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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 16 of 135
Found at i:6692287 original size:8 final size:8
Alignment explanation
Indices: 6692274--6692299 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
6692264 GCGTGTATGA
6692274 TTAGGAAT
1 TTAGGAAT
6692282 TTAGGAAT
1 TTAGGAAT
6692290 TTAGGAAT
1 TTAGGAAT
6692298 TT
1 TT
6692300 GGTGCCACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (8 bp):
TTAGGAAT
Found at i:6695450 original size:16 final size:16
Alignment explanation
Indices: 6695429--6695459 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6695419 TAATGACATT
6695429 ATTAAAGATTTAATCC
1 ATTAAAGATTTAATCC
6695445 ATTAAAGATTTAATC
1 ATTAAAGATTTAATC
6695460 GATTGGGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTAAAGATTTAATCC
Found at i:6705363 original size:335 final size:335
Alignment explanation
Indices: 6704744--6705622 Score: 936
Period size: 335 Copynumber: 2.7 Consensus size: 335
6704734 TCAATCATTA
* * * * * * *
6704744 TCCCCATTATTGATTCTGGTTCTGTTGAGGAAAGTGAAAAAAATTATGGGTGATTCGATGTAGTT
1 TCCCCACTATTGATTCTAGTTCTATTGAGGAAAATGAAAAAAATTATAGGTGATCCGATATAGTT
*
6704809 AATTCAAATATTTCGTTCTCTATATGTCATACTTTGTTTAAAATAACAATTATGTCTTTCAAATC
66 AATTCAAATATTTCGTTCTCTATATGTCACACTTTGTTTAAAATAACAATTATGTCTTTCAAATC
* ** * * *
6704874 TAAGAACGTGATGTTCGTTTTATATAGATATGATCGTAACCTTTACCTTAATTTTAATTCAATTA
131 TAAGAACATGACATTCATTTGATATAGATACGATCGTAACCTTTACCTTAATTTTAATTCAATTA
* * * *
6704939 TGGATAAATTCTCTCCCTCTTCTTTAAAAAATGATTTAAAACAAGGAAGATAATCGATGTATCAT
196 GGGATAAATTCTCTCCCTCTTCTCTAAAAAATGATTAAAAACAAGAAAGATAATCGATGTATCAT
* * *
6705004 GCATCTATACAAAATTATGATTATATTGCTCAGATCTAAGAACGTGTCATATGTTGGGTAGTGGG
261 GCATCTATACAAAATTATGATTATATCGCTCAGATCTAAGAACGTGCCATATGTTGGATAGTGGG
6705069 AAAATTATTG
326 AAAATTATTG
* * *
6705079 TCCCCACTCTTGATTCTAGTTCTATTGAGGAAAATGAAAAAAGTTATAGGTGATCCGATATATTT
1 TCCCCACTATTGATTCTAGTTCTATTGAGGAAAATGAAAAAAATTATAGGTGATCCGATATAGTT
* * * ** **
6705144 AGTTCAAATATTTCTTTCTCTATATGTCACACTTTGTTTGAAATAATGATTATGTCTTTTTAATC
66 AATTCAAATATTTCGTTCTCTATATGTCACACTTTGTTTAAAATAACAATTATGTCTTTCAAATC
*
6705209 TAAGAACATGACATTCATTTGATATAGATACGATCGTAACCTTTACCTTAGTTTTAATTC-ATAT
131 TAAGAACATGACATTCATTTGATATAGATACGATCGTAACCTTTACCTTAATTTTAATTCAAT-T
* * *
6705273 AGGGGTAGATTTTCTCCCTCTTCTCTAGAAGAAA-G-TTAAAAACAAGAAAGATAATCGATGTAT
195 AGGGATAAATTCTCTCCCTCTTCTCTA-AA-AAATGATTAAAAACAAGAAAGATAATCGATGTAT
* * * * * *
6705336 GATGTATTTGTACAAAATTATGATTATATCGCTCAGATCTAAGAATGTGCCATGTGTTGGATAGT
258 CATGCATCTATACAAAATTATGATTATATCGCTCAGATCTAAGAACGTGCCATATGTTGGATAGT
** *
6705401 GGGACCATTGTTG
323 GGGAAAATTATTG
* * * * *
6705414 TCCCCATTATTGA---T-G----A---AGG----TGAAAAAAAGTTAT-GACTGATTCAATGTAG
1 TCCCCACTATTGATTCTAGTTCTATTGAGGAAAATGAAAAAAA-TTATAG-GTGATCCGATATAG
* * * * * * * *** *
6705463 TTAATTTAAATCTTTCTTTTTCTATATGTCAGAATTTGTTTGAAATAACGGCTATGTCTTTCAGA
64 TTAATTCAAATATTTCGTTCTCTATATGTCACACTTTGTTTAAAATAACAATTATGTCTTTCAAA
* ** * * *
6705528 TCTAAGAACGTG-CAATTTGTTCGATATAGATACGATTGTAACCTTTACCTTAATTTTAAGTCAA
129 TCTAAGAACATGAC-ATTCATTTGATATAGATACGATCGTAACCTTTACCTTAATTTTAATTCAA
* *
6705592 TT-GTGGATAGATTTTCTCCCTCTTCTCTAAA
193 TTAG-GGATAAATTCTCTCCCTCTTCTCTAAA
6705623 GGGAAAAAAG
Statistics
Matches: 464, Mismatches: 72, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
320 13 0.03
321 144 0.31
322 2 0.00
324 3 0.01
327 1 0.00
331 1 0.00
332 1 0.00
334 2 0.00
335 291 0.63
336 3 0.01
337 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (335 bp):
TCCCCACTATTGATTCTAGTTCTATTGAGGAAAATGAAAAAAATTATAGGTGATCCGATATAGTT
AATTCAAATATTTCGTTCTCTATATGTCACACTTTGTTTAAAATAACAATTATGTCTTTCAAATC
TAAGAACATGACATTCATTTGATATAGATACGATCGTAACCTTTACCTTAATTTTAATTCAATTA
GGGATAAATTCTCTCCCTCTTCTCTAAAAAATGATTAAAAACAAGAAAGATAATCGATGTATCAT
GCATCTATACAAAATTATGATTATATCGCTCAGATCTAAGAACGTGCCATATGTTGGATAGTGGG
AAAATTATTG
Found at i:6709603 original size:27 final size:27
Alignment explanation
Indices: 6709486--6709610 Score: 133
Period size: 27 Copynumber: 4.6 Consensus size: 27
6709476 ATAATGGGCC
* * *
6709486 TAAAATGATTGAAATACCCCCGAGGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* ** * * * *
6709513 TAAAATGGCCAAAATAACTTTGAAGAG
1 TAAAATGACTGAAATACCCTCGAAGGG
**
6709540 TAAAATGACCAAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
6709567 TAAAATGACTGAAATACCCTTGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
6709594 TAAAATGACTGAAATAC
1 TAAAATGACTGAAATAC
6709611 TCTCTTTTCT
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCTCGAAGGG
Found at i:6709609 original size:54 final size:54
Alignment explanation
Indices: 6709486--6709610 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
6709476 ATAATGGGCC
* * * *
6709486 TAAAATGATTGAAATACCCCCGAGGGGTAAAATGGCCAAAATAACTTTGAAGAG
1 TAAAATGACTGAAATACCCCCGAAGGGTAAAATGACCAAAATAACCTTGAAGAG
** * ** * *
6709540 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTTGAAGGG
1 TAAAATGACTGAAATACCCCCGAAGGGTAAAATGACCAAAATAACCTTGAAGAG
6709594 TAAAATGACTGAAATAC
1 TAAAATGACTGAAATAC
6709611 TCTCTTTTCT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (54 bp):
TAAAATGACTGAAATACCCCCGAAGGGTAAAATGACCAAAATAACCTTGAAGAG
Found at i:6714014 original size:16 final size:16
Alignment explanation
Indices: 6713993--6714025 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6713983 AAGCACTCTC
6713993 TATTTTTACATTTCAT
1 TATTTTTACATTTCAT
6714009 TATTTTTACATTTCAT
1 TATTTTTACATTTCAT
6714025 T
1 T
6714026 TTAGAAGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTTACATTTCAT
Found at i:6717205 original size:31 final size:32
Alignment explanation
Indices: 6717141--6717210 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
6717131 TTATAGGCAA
6717141 TTTACAAGAGTAATTGAATCCTAATAAAAACTC
1 TTTA-AAGAGTAATTGAATCCTAATAAAAACTC
6717174 TTTAAAGAGTAATTGAATCCTAAT-AAAACTC
1 TTTAAAGAGTAATTGAATCCTAATAAAAACTC
6717205 TTTAAA
1 TTTAAA
6717211 ATTATCTAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 13 0.35
32 20 0.54
33 4 0.11
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.33
Consensus pattern (32 bp):
TTTAAAGAGTAATTGAATCCTAATAAAAACTC
Found at i:6723942 original size:31 final size:32
Alignment explanation
Indices: 6723906--6723970 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
6723896 CTTAGATAAT
6723906 TTTAAAGAG-TTTTATTAAGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAAGATTCAATTACTC
*
6723937 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAAGATTCAATTACTC
6723969 TT
1 TT
6723971 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAAGATTCAATTACTC
Found at i:6724568 original size:11 final size:12
Alignment explanation
Indices: 6724540--6724567 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
6724530 AAGAAGAAGC
6724540 AAAAAGCGCAAA
1 AAAAAGCGCAAA
6724552 AAAAAGCGCAAA
1 AAAAAGCGCAAA
6724564 AAAA
1 AAAA
6724568 GAGTATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.14, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAGCGCAAA
Found at i:6726007 original size:99 final size:99
Alignment explanation
Indices: 6725821--6726055 Score: 244
Period size: 99 Copynumber: 2.4 Consensus size: 99
6725811 AGAAATGCTC
* * * * * *
6725821 CCAA-AAGATGGAGTGTATACAACTCAACTGGATTACTCAGAGCGTAGGATTAACTCAGTTGAAA
1 CCAAGAAGATGGAGTATATACAGCTCAACTAGTTTACTCAGAACATAGGATTAACTCAGTTGAAA
* * *
6725885 CAAATCAATTTAACAGTCCTATTGGACGTAGCCT
66 CAAATCAATTCAACAGTCATATTGGAAGTAGCCT
* * *
6725919 CCTAGAAGATGGAGTATATACAGCTCAACTAGTTTACTCAGAACATAGGGTTAACTTAGTT-AAA
1 CCAAGAAGATGGAGTATATACAGCTCAACTAGTTTACTCAGAACATAGGATTAACTCAGTTGAAA
* **
6725983 GCCAAT-AATCTCAATGGTCATATTGGAAGTAGCCT
66 -CAAATCAAT-TCAACAGTCATATTGGAAGTAGCCT
* * * *
6726018 CCAAGAAGATGAAGTTTATATAGCT-AAATCAGTTTACT
1 CCAAGAAGATGGAGTATATACAGCTCAACT-AGTTTACT
6726056 TGGAGTGTAC
Statistics
Matches: 113, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
98 12 0.11
99 101 0.89
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (99 bp):
CCAAGAAGATGGAGTATATACAGCTCAACTAGTTTACTCAGAACATAGGATTAACTCAGTTGAAA
CAAATCAATTCAACAGTCATATTGGAAGTAGCCT
Found at i:6734691 original size:76 final size:76
Alignment explanation
Indices: 6734458--6734720 Score: 242
Period size: 76 Copynumber: 3.5 Consensus size: 76
6734448 AACAAGATCG
* * * *
6734458 ATTGTGTGCCCAGCACTAGTCAG-ATAAA-CTGACAATGTTTTGTGCCCAGCGCTAGTCGGATAA
1 ATTGTGTGCCCAGCACTACT-AGAATAAATC-GACAAAGATTTGCGCCCAGCGCTAGTCGGATAA
*
6734521 ACCGACGATGATA
64 ACTGACGATGATA
* * * * * * * * * * * * ***
6734534 ATCGTGTACCCAACACTAGTTGACTAAATTGATAAAGGTTTGCTCCCAACACTAGTTATATAAAC
1 ATTGTGTGCCCAGCACTACTAGAATAAATCGACAAAGATTTGCGCCCAGCGCTAGTCGGATAAAC
6734599 TGACGATGATA
66 TGACGATGATA
* *
6734610 ATTGTGTGCTCAGCACTACTAGAATAAATCGACAAAGATTTGCGCCCAGTGCTAGTCGGATAAAC
1 ATTGTGTGCCCAGCACTACTAGAATAAATCGACAAAGATTTGCGCCCAGCGCTAGTCGGATAAAC
*
6734675 TGACGATAATA
66 TGACGATGATA
* * * * *
6734686 CTTGTGTGTCGAGCACTACTCGAATAAATCAACAA
1 ATTGTGTGCCCAGCACTACTAGAATAAATCGACAA
6734721 CACAAACATA
Statistics
Matches: 144, Mismatches: 41, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
75 1 0.01
76 143 0.99
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (76 bp):
ATTGTGTGCCCAGCACTACTAGAATAAATCGACAAAGATTTGCGCCCAGCGCTAGTCGGATAAAC
TGACGATGATA
Found at i:6735756 original size:12 final size:12
Alignment explanation
Indices: 6735739--6735764 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6735729 CTAATAAACC
6735739 TCAATTCTTATA
1 TCAATTCTTATA
6735751 TCAATTCTTATA
1 TCAATTCTTATA
6735763 TC
1 TC
6735765 TTTTACACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (12 bp):
TCAATTCTTATA
Found at i:6739315 original size:335 final size:334
Alignment explanation
Indices: 6738659--6739897 Score: 1457
Period size: 335 Copynumber: 3.7 Consensus size: 334
6738649 GGTTAAAATT
* * * * * *
6738659 CAATCATTGTGCCCATTACTGATTCTGGCTCTGTTCAGGAAAGTGAAAAAAGTTATGGATGATTC
1 CAATCATT-TTCCCATTATTGATTTTGGTTCTGTTGAGGAAAGTGAAAAAAGTTATGGGTGATTC
* * * *
6738724 GATGTAGTTAATTCAAATCTTTCTGTCTCTATATGTCATATTTTGTTTGAAATAATGATTATGTC
65 GATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGTC
* * * * * * * *
6738789 TTTTAGATATAGGAATATGACATTCTTTCGATATAGATAGGATCTTAAACTTCACCTTAATTTTA
130 TTTCAGATCTAAGAACATGCCATTCATTCGATATAGATACGATCGTAAACTTCACCTTAATTTTA
* * * *
6738854 ATTCAATTGGGGACAGATTCTCTCCCTATTCTCTAAAGGATGATTTAAAACGAGGAAGATAATCG
195 ATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATTG
* * * * *
6738919 ATGTATGATGTATCTATACAGAATTATGATTATATCGCTAAGATTTGAAAACATTTCATGTGTTA
260 ATGTATGATGTATTTATACAAAATTATGATTATATCGCTTAGATTTGAGAACATTTCATGTGTTG
*
6738984 AATAGTGGGA
325 GATAGTGGGA
* * * *
6738994 CAACCATTTTCCCCACTATTGATTTTGGTTCTGTTGACGAAAGTGAAAAAAGTTATGGGCGATTC
1 CAATCATTTT-CCCATTATTGATTTTGGTTCTGTTGAGGAAAGTGAAAAAAGTTATGGGTGATTC
* * * *
6739059 GATGTGGTTAATTCAAATATGTCTTTCTCTATACGTCATACTTTGTCTGAAATAACGATTATGTC
65 GATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGTC
* * ** * *
6739124 TATT-AGATCTAAGAACATGCCATTCATTTGATATAGATACG-TCCATACCCTTTACATTAATTT
130 T-TTCAGATCTAAGAACATGCCATTCATTCGATATAGATACGAT-CGTAAACTTCACCTTAATTT
* * * *
6739187 TAATTTAATTGGGTACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGACAAT
193 TAATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAAT
* * *
6739252 TGATGTATGATGCATTTATACAAAATTATGATTATATCACTTAGATTTGAGAACATGTCATGTGT
258 TGATGTATGATGTATTTATACAAAATTATGATTATATCGCTTAGATTTGAGAACATTTCATGTGT
6739317 TGGATAGCT-GGA
323 TGGATAG-TGGGA
** * * * *
6739329 CAATTGTTTTTCCTATTATTGATTCTT-GTTTTGTTGAGGAAAGTGAAAAACGTAATGGGTGATT
1 CAA-TCATTTTCCCATTATTGATT-TTGGTTCTGTTGAGGAAAGTGAAAAAAGTTATGGGTGATT
* * * * * *
6739393 CGATGTAGTTAATTCAAATATTTC-TTCTTTGTATGCCATAATTTGTTTGAAATAATGTTTATGT
64 CGATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGT
* * * ** * * * *
6739457 CTTTCATATTTTAGAACGCGCCATTCATCCAATATAGATACCATCGTAACCTTCACCTTAATTTT
129 CTTTCAGATCTAAGAACATGCCATTCATTCGATATAGATACGATCGTAAACTTCACCTTAATTTT
** *
6739522 AATTCAATTGGGAATGGATTCTCTCCCTCTTCTCTAAAGGATGACTTAAAACAAGGAAGATAA-T
194 AATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATT
* * *** * * *
6739586 CAGTGTATGATGTATTTGTACAAAATTCCAATTATATTGCTTGGATCTGAGAACATTTCATGTGT
259 GA-TGTATGATGTATTTATACAAAATTATGATTATATCGCTTAGATTTGAGAACATTTCATGTGT
6739651 TGGATAGTGGGA
323 TGGATAGTGGGA
* * * * * *
6739663 CAATTGATGTTCCCATTTTTAATTTTAGTTCTGTTGAGAAAAGTGAAAAAAAGTTATGGGTGATT
1 CAA-TCATTTTCCCATTATTGATTTTGGTTCTGTTGAGGAAAGTG-AAAAAAGTTATGGGTGATT
* * * *
6739728 CGATGTAGTTAATTCAAATCTTTGTTTCTCTATATGTCATACTTTGTCTGAAATAATGAGTATAT
64 CGATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGT
* * * *
6739793 CTTTCAGATCTAAGAACGTGTCATTCATTCGATATAGATACGATCGT-AACTTTCGCCTTAATTG
129 CTTTCAGATCTAAGAACATGCCATTCATTCGATATAGATACGATCGTAAAC-TTCACCTTAATTT
* *
6739857 TAATTCAATTGGGAATAGATTCTCTCCCTTTTCTCTAAAGG
193 TAATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGG
6739898 GAAAAAAGTA
Statistics
Matches: 761, Mismatches: 129, Indels: 27
0.83 0.14 0.03
Matches are distributed among these distances:
333 7 0.01
334 234 0.31
335 390 0.51
336 130 0.17
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (334 bp):
CAATCATTTTCCCATTATTGATTTTGGTTCTGTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCG
ATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGTCT
TTCAGATCTAAGAACATGCCATTCATTCGATATAGATACGATCGTAAACTTCACCTTAATTTTAA
TTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATTGA
TGTATGATGTATTTATACAAAATTATGATTATATCGCTTAGATTTGAGAACATTTCATGTGTTGG
ATAGTGGGA
Found at i:6744343 original size:27 final size:28
Alignment explanation
Indices: 6744313--6744365 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6744303 CTATTGCCAA
6744313 AAATATTATT-ATTTAATCAATTAAAAG
1 AAATATTATTAATTTAATCAATTAAAAG
* * *
6744340 AAATTTTATTAATTTACTTAATTAAA
1 AAATATTATTAATTTAATCAATTAAA
6744366 TTAATTTCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (28 bp):
AAATATTATTAATTTAATCAATTAAAAG
Found at i:6744531 original size:22 final size:23
Alignment explanation
Indices: 6744504--6744554 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
6744494 TTGAAACTTC
6744504 AATTAATTAA-TTATAATAAATT-
1 AATTAATTAATTTA-AATAAATTA
6744526 AATTAA-TAATTTAAATAAATTA
1 AATTAATTAATTTAAATAAATTA
6744548 AATTAAT
1 AATTAAT
6744555 CATTAAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTAATTAATTTAAATAAATTA
Found at i:6746028 original size:16 final size:16
Alignment explanation
Indices: 6746007--6746039 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6745997 AAGCACTCTC
6746007 TATTTTTACATTTCAT
1 TATTTTTACATTTCAT
6746023 TATTTTTACATTTCAT
1 TATTTTTACATTTCAT
6746039 T
1 T
6746040 TTAGAAGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTTACATTTCAT
Found at i:6749994 original size:27 final size:27
Alignment explanation
Indices: 6749955--6750027 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
6749945 AACATGTTAG
* *
6749955 GAAATAAATGCCTTTG-GAGCGAATCAT
1 GAAAGAAAAGCCTTTGTG-GCGAATCAT
*
6749982 GAAAGAAAAGCCTTTGTGGTGAATCAT
1 GAAAGAAAAGCCTTTGTGGCGAATCAT
*
6750009 GAAAGAAAAGCCCTTGTGG
1 GAAAGAAAAGCCTTTGTGG
6750028 TGAGAATTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGCGAATCAT
Found at i:6750028 original size:27 final size:27
Alignment explanation
Indices: 6749975--6750030 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
6749965 CCTTTGGAGC
*
6749975 GAATCATGAAAGAAAAGCCTTTGTGGT
1 GAATCATGAAAGAAAAGCCCTTGTGGT
6750002 GAATCATGAAAGAAAAGCCCTTGTGGT
1 GAATCATGAAAGAAAAGCCCTTGTGGT
6750029 GA
1 GA
6750031 GAATTTGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (27 bp):
GAATCATGAAAGAAAAGCCCTTGTGGT
Found at i:6758714 original size:50 final size:50
Alignment explanation
Indices: 6758655--6758805 Score: 302
Period size: 50 Copynumber: 3.0 Consensus size: 50
6758645 TAGTAACTAA
6758655 TTTCTAATTGATGATGGGCTGATTAGAAATCAAGGCTAATGTGTCAAAGT
1 TTTCTAATTGATGATGGGCTGATTAGAAATCAAGGCTAATGTGTCAAAGT
6758705 TTTCTAATTGATGATGGGCTGATTAGAAATCAAGGCTAATGTGTCAAAGT
1 TTTCTAATTGATGATGGGCTGATTAGAAATCAAGGCTAATGTGTCAAAGT
6758755 TTTCTAATTGATGATGGGCTGATTAGAAATCAAGGCTAATGTGTCAAAGT
1 TTTCTAATTGATGATGGGCTGATTAGAAATCAAGGCTAATGTGTCAAAGT
6758805 T
1 T
6758806 ATATATATTA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 101 1.00
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (50 bp):
TTTCTAATTGATGATGGGCTGATTAGAAATCAAGGCTAATGTGTCAAAGT
Found at i:6771414 original size:146 final size:144
Alignment explanation
Indices: 6771217--6771663 Score: 522
Period size: 146 Copynumber: 3.0 Consensus size: 144
6771207 GGCCATGGCT
* * * * * ** *
6771217 AAAAATCATTACTTTTCTTAAAAATCAAA-ATTTTATTTCGAAATAGTTGAAAATGATCAAAATT
1 AAAAAACATTATTTTTCTTAAAGATCAAAGCTTTTATTTTGAAATAGTTGAAAAAAATCAAAACT
6771281 TTGTTTTAAAAAATTTAAACTTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTAAAAATCT
66 TTGTTTT-AAAAATTTAAAC-TTTCCTTTAAAATGACTAAAAACATATTTTTATTTTAAAAATCT
6771346 AAATTTTCTCTTTTAA
129 AAATTTTCTCTTTTAA
6771362 AAAAAACATTATTTTTCTTAAAGATCAAAGCTTTTATTTTGAAATAGTTGAAAAAAATCAAAACT
1 AAAAAACATTATTTTTCTTAAAGATCAAAGCTTTTATTTTGAAATAGTTGAAAAAAATCAAAACT
* * * *
6771427 TTATTTTAAAAATTTAAACTTTCATTTTAAATGACTAAAAAAACATATTTTTATTTTCTAAAATC
66 TTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACT--AAAAACATATTTTTATTTT-AAAAATC
*
6771492 TAAAATTTCTCTTTTTTTCAA
128 T-AAATTT-TC-TCTTTT-AA
* * * * *
6771513 AAAAAATACTATTTTTCTTAAAGATTAAAGCTTTTATTTTCAAATAGTTAAAAAAAAATCAAAAG
1 AAAAAACATTATTTTTCTTAAAGATCAAAGCTTTTATTTTGAAATAGTT-GAAAAAAATCAAAA-
* * * *** *
6771578 C-ATGTTTTAAAATTTTAAACTTCCCTTTAAAATGACT-AAATTTTTTTTTTATTTTTAAAAATC
64 CTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAACATATTTTTA-TTTTAAAAATC
* *
6771641 TAAACTTTCTCTTTTTA
128 TAAATTTTCTCTTTTAA
6771658 AAAAAA
1 AAAAAA
6771664 TTAATTTTTT
Statistics
Matches: 259, Mismatches: 32, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
144 15 0.06
145 45 0.17
146 60 0.23
147 9 0.03
148 11 0.04
149 19 0.07
150 9 0.03
151 47 0.18
152 43 0.17
153 1 0.00
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (144 bp):
AAAAAACATTATTTTTCTTAAAGATCAAAGCTTTTATTTTGAAATAGTTGAAAAAAATCAAAACT
TTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTAAAAATCTAA
ATTTTCTCTTTTAA
Found at i:6771439 original size:20 final size:21
Alignment explanation
Indices: 6771414--6771457 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
6771404 AATAGTTGAA
6771414 AAAAATCAAAACTTT-ATTTT
1 AAAAATCAAAACTTTCATTTT
**
6771434 AAAAATTTAAACTTTCATTTT
1 AAAAATCAAAACTTTCATTTT
6771455 AAA
1 AAA
6771458 TGACTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAATCAAAACTTTCATTTT
Found at i:6772081 original size:10 final size:10
Alignment explanation
Indices: 6772066--6772100 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
6772056 AACAGGCCCA
6772066 AAAAGTAAAG
1 AAAAGTAAAG
6772076 AAAAGTAAAG
1 AAAAGTAAAG
6772086 AAAAGTAAAAG
1 AAAAGT-AAAG
6772097 AAAA
1 AAAA
6772101 AAATGGTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (10 bp):
AAAAGTAAAG
Found at i:6772541 original size:42 final size:42
Alignment explanation
Indices: 6772489--6772793 Score: 349
Period size: 42 Copynumber: 7.3 Consensus size: 42
6772479 CTTCATATAC
* * *
6772489 AATGCAATGAACAGTAAATGGACCTCCACACCTAGGTCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
* * ** *
6772531 AATGTAATGAAAAGTTAATGGACCTTTACACTTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
* * * **
6772573 AATGCAACGAAAAGTCAATGAACCTCCACACCTAGGTTTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
* * **
6772615 AATGCAATTAAAAGTGAACAGACCTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
* ** * *
6772657 ATTGCAATGAAAAGTAAACAGACCTCTACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
*
6772699 AATGCAATGAAAAGTAAATGGAGCTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
* * * * * *
6772741 AATGAAATGAAAAGTAAATAGACCTCTACAGCTGGGGCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
6772783 AATGCAATGAA
1 AATGCAATGAA
6772794 TGTTTTCCTT
Statistics
Matches: 219, Mismatches: 44, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 219 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
Found at i:6775346 original size:50 final size:50
Alignment explanation
Indices: 6775227--6775404 Score: 191
Period size: 50 Copynumber: 3.6 Consensus size: 50
6775217 CATACCAAAT
* *
6775227 CCATGTCCCAGACGTGGTCTTACATGGGATGTT-TCCTATAC--TGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGGTGCCAATG
** * * * *
6775276 TTATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTACCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAATG
* ** *
6775326 CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAATG
* *
6775376 CCATGTCTCAGACATGGTCTTACGTGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
6775405 CCTCTTATAA
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
48 4 0.04
49 29 0.28
50 72 0.69
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.29
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAATG
Found at i:6777344 original size:148 final size:148
Alignment explanation
Indices: 6777121--6777454 Score: 469
Period size: 148 Copynumber: 2.2 Consensus size: 148
6777111 AAATCAAAAC
* ** * * * *
6777121 TTTATTTCGAAATAGTTGAAAAAGTTCAAAATTTTATTTAAAAAAATTCAAACTTTTCCTTTAGA
1 TTTATTTTGAAATAGTTGAAAAAAATCAAAACTTTGTTTAAAAAAATTCAAACTTTCCCTTTAAA
* *
6777186 ATGACTAAAAAGCATATTTTTA-TTTTAAAAATCTAAACTCTCTTTTTTTTTAAAAAAA-ACTAT
66 ATGACTAAAAA-CATATTTTTATTTTTAAAAATCTAAAATCTCTCTTTTTTTAAAAAAACACTAT
*
6777249 TTTTCTTAAAGATTAAAGGT
130 TTTT-TTAAAGATTAAAGCT
* *
6777269 TTTATTTTGAAATAGTTGAAAAAAATCAAAACTTTGTTT-TAAAAATTTAAAC-TTCCCTTTAAA
1 TTTATTTTGAAATAGTTGAAAAAAATCAAAACTTTGTTTAAAAAAATTCAAACTTTCCCTTTAAA
* *
6777332 ATGACTACAAAAACATATTTTTATTTTTTAAAATCTAAAATTTCTCTTTTTTTAAAAAAACACTA
66 ATGACT--AAAAACATATTTTTATTTTTAAAAATCTAAAATCTCTCTTTTTTTAAAAAAACACTA
6777397 TTTTTTTAAAGATTAAAGCT
129 TTTTTTTAAAGATTAAAGCT
6777417 TTTATTTTGAAATAGTTGAAAAAAAATCAAAACTTTGT
1 TTTATTTTGAAATAGTTG-AAAAAAATCAAAACTTTGT
6777455 GTTGACACCA
Statistics
Matches: 167, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
146 15 0.09
147 21 0.13
148 103 0.62
149 28 0.17
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (148 bp):
TTTATTTTGAAATAGTTGAAAAAAATCAAAACTTTGTTTAAAAAAATTCAAACTTTCCCTTTAAA
ATGACTAAAAACATATTTTTATTTTTAAAAATCTAAAATCTCTCTTTTTTTAAAAAAACACTATT
TTTTTAAAGATTAAAGCT
Found at i:6777693 original size:97 final size:97
Alignment explanation
Indices: 6777527--6777720 Score: 388
Period size: 97 Copynumber: 2.0 Consensus size: 97
6777517 CGGGAGTCGC
6777527 CACCAATCTTTTTTGATAAGGTGTGATCGGATCACCTTGCAATTTGAACGTTTTAATAAATAGTT
1 CACCAATCTTTTTTGATAAGGTGTGATCGGATCACCTTGCAATTTGAACGTTTTAATAAATAGTT
6777592 TGATTTATTAAAACATTATTTTTTGGTCTACA
66 TGATTTATTAAAACATTATTTTTTGGTCTACA
6777624 CACCAATCTTTTTTGATAAGGTGTGATCGGATCACCTTGCAATTTGAACGTTTTAATAAATAGTT
1 CACCAATCTTTTTTGATAAGGTGTGATCGGATCACCTTGCAATTTGAACGTTTTAATAAATAGTT
6777689 TGATTTATTAAAACATTATTTTTTGGTCTACA
66 TGATTTATTAAAACATTATTTTTTGGTCTACA
6777721 AAAATCCAAA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.42
Consensus pattern (97 bp):
CACCAATCTTTTTTGATAAGGTGTGATCGGATCACCTTGCAATTTGAACGTTTTAATAAATAGTT
TGATTTATTAAAACATTATTTTTTGGTCTACA
Found at i:6779929 original size:22 final size:22
Alignment explanation
Indices: 6779903--6779946 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6779893 CCGACTACTA
*
6779903 TTTTTGTTCTTTGTTACTGTTTC
1 TTTTTGTT-TTTGTGACTGTTTC
6779926 TTTTTGTTTTTGTGACTGTTT
1 TTTTTGTTTTTGTGACTGTTT
6779947 GCAGGTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.05, C:0.09, G:0.16, T:0.70
Consensus pattern (22 bp):
TTTTTGTTTTTGTGACTGTTTC
Found at i:6780639 original size:44 final size:43
Alignment explanation
Indices: 6780591--6780813 Score: 124
Period size: 43 Copynumber: 5.2 Consensus size: 43
6780581 TTTTCAATCC
6780591 GCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCT
1 GCTCCACTGTAACTT-AGGGAGATAGGATTGGTTTCTTCTGTCT
* * * * *
6780635 GCTCCACTACT-GCTTAGGGAGATAAGACTT-G---ATGC-GATCT
1 GCTCCACT-GTAACTTAGGGAGATAGGA-TTGGTTTCTTCTG-TCT
* * * * **
6780675 GCTCTACTGTAACTTTAGAGAGATAAGATCTGTGGTT-TT-AATCT
1 GCTCCACTGTAAC-TTAGGGAGATAGGAT-TG-GTTTCTTCTGTCT
* *
6780719 GC-CCTATTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTTT
1 GCTCC-ACTGTAACTT-AGGGAGATAGGATTGGTTTCTTCTGTCT
* * * * *
6780763 ACTCTACTACT-GCTTAGGGAGATAGGATCGGTTTCTTCTGTCT
1 GCTCCACT-GTAACTTAGGGAGATAGGATTGGTTTCTTCTGTCT
6780806 GCTCCACT
1 GCTCCACT
6780814 ACTGCTTAAG
Statistics
Matches: 133, Mismatches: 28, Indels: 37
0.67 0.14 0.19
Matches are distributed among these distances:
39 2 0.02
40 14 0.11
41 14 0.11
42 3 0.02
43 52 0.39
44 44 0.33
45 4 0.03
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (43 bp):
GCTCCACTGTAACTTAGGGAGATAGGATTGGTTTCTTCTGTCT
Found at i:6780697 original size:128 final size:128
Alignment explanation
Indices: 6780522--6780786 Score: 383
Period size: 128 Copynumber: 2.1 Consensus size: 128
6780512 CTGTAACTTC
* * * *
6780522 AGGGAGATAAGGCTGGATGTGATCTGCTCTACTGCTACTTCAGAGAGATAATATCT-TTGTTTTC
1 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCTACTTCAGAGAGATAAGATCTGTGGTTTT-
*
6780586 AATCCGCTCC-ACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTT
65 AATCCGC-CCTACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACTGCTT
* *
6780650 AGGGAGATAAGACTTGATGCGATCTGCTCTACTG-TAACTTTAGAGAGATAAGATCTGTGGTTTT
1 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCT-ACTTCAGAGAGATAAGATCTGTGGTTTT
* * * *
6780714 AATCTGCCCTATTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTTTACTCTACTACTGCTT
65 AATCCGCCCTACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACTGCTT
6780778 AGGGAGATA
1 AGGGAGATA
6780787 GGATCGGTTT
Statistics
Matches: 123, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
127 3 0.02
128 114 0.93
129 6 0.05
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (128 bp):
AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCTACTTCAGAGAGATAAGATCTGTGGTTTTA
ATCCGCCCTACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACTGCTT
Found at i:6780783 original size:43 final size:43
Alignment explanation
Indices: 6780735--6780821 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
6780725 TTGTAACTTC
* * *
6780735 AGGGAGATAGGATTGGTTTCTTCTGTTTACTCTACTACTGCTT
1 AGGGAGATAGGATCGGTTTCTTCTGTCTACTCCACTACTGCTT
*
6780778 AGGGAGATAGGATCGGTTTCTTCTGTCTGCTCCACTACTGCTT
1 AGGGAGATAGGATCGGTTTCTTCTGTCTACTCCACTACTGCTT
6780821 A
1 A
6780822 AGACTTAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (43 bp):
AGGGAGATAGGATCGGTTTCTTCTGTCTACTCCACTACTGCTT
Found at i:6780975 original size:40 final size:41
Alignment explanation
Indices: 6780924--6781196 Score: 270
Period size: 40 Copynumber: 6.6 Consensus size: 41
6780914 CTTCTGTTTG
*
6780924 CTCCACTACTGCTTAAGGAGATAAGACTTGATGCGATGC-A
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATGCTA
*
6780964 CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGAT-CTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATGCTA
** * **
6781004 CTCCACTACTGCTTAGGGAGATAAGATCTACA-GTCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGA-CTTGATG-C--GATGCTA
* * ** * * ** * *
6781048 CTCCACTGCTGCTCAGGGAGAT-AGGTTTGGTTTCTTCTGTTTG
1 CTCCACTACTGCTTAGGGAGATAAGACTT-GATGC-GATG-CTA
*
6781091 CTCCACTACTGCTTAAGGAGATAAGACTTGATGCGATGC-A
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATGCTA
*
6781131 CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGAT-CTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATGCTA
6781171 CTCCACTACTGCTTAGGGAGATAAGA
1 CTCCACTACTGCTTAGGGAGATAAGA
6781197 TTTGCTTCTT
Statistics
Matches: 188, Mismatches: 34, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
39 2 0.01
40 125 0.66
41 4 0.02
42 4 0.02
43 27 0.14
44 26 0.14
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (41 bp):
CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATGCTA
Found at i:6781078 original size:167 final size:166
Alignment explanation
Indices: 6780820--6781197 Score: 695
Period size: 167 Copynumber: 2.3 Consensus size: 166
6780810 CACTACTGCT
* * * **
6780820 TAAGACTTAATGCGATCTGCTCTACTACTGATTAGGGAGATAAGA-CTTGATCTTCAACCTACTC
1 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACATCTTCAACCTACTC
6780884 CACTGCTGCTCAGGGAGATAGGTTTGGTTTCTTCTGTTTGCTCCACTACTGCTTAAGGAGATAAG
66 CACTGCTGCTCAGGGAGATAGGTTTGGTTTCTTCTGTTTGCTCCACTACTGCTTAAGGAGATAAG
6780949 ACTTGATGCGATGCACTCCACTACTGCTTAGGGAGA
131 ACTTGATGCGATGCACTCCACTACTGCTTAGGGAGA
6780985 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCAACCTACT
1 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA-TCTTCAACCTACT
6781050 CCACTGCTGCTCAGGGAGATAGGTTTGGTTTCTTCTGTTTGCTCCACTACTGCTTAAGGAGATAA
65 CCACTGCTGCTCAGGGAGATAGGTTTGGTTTCTTCTGTTTGCTCCACTACTGCTTAAGGAGATAA
6781115 GACTTGATGCGATGCACTCCACTACTGCTTAGGGAGA
130 GACTTGATGCGATGCACTCCACTACTGCTTAGGGAGA
6781152 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
1 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
6781198 TTGCTTCTTT
Statistics
Matches: 206, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
165 42 0.20
166 3 0.01
167 161 0.78
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (166 bp):
TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACATCTTCAACCTACTC
CACTGCTGCTCAGGGAGATAGGTTTGGTTTCTTCTGTTTGCTCCACTACTGCTTAAGGAGATAAG
ACTTGATGCGATGCACTCCACTACTGCTTAGGGAGA
Found at i:6781322 original size:43 final size:43
Alignment explanation
Indices: 6781193--6781324 Score: 110
Period size: 43 Copynumber: 3.1 Consensus size: 43
6781183 TTAGGGAGAT
*
6781193 AAGATTTGCTTCTTTAACTAGCTCCACTGCAACCGATGGAGGC
1 AAGATTTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGC
* ** * * * * *
6781236 AAGGCTTTG-TT-TTCGATCTGCTTCGCTGTTAA-CGCA-GGAAGGC
1 AA-GATTTGCTTCTTTAACCAGCTCCACTG-CAACCG-ATGG-AGGC
*
6781279 AAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGC
1 AAGATTTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGC
6781322 AAG
1 AAG
6781325 GCTTTGTCTT
Statistics
Matches: 63, Mismatches: 18, Indels: 16
0.65 0.19 0.16
Matches are distributed among these distances:
42 18 0.29
43 25 0.40
44 20 0.32
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (43 bp):
AAGATTTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGC
Found at i:6781337 original size:42 final size:42
Alignment explanation
Indices: 6781203--6781337 Score: 107
Period size: 42 Copynumber: 3.2 Consensus size: 42
6781193 AAGATTTGCT
*
6781203 TCTTTAACTAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG
1 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG
* * * * * * * *
6781245 T-TTTCGATCTGCTTCGCTGTTAA-CGCA-GGAAGGCAA-GATCTG
1 TCTTT-AACCAGCTCCACTG-CAACCG-ATGG-AGGCAAGGCTTTG
6781287 CTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG
1 --TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG
6781331 TCTTTAA
1 TCTTTAA
6781338 TCTTCACTGA
Statistics
Matches: 66, Mismatches: 17, Indels: 20
0.64 0.17 0.19
Matches are distributed among these distances:
41 3 0.05
42 24 0.36
43 18 0.27
44 18 0.27
45 3 0.05
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (42 bp):
TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG
Found at i:6782616 original size:7 final size:6
Alignment explanation
Indices: 6782581--6782615 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
6782571 TCCATTTTAC
6782581 TTTTCA TTTTTCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA -TTTTCA TTTTCA TTTTCA TTTTCA TTTT
6782616 TTACCTCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:6783853 original size:25 final size:25
Alignment explanation
Indices: 6783797--6783853 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
6783787 TGAAAGAAAA
*
6783797 TCCAAAAGAATGAAAGAATAATTAT
1 TCCAAAAGAATGAAAGAATAATTAC
*
6783822 TCAAAAAGAATGAAAGAAT-ATTAGC
1 TCCAAAAGAATGAAAGAATAATTA-C
6783847 TCCAAAA
1 TCCAAAA
6783854 ATGAATGCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.56, C:0.11, G:0.12, T:0.21
Consensus pattern (25 bp):
TCCAAAAGAATGAAAGAATAATTAC
Found at i:6787170 original size:106 final size:106
Alignment explanation
Indices: 6786974--6787250 Score: 301
Period size: 106 Copynumber: 2.6 Consensus size: 106
6786964 ATTTAGTCGG
* * * *
6786974 ACGAGACATCAAAACCCAGCACGTTAGGGCACGTTCTCTCGAATTTCTAAACGCAAGACATTG-T
1 ACGAGAAATCGAAACCCAGCACGTTAGGGCACGTT-TCTCGAATTTCTAAACGCAAAATATTGCT
** *
6787038 CTCATTTTAAAATTTCGAAAGAATATTCGACTATTTGGCCAA
65 CTCATTTTAAAATTTAAAAAGAATATTCGACCATTTGGCCAA
* * *
6787080 ACGAGTAATCGAAACCCAACACGTTAGGGCCCGTATTCTCGAATTTCTAAACGCAAAATATTGCA
1 ACGAGAAATCGAAACCCAGCACGTTAGGGCACGT-TTCTCGAATTTCTAAACGCAAAATATTGC-
* * * * *
6787145 T-TC-TTTTGAAAGTTTAAAAAG-ATATTTGGCCATTTGGTCGA
64 TCTCATTTT-AAAATTTAAAAAGAATATTCGACCATTTGGCCAA
* * * *
6787186 ATGAGAAATCGAAACCCAGCACGTTAGGGAACGTTTTCTCGAATTTTCCAAACGCGAAATATTGC
1 ACGAGAAATCGAAACCCAGCACGTTAGGGCACG-TTTCTCGAA-TTTCTAAACGCAAAATATTGC
6787251 CTTATTTAGG
Statistics
Matches: 143, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
106 109 0.76
107 33 0.23
108 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (106 bp):
ACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCTCGAATTTCTAAACGCAAAATATTGCTC
TCATTTTAAAATTTAAAAAGAATATTCGACCATTTGGCCAA
Found at i:6788165 original size:3 final size:3
Alignment explanation
Indices: 6788157--6788214 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
6788147 TGTACATAGC
* * *
6788157 AAT AAT AAT AAT AAT AAT AAC AAC AAT AA- AACT AATT AAT -TT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT AAT
6788202 AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AA
6788215 CGGGACTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
2 5 0.11
3 36 0.78
4 5 0.11
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6789015 original size:22 final size:22
Alignment explanation
Indices: 6788989--6789032 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6788979 CCGACTACTA
*
6788989 TTTTTGTTCTCTGTTACTGTTTC
1 TTTTTGTT-TCTGTGACTGTTTC
*
6789012 TTTTTGTTTTTGTGACTGTTT
1 TTTTTGTTTCTGTGACTGTTT
6789033 GCAGGTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.05, C:0.11, G:0.16, T:0.68
Consensus pattern (22 bp):
TTTTTGTTTCTGTGACTGTTTC
Found at i:6789763 original size:3 final size:3
Alignment explanation
Indices: 6789755--6789811 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
6789745 GTAAAAAATG
* * * * * *
6789755 ATA ATA ATA ATA ATA ATA ATA TTTA ATA ATA GTA GTA GTA GTA ATG
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
6789801 ATA ATA ATA AT
1 ATA ATA ATA AT
6789812 TTGGGCCCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 45 0.96
4 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:6796126 original size:44 final size:44
Alignment explanation
Indices: 6796063--6796148 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
6796053 ATCCCTTTAA
6796063 TCACCACGCTTAACCTAAGAACCTAAAAGGAAGAAGAAACTAGG
1 TCACCACGCTTAACCTAAGAACCTAAAAGGAAGAAGAAACTAGG
*
6796107 TCACCCCGCTTAACCTAAGAACCTAAAAGGAAGAAGAAACTA
1 TCACCACGCTTAACCTAAGAACCTAAAAGGAAGAAGAAACTA
6796149 AGTAAGTTCG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.45, C:0.24, G:0.16, T:0.14
Consensus pattern (44 bp):
TCACCACGCTTAACCTAAGAACCTAAAAGGAAGAAGAAACTAGG
Found at i:6797219 original size:26 final size:26
Alignment explanation
Indices: 6797190--6797239 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
6797180 CTTTCTAAAG
*
6797190 TTAGTTTCTACCTATTTGGTAAAACT
1 TTAGTTTCTAACTATTTGGTAAAACT
6797216 TTAGTTTCTAACTATTTGGTAAAA
1 TTAGTTTCTAACTATTTGGTAAAA
6797240 ATTAAAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (26 bp):
TTAGTTTCTAACTATTTGGTAAAACT
Found at i:6805534 original size:14 final size:15
Alignment explanation
Indices: 6805501--6805541 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
6805491 TCTTAAATTG
*
6805501 ATTTTTTCATTTTAA
1 ATTTTTTTATTTTAA
6805516 ATTTTTTTATTTT--
1 ATTTTTTTATTTTAA
6805529 ATTTTTTATATTT
1 ATTTTTT-TATTT
6805542 CCTTATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 7 0.29
14 5 0.21
15 12 0.50
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTTTTATTTTAA
Found at i:6805588 original size:6 final size:6
Alignment explanation
Indices: 6805577--6805604 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6805567 TAAATCCCTC
6805577 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
6805605 CCAGCATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:6812112 original size:102 final size:103
Alignment explanation
Indices: 6811927--6812113 Score: 225
Period size: 102 Copynumber: 1.8 Consensus size: 103
6811917 AAATGTGAAA
* * * * *
6811927 TTGAGTAACCGGGATAAGGTGCTTGGGTTGTCATCTCATTTCGCGTCAAAAGATTTGATTATGTC
1 TTGAGTAACCGGGATAAGGTGCTTGGGTTGTCATCTCACTTCACGTCAAAAGACTTGACTACGTC
*****
6811992 TCGAATTTGTTAAAAATAAATAAAGAGAACGTGTCGGG
66 TCGAAAAAAATAAAAATAAATAAAGAGAACGTGTCGGG
* * *
6812030 TTGAGTACCCGGGGTGAGGTGCTT-GGTTGTCATCTCACTTCACGTCAAAAGACTTGACTACGT-
1 TTGAGTAACCGGGATAAGGTGCTTGGGTTGTCATCTCACTTCACGTCAAAAGACTTGACTACGTC
*
6812093 TTGAAAAAAATAAACAATAAA
66 TCGAAAAAAATAAA-AATAAA
6812114 CAAAAAAAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
101 8 0.12
102 40 0.58
103 21 0.30
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (103 bp):
TTGAGTAACCGGGATAAGGTGCTTGGGTTGTCATCTCACTTCACGTCAAAAGACTTGACTACGTC
TCGAAAAAAATAAAAATAAATAAAGAGAACGTGTCGGG
Found at i:6813538 original size:22 final size:22
Alignment explanation
Indices: 6813491--6813540 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
6813481 GCTTAAAAAA
* *
6813491 TATTTTATTTATCTATTTGTTT
1 TATTTTATTAATCTATTTGTTG
*
6813513 TATTTTATTAAATTTATTT-TTG
1 TATTTTATT-AATCTATTTGTTG
6813535 TATTTT
1 TATTTT
6813541 CAAATCTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (22 bp):
TATTTTATTAATCTATTTGTTG
Found at i:6818503 original size:17 final size:17
Alignment explanation
Indices: 6818478--6818511 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6818468 AACTCACCTC
*
6818478 AATACCATATTATGCAA
1 AATACCATAATATGCAA
*
6818495 AATATCATAATATGCAA
1 AATACCATAATATGCAA
6818512 TAATTAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (17 bp):
AATACCATAATATGCAA
Found at i:6819243 original size:20 final size:18
Alignment explanation
Indices: 6819218--6819276 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 18
6819208 ATTAACATGT
6819218 TTAATCATAATTAATTAA
1 TTAATCATAATTAATTAA
*
6819236 TCTTAATCATGATTTAACTTAA
1 --TTAATCAT-AATTAA-TTAA
6819258 TTAATCTATATATTAATTA
1 TTAATC-ATA-ATTAATTA
6819277 GTCTAATGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
20 18 0.55
21 11 0.33
22 4 0.12
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATCATAATTAATTAA
Found at i:6823359 original size:47 final size:47
Alignment explanation
Indices: 6823285--6823380 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
6823275 GTAACAGAAC
**
6823285 ACGCACCGATACAAGTTCGTAAGAATTTAGTGCGGAAAACATCATTT
1 ACGCACCGATACAAGTTCGTAAGAATTTAGTGAAGAAAACATCATTT
*
6823332 ACGCGCCGATACAAGTTCGTAAGAATTTAGTGAAGAAAACATCATTT
1 ACGCACCGATACAAGTTCGTAAGAATTTAGTGAAGAAAACATCATTT
6823379 AC
1 AC
6823381 ATGTGTCATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (47 bp):
ACGCACCGATACAAGTTCGTAAGAATTTAGTGAAGAAAACATCATTT
Found at i:6833500 original size:2 final size:2
Alignment explanation
Indices: 6833493--6833535 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
6833483 TAACATAAAT
6833493 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6833535 A
1 A
6833536 TTTGTTTAGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6837887 original size:26 final size:26
Alignment explanation
Indices: 6837858--6837914 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
6837848 AAATTACAAC
*
6837858 CAAGACCTTAAATTCATCATTAACAT
1 CAAGACCTTAAACTCATCATTAACAT
6837884 CAAGACCTTAAACTCATCATTAACAT
1 CAAGACCTTAAACTCATCATTAACAT
6837910 CAAGA
1 CAAGA
6837915 ACAATCAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.44, C:0.25, G:0.05, T:0.26
Consensus pattern (26 bp):
CAAGACCTTAAACTCATCATTAACAT
Found at i:6837930 original size:29 final size:26
Alignment explanation
Indices: 6837858--6837931 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 26
6837848 AAATTACAAC
* *
6837858 CAAGACCTTAAATTCATCATTAACAT
1 CAAGACATCAAATTCATCATTAACAT
* * *
6837884 CAAGACCTTAAACTCATCATTAACAT
1 CAAGACATCAAATTCATCATTAACAT
6837910 CAAGAACAATCAATATTCATCA
1 CAAG-AC-ATCAA-ATTCATCA
6837932 ATGACAGAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
26 29 0.71
27 2 0.05
28 3 0.07
29 7 0.17
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (26 bp):
CAAGACATCAAATTCATCATTAACAT
Found at i:6842053 original size:28 final size:28
Alignment explanation
Indices: 6842020--6842082 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
6842010 TTGAAATAAA
* *
6842020 TTAATTGTTCCCAACC-CTATTTTTGTAT
1 TTAATTATTCACAACCTC-ATTTTTGTAT
* *
6842048 TTAATTATTCATAATCTCATTTTTGTAT
1 TTAATTATTCACAACCTCATTTTTGTAT
6842076 TTAATTA
1 TTAATTA
6842083 ATTTTTTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.05, T:0.54
Consensus pattern (28 bp):
TTAATTATTCACAACCTCATTTTTGTAT
Found at i:6843691 original size:74 final size:74
Alignment explanation
Indices: 6843568--6843714 Score: 249
Period size: 74 Copynumber: 2.0 Consensus size: 74
6843558 CAGAACGAAG
* *
6843568 GGAATCTGCATATCGCATCAGGTGTGTAACTACCCCACGGTAACAGTAGAACGGCAAAAGCCGAA
1 GGAATCTGCAAATCACATCAGGTGTGTAACTACCCCACGGTAACAGTAGAACGGCAAAAGCCGAA
6843633 AAGCTGAAT
66 AAGCTGAAT
** *
6843642 GGAATCTGCAAATCACATCAGGTGTGTAACTACCCCATTGTAACTGTAGAACGGCAAAAGCCGAA
1 GGAATCTGCAAATCACATCAGGTGTGTAACTACCCCACGGTAACAGTAGAACGGCAAAAGCCGAA
6843707 AAGCTGAA
66 AAGCTGAA
6843715 ATACGACGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.18
Consensus pattern (74 bp):
GGAATCTGCAAATCACATCAGGTGTGTAACTACCCCACGGTAACAGTAGAACGGCAAAAGCCGAA
AAGCTGAAT
Found at i:6844071 original size:27 final size:26
Alignment explanation
Indices: 6844038--6844548 Score: 464
Period size: 27 Copynumber: 19.0 Consensus size: 26
6844028 GCTATGATCG
* * *
6844038 AAATACCCCCATATGATAGAATGACC
1 AAATACCCCCATAGGGTAAAATGACC
*
6844064 AAATTACCCTCATAGGGTAAAATGACC
1 AAA-TACCCCCATAGGGTAAAATGACC
* * * * *
6844091 AAAATAGCTCAATAGGGTAGAATGATCG
1 -AAATACCCCCATAGGGTAAAATGA-CC
* * *
6844119 AAATACCCCTATAGGATAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGAC-C
* *
6844146 AAATACCTCCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGA-CC
* *
6844173 AATTACCCCTATAGGGTAAAATGACC
1 AAATACCCCCATAGGGTAAAATGACC
* *
6844199 AAAATACCCCCATAGAGTAGAATGACC
1 -AAATACCCCCATAGGGTAAAATGACC
* *
6844226 GAAATACCCCCATAGGGTAGAATGATCG
1 -AAATACCCCCATAGGGTAAAATGA-CC
* * *
6844254 TAATACCCCCATAAGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGAC-C
* **
6844281 AAATACCCCTATAGGGTAAAATGATTA
1 AAATACCCCCATAGGGTAAAATGA-CC
* * * *
6844308 AAATACCCCCATAGGATAGAATAACTG
1 AAATACCCCCATAGGGTAAAATGAC-C
* *
6844335 AAATACCCCTATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGAC-C
*
6844362 AAATACCCCTATAGGGTAAAATGACC
1 AAATACCCCCATAGGGTAAAATGACC
* * * * *
6844388 AAAATACCTCTATCGGATAGAATGACCC
1 -AAATACCCCCATAGGGTAAAATGA-CC
* *
6844416 AAATACCCTCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGAC-C
* *
6844443 AAATACCCCCATAGGATAGAATGACCC
1 AAATACCCCCATAGGGTAAAATGA-CC
6844470 AAATACCCCCATAGGGTAAAATGACC
1 AAATACCCCCATAGGGTAAAATGACC
*
6844496 GAAATACTCCCATAGGGTAAAATGACC
1 -AAATACCCCCATAGGGTAAAATGACC
*
6844523 GAAATACCCTCATAGGGTAAAATGAC
1 -AAATACCCCCATAGGGTAAAATGAC
6844549 TGTTATACCC
Statistics
Matches: 402, Mismatches: 68, Indels: 29
0.81 0.14 0.06
Matches are distributed among these distances:
26 9 0.02
27 384 0.96
28 9 0.02
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (26 bp):
AAATACCCCCATAGGGTAAAATGACC
Found at i:6844126 original size:54 final size:53
Alignment explanation
Indices: 6844031--6844548 Score: 545
Period size: 54 Copynumber: 9.6 Consensus size: 53
6844021 TTACACTGCT
* * * * *
6844031 ATGATCGAAATACCCCCATATGATAGAATGACCAAATTA-CCCTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAAATGACGAAA-TACCCCT-ATAGGGTAAA
* * * * * *
6844085 ATGACCAAAATAGCTCAATAGGGTAGAATGATCGAAATACCCCTATAGGATAAA
1 ATGACCGAAATACCCCCATAGGGTAAAATGA-CGAAATACCCCTATAGGGTAAA
* * *
6844139 ATGACTGAAATACCTCCATAGGGTAAAATGATCGAATTACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAAATGA-CGAAATACCCCTATAGGGTAAA
* * * * *
6844193 ATGACCAAAATACCCCCATAGAGTAGAATGACCGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAAATGA-CGAAATACCCCTATAGGGTAAA
* * *
6844247 ATGATCGTAATACCCCCATAAGGTAAAATGACTGAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAAATGAC-GAAATACCCCTATAGGGTAAA
*** * * *
6844301 ATGATTAAAATACCCCCATAGGATAGAATAACTGAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAAATGAC-GAAATACCCCTATAGGGTAAA
* * * * * * *
6844355 ATGACTGAAATACCCCTATAGGGTAAAATGACCAAAATACCTCTATCGGATAGA
1 ATGACCGAAATACCCCCATAGGGTAAAATGA-CGAAATACCCCTATAGGGTAAA
* * * * *
6844409 ATGACCCAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGATAGA
1 ATGACCGAAATACCCCCATAGGGTAAAATGAC-GAAATACCCCTATAGGGTAAA
*
6844463 ATGACCCAAATACCCCCATAGGGTAAAATGACCGAAATACTCCC-ATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAAATGA-CGAAATAC-CCCTATAGGGTAAA
*
6844517 ATGACCGAAATACCCTCATAGGGTAAAATGAC
1 ATGACCGAAATACCCCCATAGGGTAAAATGAC
6844549 TGTTATACCC
Statistics
Matches: 393, Mismatches: 64, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
53 3 0.01
54 377 0.96
55 13 0.03
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (53 bp):
ATGACCGAAATACCCCCATAGGGTAAAATGACGAAATACCCCTATAGGGTAAA
Found at i:6844559 original size:81 final size:80
Alignment explanation
Indices: 6844031--6844548 Score: 545
Period size: 81 Copynumber: 6.4 Consensus size: 80
6844021 TTACACTGCT
* * * * * * *
6844031 ATGATCGAAATACCCCCATATGATAGAATGACC-AAATTACCCTCATAGGGTAAAATGACCAAAA
1 ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAA-TACCCCCATAGGGTAAAATGACCGAAA
* * *
6844095 TAGCTCAATAGGGTAGA
65 TA-CCCCATAGGGTAAA
* * * * * *
6844112 ATGATCGAAATACCCCTATAGGATAAAATGACTGAAATACCTCCATAGGGTAAAATGATCGAATT
1 ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAAT
6844177 ACCCCTATAGGGTAAA
66 ACCCC-ATAGGGTAAA
* * * * * * *
6844193 ATGACCAAAATACCCCCATAGAGTAGAATGACCGAAATACCCCCATAGGGTAGAATGATCGTAAT
1 ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAAT
*
6844258 ACCCCCATAAGGTAAA
66 A-CCCCATAGGGTAAA
* *** * * * *
6844274 ATGACTGAAATACCCCTATAGGGTAAAATGATTAAAATACCCCCATAGGATAGAATAACTGAAAT
1 ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAAT
6844339 ACCCCTATAGGGTAAA
66 ACCCC-ATAGGGTAAA
* * * * * * * *
6844355 ATGACTGAAATACCCCTATAGGGTAAAATGACCAAAATACCTCTATCGGATAGAATGACCCAAAT
1 ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAAT
6844420 ACCCTCATAGGGTAAA
66 ACCC-CATAGGGTAAA
* * * * *
6844436 ATGACTGAAATACCCCCATAGGATAGAATGACCCAAATACCCCCATAGGGTAAAATGACCGAAAT
1 ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAAT
6844501 ACTCCCATAGGGTAAA
66 AC-CCCATAGGGTAAA
6844517 ATGACCGAAATA-CCCTCATAGGGTAAAATGAC
1 ATGACCGAAATACCCCT-ATAGGGTAAAATGAC
6844549 TGTTATACCC
Statistics
Matches: 370, Mismatches: 60, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
80 9 0.02
81 351 0.95
82 10 0.03
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (80 bp):
ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAAT
ACCCCATAGGGTAAA
Found at i:6844818 original size:26 final size:26
Alignment explanation
Indices: 6844782--6844831 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
6844772 TTTGCCACAT
* *
6844782 ATACTGTTACTGGTAGCTTTGCTGTG
1 ATACTATTACTGGCAGCTTTGCTGTG
6844808 ATACTATTACTGGCAGCTTTGCTG
1 ATACTATTACTGGCAGCTTTGCTG
6844832 CAATATTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGTG
Found at i:6844980 original size:28 final size:28
Alignment explanation
Indices: 6844943--6845109 Score: 237
Period size: 28 Copynumber: 6.0 Consensus size: 28
6844933 CATTGTACTG
*
6844943 ATTACTGTATTGGACTAAGGCCCACATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
6844971 ATTACTGTATTGGGCTAAGGCCCACATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
*
6844999 GTTACT-TATTGGGCTAAGGCCCACATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
* *
6845026 GTTACTGTATTGGGCTAAGGCCCATATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
* *
6845054 ATTACTGTAATGGGCTAAGGCCCACACT
1 ATTACTGTATTGGGCTAAGGCCCACATT
* * * *
6845082 GTTACTGAAATAGGCTAAGGCCCACATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
6845110 GTACTATTAC
Statistics
Matches: 127, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
27 27 0.21
28 100 0.79
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (28 bp):
ATTACTGTATTGGGCTAAGGCCCACATT
Found at i:6845031 original size:55 final size:56
Alignment explanation
Indices: 6844944--6845111 Score: 248
Period size: 55 Copynumber: 3.0 Consensus size: 56
6844934 ATTGTACTGA
* *
6844944 TTACTGTATTGGACTAAGGCCCACATTATTACTGTATTGGGCTAAGGCCCACATTG
1 TTACTGTATTGGGCTAAGGCCCACATTGTTACTGTATTGGGCTAAGGCCCACATTG
* *
6845000 TTACT-TATTGGGCTAAGGCCCACATTGTTACTGTATTGGGCTAAGGCCCATATTA
1 TTACTGTATTGGGCTAAGGCCCACATTGTTACTGTATTGGGCTAAGGCCCACATTG
* * * * *
6845055 TTACTGTAATGGGCTAAGGCCCACACTGTTACTGAAATAGGCTAAGGCCCACATTG
1 TTACTGTATTGGGCTAAGGCCCACATTGTTACTGTATTGGGCTAAGGCCCACATTG
6845111 T
1 T
6845112 ACTATTACTG
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
55 51 0.51
56 49 0.49
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (56 bp):
TTACTGTATTGGGCTAAGGCCCACATTGTTACTGTATTGGGCTAAGGCCCACATTG
Found at i:6845085 original size:83 final size:84
Alignment explanation
Indices: 6844944--6845111 Score: 266
Period size: 83 Copynumber: 2.0 Consensus size: 84
6844934 ATTGTACTGA
* * * *
6844944 TTACTGTATTGGACTAAGGCCCACATTATTACTGTATTGGGCTAAGGCCCACATTGTTACT-TAT
1 TTACTGTATTGGACTAAGGCCCACATTATTACTGTAATGGGCTAAGGCCCACACTGTTACTGAAA
*
6845008 TGGGCTAAGGCCCACATTG
66 TAGGCTAAGGCCCACATTG
* *
6845027 TTACTGTATTGGGCTAAGGCCCATATTATTACTGTAATGGGCTAAGGCCCACACTGTTACTGAAA
1 TTACTGTATTGGACTAAGGCCCACATTATTACTGTAATGGGCTAAGGCCCACACTGTTACTGAAA
6845092 TAGGCTAAGGCCCACATTG
66 TAGGCTAAGGCCCACATTG
6845111 T
1 T
6845112 ACTATTACTG
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 57 0.74
84 20 0.26
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (84 bp):
TTACTGTATTGGACTAAGGCCCACATTATTACTGTAATGGGCTAAGGCCCACACTGTTACTGAAA
TAGGCTAAGGCCCACATTG
Found at i:6847202 original size:26 final size:26
Alignment explanation
Indices: 6847173--6847339 Score: 183
Period size: 26 Copynumber: 6.4 Consensus size: 26
6847163 ACCTGAATAG
*
6847173 CAGGCCTTAAGCCGATGATTATTTAA
1 CAGGCCTTGAGCCGATGATTATTTAA
** * *
6847199 CAGGCCTTGAGCAAATGATTACTTAG
1 CAGGCCTTGAGCCGATGATTATTTAA
* * *
6847225 CA-GACTATGAGCCGGTGATTATTTAG
1 CAGGCCT-TGAGCCGATGATTATTTAA
* * *
6847251 TAGGCCTTGAGCAGGTGATTATTTAA
1 CAGGCCTTGAGCCGATGATTATTTAA
* *
6847277 CAGGCCTTGAGCCGGTGATTACTTAA
1 CAGGCCTTGAGCCGATGATTATTTAA
*
6847303 TAGGCCTTGAGCCGATGATTATTTAA
1 CAGGCCTTGAGCCGATGATTATTTAA
*
6847329 TAGGCCTTGAG
1 CAGGCCTTGAG
6847340 TCAGTAATTA
Statistics
Matches: 119, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
25 3 0.03
26 113 0.95
27 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (26 bp):
CAGGCCTTGAGCCGATGATTATTTAA
Found at i:6847314 original size:78 final size:78
Alignment explanation
Indices: 6847174--6847353 Score: 220
Period size: 78 Copynumber: 2.3 Consensus size: 78
6847164 CCTGAATAGC
* * * *
6847174 AGGCCTTAAGCCGATGATTATTTAACAGGCCTTGAGCAAATGATTACTTAGCAGACTATGAGCCG
1 AGGCCTTGAGCAGGTGATTATTTAACAGGCCTTGAGCAAATGATTACTTAACAGACTATGAGCCG
* *
6847239 GTGATTATTTAGT
66 ATGATTATTTAAT
*** * *
6847252 AGGCCTTGAGCAGGTGATTATTTAACAGGCCTTGAGCCGGTGATTACTTAATAGGCCT-TGAGCC
1 AGGCCTTGAGCAGGTGATTATTTAACAGGCCTTGAGCAAATGATTACTTAACA-GACTATGAGCC
6847316 GATGATTATTTAAT
65 GATGATTATTTAAT
*
6847330 AGGCCTTGAGTCA-GTAATTATTTA
1 AGGCCTTGAG-CAGGTGATTATTTA
6847354 GCAAATACTA
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
78 83 0.94
79 5 0.06
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (78 bp):
AGGCCTTGAGCAGGTGATTATTTAACAGGCCTTGAGCAAATGATTACTTAACAGACTATGAGCCG
ATGATTATTTAAT
Found at i:6849361 original size:23 final size:23
Alignment explanation
Indices: 6849335--6849387 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
6849325 AATCAAAAAA
*
6849335 AGAAAAAGCGGTCC-AAAGTCAAT
1 AGAAAAAGCAGTCCAAAAG-CAAT
*
6849358 AGAAAAAAGTAGTCCAAAAGCAAT
1 AG-AAAAAGCAGTCCAAAAGCAAT
6849382 AGAAAA
1 AGAAAA
6849388 GTATGACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 6 0.23
24 16 0.62
25 4 0.15
ACGTcount: A:0.57, C:0.13, G:0.19, T:0.11
Consensus pattern (23 bp):
AGAAAAAGCAGTCCAAAAGCAAT
Found at i:6854142 original size:26 final size:26
Alignment explanation
Indices: 6854105--6854232 Score: 128
Period size: 26 Copynumber: 5.1 Consensus size: 26
6854095 ACACACCGCA
*
6854105 GCTCTT-TTGAGCGTCCTGATATATG
1 GCTCTTCTTGAGCTTCCTGATATATG
*
6854130 GCTCTTCTTGAGCTTCCTGAT-TAAAG
1 GCTCTTCTTGAGCTTCCTGATAT-ATG
6854156 GCTCTT-TGTGAGCTTCCTGAT-TAATG
1 GCTCTTCT-TGAGCTTCCTGATAT-ATG
*
6854182 GCTCTTC-GGAGCTTCCTG--ATATG
1 GCTCTTCTTGAGCTTCCTGATATATG
* *
6854205 GCTC-GCTTGAACTTCCTGATATATG
1 GCTCTTCTTGAGCTTCCTGATATATG
6854230 GCT
1 GCT
6854233 ATCCATAGCT
Statistics
Matches: 88, Mismatches: 7, Indels: 16
0.79 0.06 0.14
Matches are distributed among these distances:
22 1 0.01
23 16 0.18
24 1 0.01
25 26 0.30
26 44 0.50
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
GCTCTTCTTGAGCTTCCTGATATATG
Found at i:6854197 original size:51 final size:51
Alignment explanation
Indices: 6854105--6854232 Score: 147
Period size: 52 Copynumber: 2.5 Consensus size: 51
6854095 ACACACCGCA
*
6854105 GCTCTTTTGAGCGTCCTGATATATGGCTCTTCTTGAGCTTCCTGATTAAAG
1 GCTCTTTTGAGCGTCCTGATATATGGCTCTTCTGGAGCTTCCTGATTAAAG
* *
6854156 GCTCTTTGTGAGCTTCCTGAT-TAATGGCTCTTC-GGAGCTTCCTGA-T-ATG
1 GCTCTTT-TGAGCGTCCTGATAT-ATGGCTCTTCTGGAGCTTCCTGATTAAAG
** * *
6854205 GCTCGCTTGAACTTCCTGATATATGGCT
1 GCTCTTTTGAGCGTCCTGATATATGGCT
6854233 ATCCATAGCT
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
48 18 0.26
49 8 0.12
50 1 0.01
51 19 0.28
52 22 0.32
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (51 bp):
GCTCTTTTGAGCGTCCTGATATATGGCTCTTCTGGAGCTTCCTGATTAAAG
Found at i:6859988 original size:29 final size:30
Alignment explanation
Indices: 6859956--6860024 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
6859946 AAATTAAAAT
* *
6859956 TTCATGTATAAAATTGTACA-AAATCAAAG
1 TTCATGTATAAAATTGCACATAAACCAAAG
* * *
6859985 TTCATGTATACAATTGCACATTAACCATAG
1 TTCATGTATAAAATTGCACATAAACCAAAG
6860015 TTCATGTATA
1 TTCATGTATA
6860025 GTTTTGAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 18 0.53
30 16 0.47
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (30 bp):
TTCATGTATAAAATTGCACATAAACCAAAG
Found at i:6860140 original size:10 final size:10
Alignment explanation
Indices: 6860125--6860197 Score: 52
Period size: 10 Copynumber: 7.9 Consensus size: 10
6860115 ATATATTTAG
6860125 ATTATAAAAA
1 ATTATAAAAA
*
6860135 ATTAT-AAAT
1 ATTATAAAAA
6860144 ATTAT--AAA
1 ATTATAAAAA
6860152 A-TAT--AAA
1 ATTATAAAAA
*
6860159 A-TATAATAA
1 ATTATAAAAA
* *
6860168 ATTCTAATAA
1 ATTATAAAAA
6860178 ATTATAAACAA
1 ATTATAAA-AA
6860189 ATTATAAAA
1 ATTATAAAA
6860198 TTAACTAAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
7 10 0.19
8 3 0.06
9 11 0.21
10 19 0.36
11 10 0.19
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (10 bp):
ATTATAAAAA
Found at i:6860160 original size:17 final size:19
Alignment explanation
Indices: 6860125--6860200 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
6860115 ATATATTTAG
6860125 ATTATAAAAAATTATAAAT
1 ATTATAAAAAATTATAAAT
6860144 ATTAT--AAAA-TATAAA-
1 ATTATAAAAAATTATAAAT
* * *
6860159 A-TATAATAAATTCTAATAA
1 ATTATAAAAAATTATAA-AT
6860178 ATTATAAACAAATTATAAA-
1 ATTATAAA-AAATTATAAAT
6860197 ATTA
1 ATTA
6860201 ACTAAACTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
14 3 0.07
15 1 0.02
16 9 0.20
17 8 0.17
18 1 0.02
19 10 0.22
20 6 0.13
21 8 0.17
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTATAAAAAATTATAAAT
Found at i:6860636 original size:19 final size:20
Alignment explanation
Indices: 6860598--6860643 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
6860588 CGACCAGTTT
6860598 AATTAAATGAAATATAAAAA
1 AATTAAATGAAATATAAAAA
* *
6860618 AATTAAAT-ATATATTAAAA
1 AATTAAATGAAATATAAAAA
6860637 AATTAAA
1 AATTAAA
6860644 AAAATTGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
AATTAAATGAAATATAAAAA
Found at i:6860781 original size:19 final size:19
Alignment explanation
Indices: 6860760--6860862 Score: 70
Period size: 19 Copynumber: 5.3 Consensus size: 19
6860750 CCAGTTCAAG
*
6860760 TTTTTATGATTTTTATAAG
1 TTTTTATGATTTTTATAAA
* * *
6860779 TTTATATCAATTTTA-AAA
1 TTTTTATGATTTTTATAAA
*
6860797 CTTTTAAT-ACTTTTT-TACAA
1 -TTTTTATGA-TTTTTATA-AA
6860817 TTTTTATGATTTTTATAGAA
1 TTTTTATGATTTTTATA-AA
6860837 TTTTAATATG-TTTTTATAAA
1 TTTT--TATGATTTTTATAAA
*
6860857 ATTTTA
1 TTTTTA
6860863 AATATTTTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
18 5 0.08
19 33 0.50
20 16 0.24
21 8 0.12
22 4 0.06
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTTTATGATTTTTATAAA
Found at i:6860852 original size:21 final size:21
Alignment explanation
Indices: 6860792--6860863 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
6860782 ATATCAATTT
*
6860792 TAAAACTTTTAATA-CTTTTT-
1 TAAAA-TTTTAATATGTTTTTA
*
6860812 TACAATTTT--TATGATTTTTA
1 TAAAATTTTAATATG-TTTTTA
*
6860832 TAGAATTTTAATATGTTTTTA
1 TAAAATTTTAATATGTTTTTA
6860853 TAAAATTTTAA
1 TAAAATTTTAA
6860864 ATATTTTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
17 2 0.05
19 9 0.21
20 12 0.28
21 16 0.37
22 4 0.09
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
TAAAATTTTAATATGTTTTTA
Found at i:6860866 original size:22 final size:22
Alignment explanation
Indices: 6860821--6860870 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
6860811 TTACAATTTT
*
6860821 TATGATTTTTATAGAATTTTAA
1 TATGATTTTTATAAAATTTTAA
6860843 TATG-TTTTTATAAAATTTTAA
1 TATGATTTTTATAAAATTTTAA
6860864 -AT-ATTTT
1 TATGATTTT
6860871 AATTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 6 0.23
21 16 0.62
22 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (22 bp):
TATGATTTTTATAAAATTTTAA
Found at i:6864808 original size:7 final size:6
Alignment explanation
Indices: 6864764--6864806 Score: 50
Period size: 7 Copynumber: 6.7 Consensus size: 6
6864754 TATTTTCTGG
*
6864764 AAATGA AAATGA AACTGA AAATTGA AAATTGA AAATAGA AAAT
1 AAATGA AAATGA AAATGA AAA-TGA AAA-TGA AAAT-GA AAAT
6864807 AGTTTTAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
6 14 0.42
7 19 0.58
ACGTcount: A:0.63, C:0.02, G:0.14, T:0.21
Consensus pattern (6 bp):
AAATGA
Found at i:6865107 original size:3 final size:3
Alignment explanation
Indices: 6865099--6865172 Score: 130
Period size: 3 Copynumber: 24.7 Consensus size: 3
6865089 GCCCCCTGAA
*
6865099 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT TGT GGT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
*
6865147 GGT GGT GGT GGT GGT TGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GG
6865173 AGGAGAAGTC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
GGT
Found at i:6865421 original size:43 final size:43
Alignment explanation
Indices: 6865360--6865442 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
6865350 ATATCATATA
* * *
6865360 ATAATATCCTATAATATCCCATTAGGAATTAAATTTCTAAGAG
1 ATAATATCCTATAATATCCCATTAGAAATCAAATTGCTAAGAG
*
6865403 ATAATATCCTATAATATCCCTTTAGAAATCAAATTGCTAA
1 ATAATATCCTATAATATCCCATTAGAAATCAAATTGCTAA
6865443 AATATACTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (43 bp):
ATAATATCCTATAATATCCCATTAGAAATCAAATTGCTAAGAG
Found at i:6867322 original size:16 final size:16
Alignment explanation
Indices: 6867265--6867329 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 16
6867255 CTAATGCAAC
* *
6867265 AACTCTTGTTTAAAAT
1 AACTATTGTTCAAAAT
** * **
6867281 AGTTATTGTTCAGAGC
1 AACTATTGTTCAAAAT
6867297 AACTATTGTTCGAAAAT
1 AACTATTGTTC-AAAAT
6867314 AACTA-TGTTCAAAAT
1 AACTATTGTTCAAAAT
6867329 A
1 A
6867330 GGGCTTCAGT
Statistics
Matches: 36, Mismatches: 12, Indels: 3
0.71 0.24 0.06
Matches are distributed among these distances:
15 6 0.17
16 23 0.64
17 7 0.19
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (16 bp):
AACTATTGTTCAAAAT
Found at i:6867329 original size:15 final size:17
Alignment explanation
Indices: 6867297--6867329 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
6867287 TGTTCAGAGC
6867297 AACTATTGTTCGAAAAT
1 AACTATTGTTCGAAAAT
6867314 AACTA-TGTTC-AAAAT
1 AACTATTGTTCGAAAAT
6867329 A
1 A
6867330 GGGCTTCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (17 bp):
AACTATTGTTCGAAAAT
Found at i:6869737 original size:24 final size:25
Alignment explanation
Indices: 6869708--6869762 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
6869698 GAGTTACCTG
*
6869708 TTAAGCTCACATGAGCTTTCTGTT-
1 TTAAGCTCACATGAGCTTCCTGTTA
**
6869732 TTAAGCTCTTATGAGCTTCCTGTTA
1 TTAAGCTCACATGAGCTTCCTGTTA
6869757 TTAAGC
1 TTAAGC
6869763 CCGAAAAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (25 bp):
TTAAGCTCACATGAGCTTCCTGTTA
Found at i:6876884 original size:24 final size:25
Alignment explanation
Indices: 6876854--6876911 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
6876844 CAGAGTTACC
*
6876854 TATTAAGCTCACATGAGCTTTCTAT
1 TATTAAGCTCACATGAGCTTCCTAT
* ** *
6876879 T-TTAAGATCTTATGAGCTTCCTGT
1 TATTAAGCTCACATGAGCTTCCTAT
6876903 TATTAAGCT
1 TATTAAGCT
6876912 TGGATAAGCT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (25 bp):
TATTAAGCTCACATGAGCTTCCTAT
Found at i:6880269 original size:293 final size:293
Alignment explanation
Indices: 6879742--6880327 Score: 1163
Period size: 293 Copynumber: 2.0 Consensus size: 293
6879732 TGAATTCTAC
6879742 TATTGTGAATGACACTACATACTACAAAAGTCATACACCCAACGCACCAGCTTTTTGTTCCTTAT
1 TATTGTGAATGACACTACATACTACAAAAGTCATACACCCAACGCACCAGCTTTTTGTTCCTTAT
6879807 CTATTTAAACTCAGGCTTTTACTTGCATCAAAGTGTACGATTCATGCATACATACTCCGCCATCC
66 CTATTTAAACTCAGGCTTTTACTTGCATCAAAGTGTACGATTCATGCATACATACTCCGCCATCC
*
6879872 GCCCAGGATTTAGGTATGACACTATAAACGTCACAAGTGAATAAATTCATAAACGGATTCAGGAT
131 ACCCAGGATTTAGGTATGACACTATAAACGTCACAAGTGAATAAATTCATAAACGGATTCAGGAT
6879937 CTATTCTACTTGGGTCATGTCCGATGTACTATCAGCCCAGTCAGTCATATCTATATTTCTATCTT
196 CTATTCTACTTGGGTCATGTCCGATGTACTATCAGCCCAGTCAGTCATATCTATATTTCTATCTT
6880002 CTGGGAGTCATCTGCTCCGATGCCCAAGATAAG
261 CTGGGAGTCATCTGCTCCGATGCCCAAGATAAG
6880035 TATTGTGAATGACACTACATACTACAAAAGTCATACACCCAACGCACCAGCTTTTTGTTCCTTAT
1 TATTGTGAATGACACTACATACTACAAAAGTCATACACCCAACGCACCAGCTTTTTGTTCCTTAT
6880100 CTATTTAAACTCAGGCTTTTACTTGCATCAAAGTGTACGATTCATGCATACATACTCCGCCATCC
66 CTATTTAAACTCAGGCTTTTACTTGCATCAAAGTGTACGATTCATGCATACATACTCCGCCATCC
6880165 ACCCAGGATTTAGGTATGACACTATAAACGTCACAAGTGAATAAATTCATAAACGGATTCAGGAT
131 ACCCAGGATTTAGGTATGACACTATAAACGTCACAAGTGAATAAATTCATAAACGGATTCAGGAT
6880230 CTATTCTACTTGGGTCATGTCCGATGTACTATCAGCCCAGTCAGTCATATCTATATTTCTATCTT
196 CTATTCTACTTGGGTCATGTCCGATGTACTATCAGCCCAGTCAGTCATATCTATATTTCTATCTT
6880295 CTGGGAGTCATCTGCTCCGATGCCCAAGATAAG
261 CTGGGAGTCATCTGCTCCGATGCCCAAGATAAG
6880328 ACATCTCCTC
Statistics
Matches: 292, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
293 292 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (293 bp):
TATTGTGAATGACACTACATACTACAAAAGTCATACACCCAACGCACCAGCTTTTTGTTCCTTAT
CTATTTAAACTCAGGCTTTTACTTGCATCAAAGTGTACGATTCATGCATACATACTCCGCCATCC
ACCCAGGATTTAGGTATGACACTATAAACGTCACAAGTGAATAAATTCATAAACGGATTCAGGAT
CTATTCTACTTGGGTCATGTCCGATGTACTATCAGCCCAGTCAGTCATATCTATATTTCTATCTT
CTGGGAGTCATCTGCTCCGATGCCCAAGATAAG
Found at i:6886411 original size:21 final size:21
Alignment explanation
Indices: 6886385--6886427 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
6886375 AGTATAATTT
6886385 TTTTAAAA-ACTGTAAAAGTTG
1 TTTTAAAATA-TGTAAAAGTTG
*
6886406 TTTTAAAATATTTAAAAGTTG
1 TTTTAAAATATGTAAAAGTTG
6886427 T
1 T
6886428 AAAAATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (21 bp):
TTTTAAAATATGTAAAAGTTG
Found at i:6886530 original size:28 final size:27
Alignment explanation
Indices: 6886427--6886531 Score: 74
Period size: 26 Copynumber: 3.9 Consensus size: 27
6886417 TTAAAAGTTG
* *
6886427 TAAAAATTAT-TAAAAACATTAAATTT
1 TAAAAATTATAAAAAAATATTAAATTT
** * *
6886453 TGTAAGTATATATAAAAAAT-TATAATTTT
1 TAAAAAT-TATA-AAAAAATAT-TAAATTT
* *
6886482 TTAAAATGA-AAAAAAAT-TTAAATTAT
1 TAAAAATTATAAAAAAATATTAAATT-T
6886508 TAAAAATTATAAAAAAATATTAAA
1 TAAAAATTATAAAAAAATATTAAA
6886532 AAGTATTTTC
Statistics
Matches: 59, Mismatches: 13, Indels: 12
0.70 0.15 0.14
Matches are distributed among these distances:
25 5 0.08
26 20 0.34
27 12 0.20
28 7 0.12
29 15 0.25
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (27 bp):
TAAAAATTATAAAAAAATATTAAATTT
Found at i:6886557 original size:18 final size:20
Alignment explanation
Indices: 6886522--6886558 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
6886512 AATTATAAAA
*
6886522 AAATATTAAAAAGTATTTTC
1 AAATATTAAAAAGAATTTTC
6886542 AAAT-TTAAAAA-AATTTT
1 AAATATTAAAAAGAATTTT
6886559 AAAAAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 7 0.44
20 4 0.25
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (20 bp):
AAATATTAAAAAGAATTTTC
Found at i:6886832 original size:20 final size:20
Alignment explanation
Indices: 6886787--6886870 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
6886777 ATTAATTATC
*
6886787 AATTTTTTA-ATATTTTAA-
1 AATTTTTTACAAATTTTAAT
* * *
6886805 ATTATTTTTACAGATTTTTAT
1 AAT-TTTTTACAAATTTTAAT
* * *
6886826 AGTTTTTAATAAATTTTAAT
1 AATTTTTTACAAATTTTAAT
*
6886846 AATTTTTTACAACTTTTAAT
1 AATTTTTTACAAATTTTAAT
*
6886866 GATTT
1 AATTT
6886871 GTCCTATCAA
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
18 2 0.04
19 6 0.12
20 40 0.80
21 2 0.04
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (20 bp):
AATTTTTTACAAATTTTAAT
Found at i:6886852 original size:10 final size:10
Alignment explanation
Indices: 6886790--6886852 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
6886780 AATTATCAAT
6886790 TTTTTAAT-A
1 TTTTTAATAA
* *
6886799 TTTTAAATTA
1 TTTTTAATAA
*
6886809 TTTTTACA-GA
1 TTTTTA-ATAA
*
6886819 TTTTT-ATAG
1 TTTTTAATAA
6886828 TTTTTAATAA
1 TTTTTAATAA
*
6886838 ATTTTAATAA
1 TTTTTAATAA
6886848 TTTTT
1 TTTTT
6886853 TACAACTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
8 1 0.02
9 12 0.29
10 28 0.67
11 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:6886954 original size:20 final size:20
Alignment explanation
Indices: 6886897--6886940 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
6886887 ATCAACACAA
* *
6886897 TCAACATACCACGTCATCAG
1 TCAACATGCCACATCATCAG
6886917 TCAACATGCCACATCATCAG
1 TCAACATGCCACATCATCAG
6886937 TCAA
1 TCAA
6886941 TGTGCCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.34, G:0.09, T:0.20
Consensus pattern (20 bp):
TCAACATGCCACATCATCAG
Found at i:6909694 original size:16 final size:16
Alignment explanation
Indices: 6909654--6909694 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 16
6909644 ATTGTTTTCT
6909654 ATTTGTGTTGTTCGCC
1 ATTTGTGTTGTTCGCC
*
6909670 A--TGTG-TGTTCTCC
1 ATTTGTGTTGTTCGCC
6909683 ATTTGTGTTGTT
1 ATTTGTGTTGTT
6909695 TGCAATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
13 8 0.38
14 4 0.19
15 4 0.19
16 5 0.24
ACGTcount: A:0.07, C:0.15, G:0.24, T:0.54
Consensus pattern (16 bp):
ATTTGTGTTGTTCGCC
Found at i:6911143 original size:6 final size:5
Alignment explanation
Indices: 6911135--6911168 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
6911125 ATAATTTTGT
6911135 TTTTA TTTTA TTTTA TTTT- TGTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTT
6911169 CTTTATCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 25 0.93
6 1 0.04
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:6912457 original size:116 final size:116
Alignment explanation
Indices: 6912253--6912489 Score: 456
Period size: 116 Copynumber: 2.0 Consensus size: 116
6912243 AATCCTTGAG
*
6912253 GCTAATCTACATAGATCTCTTTCTTCAGATAACCATTCAAAAAAGTTGATTAAACATGCATTTGA
1 GCTAATCTACATAGATCTCTTTCTTCAAATAACCATTCAAAAAAGTTGATTAAACATGCATTTGA
6912318 TGTATTTTCCAACCCTTTTGAGCTGCAAGTGTTAATAGCAGCCTTATGGTA
66 TGTATTTTCCAACCCTTTTGAGCTGCAAGTGTTAATAGCAGCCTTATGGTA
6912369 GCTAATCTACATAGATCTCTTTCTTCAAATAACCATTCAAAAAAGTTGATTAAACATGCATTTGA
1 GCTAATCTACATAGATCTCTTTCTTCAAATAACCATTCAAAAAAGTTGATTAAACATGCATTTGA
6912434 TGTATTTTCCAACCCTTTTGAGCTGCAAGTGTTAATAGCAGCCTTATGGTA
66 TGTATTTTCCAACCCTTTTGAGCTGCAAGTGTTAATAGCAGCCTTATGGTA
*
6912485 TCTAA
1 GCTAA
6912490 CCTTTCTACA
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 119 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (116 bp):
GCTAATCTACATAGATCTCTTTCTTCAAATAACCATTCAAAAAAGTTGATTAAACATGCATTTGA
TGTATTTTCCAACCCTTTTGAGCTGCAAGTGTTAATAGCAGCCTTATGGTA
Found at i:6913022 original size:288 final size:288
Alignment explanation
Indices: 6912503--6913070 Score: 933
Period size: 288 Copynumber: 2.0 Consensus size: 288
6912493 TTCTACAGGG
* * * *
6912503 GCAAAGGTCTCAGTAAAATCCACACTAAATTGCTGACTATACCCCTTGATAACCAATCTGGCCTT
1 GCAAAGGTCTCAGTAAAATCAACACCAAATTGCTGACTATACCCCTTGATAACCAATCTAGCCAT
*
6912568 GTACTTATTGATAGAACCATCAAGTTTCATTTTGGTTCTAAACACCTATTTGACCCCAATAACTT
66 GTACTTATTGATAGAACCATCAAGATTCATTTTGGTTCTAAACACCTATTTGACCCCAATAACTT
* *
6912633 TCTTATGAATCAGTCTATCTACCAACTCCCAAGTCTTATTCTTGTTGATCATACTAATATCTTCC
131 TCTTATGAATCAGTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCATACTAATATCTTCC
**
6912698 TTCATAGCATCTCTCTATTCAAGATTTTGGGCTACCTCTTTAAATTTAACTGGTTCCAACACTGC
196 TTCATAGCATCTCTCTATTCAAGATTTTGGGCTACCTCTTTAAAGGTAACTGGTTCCAACACTGC
*
6912763 CAGATTACATATCTGATAAAATTTAGTA
261 CAGATTACACATCTGATAAAATTTAGTA
*
6912791 GCAAAGGTCTCAGTAAAATCAACACCAAATTGCTGACTATACCTCTTGATAACCAATCTAGCCAT
1 GCAAAGGTCTCAGTAAAATCAACACCAAATTGCTGACTATACCCCTTGATAACCAATCTAGCCAT
* *
6912856 GTACTTGTTGATAGAACCATCAAGATTCATTTTGGTTCTGAACACCTATTTGACCCCAATAACTT
66 GTACTTATTGATAGAACCATCAAGATTCATTTTGGTTCTAAACACCTATTTGACCCCAATAACTT
* *
6912921 TCTTATGAA-CTGGTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCATACTAATCTCTTC
131 TCTTATGAATC-AGTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCATACTAATATCTTC
* * *
6912985 CTTCATAGCATCTCTTTATTCAAG-TTCTTGTGCTACCTCTTTAAAGGTAATTGGTTCCAACACT
195 CTTCATAGCATCTCTCTATTCAAGATT-TTGGGCTACCTCTTTAAAGGTAACTGGTTCCAACACT
*
6913049 GCCAGATTACACATTTGATAAA
259 GCCAGATTACACATCTGATAAA
6913071 CTTCAGTAAT
Statistics
Matches: 259, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
287 3 0.01
288 256 0.99
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.35
Consensus pattern (288 bp):
GCAAAGGTCTCAGTAAAATCAACACCAAATTGCTGACTATACCCCTTGATAACCAATCTAGCCAT
GTACTTATTGATAGAACCATCAAGATTCATTTTGGTTCTAAACACCTATTTGACCCCAATAACTT
TCTTATGAATCAGTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCATACTAATATCTTCC
TTCATAGCATCTCTCTATTCAAGATTTTGGGCTACCTCTTTAAAGGTAACTGGTTCCAACACTGC
CAGATTACACATCTGATAAAATTTAGTA
Found at i:6918005 original size:164 final size:164
Alignment explanation
Indices: 6917727--6918221 Score: 859
Period size: 164 Copynumber: 3.0 Consensus size: 164
6917717 TTTTCTGTGT
6917727 AGGAATCTTGCATGTTAGAAGCATGACATTTTTCAAGTTAACAACGAAAAATGGAATGGAGCACA
1 AGGAATCTTGCATGTTAGAAGCATGACATTTTTCAAGTTAACAACGAAAAATGGAATGGAGCAC-
* *
6917792 T-ACAATTAGATTACAGAACTATCACGATCAATCGGGTAACTTATTTCCTTATCTTTTTAGGGCT
65 TCACCATTAGATTACAGAACTATCACGATCAATCGGGTAACTTCTTTCCTTATCTTTTTAGGGCT
6917856 ACACATTGAGGACAATGTGTTATCTAAAGTGTGGG
130 ACACATTGAGGACAATGTGTTATCTAAAGTGTGGG
* *
6917891 AGGAATCTTGCATGTTAGAAACATGTCATTTTTCAAGTTAACAACGAAAAATGGAATGGAGCACT
1 AGGAATCTTGCATGTTAGAAGCATGACATTTTTCAAGTTAACAACGAAAAATGGAATGGAGCACT
6917956 CACCATTAGATTACAGAACTATCACGATCAATCGGGTAACTTCTTTCCTTATCTTTTTAGGGCTA
66 CACCATTAGATTACAGAACTATCACGATCAATCGGGTAACTTCTTTCCTTATCTTTTTAGGGCTA
* *
6918021 CACATTAAGGACAATGTGTTATCTAAAGTGTGAG
131 CACATTGAGGACAATGTGTTATCTAAAGTGTGGG
* *
6918055 AGGAATCTTTCATGTTAGAAGCATGACATTTTTCAAGTTAACAACAAAAAATGGAATGGATG-AC
1 AGGAATCTTGCATGTTAGAAGCATGACATTTTTCAAGTTAACAACGAAAAATGGAATGGA-GCAC
*
6918119 TCACCATTAGATTACAGAACTATCACGATCAATCGGGTAACTTCTTTTCTTATCTTTTTAGGGCT
65 TCACCATTAGATTACAGAACTATCACGATCAATCGGGTAACTTCTTTCCTTATCTTTTTAGGGCT
**
6918184 ACATGTTGAGGACAATGTGTTATCTAAAGTGTGGG
130 ACACATTGAGGACAATGTGTTATCTAAAGTGTGGG
6918219 AGG
1 AGG
6918222 GTAACATAGG
Statistics
Matches: 314, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
163 1 0.00
164 312 0.99
165 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (164 bp):
AGGAATCTTGCATGTTAGAAGCATGACATTTTTCAAGTTAACAACGAAAAATGGAATGGAGCACT
CACCATTAGATTACAGAACTATCACGATCAATCGGGTAACTTCTTTCCTTATCTTTTTAGGGCTA
CACATTGAGGACAATGTGTTATCTAAAGTGTGGG
Found at i:6925796 original size:16 final size:16
Alignment explanation
Indices: 6925777--6925807 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6925767 AACTGGACTA
*
6925777 TTCGCCATTTGTGTTG
1 TTCGCCATGTGTGTTG
6925793 TTCGCCATGTGTGTT
1 TTCGCCATGTGTGTT
6925808 CGCCAATGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.19, G:0.26, T:0.48
Consensus pattern (16 bp):
TTCGCCATGTGTGTTG
Found at i:6938814 original size:17 final size:17
Alignment explanation
Indices: 6938786--6938830 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
6938776 CTATTAAGTC
*
6938786 TATATAAGATATTAGTTT
1 TATATAAAATATTA-TTT
6938804 T-TATAAAATATTATTT
1 TATATAAAATATTATTT
6938820 TAATATAAAAT
1 T-ATATAAAAT
6938831 GAACTTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 4 0.17
17 11 0.46
18 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
TATATAAAATATTATTT
Found at i:6944349 original size:161 final size:159
Alignment explanation
Indices: 6943948--6944366 Score: 495
Period size: 158 Copynumber: 2.6 Consensus size: 159
6943938 CACCCAAACA
* *
6943948 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAGGGGAAAGATTTGA
1 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
** * *
6944013 TGGGACATCGTTGTTATTGTTGTTG-TTTCAACGACAGCGATGGAGGGGGTTATCATCGTTGATT
66 TGGGACATCGTCATTATTGTTGTTGTTTTCAACGACAACAATGGAGGGGGTTATCATCGTTGATT
6944077 GTGGAGACTAAATTAAAGCATCGTCATTG
131 GTGGAGACTAAATTAAAGCATCGTCATTG
* * * * * * * * * *
6944106 TTGTTATTGTTGTTGTTCTTACACTTCTGTGTTGTCTTTACTTTGGTTACAAGGGAAGGATTTGA
1 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
* *
6944171 TGGGACATTGTCATTATTGTTGTTGTTTTCGAC-AGCAACAATGGA-GGGGTTATCATCGTTGAT
66 TGGGACATCGTCATTATTGTTGTTGTTTTCAACGA-CAACAATGGAGGGGGTTATCATCGTTGAT
* **
6944234 TGTGGAGACTGAATTAGGGCATCACTGAT-ATTG
130 TGTGGAGACTAAATTAAAGCAT--C-G-TCATTG
* * * *
6944267 TTCTTCTTCTTCTTCTTCTTAGAATTTTTTTTTGTCTTCGCTTTGGTTGTAAGGGAAGGATTTGA
1 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
* * * * *
6944332 TGGAACACCGACATTATTGTTATTGTTTTGAACGA
66 TGGGACATCGTCATTATTGTTGTTGTTTTCAACGA
6944367 AAGTGGCGGA
Statistics
Matches: 212, Mismatches: 42, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
158 113 0.53
159 14 0.07
160 1 0.00
161 82 0.39
162 2 0.01
ACGTcount: A:0.20, C:0.13, G:0.24, T:0.43
Consensus pattern (159 bp):
TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
TGGGACATCGTCATTATTGTTGTTGTTTTCAACGACAACAATGGAGGGGGTTATCATCGTTGATT
GTGGAGACTAAATTAAAGCATCGTCATTG
Found at i:6944384 original size:161 final size:156
Alignment explanation
Indices: 6943948--6944416 Score: 478
Period size: 161 Copynumber: 2.9 Consensus size: 156
6943938 CACCCAAACA
* *
6943948 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAGGGGAAAGATTTGA
1 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
** * * *
6944013 TGGGACATCGTTGTTATTGTTGTTG-TTTCAACGACAGCGATGGAGGGGGTTATCATCGTTGATT
66 TGGGACATCGTCATTATTGTTGTTGTTTTGAACGAAAGTG--GGA-GGGGTTATCATCGTTGATT
*
6944077 GTGGAGACTAAATTAAAGCATCGTCATTG
128 GTGGAGACTAAATTAAGGCATCGTCATTG
* * * * * * * * * *
6944106 TTGTTATTGTTGTTGTTCTTACACTTCTGTGTTGTCTTTACTTTGGTTACAAGGGAAGGATTTGA
1 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
* *
6944171 TGGGACATTGTCATTATTGTTGTTGTTTTCG-ACAGCAACAAT-GGAGGGGTTATCATCGTTGAT
66 TGGGACATCGTCATTATTGTTGTTGTTTT-GAAC-G-AA-AGTGGGAGGGGTTATCATCGTTGAT
* *
6944234 TGTGGAGACTGAATTAGGGCATCACTGAT-ATTG
127 TGTGGAGACTAAATTAAGGCAT--C-G-TCATTG
* * * *
6944267 TTCTTCTTCTTCTTCTTCTTAGAATTTTTTTTTGTCTTCGCTTTGGTTGTAAGGGAAGGATTTGA
1 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
* * * * * *** *
6944332 TGGAACACCGACATTATTGTTATTGTTTTGAACGAAAGTGGCGGAAGGGTTATCATTAATGATTA
66 TGGGACATCGTCATTATTGTTGTTGTTTTGAACGAAAGT-G-GGAGGGGTTATCATCGTTGATTG
6944397 TGGAGACTAAATTAAGGCAT
129 TGGAGACTAAATTAAGGCAT
6944417 TGGAAAGGAG
Statistics
Matches: 249, Mismatches: 49, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
158 114 0.46
159 10 0.04
160 4 0.02
161 119 0.48
162 2 0.01
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (156 bp):
TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
TGGGACATCGTCATTATTGTTGTTGTTTTGAACGAAAGTGGGAGGGGTTATCATCGTTGATTGTG
GAGACTAAATTAAGGCATCGTCATTG
Found at i:6948681 original size:35 final size:35
Alignment explanation
Indices: 6948640--6948709 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
6948630 CACGATGTGG
6948640 AACTAAGCCACTCAATAACCATATGCAAGTGAACT
1 AACTAAGCCACTCAATAACCATATGCAAGTGAACT
6948675 AACTAAGCCACTCAATAACCATATGCAAGTGAACT
1 AACTAAGCCACTCAATAACCATATGCAAGTGAACT
6948710 GACATATGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.26, G:0.11, T:0.20
Consensus pattern (35 bp):
AACTAAGCCACTCAATAACCATATGCAAGTGAACT
Found at i:6949383 original size:17 final size:15
Alignment explanation
Indices: 6949354--6949401 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
6949344 GTCACACGAT
6949354 TGTGTGGACCACCCG
1 TGTGTGGACCACCCG
6949369 TGTGTGGCACACACCC-
1 TGTGTGG-AC-CACCCG
6949385 -GTGTGG-CCACCCG
1 TGTGTGGACCACCCG
6949398 TGTG
1 TGTG
6949402 GTCATGAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 3 0.10
15 13 0.45
16 2 0.07
17 5 0.17
ACGTcount: A:0.12, C:0.33, G:0.33, T:0.21
Consensus pattern (15 bp):
TGTGTGGACCACCCG
Found at i:6957749 original size:19 final size:19
Alignment explanation
Indices: 6957697--6957751 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
6957687 ATACGCCAAT
**
6957697 AGAAGCTTGAAAGCGGAAC
1 AGAAGCTTGAAAGCTAAAC
*
6957716 AGAAGCTCGAAAGCTAAAC
1 AGAAGCTTGAAAGCTAAAC
6957735 AGAAGCTTGAAAGCTAA
1 AGAAGCTTGAAAGCTAA
6957752 TTAGAAGCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.45, C:0.16, G:0.25, T:0.13
Consensus pattern (19 bp):
AGAAGCTTGAAAGCTAAAC
Found at i:6957799 original size:21 final size:21
Alignment explanation
Indices: 6957706--6957887 Score: 124
Period size: 21 Copynumber: 8.9 Consensus size: 21
6957696 TAGAAGCTTG
* *
6957706 AAAGCGGAACAGAAGCTC--G
1 AAAGCTGAACAGAAGCTCATA
* *
6957725 AAAGCTAAACAGAAGCT--TG
1 AAAGCTGAACAGAAGCTCATA
*
6957744 AAAGCT-AATTAGAAGCTCATA
1 AAAGCTGAA-CAGAAGCTCATA
* *
6957765 AAAGCTTAATAGAAGCTCATA
1 AAAGCTGAACAGAAGCTCATA
** *
6957786 AAAGCTGAACAGAAATTAATA
1 AAAGCTGAACAGAAGCTCATA
* * *
6957807 AGAGTTGAACAGAAGCTCGTA
1 AAAGCTGAACAGAAGCTCATA
* *
6957828 AAAGCTTAACAGAAACTCATA
1 AAAGCTGAACAGAAGCTCATA
* * * *
6957849 AGA-CTTGAATAAAAGCTCGTA
1 AAAGC-TGAACAGAAGCTCATA
*
6957870 AGAGCTGAACAGAAGCTC
1 AAAGCTGAACAGAAGCTC
6957888 GAAAGAGCTA
Statistics
Matches: 128, Mismatches: 28, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
18 2 0.02
19 29 0.23
20 1 0.01
21 93 0.73
22 3 0.02
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (21 bp):
AAAGCTGAACAGAAGCTCATA
Found at i:6957821 original size:42 final size:42
Alignment explanation
Indices: 6957775--6957883 Score: 146
Period size: 42 Copynumber: 2.6 Consensus size: 42
6957765 AAAGCTTAAT
* * *
6957775 AGAAGCTCATAAAAGCTGAACAGAAATTAATAAGAGTTGAAC
1 AGAAGCTCGTAAAAGCTGAACAGAAACTAATAAGACTTGAAC
* * *
6957817 AGAAGCTCGTAAAAGCTTAACAGAAACTCATAAGACTTGAAT
1 AGAAGCTCGTAAAAGCTGAACAGAAACTAATAAGACTTGAAC
* *
6957859 AAAAGCTCGTAAGAGCTGAACAGAA
1 AGAAGCTCGTAAAAGCTGAACAGAA
6957884 GCTCGAAAGA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (42 bp):
AGAAGCTCGTAAAAGCTGAACAGAAACTAATAAGACTTGAAC
Found at i:6957904 original size:21 final size:21
Alignment explanation
Indices: 6957856--6957904 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6957846 ATAAGACTTG
* * *
6957856 AATAAAAGCTCGTAAGAGCTG
1 AATAGAAGCTCGAAAGAGCTA
*
6957877 AACAGAAGCTCGAAAGAGCTA
1 AATAGAAGCTCGAAAGAGCTA
6957898 AATAGAA
1 AATAGAA
6957905 AGTAAAACAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.49, C:0.14, G:0.22, T:0.14
Consensus pattern (21 bp):
AATAGAAGCTCGAAAGAGCTA
Found at i:6959177 original size:33 final size:33
Alignment explanation
Indices: 6959135--6959200 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
6959125 CTTCTAAGAG
6959135 ATGACAACACACGCGCCGATGCTTTGTCAAAGT
1 ATGACAACACACGCGCCGATGCTTTGTCAAAGT
6959168 ATGACAACACACGCGCCGATGCTTTGTCAAAGT
1 ATGACAACACACGCGCCGATGCTTTGTCAAAGT
6959201 TAACATCTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (33 bp):
ATGACAACACACGCGCCGATGCTTTGTCAAAGT
Found at i:6960844 original size:69 final size:69
Alignment explanation
Indices: 6960766--6961137 Score: 268
Period size: 69 Copynumber: 5.4 Consensus size: 69
6960756 AAAAGCGAAG
* *** *
6960766 CTCCCAACTGTCATGCTAAGGCTCGTAGGCGAAGAGTTGCAACCTCTTGCACAGATAGTGAGAGC
1 CTCCCAACTGTCATGCTAAGGCTCGCAGGCGAAGAGTTGCAACCTCCAACACAGTTAGTGAGAGC
*
6960831 AAAC
66 AAAA
* * * * *
6960835 CTCCTAACTGT--TGTTAAGGCTCGCAAGCGAAGAGTCGCAGCCTCCAACACAGTTAGTGAGAGC
1 CTCCCAACTGTCATGCTAAGGCTCGCAGGCGAAGAGTTGCAACCTCCAACACAGTTAGTGAGAGC
*
6960898 AAAG
66 AAAA
* * * * * * * *
6960902 CTCCCAGCTGTCGTCCTCAGGTTCGCAGGCGAAAAG--CCAAAGCCTCCAACACAGTTAGCGAGA
1 CTCCCAACTGTCATGCTAAGGCTCGCAGGCGAAGAGTTGC-AA-CCTCCAACACAGTTAGTGAGA
6960965 GCAAAA
64 GCAAAA
* * * * **
6960971 CTCCCAGCTGTCATGCTAAGGCTCGCAGGCAAAGAGTTGCAGCCTCCAACACAATTAGCAAGAGC
1 CTCCCAACTGTCATGCTAAGGCTCGCAGGCGAAGAGTTGCAACCTCCAACACAGTTAGTGAGAGC
*
6961036 AAAG
66 AAAA
* * ** * * * * * * ** * * *
6961040 CTACCAATTGTTGTGTTAAGACTTGCAAGTGAAAAGTCACAACCTCCAAAAAAGTTAGCGAGAG-
1 CTCCCAACTGTCATGCTAAGGCTCGCAGGCGAAGAGTTGCAACCTCCAACACAGTTAGTGAGAGC
6961104 AAAA
66 AAAA
* * * *
6961108 GCTCCTAGCTGTCGTACTAAGGCTCGCAGG
1 -CTCCCAACTGTCATGCTAAGGCTCGCAGG
6961138 TGAAAAATCA
Statistics
Matches: 232, Mismatches: 64, Indels: 14
0.75 0.21 0.05
Matches are distributed among these distances:
67 56 0.24
68 4 0.02
69 170 0.73
70 1 0.00
71 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (69 bp):
CTCCCAACTGTCATGCTAAGGCTCGCAGGCGAAGAGTTGCAACCTCCAACACAGTTAGTGAGAGC
AAAA
Found at i:6961035 original size:138 final size:137
Alignment explanation
Indices: 6960815--6961137 Score: 339
Period size: 138 Copynumber: 2.4 Consensus size: 137
6960805 CAACCTCTTG
* * * * * * *
6960815 CACAGATAGTGAGAGCAAACCTCCTAACTGT-TGTTAAGGCTCGCAAGCGAAGAGTCGCAGCCTC
1 CACAGTTAGCGAGAGCAAAACTCCTAGCTGTCTGCTAAGGCTCGCAGGCAAAGAGTCGCAGCCTC
* ** * * * * *
6960879 CAACACAGTTAGTGAGAGCAAAGCTCCCAGCTGTCGTCCTCAG-GTTCGCAGGCGAAAAGCCA-A
66 CAACACAATTAGCAAGAGCAAAGCTACCAACTGTCGTCCTAAGACTT-GCAAGCGAAAAGCCACA
6960942 AGCCTCCAA
130 A-CCTCCAA
* *
6960951 CACAGTTAGCGAGAGCAAAACTCCCAGCTGTCATGCTAAGGCTCGCAGGCAAAGAGTTGCAGCCT
1 CACAGTTAGCGAGAGCAAAACTCCTAGCTGTC-TGCTAAGGCTCGCAGGCAAAGAGTCGCAGCCT
* * ** * *
6961016 CCAACACAATTAGCAAGAGCAAAGCTACCAATTGTTGTGTTAAGACTTGCAAGTGAAAAGTCACA
65 CCAACACAATTAGCAAGAGCAAAGCTACCAACTGTCGTCCTAAGACTTGCAAGCGAAAAGCCACA
6961081 ACCTCCAA
130 ACCTCCAA
* * *
6961089 AAAAGTTAGCGAGAG-AAAAGCTCCTAGCTGTCGTACTAAGGCTCGCAGG
1 CACAGTTAGCGAGAGCAAAA-CTCCTAGCTGTC-TGCTAAGGCTCGCAGG
6961138 TGAAAAATCA
Statistics
Matches: 154, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
136 26 0.17
137 4 0.03
138 120 0.78
139 4 0.03
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.18
Consensus pattern (137 bp):
CACAGTTAGCGAGAGCAAAACTCCTAGCTGTCTGCTAAGGCTCGCAGGCAAAGAGTCGCAGCCTC
CAACACAATTAGCAAGAGCAAAGCTACCAACTGTCGTCCTAAGACTTGCAAGCGAAAAGCCACAA
CCTCCAA
Found at i:6961193 original size:14 final size:14
Alignment explanation
Indices: 6961174--6961206 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
6961164 AATCTCCTAG
6961174 CTACCACATTGAAA
1 CTACCACATTGAAA
6961188 CTACCACATTGAAA
1 CTACCACATTGAAA
6961202 CTACC
1 CTACC
6961207 GGATGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.06, T:0.21
Consensus pattern (14 bp):
CTACCACATTGAAA
Found at i:6965726 original size:29 final size:29
Alignment explanation
Indices: 6965684--6965745 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
6965674 TTGTTGACCT
* * *
6965684 CACATGGTCGTGTGTTTGGCAGTGTGAGC
1 CACATGGTCGTGTGGTTAGCAGTGCGAGC
*
6965713 CACATGGGT-GTGTGGTTAGCTGTGCGAGC
1 CACAT-GGTCGTGTGGTTAGCAGTGCGAGC
6965742 CACA
1 CACA
6965746 CGTGTATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.16, C:0.19, G:0.37, T:0.27
Consensus pattern (29 bp):
CACATGGTCGTGTGGTTAGCAGTGCGAGC
Found at i:6969160 original size:25 final size:25
Alignment explanation
Indices: 6969131--6969181 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
6969121 AAGAATTTAA
6969131 AATTTTATTTTTAAATTTTAAGAAT
1 AATTTTATTTTTAAATTTTAAGAAT
**
6969156 AATTTTATTTTTATTTTTTAAGAAT
1 AATTTTATTTTTAAATTTTAAGAAT
6969181 A
1 A
6969182 CTAACAAAAA
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:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (25 bp):
AATTTTATTTTTAAATTTTAAGAAT
Found at i:6969626 original size:9 final size:10
Alignment explanation
Indices: 6969602--6969737 Score: 81
Period size: 12 Copynumber: 13.1 Consensus size: 10
6969592 CCACCGGAAG
6969602 AGAGAAAGAAA
1 AGAG-AAGAAA
6969613 AGAG-AGAAA
1 AGAGAAGAAA
*
6969622 GGAGAAGAAA
1 AGAGAAGAAA
6969632 A-A-AAGAAGA
1 AGAGAAGAA-A
6969641 AGAGAAGAAGA
1 AGAGAAGAA-A
6969652 AGAAGAAGAAGA
1 AG-AGAAGAA-A
6969664 AGAAGAAGAAGA
1 AG-AGAAGAA-A
6969676 AGAAGAAGAAGA
1 AG-AGAAGAA-A
6969688 AGAAGAAGAAGA
1 AG-AGAAGAA-A
*
6969700 AGA-AGGAAGA
1 AGAGAAGAA-A
6969710 AGAAGAAG-AA
1 AG-AGAAGAAA
6969720 AGA-AAG-AA
1 AGAGAAGAAA
6969728 AGA-AAGAAA
1 AGAGAAGAAA
6969737 A
1 A
6969738 AAATGCAATG
Statistics
Matches: 113, Mismatches: 4, Indels: 18
0.84 0.03 0.13
Matches are distributed among these distances:
8 16 0.14
9 15 0.13
10 17 0.15
11 16 0.14
12 49 0.43
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AGAGAAGAAA
Found at i:6969640 original size:3 final size:3
Alignment explanation
Indices: 6969624--6969719 Score: 160
Period size: 3 Copynumber: 32.3 Consensus size: 3
6969614 GAGAGAAAGG
*
6969624 AGA AGA A-A AAA AGA AGA AG- AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
6969670 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA AGA AGA
6969716 AGA A
1 AGA A
6969720 AGAAAGAAAG
Statistics
Matches: 89, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
2 4 0.04
3 82 0.92
4 3 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:6969967 original size:60 final size:60
Alignment explanation
Indices: 6969903--6970021 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
6969893 TTGTTTTTTA
* *
6969903 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
*
6969963 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTCTGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
6970022 AGTTTAGTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.55
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
Found at i:6970279 original size:3 final size:3
Alignment explanation
Indices: 6970271--6970298 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6970261 GTTCTTTGAT
6970271 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
6970299 CATATATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:6971822 original size:6 final size:6
Alignment explanation
Indices: 6971811--6971836 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6971801 GCATCATGCA
6971811 CCAGAG CCAGAG CCAGAG CCAGAG CC
1 CCAGAG CCAGAG CCAGAG CCAGAG CC
6971837 GGAGTCGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.38, G:0.31, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:6972036 original size:33 final size:33
Alignment explanation
Indices: 6971999--6972097 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
6971989 GTCATCCTAA
6971999 CTCGTATCCACCTCAGTACTCCGCTCCTTCCGG
1 CTCGTATCCACCTCAGTACTCCGCTCCTTCCGG
* * *
6972032 CTCGTATCCACCTTAGTACTTCGCTCCTTCTGG
1 CTCGTATCCACCTCAGTACTCCGCTCCTTCCGG
* * * *
6972065 CCCGTATCCACCGCCGTACTCCACTCCTTCCGG
1 CTCGTATCCACCTCAGTACTCCGCTCCTTCCGG
6972098 TTCAAGTTCA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.12, C:0.44, G:0.15, T:0.28
Consensus pattern (33 bp):
CTCGTATCCACCTCAGTACTCCGCTCCTTCCGG
Found at i:6972426 original size:27 final size:27
Alignment explanation
Indices: 6972388--6972483 Score: 156
Period size: 27 Copynumber: 3.6 Consensus size: 27
6972378 ACCTCTGAGT
* *
6972388 TAGGCACAACTAGTTGCGCCTGTCAGA
1 TAGGCTCAACTAGTCGCGCCTGTCAGA
*
6972415 TAGGCTCAACTAGTCGTGCCTGTCAGA
1 TAGGCTCAACTAGTCGCGCCTGTCAGA
*
6972442 TAGGCTCAACTAGTCGCGCCTCTCAGA
1 TAGGCTCAACTAGTCGCGCCTGTCAGA
6972469 TAGGCTCAACTAGTC
1 TAGGCTCAACTAGTC
6972484 CCTGTATTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (27 bp):
TAGGCTCAACTAGTCGCGCCTGTCAGA
Found at i:6979811 original size:27 final size:27
Alignment explanation
Indices: 6979780--6979832 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
6979770 CGGGGGAATG
6979780 GGTCTAATGAACCAAGTGTATTACCTT
1 GGTCTAATGAACCAAGTGTATTACCTT
* * *
6979807 GGTCTGATGCACCAAGTGTGTTACCT
1 GGTCTAATGAACCAAGTGTATTACCT
6979833 CCTCCAATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (27 bp):
GGTCTAATGAACCAAGTGTATTACCTT
Found at i:6991464 original size:37 final size:37
Alignment explanation
Indices: 6991413--6992078 Score: 1269
Period size: 37 Copynumber: 18.0 Consensus size: 37
6991403 TAGCTAGGCT
****
6991413 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
* *
6991450 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6991487 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6991524 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6991561 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6991598 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6991635 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6991672 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6991709 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6991746 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6991783 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6991820 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6991857 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6991894 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6991931 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6991968 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6992005 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
*
6992042 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
6992079 NNNNNNNNNN
Statistics
Matches: 621, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 621 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTGCTTGATCAGATAAGTGTA
Found at i:7017280 original size:23 final size:22
Alignment explanation
Indices: 7017235--7017280 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
7017225 AATTTCAAGT
7017235 AAATATTCAATTCAATTCCACAC
1 AAATATTCAATTCAATT-CACAC
7017258 AAATATTCATTATTCAATT-ACAC
1 AAATATTCA--ATTCAATTCACAC
7017281 TTAATCGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 13 0.62
25 8 0.38
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATATTCAATTCAATTCACAC
Found at i:7017567 original size:51 final size:51
Alignment explanation
Indices: 7017448--7017546 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
7017438 GTGACCATCA
* * *
7017448 CTATCCGATACACGTAGTAGCCTGCACATAATACTACACACGTGATCAAAG
1 CTATCCGGTACACATAGTAGCCTGCACATAATACTACACACGTGACCAAAG
*
7017499 CTATCCGGTACGCATAGTAGCCTGCACATAATACTACACACGTGACCA
1 CTATCCGGTACACATAGTAGCCTGCACATAATACTACACACGTGACCA
7017547 TCACTTTCAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.21
Consensus pattern (51 bp):
CTATCCGGTACACATAGTAGCCTGCACATAATACTACACACGTGACCAAAG
Found at i:7022824 original size:17 final size:17
Alignment explanation
Indices: 7022804--7022836 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7022794 GATTTTGTTT
7022804 TATTTAGTTT-TTTTATA
1 TATTTA-TTTATTTTATA
7022821 TATTTATTTATTTTAT
1 TATTTATTTATTTTAT
7022837 TTTTTGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
TATTTATTTATTTTATA
Done.