 TTTTTAGAAT
**
29739040 AAAATAATATTTTATTAATAA
1 AAAATAATAAATTATTAATAA
*
29739061 AAAATATTAAATTATTAATA
1 AAAATAATAAATTATTAATA
29739081 TTTAGCCGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAATAATAAATTATTAATAA
Found at i:29739074 original size:18 final size:19
Alignment explanation
Indices: 29739037--29739074 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
29739027 AAATTTTTAG
**
29739037 AATAAAATAATATTTTATT
1 AATAAAATAATATTAAATT
29739056 AATAAAA-AATATTAAATT
1 AATAAAATAATATTAAATT
29739074 A
1 A
29739075 TTAATATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AATAAAATAATATTAAATT
Found at i:29748389 original size:28 final size:27
Alignment explanation
Indices: 29748352--29748404 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
29748342 TAATCATATT
29748352 AATATTAATAATGTTTAAATTATATACA
1 AATATTAATAATGTTTAAATT-TATACA
*
29748380 AATATTAATAATTTTTAAATTTATA
1 AATATTAATAATGTTTAAATTTATA
29748405 AATAATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
AATATTAATAATGTTTAAATTTATACA
Found at i:29767255 original size:33 final size:33
Alignment explanation
Indices: 29767213--29767303 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 33
29767203 CGTAATGCTA
29767213 ATGTGATATGTTGAA-ATGTCATAATTGATGATG
1 ATGTGATATGTT-AACATGTCATAATTGATGATG
* *
29767246 ATGTGATATGTTAACATATCATTATTGATGATG
1 ATGTGATATGTTAACATGTCATAATTGATGATG
* * *
29767279 ATGTGACATGTTAATATGACATAAT
1 ATGTGATATGTTAACATGTCATAAT
29767304 CATATGATCA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
32 2 0.04
33 48 0.96
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (33 bp):
ATGTGATATGTTAACATGTCATAATTGATGATG
Found at i:29768953 original size:35 final size:35
Alignment explanation
Indices: 29768903--29768969 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
29768893 CATTTACGCA
29768903 TGACATGCTGACTTACATTTAATGACTATTACACG
1 TGACATGCTGACTTACATTTAATGACTATTACACG
*
29768938 TGACATGCTGGCTTACATTTAATGACTATTAC
1 TGACATGCTGACTTACATTTAATGACTATTAC
29768970 TGAGTTGTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (35 bp):
TGACATGCTGACTTACATTTAATGACTATTACACG
Found at i:29771567 original size:16 final size:14
Alignment explanation
Indices: 29771556--29771605 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
29771546 AAAAAATAAT
*
29771556 AAAAAATTAAAAAT
1 AAAAAATTAAAAAA
*
29771570 TAAAAATTAAAAAA
1 AAAAAATTAAAAAA
29771584 AATCAAAATTAAAAAA
1 AA--AAAATTAAAAAA
29771600 AAAAAA
1 AAAAAA
29771606 AGTTGAAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 17 0.55
16 14 0.45
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAAAATTAAAAAA
Found at i:29771574 original size:23 final size:22
Alignment explanation
Indices: 29771547--29771606 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 22
29771537 AATAATATAA
29771547 AAAAATAATAAAAAATTAAAAATT
1 AAAAATAA-AAAAAA-TAAAAATT
*
29771571 AAAAATTAAAAAAAATCAAAATT
1 AAAAA-TAAAAAAAATAAAAATT
29771594 AAAAA-AAAAAAAA
1 AAAAATAAAAAAAA
29771607 GTTGAAAGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 8 0.24
23 12 0.35
24 11 0.32
25 3 0.09
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (22 bp):
AAAAATAAAAAAAATAAAAATT
Found at i:29771599 original size:8 final size:7
Alignment explanation
Indices: 29771557--29771582 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
29771547 AAAAATAATA
29771557 AAAAATT
1 AAAAATT
29771564 AAAAATT
1 AAAAATT
29771571 AAAAATT
1 AAAAATT
29771578 AAAAA
1 AAAAA
29771583 AAATCAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:29772942 original size:120 final size:120
Alignment explanation
Indices: 29772593--29773298 Score: 979
Period size: 120 Copynumber: 5.8 Consensus size: 120
29772583 GGAGTTTGAT
* * *
29772593 ACGGATTTTCA-CTGAAGCGTTGAGATGAATCCGAATTCTATACTCCAATACCTATTAACTCAAA
1 ACGGATTCTCATC-GAAGCGTCGGGATGAATCCGAATTCTATACTCCAATACCTATTAACTCAAA
*
29772657 TAATCGTTGTTAAAAAATAATATATATT-AAAAAATAAATTTATATAAAGTTCGAG
65 TAATCGTTGTTAAAAAATAATATATATTAAAAAAATAAATTTACATAAAGTTCGAG
* **
29772712 ACGGATTCTCACCGAAGCGTCAAGATGAATCCGAATTCTATACTCCAATACCTATTAACTCAAAT
1 ACGGATTCTCATCGAAGCGTCGGGATGAATCCGAATTCTATACTCCAATACCTATTAACTCAAAT
* *
29772777 AATCGTTCTTAAAAAATGATATATATATATATATTAAAAAAATAAATTTACATAAAGTTTGAG
66 AATCGTTGTT---AAA--A-A-ATA-ATATATATTAAAAAAATAAATTTACATAAAGTTCGAG
* * * * *
29772840 AAGGATTCTCATCGAAGTGTCGGGATGAATTCGAATTTTATACTCCAATACTTATTAACTCAAAT
1 ACGGATTCTCATCGAAGCGTCGGGATGAATCCGAATTCTATACTCCAATACCTATTAACTCAAAT
29772905 AATCGTTGTTAAAAAATAATATATATTAAAAAAATAAATTTACATAAAGTTCGAG
66 AATCGTTGTTAAAAAATAATATATATTAAAAAAATAAATTTACATAAAGTTCGAG
* * *
29772960 ACGGATTCTCATCGAAGCATCGAGATGAATTCGAATTCTATACTCCAATACCTATTAACTCAAAT
1 ACGGATTCTCATCGAAGCGTCGGGATGAATCCGAATTCTATACTCCAATACCTATTAACTCAAAT
* *
29773025 AATCGTTGTTAAAAAATGATATATATTAAAAAAATAAATTTATATAAAGTTCGAG
66 AATCGTTGTTAAAAAATAATATATATTAAAAAAATAAATTTACATAAAGTTCGAG
* *
29773080 ACGGATTCTCATCGAAGCGTAGGTATGAATCCGAATTCTATACTCCAATACCTATTAACTCAAAT
1 ACGGATTCTCATCGAAGCGTCGGGATGAATCCGAATTCTATACTCCAATACCTATTAACTCAAAT
* * * *
29773145 AATCATTATTAAAAAATGATATATATTAAAAAAATAAATTTACATAAAGTTCGAA
66 AATCGTTGTTAAAAAATAATATATATTAAAAAAATAAATTTACATAAAGTTCGAG
* * * * * * * *
29773200 ACAGATTCTCATTGAATCGTTGGGATGAATCCAAATTCTATACTCTAATACCCATTAACTTAAAT
1 ACGGATTCTCATCGAAGCGTCGGGATGAATCCGAATTCTATACTCCAATACCTATTAACTCAAAT
* * *
29773265 AATCATT-ATAAAAAATAATATACA-TAAAAAAATA
66 AATCGTTGTTAAAAAATAATATATATTAAAAAAATA
29773299 TATGCATAAT
Statistics
Matches: 532, Mismatches: 45, Indels: 21
0.89 0.08 0.04
Matches are distributed among these distances:
118 10 0.02
119 83 0.16
120 323 0.61
121 3 0.01
122 4 0.01
123 1 0.00
124 1 0.00
125 4 0.01
126 3 0.01
127 9 0.02
128 91 0.17
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (120 bp):
ACGGATTCTCATCGAAGCGTCGGGATGAATCCGAATTCTATACTCCAATACCTATTAACTCAAAT
AATCGTTGTTAAAAAATAATATATATTAAAAAAATAAATTTACATAAAGTTCGAG
Found at i:29773301 original size:16 final size:16
Alignment explanation
Indices: 29773274--29773324 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
29773264 TAATCATTAT
29773274 AAAAAATAATATACATA
1 AAAAAAT-ATATACATA
*
29773291 AAAAAATATATGCATA
1 AAAAAATATATACATA
29773307 ATAATAAATA-ATA-ATA
1 A-AA-AAATATATACATA
29773323 AA
1 AA
29773325 TATATGAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 1 0.03
16 13 0.43
17 11 0.37
18 5 0.17
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAAAATATATACATA
Found at i:29773325 original size:28 final size:25
Alignment explanation
Indices: 29773279--29773330 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 25
29773269 ATTATAAAAA
*
29773279 ATAATATACATAAAAAAATATATGC
1 ATAATATAAATAAAAAAATATATGC
29773304 ATAATAATAAATAATAATAAATATATG
1 ATAAT-ATAAATAA-AA-AAATATATG
29773331 AACAAGGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
26 7 0.30
27 2 0.09
28 9 0.39
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (25 bp):
ATAATATAAATAAAAAAATATATGC
Found at i:29777174 original size:2 final size:2
Alignment explanation
Indices: 29777167--29777205 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
29777157 AACATAACAT
29777167 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29777206 GGAGCAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:29789790 original size:3 final size:3
Alignment explanation
Indices: 29789782--29789819 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
29789772 ATATATACTC
29789782 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
29789820 CTGTCATTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:29791510 original size:60 final size:60
Alignment explanation
Indices: 29791395--29791661 Score: 349
Period size: 60 Copynumber: 4.5 Consensus size: 60
29791385 TTTAAGCACA
* * * * * * *
29791395 ACCTATCTCAAAATAGGTTCGATTTAAGCAATATTGAAATTCCCAGACTTGATCTAGGCTTG
1 ACCTATCTCACAACAGGTTCGATTTAA--AAAATTAAAATTCCTAGACTTAATCTAGGCTCG
* * * *
29791457 ACCCATCTCACAACAAGTTTGATTTAAAAAATTAAAATTCTTAGACTTAATCTAGGCTCG
1 ACCTATCTCACAACAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATCTAGGCTCG
* * *
29791517 ACCTATCTCACAACAGGTGCGATTTAGAAAATTAAAATTCCTAGCCTT-ATCTAGGCTCG
1 ACCTATCTCACAACAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATCTAGGCTCG
*
29791576 ACCTATCTAACAACAGGTTCGATTT-AAAAATTAAAATTCCTAGACTTAATCTAGGCTCG
1 ACCTATCTCACAACAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATCTAGGCTCG
* *
29791635 GCCTATCTCATAACAGGTTCGATTTAA
1 ACCTATCTCACAACAGGTTCGATTTAA
29791662 TTCTCCGATG
Statistics
Matches: 178, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
58 20 0.11
59 67 0.38
60 69 0.39
62 22 0.12
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (60 bp):
ACCTATCTCACAACAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATCTAGGCTCG
Found at i:29791661 original size:59 final size:59
Alignment explanation
Indices: 29791395--29791661 Score: 347
Period size: 59 Copynumber: 4.5 Consensus size: 59
29791385 TTTAAGCACA
* * * * * *
29791395 ACCTATCTCAAAATAGGTTCGATTTAAGCAATATTGAAATTCCCAGACTTGATCTAGGCTTG
1 ACCTATCTCACAACAGGTTCGATTTAA--AA-ATTAAAATTCCTAGACTTAATCTAGGCTCG
* * * *
29791457 ACCCATCTCACAACAAGTTTGATTTAAAAAATTAAAATTCTTAGACTTAATCTAGGCTCG
1 ACCTATCTCACAACAGGTTCGATTT-AAAAATTAAAATTCCTAGACTTAATCTAGGCTCG
* *
29791517 ACCTATCTCACAACAGGTGCGATTTAGAAAATTAAAATTCCTAGCCTT-ATCTAGGCTCG
1 ACCTATCTCACAACAGGTTCGATTTA-AAAATTAAAATTCCTAGACTTAATCTAGGCTCG
*
29791576 ACCTATCTAACAACAGGTTCGATTTAAAAATTAAAATTCCTAGACTTAATCTAGGCTCG
1 ACCTATCTCACAACAGGTTCGATTTAAAAATTAAAATTCCTAGACTTAATCTAGGCTCG
* *
29791635 GCCTATCTCATAACAGGTTCGATTTAA
1 ACCTATCTCACAACAGGTTCGATTTAA
29791662 TTCTCCGATG
Statistics
Matches: 180, Mismatches: 22, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
58 20 0.11
59 71 0.39
60 65 0.36
61 2 0.01
62 20 0.11
63 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (59 bp):
ACCTATCTCACAACAGGTTCGATTTAAAAATTAAAATTCCTAGACTTAATCTAGGCTCG
Found at i:29792590 original size:21 final size:21
Alignment explanation
Indices: 29792565--29792605 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
29792555 ATGAAACCTC
*
29792565 TTTTTTTATTTATATTTTTTAA
1 TTTTTTT-GTTATATTTTTTAA
*
29792587 TTTTTTTGTTTTATTTTTT
1 TTTTTTTGTTATATTTTTT
29792606 TTAAGTATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (21 bp):
TTTTTTTGTTATATTTTTTAA
Found at i:29792602 original size:13 final size:12
Alignment explanation
Indices: 29792565--29792607 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
29792555 ATGAAACCTC
29792565 TTTTTTTATTTAT
1 TTTTTTTATTT-T
*
29792578 ATTTTTTAATTTT
1 -TTTTTTTATTTT
29792591 TTTGTTTTATTTT
1 TTT-TTTTATTTT
29792604 TTTT
1 TTTT
29792608 AAGTATAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 4 0.15
13 12 0.46
14 10 0.38
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (12 bp):
TTTTTTTATTTT
Found at i:29792609 original size:23 final size:22
Alignment explanation
Indices: 29792565--29792605 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
29792555 ATGAAACCTC
29792565 TTTTTTTATTTATATTTTTTAA
1 TTTTTTTATTTATATTTTTTAA
*
29792587 TTTTTTTGTTT-TATTTTTT
1 TTTTTTTATTTATATTTTTT
29792606 TTAAGTATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (22 bp):
TTTTTTTATTTATATTTTTTAA
Found at i:29804776 original size:264 final size:263
Alignment explanation
Indices: 29804306--29804829 Score: 1014
Period size: 264 Copynumber: 2.0 Consensus size: 263
29804296 ATCATGTATA
29804306 TGCATGTCAAGGGTCATTTGCAAATATCTCACAATGATGTTCCAAAAATGCCCTTGTGACCATTC
1 TGCATGTCAAGGGTCATTTGCAAATATCTCACAATGATGTTCCAAAAATGCCCTTGTGACCATTC
29804371 AAGCTAACAAGGAAACATGCACATCCAACAAGAACAAGTCATAAGTTTTTTTCATTATGAAGCAA
66 AAGCTAACAAGGAAACATGCACATCCAACAAGAACAAGTCATAAGTTTTTTTCATTATGAAGCAA
29804436 ACTTGTTCAATTCATTAATCATTCTAAACTTAAAGGATGACAACATTTTTCTCATGTAAGATCAT
131 ACTTGTTCAATTCATTAATCATTCTAAACTTAAAGGATGACAACATTTTTCTCATGTAAGATCAT
29804501 TTTGCTTTAAAAGTACCAATTC-AAGTAGTCAAAACTTTCAAGCTCATTATCAACCATCTTGAAC
196 TTTGCTTTAAAAGTACCAA-TCAAAGTAGTCAAAACTTTCAAGCTCATTATCAACCATCTTGAAC
29804565 AGAT
260 AGAT
*
29804569 NTGCATGTCAAGGGTCATTTGCAAATATCTCACAATTATGTTCCAAAAATGCCCTTGTGACCATT
1 -TGCATGTCAAGGGTCATTTGCAAATATCTCACAATGATGTTCCAAAAATGCCCTTGTGACCATT
29804634 CAAGCTAACAAGGAAACATGCACATCCAACAAGAACAAGTCATAAGTTTTTTTCATTATGAAGCA
65 CAAGCTAACAAGGAAACATGCACATCCAACAAGAACAAGTCATAAGTTTTTTTCATTATGAAGCA
29804699 AACTTGTTCAATTCATTAATCATTCTAAACTTAAAGGATGACAACATTTTTCTCATGTAAGATCA
130 AACTTGTTCAATTCATTAATCATTCTAAACTTAAAGGATGACAACATTTTTCTCATGTAAGATCA
29804764 TTTTGCTTTAAAAGTACCAATCAAAGTAGTCAAAACTTTCAAGCTCATTATCAACCATCTTGAAC
195 TTTTGCTTTAAAAGTACCAATCAAAGTAGTCAAAACTTTCAAGCTCATTATCAACCATCTTGAAC
29804829 A
260 A
29804830 ATTCAAGTAA
Statistics
Matches: 258, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
263 2 0.01
264 256 0.99
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (263 bp):
TGCATGTCAAGGGTCATTTGCAAATATCTCACAATGATGTTCCAAAAATGCCCTTGTGACCATTC
AAGCTAACAAGGAAACATGCACATCCAACAAGAACAAGTCATAAGTTTTTTTCATTATGAAGCAA
ACTTGTTCAATTCATTAATCATTCTAAACTTAAAGGATGACAACATTTTTCTCATGTAAGATCAT
TTTGCTTTAAAAGTACCAATCAAAGTAGTCAAAACTTTCAAGCTCATTATCAACCATCTTGAACA
GAT
Found at i:29806878 original size:32 final size:33
Alignment explanation
Indices: 29806837--29806939 Score: 93
Period size: 32 Copynumber: 3.1 Consensus size: 33
29806827 CAACCTTTAG
*
29806837 CAATGGTTTTTCACGGGATCAACCAAAACCCAA
1 CAATAGTTTTTCACGGGATCAACCAAAACCCAA
* ** * * *
29806870 -AGTAGTTTTTCAAAGGCTTAACCACAACCTACAA
1 CAATAGTTTTTCACGGGATCAACCAAAACC--CAA
*
29806904 CAATGGTTTTT-ACCGGGATCAACCAAAACCCAA
1 CAATAGTTTTTCA-CGGGATCAACCAAAACCCAA
29806937 CAA
1 CAA
29806940 CCAACTTTTC
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
32 22 0.42
33 6 0.12
34 4 0.08
35 20 0.38
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (33 bp):
CAATAGTTTTTCACGGGATCAACCAAAACCCAA
Found at i:29809781 original size:11 final size:10
Alignment explanation
Indices: 29809763--29809797 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
29809753 AAACAATGCC
29809763 AAAAAAAGAA
1 AAAAAAAGAA
29809773 AAGAAAAAGAA
1 AA-AAAAAGAA
29809784 AAAACAAAGAA
1 AAAA-AAAGAA
29809795 AAA
1 AAA
29809798 TGATTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:29811730 original size:31 final size:31
Alignment explanation
Indices: 29811692--29813043 Score: 659
Period size: 31 Copynumber: 43.9 Consensus size: 31
29811682 CATGAGAGGA
*
29811692 TTTAAGCCCAATTTAGCTGGCATCCAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* *
29811723 TTTAAGCCCAGTTATA-TTGGCAT-AAAGATG
1 TTTAAGCCCAATT-TAGTTGGCATCCAAGATG
* * *
29811753 ATTAAGCTCAATTTAGCTGGCATCCAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* * *
29811784 TTTAAGCCC-AGTTACATTGGCA-CAAAGGATG
1 TTTAAGCCCAATTTA-GTTGGCATCCAA-GATG
* *
29811815 ATTAAGCCCAATTTAGTTGGCATCCAATATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* * * * *
29811846 TATAAGTCC-AGTTACTTTGGCA-CAAAAGGA-G
1 TTTAAGCCCAATTTA-GTTGGCATC-CAA-GATG
* *
29811877 TTTAAGCCCAATTGAATTGGCATCCAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* * * * **
29811908 TATAAGTCC-AGTTACGTTGGCA-CAAAAGAAA
1 TTTAAGCCCAATTTA-GTTGGCATC-CAAGATG
*
29811939 TTTAAGCCCAATTTAGCTGGCATCCAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* *
29811970 TTTAAGCCCAGTTATA-TTGGCAT-AAAGATG
1 TTTAAGCCCAATT-TAGTTGGCATCCAAGATG
* * *
29812000 ATTAAGCCCAATTTAGCTGGCATCTAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
*
29812031 TTTAAGCCCAATTATA-TTGGCA-CAAAGATG
1 TTTAAGCCCAATT-TAGTTGGCATCCAAGATG
* *
29812061 TTTAAGCCCAATTTAGCTAGCATCCAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* * * *
29812092 TTTAAGTCTAA-CTATGTTGGCA-CAAAGATG
1 TTTAAGCCCAATTTA-GTTGGCATCCAAGATG
** *
29812122 CTTT-AGCCCAATTTAACTGGCATCGAAGATG
1 -TTTAAGCCCAATTTAGTTGGCATCCAAGATG
*
29812153 TTTAAGCCCAATTATA-TTGGCA-CTAAGATG
1 TTTAAGCCCAATT-TAGTTGGCATCCAAGATG
* ** ** *
29812183 ATTAAGCCTGATTTACCTGACATCCAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* * ** *
29812214 TATAAGTCC-GGTTACGTTGGCA-CAAAAGGA-G
1 TTTAAGCCCAATTTA-GTTGGCATC-CAA-GATG
* * *
29812245 TTTAAGTCTAATTTAATTGGCATCCAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* * * *
29812276 TATAAGTCCAA-TTACGTTTGCA-CAAAAGGA-G
1 TTTAAGCCCAATTTA-GTTGGCATC-CAA-GATG
* *
29812307 TTTAAGCCCAATTTAGCTGGCATCTAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* * *
29812338 TTTAAGCCC-AGTTATGTTGACA-CAAAGGATG
1 TTTAAGCCCAATTTA-GTTGGCATCCAA-GATG
* * *
29812369 ATTAAGCCTAATTTAGCTGGCATCCAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
** * * * * *
29812400 CATAAG-TCTAGTTACGTTGGCA-CAAAAGGA-A
1 TTTAAGCCCAATTTA-GTTGGCATC-CAA-GATG
* *
29812431 TTTAAGCCCAATTTAGCTAGCATCCAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* *
29812462 TTTAAGCCCAGTTATA-TTGGCA-CAAAGATG
1 TTTAAGCCCAATT-TAGTTGGCATCCAAGATG
* * * *
29812492 ATTAAGTCCAATTTAGCTAGCATCCAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* * *
29812523 TTTAAGCCCAATTATA-TTGGTA-CAAAGATT
1 TTTAAGCCCAATT-TAGTTGGCATCCAAGATG
** *
29812553 TTTAAGCCCAATTTAACTAGCATCCAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* * ** *
29812584 TTTAAG-TCTAGCTATGTTGGCA-CAAAGATG
1 TTTAAGCCCAATTTA-GTTGGCATCCAAGATG
** *
29812614 CTTT-AGCCCAATTTAACTGACATCCAAGATG
1 -TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* *
29812645 TTTAAGCCCAGTTATA-TTGGCA-CTAAGATG
1 TTTAAGCCCAATT-TAGTTGGCATCCAAGATG
* * ** ** * * *
29812675 ATTAAGTCTGATTTACCTAGTATCCAAGAGG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* * * * * *
29812706 TATAAG-TCTAGTTACGTTGGCA-CAAAAGAAG
1 TTTAAGCCCAATTTA-GTTGGCATC-CAAGATG
*
29812737 TTTAAGCCCAATTTAATTGGCATCCAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* * * *
29812768 TATAAGTCC-AGTTACGTTGGCA-CAAAAAGA-G
1 TTTAAGCCCAATTTA-GTTGGCATC--CAAGATG
29812799 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* * *
29812830 TTTAAGCCC-AGTTACATTGGCA-CAAAGGATG
1 TTTAAGCCCAATTTA-GTTGGCATCCAA-GATG
* * * *
29812861 ATTAAGCCCAATTTA-TCTAGCATCCAATATA
1 TTTAAGCCCAATTTAGT-TGGCATCCAAGATG
* * * * * *
29812892 TATAAG-TCTAGTTACTTTGGCA-CAAAAGGA-G
1 TTTAAGCCCAATTTA-GTTGGCATC-CAA-GATG
* *
29812923 TTTAAGCCCAATTTAATTAGCATCCAAGATG
1 TTTAAGCCCAATTTAGTTGGCATCCAAGATG
* * * * *
29812954 TATAAGTCC-AGTTATGTTGGCA-CAAAAGAAG
1 TTTAAGCCCAATTTA-GTTGGCATC-CAAGATG
*
29812985 TTTAAGCCC-AGTTATGTTGGCA-CCAAGATG
1 TTTAAGCCCAATTTA-GTTGGCATCCAAGATG
* * * *
29813015 TGTAAGCCCACTTTAGCTAGCATCCAAGA
1 TTTAAGCCCAATTTAGTTGGCATCCAAGA
29813044 CGTCTAAACC
Statistics
Matches: 973, Mismatches: 255, Indels: 186
0.69 0.18 0.13
Matches are distributed among these distances:
29 14 0.01
30 290 0.30
31 581 0.60
32 88 0.09
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (31 bp):
TTTAAGCCCAATTTAGTTGGCATCCAAGATG
Found at i:29811857 original size:62 final size:61
Alignment explanation
Indices: 29811693--29813020 Score: 1283
Period size: 62 Copynumber: 21.6 Consensus size: 61
29811683 ATGAGAGGAT
* * *
29811693 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGCCCAGTTATATTGGCATAAAGATGA
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAGATGA
* * **
29811754 TTAAGCTCAATTTAGCTGGCATCCAAGATGTTTAAGCCCAGTTACATTGGCACAAAGGATGA
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAA-GATGA
* * * *
29811816 TTAAGCCCAATTTAGTTGGCATCCAATATGTATAAGTCCAGTTACT-TTGGCACAAAAGGA-GT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTA-TGTTGGCAC-AAA-GATGA
* ** * * *
29811878 TTAAGCCCAATTGAATTGGCATCCAAGATGTATAAGTCCAGTTACGTTGGCACAAAAGA-AA
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCAC-AAAGATGA
* * *
29811939 TTTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGCCCAGTTATATTGGCATAAAGATGA
1 -TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAGATGA
* * * * *
29812001 TTAAGCCCAATTTAGCTGGCATCTAAGATGTTTAAGCCCAATTATATTGGCACAAAGATGT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAGATGA
* * ** *
29812062 TTAAGCCCAATTTAGCTAGCATCCAAGATGTTTAAGTCTAACTATGTTGGCACAAAGATGC
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAGATGA
* * * * * * *
29812123 TTTAGCCCAATTTAACTGGCATCGAAGATGTTTAAGCCCAATTATATTGGCACTAAGATGA
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAGATGA
** * * * * * *
29812184 TTAAGCCTGATTTACCTGACATCCAAGATGTATAAGTCCGGTTACGTTGGCACAAAAGGA-GT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCAC-AAA-GATGA
* * ** * * * * *
29812246 TTAAGTCTAATTTAATTGGCATCCAAGATGTATAAGTCCAATTACGTTTGCACAAAAGGA-GT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCAC-AAA-GATGA
* * *
29812308 TTAAGCCCAATTTAGCTGGCATCTAAGATGTTTAAGCCCAGTTATGTTGACACAAAGGATGA
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAA-GATGA
* ** * * *
29812370 TTAAGCCTAATTTAGCTGGCATCCAAGATGCATAAGTCTAGTTACGTTGGCACAAA-AGGAA
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAGATG-A
* * *
29812431 TTTAAGCCCAATTTAGCTAGCATCCAAGATGTTTAAGCCCAGTTATATTGGCACAAAGATGA
1 -TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAGATGA
* * * * * * **
29812493 TTAAGTCCAATTTAGCTAGCATCCAAGATGTTTAAGCCCAATTATATTGGTACAAAGATTT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAGATGA
* * * * *
29812554 TTAAGCCCAATTTAACTAGCATCCAAGATGTTTAAGTCTAGCTATGTTGGCACAAAGATGC
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAGATGA
* * * * * *
29812615 TTTAGCCCAATTTAACTGACATCCAAGATGTTTAAGCCCAGTTATATTGGCACTAAGATGA
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAGATGA
* ** * * * * * * * * *
29812676 TTAAGTCTGATTTACCTAGTATCCAAGAGGTATAAGTCTAGTTACGTTGGCACAAAAGAAGT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCAC-AAAGATGA
** * * *
29812738 TTAAGCCCAATTTAATTGGCATCCAAGATGTATAAGTCCAGTTACGTTGGCACAAAAAGA-GT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCAC--AAAGATGA
* * **
29812800 TTAAGCCCAATTTAGTTGGCATCCAAGATGTTTAAGCCCAGTTACATTGGCACAAAGGATGA
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAA-GATGA
* * * * * * *
29812862 TTAAGCCCAATTTATCTAGCATCCAATATATATAAGTCTAGTTACT-TTGGCACAAAAGGA-GT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTA-TGTTGGCAC-AAA-GATGA
** * * * *
29812924 TTAAGCCCAATTTAATTAGCATCCAAGATGTATAAGTCCAGTTATGTTGGCACAAAAGAAGT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCAC-AAAGATGA
* * *
29812986 TTAAGCCC-AGTTATGTTGGCA-CCAAGATGTGTAAG
1 TTAAGCCCAATTTA-GCTGGCATCCAAGATGTTTAAG
29813021 CCCACTTTAG
Statistics
Matches: 1074, Mismatches: 172, Indels: 42
0.83 0.13 0.03
Matches are distributed among these distances:
60 5 0.00
61 490 0.46
62 557 0.52
63 22 0.02
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (61 bp):
TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAGATGA
Found at i:29813082 original size:492 final size:492
Alignment explanation
Indices: 29811693--29813024 Score: 1904
Period size: 492 Copynumber: 2.7 Consensus size: 492
29811683 ATGAGAGGAT
** * * * * * ** * * *
29811693 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGCCCAGTTATATTGGCA-TAAAGATGATTA
1 TTAAGCCTGATTTACCTGACATCCAAGAGGTATAAGTCCAGTTACGTTGGCACAAAAGAAGTTTA
* ** * * * *
29811757 AGCTCAATTTAGCTGGCATCCAAGATGTTTAAGCCCAGTTACATTGGCAC-AAAGGATGATTAAG
66 AGCCCAATTTAATTGGCATCCAAGATGTATAAGTCCAGTTACGTTGGCACAAAAGGA-GTTTAAG
* * * * *
29811821 CCCAATTTAGTTGGCATCCAATATGTATAAGTCCAGTTACTTTGGCACAAAAGGA-GTTTAAGCC
130 CCCAATTTAGTTGGCATCCAAGATGTTTAAGCCCAGTTACATTGGCAC-AAAGGATGATTAAGCC
* * *
29811885 CAATTGAAT-TGGCATCCAAGATGTATAAGTCCAGTTACGTTGGCACAAAAGAAATTTAAGCCCA
194 CAATT-TATCTGGCATCCAAGATGTATAAGTCTAGTTACGTTGGCACAAAAGGAATTTAAGCCCA
* *
29811949 ATTTAGCTGGCATCCAAGATGTTTAAGCCCAGTTATATTGGCATAAAGATGATTAAGCCCAATTT
258 ATTTAGCTAGCATCCAAGATGTTTAAGCCCAGTTATATTGGCACAAAGATGATTAAGCCCAATTT
* *
29812014 AGCTGGCATCTAAGATGTTTAAGCCCAATTATATTGGCACAAAGATGTTTAAGCCCAATTTAGCT
323 AGCTGGCATCCAAGATGTTTAAGCCCAATTATATTGGCACAAAGATGTTTAAGCCCAATTTAACT
*
29812079 AGCATCCAAGATGTTTAAGTCTAACTATGTTGGCACAAAGATGCTTTAGCCCAATTTAACTGGCA
388 AGCATCCAAGATGTTTAAGTCTAACTATGTTGGCACAAAGATGCTTTAGCCCAATTTAACTGACA
*
29812144 TCGAAGATGTTTAAGCCCAATTATATTGGCACTAAGATGA
453 TCCAAGATGTTTAAGCCCAATTATATTGGCACTAAGATGA
* * *
29812184 TTAAGCCTGATTTACCTGACATCCAAGATGTATAAGTCCGGTTACGTTGGCACAAAAGGAGTTTA
1 TTAAGCCTGATTTACCTGACATCCAAGAGGTATAAGTCCAGTTACGTTGGCACAAAAGAAGTTTA
* * * *
29812249 AGTCTAATTTAATTGGCATCCAAGATGTATAAGTCCAATTACGTTTGCACAAAAGGAGTTTAAGC
66 AGCCCAATTTAATTGGCATCCAAGATGTATAAGTCCAGTTACGTTGGCACAAAAGGAGTTTAAGC
* * ** * *
29812314 CCAATTTAGCTGGCATCTAAGATGTTTAAGCCCAGTTATGTTGACACAAAGGATGATTAAGCCTA
131 CCAATTTAGTTGGCATCCAAGATGTTTAAGCCCAGTTACATTGGCACAAAGGATGATTAAGCCCA
* *
29812379 ATTTAGCTGGCATCCAAGATGCATAAGTCTAGTTACGTTGGCACAAAAGGAATTTAAGCCCAATT
196 ATTTATCTGGCATCCAAGATGTATAAGTCTAGTTACGTTGGCACAAAAGGAATTTAAGCCCAATT
*
29812444 TAGCTAGCATCCAAGATGTTTAAGCCCAGTTATATTGGCACAAAGATGATTAAGTCCAATTTAGC
261 TAGCTAGCATCCAAGATGTTTAAGCCCAGTTATATTGGCACAAAGATGATTAAGCCCAATTTAGC
* * *
29812509 TAGCATCCAAGATGTTTAAGCCCAATTATATTGGTACAAAGATTTTTAAGCCCAATTTAACTAGC
326 TGGCATCCAAGATGTTTAAGCCCAATTATATTGGCACAAAGATGTTTAAGCCCAATTTAACTAGC
*
29812574 ATCCAAGATGTTTAAGTCTAGCTATGTTGGCACAAAGATGCTTTAGCCCAATTTAACTGACATCC
391 ATCCAAGATGTTTAAGTCTAACTATGTTGGCACAAAGATGCTTTAGCCCAATTTAACTGACATCC
*
29812639 AAGATGTTTAAGCCCAGTTATATTGGCACTAAGATGA
456 AAGATGTTTAAGCCCAATTATATTGGCACTAAGATGA
* * *
29812676 TTAAGTCTGATTTACCT-AGTATCCAAGAGGTATAAGTCTAGTTACGTTGGCACAAAAGAAGTTT
1 TTAAGCCTGATTTACCTGA-CATCCAAGAGGTATAAGTCCAGTTACGTTGGCACAAAAGAAGTTT
*
29812740 AAGCCCAATTTAATTGGCATCCAAGATGTATAAGTCCAGTTACGTTGGCACAAAAAGAGTTTAAG
65 AAGCCCAATTTAATTGGCATCCAAGATGTATAAGTCCAGTTACGTTGGCACAAAAGGAGTTTAAG
29812805 CCCAATTTAGTTGGCATCCAAGATGTTTAAGCCCAGTTACATTGGCACAAAGGATGATTAAGCCC
130 CCCAATTTAGTTGGCATCCAAGATGTTTAAGCCCAGTTACATTGGCACAAAGGATGATTAAGCCC
* * * * *
29812870 AATTTATCTAGCATCCAATATATATAAGTCTAGTTACTTTGGCACAAAAGGAGTTTAAGCCCAAT
195 AATTTATCTGGCATCCAAGATGTATAAGTCTAGTTACGTTGGCACAAAAGGAATTTAAGCCCAAT
** * * * * * *
29812935 TTAATTAGCATCCAAGATGTATAAGTCCAGTTATGTTGGCACAAAAGAAGTTTAAGCCC-AGTTA
260 TTAGCTAGCATCCAAGATGTTTAAGCCCAGTTATATTGGCAC-AAAGATGATTAAGCCCAATTTA
* *
29812999 TGTTGGCA-CCAAGATGTGTAAGCCCA
324 -GCTGGCATCCAAGATGTTTAAGCCCA
29813025 CTTTAGCTAG
Statistics
Matches: 747, Mismatches: 87, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
491 51 0.07
492 672 0.90
493 24 0.03
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (492 bp):
TTAAGCCTGATTTACCTGACATCCAAGAGGTATAAGTCCAGTTACGTTGGCACAAAAGAAGTTTA
AGCCCAATTTAATTGGCATCCAAGATGTATAAGTCCAGTTACGTTGGCACAAAAGGAGTTTAAGC
CCAATTTAGTTGGCATCCAAGATGTTTAAGCCCAGTTACATTGGCACAAAGGATGATTAAGCCCA
ATTTATCTGGCATCCAAGATGTATAAGTCTAGTTACGTTGGCACAAAAGGAATTTAAGCCCAATT
TAGCTAGCATCCAAGATGTTTAAGCCCAGTTATATTGGCACAAAGATGATTAAGCCCAATTTAGC
TGGCATCCAAGATGTTTAAGCCCAATTATATTGGCACAAAGATGTTTAAGCCCAATTTAACTAGC
ATCCAAGATGTTTAAGTCTAACTATGTTGGCACAAAGATGCTTTAGCCCAATTTAACTGACATCC
AAGATGTTTAAGCCCAATTATATTGGCACTAAGATGA
Found at i:29813166 original size:22 final size:21
Alignment explanation
Indices: 29813119--29813201 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
29813109 ATAACCCTTT
29813119 TCTTCTAAAACCTTCG-GATACA
1 TCTTC-AAAACCTTCGAG-TACA
*
29813141 TCTTCAAAACCTTCGAGTGCA
1 TCTTCAAAACCTTCGAGTACA
* *
29813162 TTCTT-AAAATCTTCGGGTACA
1 -TCTTCAAAACCTTCGAGTACA
*
29813183 TCTTCAAAACCTCCGAGTA
1 TCTTCAAAACCTTCGAGTA
29813202 TATTCTCTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.08
21 37 0.73
22 10 0.20
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (21 bp):
TCTTCAAAACCTTCGAGTACA
Found at i:29813207 original size:42 final size:43
Alignment explanation
Indices: 29813122--29813216 Score: 138
Period size: 42 Copynumber: 2.2 Consensus size: 43
29813112 ACCCTTTTCT
* *
29813122 TCTAAAACCTTCGGATACATCTTCAAAACCTTCGAGTGCATTC
1 TCTAAAACCTTCGGATACATCTTCAAAACCTCCGAGTACATTC
* * *
29813165 T-TAAAATCTTCGGGTACATCTTCAAAACCTCCGAGTATATTC
1 TCTAAAACCTTCGGATACATCTTCAAAACCTCCGAGTACATTC
29813207 TCTAAAACCT
1 TCTAAAACCT
29813217 CTGAGTAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 37 0.82
43 8 0.18
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (43 bp):
TCTAAAACCTTCGGATACATCTTCAAAACCTCCGAGTACATTC
Found at i:29813342 original size:80 final size:80
Alignment explanation
Indices: 29813207--29813383 Score: 264
Period size: 80 Copynumber: 2.2 Consensus size: 80
29813197 GAGTATATTC
* * * * * *
29813207 TCTAAAACCTCTGAGTAATTAGTTTCAAGATTTCTTCAAAGTTATGTAGCTTCATTTTGAGATGA
1 TCTAAAACCTCCGAGTAATTAGTTTCAAGATTTCTTCAAAGTTACGTAACCTCATTCTGAAATGA
* *
29813272 GGAACAACTTTTTCT
66 AGAACAACATTTTCT
*
29813287 TCTAAAACCTCCGAGTAATTAGTTTCAAGATTTTTTCAAAGTTACGTAACCTCATTCTGAAATGA
1 TCTAAAACCTCCGAGTAATTAGTTTCAAGATTTCTTCAAAGTTACGTAACCTCATTCTGAAATGA
*
29813352 AGAGCAACATTTTCT
66 AGAACAACATTTTCT
29813367 TCTAAAACCTCCGAGTA
1 TCTAAAACCTCCGAGTA
29813384 CATCCCAAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 87 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (80 bp):
TCTAAAACCTCCGAGTAATTAGTTTCAAGATTTCTTCAAAGTTACGTAACCTCATTCTGAAATGA
AGAACAACATTTTCT
Found at i:29813677 original size:8 final size:8
Alignment explanation
Indices: 29813666--29813694 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
29813656 AAAAAATCAA
29813666 ATAAAAAT
1 ATAAAAAT
29813674 ATAAAAAT
1 ATAAAAAT
29813682 ATAAAAAT
1 ATAAAAAT
29813690 A-AAAA
1 ATAAAA
29813695 TAATAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
ATAAAAAT
Found at i:29813691 original size:14 final size:14
Alignment explanation
Indices: 29813664--29813707 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
29813654 TCAAAAAATC
29813664 AAATAAAAATATAA
1 AAATAAAAATATAA
29813678 AAATATAAAA-ATAA
1 AAATA-AAAATATAA
*
29813692 AAATAATAAT-TAA
1 AAATAAAAATATAA
29813705 AAA
1 AAA
29813708 AAAGATAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 9 0.33
14 14 0.52
15 4 0.15
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAAAATATAA
Found at i:29814744 original size:20 final size:20
Alignment explanation
Indices: 29814708--29814745 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
29814698 ATCATTTTAG
*
29814708 AAAAAAGTGATATATATAAA
1 AAAAAAGTGATACATATAAA
29814728 AAAAAA-TGTATACATATA
1 AAAAAAGTG-ATACATATA
29814746 TATGTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
AAAAAAGTGATACATATAAA
Found at i:29822208 original size:22 final size:22
Alignment explanation
Indices: 29822173--29822254 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 22
29822163 CCCATTCATC
29822173 AAATCCTCCAAGTACAATCTTTA
1 AAAT-CTCCAAGTACAATCTTTA
* *
29822196 AAATCTCCGAGTAAGCAAT-TTTC
1 AAATCTCCAAGT-A-CAATCTTTA
* *
29822219 AAATCTTTCAAGTACAATCTTCA
1 AAATC-TCCAAGTACAATCTTTA
29822242 AAATCTCCAAGTA
1 AAATCTCCAAGTA
29822255 AGCATTTTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
22 18 0.38
23 21 0.44
24 9 0.19
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.30
Consensus pattern (22 bp):
AAATCTCCAAGTACAATCTTTA
Found at i:29822238 original size:46 final size:46
Alignment explanation
Indices: 29822171--29822314 Score: 202
Period size: 46 Copynumber: 3.2 Consensus size: 46
29822161 AACCCATTCA
* *
29822171 TCAAATCCTCCAAGTACAATCTTTAAAATCTCCGAGTAAGCAATTT
1 TCAAATCCTTCAAGTACAATCTTCAAAATCTCCGAGTAAGCAATTT
* *
29822217 TCAAATCTTTCAAGTACAATCTTCAAAATCTCCAAGTAAGC-ATTT
1 TCAAATCCTTCAAGTACAATCTTCAAAATCTCCGAGTAAGCAATTT
* * *
29822262 TCAAATCCTTC-AGATACAATATTCAAAGTCTCCGAGTAAGTAATTT
1 TCAAATCCTTCAAG-TACAATCTTCAAAATCTCCGAGTAAGCAATTT
29822308 TCAAATC
1 TCAAATC
29822315 GTCTTGGTGT
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
44 2 0.02
45 37 0.43
46 48 0.55
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (46 bp):
TCAAATCCTTCAAGTACAATCTTCAAAATCTCCGAGTAAGCAATTT
Found at i:29822267 original size:22 final size:21
Alignment explanation
Indices: 29822171--29822314 Score: 85
Period size: 22 Copynumber: 6.3 Consensus size: 21
29822161 AACCCATTCA
29822171 TCAAATCCTCCAAGTACAATCTT
1 TCAAAT-CTCCAAGTACAAT-TT
* *
29822194 TAAAATCTCCGAGTAAGCAATTT
1 TCAAATCTCCAAGT-A-CAATTT
* *
29822217 TCAAATCTTTCAAGTACAATCT
1 TCAAATC-TCCAAGTACAATTT
29822239 TCAAAATCTCCAAGTA-AGCATTT
1 TC-AAATCTCCAAGTACA--ATTT
* *
29822262 TCAAATCCTTC-AGATACAATAT
1 TCAAAT-CTCCAAG-TACAATTT
* *
29822284 TCAAAGTCTCCGAGTAAGTAATTT
1 TCAAA-TCTCCAAGT-A-CAATTT
29822308 TCAAATC
1 TCAAATC
29822315 GTCTTGGTGT
Statistics
Matches: 95, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
21 1 0.01
22 39 0.41
23 36 0.38
24 19 0.20
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (21 bp):
TCAAATCTCCAAGTACAATTT
Found at i:29822333 original size:46 final size:45
Alignment explanation
Indices: 29822184--29822347 Score: 163
Period size: 46 Copynumber: 3.6 Consensus size: 45
29822174 AATCCTCCAA
* *
29822184 GTACAATCTTTAAAATCTCCGAGTAAGCAATTTTCAAATCT-TTCAA
1 GTACAATCTTCAAAATCTCCGAGTAAG-AATTTTCAAATCTCTT-AG
* *
29822230 GTACAATCTTCAAAATCTCCAAGTAAGCATTTTCAAATC-CTTCAG
1 GTACAATCTTCAAAATCTCCGAGTAAGAATTTTCAAATCTCTT-AG
* * *
29822275 ATACAATATTCAAAGTCTCCGAGTAAGTAATTTTCAAATCGTCTT-G
1 GTACAATCTTCAAAATCTCCGAGTAAG-AATTTTCAAATC-TCTTAG
** **
29822321 GTGTAATCTTCAAAATCTTTGAGTAAG
1 GTACAATCTTCAAAATCTCCGAGTAAG
29822348 CATTGGATCC
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
45 38 0.39
46 57 0.58
48 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (45 bp):
GTACAATCTTCAAAATCTCCGAGTAAGAATTTTCAAATCTCTTAG
Found at i:29822464 original size:66 final size:65
Alignment explanation
Indices: 29822353--29822544 Score: 249
Period size: 66 Copynumber: 2.9 Consensus size: 65
29822343 GTAAGCATTG
* * * * * **
29822353 GATCCAAGATTGGAAATCCCCGAAATGGATATCTAGTTTTTCTATCGATCCATTGATGAATCCTT
1 GATCTAAGATT-GAAATCCCCGAAATTGACATCAAGTTTTGCTATCGATCCATCCATGAATCCTT
29822418 A
65 A
** * *
29822419 GATCTAAGATTAGAAATCTTCGAAATTGACATCAAGTTTTGCTATCGATCCATCCATGAGTCTTT
1 GATCTAAGATT-GAAATCCCCGAAATTGACATCAAGTTTTGCTATCGATCCATCCATGAATCCTT
29822484 A
65 A
*
29822485 GATCTAAGATTGAAAATCCCCGAAATTGACATCAAGTTTTGCTATCGATCCATACATGAA
1 GATCTAAGATTG-AAATCCCCGAAATTGACATCAAGTTTTGCTATCGATCCATCCATGAA
29822545 CAATGCGAGA
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
65 1 0.01
66 108 0.99
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (65 bp):
GATCTAAGATTGAAATCCCCGAAATTGACATCAAGTTTTGCTATCGATCCATCCATGAATCCTTA
Found at i:29826684 original size:32 final size:32
Alignment explanation
Indices: 29826607--29826685 Score: 81
Period size: 32 Copynumber: 2.4 Consensus size: 32
29826597 ATACTTATTA
*
29826607 ATATATTAATATAACATATATTAAAAAGTAAT
1 ATATATTAATATTACATATATTAAAAAGTAAT
* * *
29826639 ATATACTATATATTACTATATGTTAACAA-T-AT
1 ATATATTA-ATATTAC-ATATATTAAAAAGTAAT
29826671 ATTATATTAATATTA
1 A-TATATTAATATTA
29826686 TAGTACAGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
32 16 0.41
33 13 0.33
34 10 0.26
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (32 bp):
ATATATTAATATTACATATATTAAAAAGTAAT
Found at i:29826737 original size:38 final size:38
Alignment explanation
Indices: 29826673--29826756 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 38
29826663 AACAATATAT
*
29826673 TATATTAATATTATAGTACAGTATATACATTAAAAATA
1 TATACTAATATTATAGTACAGTATATACATTAAAAATA
* * *
29826711 TATACTAATA-TATAGTATAGTAATATATATTAAAAATT
1 TATACTAATATTATAGTACAGT-ATATACATTAAAAATA
29826749 TATACTAA
1 TATACTAA
29826757 CAATATAGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 10 0.24
38 31 0.76
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (38 bp):
TATACTAATATTATAGTACAGTATATACATTAAAAATA
Found at i:29828959 original size:2 final size:2
Alignment explanation
Indices: 29828952--29828990 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
29828942 ATACAGTTTA
29828952 AT AT AT AT AT AT AT AT AT AT CAT AT A- AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT A
29828991 ATTGGACTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:29829063 original size:106 final size:105
Alignment explanation
Indices: 29828952--29829145 Score: 361
Period size: 106 Copynumber: 1.8 Consensus size: 105
29828942 ATACAGTTTA
29828952 ATATATATATATATATATATCATATAATATATATATATAATTGGACTGTTGAAGGGAAAAGAGAG
1 ATATATATATATATATATAT-ATAT-ATATATATATATAATTGGACTGTTGAAGGGAAAAGAGAG
29829017 TCTGTTATTATTTTTATTTTTTTATTTNATTGAGTTTTATATT
64 TCTGTTATTATTTTTATTTTTTTATTT-ATTGAGTTTTATATT
29829060 ATATATATATATATATATATATATATATATATATATAATTGGACTGTTGAAGGGAAAAGAGAGTC
1 ATATATATATATATATATATATATATATATATATATAATTGGACTGTTGAAGGGAAAAGAGAGTC
29829125 TGTTATTATTTTTATTTTTTT
66 TGTTATTATTTTTATTTTTTT
29829146 TTTCAAGTGT
Statistics
Matches: 86, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
106 62 0.72
107 4 0.05
108 20 0.23
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48
Consensus pattern (105 bp):
ATATATATATATATATATATATATATATATATATATAATTGGACTGTTGAAGGGAAAAGAGAGTC
TGTTATTATTTTTATTTTTTTATTTATTGAGTTTTATATT
Found at i:29829066 original size:2 final size:2
Alignment explanation
Indices: 29829054--29829096 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
29829044 NATTGAGTTT
29829054 TA TA T- 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
29829095 TA
1 TA
29829097 ATTGGACTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:29829720 original size:15 final size:16
Alignment explanation
Indices: 29829700--29829735 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
29829690 TCTTTCCTGT
29829700 TTTTTGTTC-ATTATA
1 TTTTTGTTCTATTATA
*
29829715 TTTTTGTTCTTTTATA
1 TTTTTGTTCTATTATA
29829731 TTTTT
1 TTTTT
29829736 TTTATGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.75
Consensus pattern (16 bp):
TTTTTGTTCTATTATA
Found at i:29833774 original size:14 final size:14
Alignment explanation
Indices: 29833746--29833789 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
29833736 TTGAATTTTG
29833746 AAAAAGATAATAAAT
1 AAAAAGAT-ATAAAT
*
29833761 AATAAGATATAAAT
1 AAAAAGATATAAAT
*
29833775 AAAAAGAGATAAAT
1 AAAAAGATATAAAT
29833789 A
1 A
29833790 TGAAAAGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 19 0.73
15 7 0.27
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (14 bp):
AAAAAGATATAAAT
Found at i:29833795 original size:16 final size:14
Alignment explanation
Indices: 29833755--29833802 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
29833745 GAAAAAGATA
* *
29833755 ATAAATAATAAGAT
1 ATAAATAAAAAGAG
29833769 ATAAATAAAAAGAG
1 ATAAATAAAAAGAG
29833783 ATAAATATGAAAAG-G
1 ATAAATA--AAAAGAG
29833798 ATAAA
1 ATAAA
29833803 GATTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 19 0.63
15 6 0.20
16 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (14 bp):
ATAAATAAAAAGAG
Found at i:29834413 original size:18 final size:20
Alignment explanation
Indices: 29834388--29834435 Score: 73
Period size: 18 Copynumber: 2.5 Consensus size: 20
29834378 AAAAAAAAAT
29834388 TAAATATTATTTAA-TAT-A
1 TAAATATTATTTAACTATAA
*
29834406 TTAATATTATTTAACTATAA
1 TAAATATTATTTAACTATAA
29834426 TAAATATTAT
1 TAAATATTAT
29834436 AAAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 13 0.50
19 3 0.12
20 10 0.38
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAATATTATTTAACTATAA
Found at i:29834419 original size:10 final size:10
Alignment explanation
Indices: 29834390--29834458 Score: 54
Period size: 10 Copynumber: 6.9 Consensus size: 10
29834380 AAAAAAATTA
29834390 AATATTATTT
1 AATATTATTT
29834400 AATA-TA-TT
1 AATATTATTT
29834408 AATATTATTT
1 AATATTATTT
* *
29834418 AACTA-TAATA
1 AA-TATTATTT
**
29834428 AATATTATAAAA
1 AATATTAT--TT
29834440 AATATTATTT
1 AATATTATTT
29834450 AATATTATT
1 AATATTATT
29834459 ATTTGAGTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
8 6 0.13
9 6 0.13
10 24 0.51
11 2 0.04
12 9 0.19
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (10 bp):
AATATTATTT
Found at i:29834470 original size:45 final size:46
Alignment explanation
Indices: 29834405--29834510 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 46
29834395 TATTTAATAT
* * *
29834405 ATTAATATTATTTAACTATAATAAATATTATAAAAAATATTATTTA
1 ATTAGTATTATTTAACTATAATAAATATAACAAAAAATATTATTTA
* * * * *
29834451 A-TATTATTATTTGAGTATAATAAATGTAACAAAGAATATTATTTA
1 ATTAGTATTATTTAACTATAATAAATATAACAAAAAATATTATTTA
29834496 ATTAGTATTATTTAA
1 ATTAGTATTATTTAA
29834511 ATTTAATGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 38 0.76
46 12 0.24
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (46 bp):
ATTAGTATTATTTAACTATAATAAATATAACAAAAAATATTATTTA
Found at i:29835544 original size:11 final size:11
Alignment explanation
Indices: 29835528--29835569 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
29835518 TTGAAAAACT
29835528 AATAAAATAAA
1 AATAAAATAAA
29835539 AATAAAA-AAGA
1 AATAAAATAA-A
29835550 AATAAAATTAAA
1 AATAAAA-TAAA
*
29835562 GATAAAAT
1 AATAAAAT
29835570 TAAAGAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 2 0.07
11 16 0.59
12 7 0.26
13 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:29835568 original size:12 final size:12
Alignment explanation
Indices: 29835551--29835575 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29835541 TAAAAAAGAA
29835551 ATAAAATTAAAG
1 ATAAAATTAAAG
29835563 ATAAAATTAAAG
1 ATAAAATTAAAG
29835575 A
1 A
29835576 AATAAATAAA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
ATAAAATTAAAG
Found at i:29835718 original size:203 final size:204
Alignment explanation
Indices: 29835354--29835763 Score: 515
Period size: 203 Copynumber: 2.0 Consensus size: 204
29835344 ATTTTTTAAA
* * * *
29835354 AAAGATAAAATTATATAATTAAATAAATACATTCTCCAATGATGAAATCTCAAAAAATCCAAAAG
1 AAAGATAAAATTAAAGAAATAAATAAATACATACTCCAATGATGAAATCTCAAAAAATCCAAAAG
** * * * * * * *
29835419 TGGTTTTTTGGGAATTTTTAGGTGAGAATTTTTCAAAATTTTATCATAAGCGTTTGGGAGATTTT
66 TGACTTCTTGAGAATTTTAAGGAGAGAATTTTCCAAAATTTTACCAT-AGCGCTTGGGAGATTTT
** *
29835484 AGGAAATTTTCAATATCAAGAAATTTTATTTATTTTGAAAAACTAATAAAATAAAAATAAAAAAG
130 AAAAAAATTTCAATATCAAGAAATTTTATTTATTTTGAAAAACTAATAAAATAAAAATAAAAAAG
29835549 AAATAAAATT
195 AAATAAAATT
* *
29835559 AAAGATAAAATTAAAGAAATAAATAAATA-A-ACTCTAATGATGAAATTTCAAGAAAA-CCAAAA
1 AAAGATAAAATTAAAGAAATAAATAAATACATACTCCAATGATGAAATCTCAA-AAAATCCAAAA
*
29835621 GTGACTTCTTGAGAATTTCTAAGTGAGAGAATTTTCCAAAATTTTACCAT-GGGCTTGGGAGATT
65 GTGACTTCTTGAGAATTT-TAAG-GAGAGAATTTTCCAAAATTTTACCATAGCGCTTGGGAGATT
* * * * *
29835685 TTAAAAAAAATTT-AGTATCAGGAATTTTTATTTATTTTGAAAAATTAATAAAATAAAAATAGAA
128 TT-AAAAAAATTTCAATATCAAGAAATTTTATTTATTTTGAAAAACTAATAAAATAAAAATAAAA
*
29835749 AAGAAATAGAATT
192 AAGAAATAAAATT
29835762 AA
1 AA
29835764 GTATTGAACT
Statistics
Matches: 176, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
203 112 0.64
204 15 0.09
205 49 0.28
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (204 bp):
AAAGATAAAATTAAAGAAATAAATAAATACATACTCCAATGATGAAATCTCAAAAAATCCAAAAG
TGACTTCTTGAGAATTTTAAGGAGAGAATTTTCCAAAATTTTACCATAGCGCTTGGGAGATTTTA
AAAAAATTTCAATATCAAGAAATTTTATTTATTTTGAAAAACTAATAAAATAAAAATAAAAAAGA
AATAAAATT
Found at i:29836340 original size:14 final size:15
Alignment explanation
Indices: 29836311--29836344 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
29836301 AAAATAAAAA
29836311 AAAATGATATAATAT
1 AAAATGATATAATAT
*
29836326 AAAATTATA-AATAT
1 AAAATGATATAATAT
29836340 AAAAT
1 AAAAT
29836345 AGAATGATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
AAAATGATATAATAT
Found at i:29838208 original size:17 final size:18
Alignment explanation
Indices: 29838180--29838228 Score: 91
Period size: 17 Copynumber: 2.8 Consensus size: 18
29838170 ATGCTTATAT
29838180 ATCTGTTATTTTGCTGTA
1 ATCTGTTATTTTGCTGTA
29838198 ATCTG-TATTTTGCTGTA
1 ATCTGTTATTTTGCTGTA
29838215 ATCTGTTATTTTGC
1 ATCTGTTATTTTGC
29838229 ATCGAAGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.55
Consensus pattern (18 bp):
ATCTGTTATTTTGCTGTA
Found at i:29840417 original size:156 final size:156
Alignment explanation
Indices: 29839968--29840595 Score: 1064
Period size: 156 Copynumber: 4.0 Consensus size: 156
29839958 ACTGTATGTT
29839968 AAATGTGTAGAATTTATAATCTTTATGTGTTCACTTAATTATCATTTTAATTTTCTAATATTTTT
1 AAATGTGTAGAATTTATAATCTTTATGTGTTCACTTAATTATCATTTTAATTTTCTAATATTTTT
*
29840033 TAATTATACTTTAATAG-ACATGTGAGAACTTGTAAACCATTTGTAAAATTTAAATATTTTCATA
66 TAATTATACTTTAAT-GCACATGTGAGAACTTGTAAACCACTTGTAAAATTTAAATATTTTCATA
*
29840097 GTAGGTATATTCCATAATGCACTACCC
130 GTAGGTATATCCCATAATGCACTACCC
* *
29840124 AAATGTGTAGAATTTATAATCTGTATGTTTTCACTTAATTATCATTTTAATTTTCTAAT-TTTTT
1 AAATGTGTAGAATTTATAATCTTTATGTGTTCACTTAATTATCATTTTAATTTTCTAATATTTTT
**
29840188 TAATTATACTTTAATAAACATGTGAGAACTTGTAAACCACTTGTAAAATTTAAATATTTTCATAG
66 TAATTATACTTTAATGCACATGTGAGAACTTGTAAACCACTTGTAAAATTTAAATATTTTCATAG
*
29840253 TAGGTATATCCCAGAATGCACTACCC
131 TAGGTATATCCCATAATGCACTACCC
* *
29840279 AAATGTGTAGAATTTATAATCTTTATGTGTTCACTTAATTATCATTTTAATTTTCTAACATGTTT
1 AAATGTGTAGAATTTATAATCTTTATGTGTTCACTTAATTATCATTTTAATTTTCTAATATTTTT
29840344 TAATTATACTTTAATGCACATG-GCAGAACTTGTAAACCACTTGTAAAATTTAAATATTTTCATA
66 TAATTATACTTTAATGCACATGTG-AGAACTTGTAAACCACTTGTAAAATTTAAATATTTTCATA
* * * *
29840408 GCAGCTATATCCCATAACGCATTACCC
130 GTAGGTATATCCCATAATGCACTACCC
*
29840435 AAATGTGTAGAATTTATAATCTTTATGTGTCCACTTAATTATCATTTTAATTTTCTAATATTTTT
1 AAATGTGTAGAATTTATAATCTTTATGTGTTCACTTAATTATCATTTTAATTTTCTAATATTTTT
* * *
29840500 TAATTATACTTTTATGCACATGTGAAAACTTGTAAACCACTCGTAAAATTTAAATATTTTCATAG
66 TAATTATACTTTAATGCACATGTGAGAACTTGTAAACCACTTGTAAAATTTAAATATTTTCATAG
29840565 TAGGTATATCCCATAATGCACTACCC
131 TAGGTATATCCCATAATGCACTACCC
29840591 AAATG
1 AAATG
29840596 CATTGATATG
Statistics
Matches: 441, Mismatches: 27, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
155 148 0.34
156 292 0.66
157 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.42
Consensus pattern (156 bp):
AAATGTGTAGAATTTATAATCTTTATGTGTTCACTTAATTATCATTTTAATTTTCTAATATTTTT
TAATTATACTTTAATGCACATGTGAGAACTTGTAAACCACTTGTAAAATTTAAATATTTTCATAG
TAGGTATATCCCATAATGCACTACCC
Found at i:29840727 original size:3 final size:3
Alignment explanation
Indices: 29840714--29840760 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
29840704 TATGTAACTT
*
29840714 TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
29840760 T
1 T
29840761 ATACATGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:29840773 original size:2 final size:2
Alignment explanation
Indices: 29840758--29840802 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
29840748 TCATTATTAT
* *
29840758 TA TA TA CA TG 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
29840800 TA T
1 TA T
29840803 GGTTTTGGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:29840893 original size:24 final size:23
Alignment explanation
Indices: 29840860--29840910 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
29840850 ATTAGAATAA
29840860 AAAAAATTATGAT-TGTTAAAAAAT
1 AAAAAATTAT-ATCTGTT-AAAAAT
*
29840884 AAAAATTTATATCTGTTAAAAAT
1 AAAAAATTATATCTGTTAAAAAT
29840907 AAAA
1 AAAA
29840911 TAAAGTCACG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (23 bp):
AAAAAATTATATCTGTTAAAAAT
Found at i:29842847 original size:20 final size:20
Alignment explanation
Indices: 29842810--29842848 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29842800 TTTAAATGGT
*
29842810 AAATTGTTATGTTTTAAAAG
1 AAATTGTGATGTTTTAAAAG
29842830 AAATTGTGAT-TTTATAAAA
1 AAATTGTGATGTTT-TAAAA
29842849 TGATTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (20 bp):
AAATTGTGATGTTTTAAAAG
Found at i:29842854 original size:13 final size:13
Alignment explanation
Indices: 29842836--29842860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29842826 AAAGAAATTG
29842836 TGATTTTATAAAA
1 TGATTTTATAAAA
29842849 TGATTTTATAAA
1 TGATTTTATAAA
29842861 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:29844085 original size:15 final size:16
Alignment explanation
Indices: 29844065--29844105 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
29844055 CAGAGATTTT
29844065 GATTTTAAAG-CTTTG
1 GATTTTAAAGTCTTTG
*
29844080 GATTTTAAAGTTTTTG
1 GATTTTAAAGTCTTTG
29844096 G-TTTTAAAGT
1 GATTTTAAAGT
29844106 TGTTTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (16 bp):
GATTTTAAAGTCTTTG
Found at i:29844106 original size:15 final size:15
Alignment explanation
Indices: 29844061--29844106 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
29844051 AGATCAGAGA
*
29844061 TTTTGATTTTAAAG-
1 TTTTGGTTTTAAAGT
*
29844075 CTTTGGATTTTAAAGT
1 TTTTGG-TTTTAAAGT
29844091 TTTTGGTTTTAAAGT
1 TTTTGGTTTTAAAGT
29844106 T
1 T
29844107 GTTTTAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.57
Consensus pattern (15 bp):
TTTTGGTTTTAAAGT
Found at i:29848788 original size:13 final size:13
Alignment explanation
Indices: 29848770--29848794 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29848760 AAAGAAATTG
29848770 TGATTTTATAAAA
1 TGATTTTATAAAA
29848783 TGATTTTATAAA
1 TGATTTTATAAA
29848795 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:29896004 original size:1 final size:1
Alignment explanation
Indices: 29895998--29896026 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
29895988 NNNNNNNNNN
29895998 GGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGG
29896027 AGAGAGAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Done.