Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 165 of 297
Found at i:55594586 original size:41 final size:41
Alignment explanation
Indices: 55594535--55594618 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
55594525 ATGATACTAT
55594535 TTTTTTATTATTTTACTTAAGTTAATTTATTAATTTACCTA
1 TTTTTTATTATTTTACTTAAGTTAATTTATTAATTTACCTA
55594576 TTTTTTATTATTTTACTTAAGTTAATTTATTAATTTACCTA
1 TTTTTTATTATTTTACTTAAGTTAATTTATTAATTTACCTA
55594617 TT
1 TT
55594619 GAAACTTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (41 bp):
TTTTTTATTATTTTACTTAAGTTAATTTATTAATTTACCTA
Found at i:55598223 original size:14 final size:14
Alignment explanation
Indices: 55598204--55598233 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
55598194 AGTAGTCACG
55598204 GAGGTGGGGCTAAA
1 GAGGTGGGGCTAAA
55598218 GAGGTGGGGCTAAA
1 GAGGTGGGGCTAAA
55598232 GA
1 GA
55598234 AGCCTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.50, T:0.13
Consensus pattern (14 bp):
GAGGTGGGGCTAAA
Found at i:55599194 original size:157 final size:157
Alignment explanation
Indices: 55598900--55599210 Score: 496
Period size: 157 Copynumber: 2.0 Consensus size: 157
55598890 GATTTTGAAG
* **
55598900 CTAGAGATTCGAGAAAGTGATTAAAGAATAAACTCTATCATTCTTCATCAAAGAAATTTCAAGAT
1 CTAGAGATTCGAGAAAGAGATTAAAGAATAAACTCTATCATTCTTCATCAAAGAAATCACAAGAT
* * * * *
55598965 TCGTATAGTCGATCAAATGCATTAGTGGAGTATTCTAATAGAGATCGTGGGAAGTATTTTACAAG
66 TCGTATAGCCGATCAAATGCATTAGTGGAGTATTCTAATAGAGATCGTAGAAAGCAATTTACAAG
*
55599030 TCCAAAAACTCCAGCTACATCAATAAA
131 TACAAAAACTCCAGCTACATCAATAAA
* * *
55599057 CTAGAGATTCGAGAAAGAGATTAATGAATAAACTCTATCTTTCTTCATCAAAGAAATCACGAGAT
1 CTAGAGATTCGAGAAAGAGATTAAAGAATAAACTCTATCATTCTTCATCAAAGAAATCACAAGAT
*
55599122 TCGTATAGCCGATCAAATGCATTAGTGGAGTATTCTAATAGAGATCGTAGAAAGCAATTTACGAG
66 TCGTATAGCCGATCAAATGCATTAGTGGAGTATTCTAATAGAGATCGTAGAAAGCAATTTACAAG
*
55599187 TATAAAAACTCCAGCTACATCAAT
131 TACAAAAACTCCAGCTACATCAAT
55599211 GGAAAGTGTG
Statistics
Matches: 140, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
157 140 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (157 bp):
CTAGAGATTCGAGAAAGAGATTAAAGAATAAACTCTATCATTCTTCATCAAAGAAATCACAAGAT
TCGTATAGCCGATCAAATGCATTAGTGGAGTATTCTAATAGAGATCGTAGAAAGCAATTTACAAG
TACAAAAACTCCAGCTACATCAATAAA
Found at i:55601212 original size:24 final size:25
Alignment explanation
Indices: 55601185--55601267 Score: 134
Period size: 25 Copynumber: 3.4 Consensus size: 25
55601175 TTAGAGGCCT
55601185 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
55601209 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
55601234 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
55601259 AGCCCTTTT
1 AGCCCTTTT
55601268 CGGTAAATTG
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
23 7 0.13
24 13 0.24
25 35 0.64
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:55601281 original size:26 final size:24
Alignment explanation
Indices: 55601185--55601292 Score: 128
Period size: 25 Copynumber: 4.4 Consensus size: 24
55601175 TTAGAGGCCT
*
55601185 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
55601209 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGC-AA
*
55601234 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGC-AA
* * *
55601259 AGCCCTTTTCGGTAAATTGGGGCAT
1 AGCCCTTTT-GATAAACTGGGGCAA
55601284 AGCCCTTTT
1 AGCCCTTTT
55601293 TGCACTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
23 7 0.09
24 13 0.17
25 45 0.60
26 10 0.13
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:55601288 original size:50 final size:48
Alignment explanation
Indices: 55601184--55601292 Score: 148
Period size: 50 Copynumber: 2.2 Consensus size: 48
55601174 ATTAGAGGCC
55601184 TAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTGATAAACTGGGGCAA
1 TAGCC-CTTTTAATAACTGGGGCAAAGCCCTTTTGATAAACTGGGGCAA
* * *
55601233 AAGCCCTTTTAATAAACTGGGGCAAAAGCCCTTTTCGGTAAATTGGGGC-A
1 TAGCCCTTTTAAT-AACTGGGGC-AAAGCCCTTTT-GATAAACTGGGGCAA
55601283 TAGCCCTTTT
1 TAGCCCTTTT
55601293 TGCACTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
48 8 0.15
49 13 0.25
50 21 0.40
51 11 0.21
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (48 bp):
TAGCCCTTTTAATAACTGGGGCAAAGCCCTTTTGATAAACTGGGGCAA
Found at i:55601363 original size:20 final size:20
Alignment explanation
Indices: 55601340--55601386 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
55601330 TTATGAATAC
55601340 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
55601359 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
55601380 ATCATGT
1 ATCATGT
55601387 ATATCAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:55609369 original size:25 final size:25
Alignment explanation
Indices: 55609260--55609367 Score: 132
Period size: 25 Copynumber: 4.4 Consensus size: 25
55609250 CTGGAGGCCT
*
55609260 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
55609284 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
55609309 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* * *
55609334 AGCCATTTTTGGTAAACTGGGGC-AT
1 AGCC-CTTTTGATAAACTGGGGCAAA
55609359 AGCCCTTTT
1 AGCCCTTTT
55609368 TGCACTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
23 7 0.09
24 17 0.23
25 35 0.47
26 15 0.20
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:55609438 original size:20 final size:20
Alignment explanation
Indices: 55609415--55609461 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
55609405 TTATGAATAC
55609415 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
55609434 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
55609455 ATCATGT
1 ATCATGT
55609462 ATATCAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:55609525 original size:25 final size:25
Alignment explanation
Indices: 55609497--55609544 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55609487 ATAATTAAAC
* * *
55609497 CCTAGGGGTATAACGGTCATTTTTA
1 CCTAGGGGCAAAACCGTCATTTTTA
55609522 CCTAGGGGCAAAACCGTCATTTT
1 CCTAGGGGCAAAACCGTCATTTT
55609545 CATAATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACCGTCATTTTTA
Found at i:55611051 original size:40 final size:40
Alignment explanation
Indices: 55610974--55611270 Score: 476
Period size: 40 Copynumber: 7.5 Consensus size: 40
55610964 AAACCAAGTA
* * * *
55610974 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
55611013 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
55611053 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55611093 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55611133 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55611173 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
55611213 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
55611252 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55611271 TTATCATCCG
Statistics
Matches: 244, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
38 1 0.00
39 48 0.20
40 195 0.80
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55612334 original size:50 final size:50
Alignment explanation
Indices: 55612259--55612359 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
55612249 CATGCAAATG
55612259 ACATCAACACAAATCCACCTTAGCCGAAACTTAGCTCATCATCATCACAT
1 ACATCAACACAAATCCACCTTAGCCGAAACTTAGCTCATCATCATCACAT
55612309 ACATCAACACAAATCCACCTTAGCCGAAACTTAGCTCATCATCATCACAT
1 ACATCAACACAAATCCACCTTAGCCGAAACTTAGCTCATCATCATCACAT
55612359 A
1 A
55612360 GCAAAGATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.39, C:0.34, G:0.06, T:0.22
Consensus pattern (50 bp):
ACATCAACACAAATCCACCTTAGCCGAAACTTAGCTCATCATCATCACAT
Found at i:55612661 original size:81 final size:81
Alignment explanation
Indices: 55612526--55612686 Score: 313
Period size: 81 Copynumber: 2.0 Consensus size: 81
55612516 AAGAAGAACA
55612526 AAGAGGATGAAGCCTTTTTTTTCTTTTTTTTTTCTTCTAGGTACGACACAATGGAGGAACAACCA
1 AAGAGGATGAAGCCTTTTTTTTCTTTTTTTTTTCTTCTAGGTACGACACAATGGAGGAACAACCA
55612591 CACACATTTTTTTTTG
66 CACACATTTTTTTTTG
*
55612607 AAGAGGCTGAAGCCTTTTTTTTCTTTTTTTTTTCTTCTAGGTACGACACAATGGAGGAACAACCA
1 AAGAGGATGAAGCCTTTTTTTTCTTTTTTTTTTCTTCTAGGTACGACACAATGGAGGAACAACCA
55612672 CACACATTTTTTTTT
66 CACACATTTTTTTTT
55612687 TGTTTCTCCT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (81 bp):
AAGAGGATGAAGCCTTTTTTTTCTTTTTTTTTTCTTCTAGGTACGACACAATGGAGGAACAACCA
CACACATTTTTTTTTG
Found at i:55618371 original size:88 final size:88
Alignment explanation
Indices: 55618217--55618389 Score: 274
Period size: 88 Copynumber: 2.0 Consensus size: 88
55618207 GCATTACGAC
* *
55618217 TTAGATAACACTCTGTACAGGGATTCAATACTTATGTCGTTCGTTTCTAAAGAAACTAAACACGA
1 TTAGATAACACTCTGTACAGGGATTAAATACTTATGACGTTCGTTTCTAAAGAAACTAAACACGA
*
55618282 AAAGGAATCTATACATATATTAT
66 AAAGGAATCTATAAATATATTAT
* * * * *
55618305 TTAGATAACTCTCTGTACAGGGCTTAAATACTTATGACGTTTGTTTCTAAAGAAACTAGACTCGA
1 TTAGATAACACTCTGTACAGGGATTAAATACTTATGACGTTCGTTTCTAAAGAAACTAAACACGA
55618370 AAAGGAATCTATAAATATAT
66 AAAGGAATCTATAAATATAT
55618390 GATATGACTT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.32
Consensus pattern (88 bp):
TTAGATAACACTCTGTACAGGGATTAAATACTTATGACGTTCGTTTCTAAAGAAACTAAACACGA
AAAGGAATCTATAAATATATTAT
Found at i:55624708 original size:122 final size:122
Alignment explanation
Indices: 55624482--55624873 Score: 766
Period size: 122 Copynumber: 3.2 Consensus size: 122
55624472 CTGGTAAGTA
*
55624482 GCGATATTTTGTTTTATTTTTAAACGAACCGAGACTACTGCAGATAAGTCCTAAAGTTAATTGTG
1 GCGA-ATTCTGTTTTATTTTTAAACGAACCGAGACTACTGCAGATAAGTCCTAAAGTTAATTGTG
55624547 AGTAGATTATATCATGAGAAGAGCTTCAGTGAGGTTATGAGTTTGATTGCAGGGGAAG
65 AGTAGATTATATCATGAGAAGAGCTTCAGTGAGGTTATGAGTTTGATTGCAGGGGAAG
55624605 GCGAATTCTGTTTTATTTTTAAACGAACCGAGACTACTGCAGATAAGTCCTAAAGTTAATTGTGA
1 GCGAATTCTGTTTTATTTTTAAACGAACCGAGACTACTGCAGATAAGTCCTAAAGTTAATTGTGA
55624670 GTAGATTATATCATGAGAAGAGCTTCAGTGAGGTTATGAGTTTGATTGCAGGGGAAG
66 GTAGATTATATCATGAGAAGAGCTTCAGTGAGGTTATGAGTTTGATTGCAGGGGAAG
55624727 GCGAATTCTGTTTTATTTTTAAACGAACCGAGACTACTGCAGATAAGTCCTAAAGTTAATTGTGA
1 GCGAATTCTGTTTTATTTTTAAACGAACCGAGACTACTGCAGATAAGTCCTAAAGTTAATTGTGA
55624792 GTAGATTATATCATGAGAAGAGCTTCAGTGAGGTTATGAGTTTGATTGCAGGGGAAG
66 GTAGATTATATCATGAGAAGAGCTTCAGTGAGGTTATGAGTTTGATTGCAGGGGAAG
55624849 GCGAATTCTGTTTTATTTTTAAACG
1 GCGAATTCTGTTTTATTTTTAAACG
55624874 GGCCAGAACT
Statistics
Matches: 268, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
122 264 0.99
123 4 0.01
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (122 bp):
GCGAATTCTGTTTTATTTTTAAACGAACCGAGACTACTGCAGATAAGTCCTAAAGTTAATTGTGA
GTAGATTATATCATGAGAAGAGCTTCAGTGAGGTTATGAGTTTGATTGCAGGGGAAG
Found at i:55633981 original size:118 final size:118
Alignment explanation
Indices: 55633850--55634083 Score: 459
Period size: 118 Copynumber: 2.0 Consensus size: 118
55633840 TAGAATTTAT
55633850 ATACTTATTTTTTTTAGAATACTTAAAGTCGAATTAAAGGCGAAGTGACAGAGAAAAAGCATTAG
1 ATACTTATTTTTTTTAGAATACTTAAAGTCGAATTAAAGGCGAAGTGACAGAGAAAAAGCATTAG
*
55633915 GAAGCCCCGTTTGAACCTTAGGAATGTTAGGATATTGGGGTTGACAGGACAGG
66 GAAGCCCCGTTTGAACCTTAGGAATGTTAGAATATTGGGGTTGACAGGACAGG
55633968 ATACTTATTTTTTTTAGAATACTTAAAGTCGAATTAAAGGCGAAGTGACAGAGAAAAAGCATTAG
1 ATACTTATTTTTTTTAGAATACTTAAAGTCGAATTAAAGGCGAAGTGACAGAGAAAAAGCATTAG
55634033 GAAGCCCCGTTTGAACCTTAGGAATGTTAGAATATTGGGGTTGACAGGACA
66 GAAGCCCCGTTTGAACCTTAGGAATGTTAGAATATTGGGGTTGACAGGACA
55634084 TATCAGGACA
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 115 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (118 bp):
ATACTTATTTTTTTTAGAATACTTAAAGTCGAATTAAAGGCGAAGTGACAGAGAAAAAGCATTAG
GAAGCCCCGTTTGAACCTTAGGAATGTTAGAATATTGGGGTTGACAGGACAGG
Found at i:55635715 original size:26 final size:25
Alignment explanation
Indices: 55635686--55635744 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
55635676 ATTTACTAAA
*
55635686 ATACCCTAAGTATG-AAAATTACCATT
1 ATACCCT-AG-ATGCAAAATGACCATT
*
55635712 ATACCCCTAGGTGCAAAATGACCATT
1 ATA-CCCTAGATGCAAAATGACCATT
55635738 ATACCCT
1 ATACCCT
55635745 TAGGGTCCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 6 0.21
26 19 0.66
27 4 0.14
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (25 bp):
ATACCCTAGATGCAAAATGACCATT
Found at i:55635845 original size:28 final size:28
Alignment explanation
Indices: 55635805--55635920 Score: 137
Period size: 28 Copynumber: 4.2 Consensus size: 28
55635795 GGAGGAAGCA
55635805 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
55635833 TTCTGGTGGCTCTACCACAAATATTTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
55635861 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
** * * *
55635889 AGCTGGTGACTCTGTCAC-AATATTTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
55635915 TTCTGG
1 TTCTGG
55635921 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
26 4 0.05
27 6 0.08
28 63 0.86
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:55635895 original size:56 final size:54
Alignment explanation
Indices: 55635805--55635920 Score: 151
Period size: 56 Copynumber: 2.1 Consensus size: 54
55635795 GGAGGAAGCA
* ** *
55635805 TTCTGGTGGCTCTGCCACAAATATCTGTTTCTGGTGGCTCTACCACAAATATTTG
1 TTCTGGTGGCCCTGCCACAAATATCTGTAGCTGGTGACTCTACCAC-AATATTTG
* **
55635860 TTTCTGGTGGCCCTGCCACAATTATCTGTAGCTGGTGACTCTGTCACAATATTTG
1 -TTCTGGTGGCCCTGCCACAAATATCTGTAGCTGGTGACTCTACCACAATATTTG
55635915 TTCTGG
1 TTCTGG
55635921 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 6 0.11
55 8 0.15
56 39 0.74
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (54 bp):
TTCTGGTGGCCCTGCCACAAATATCTGTAGCTGGTGACTCTACCACAATATTTG
Found at i:55654486 original size:30 final size:30
Alignment explanation
Indices: 55654452--55654511 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
55654442 TTCCCGAGCC
*
55654452 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
55654482 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
55654512 AGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:55655071 original size:34 final size:34
Alignment explanation
Indices: 55655028--55655097 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
55655018 GGGTTACATG
*
55655028 GTAGCTTGGCTACATATGTGCTGTAGGCTATTGA
1 GTAGCTTGGCTACATAAGTGCTGTAGGCTATTGA
*
55655062 GTAGCTTGGCTACATAAGTTCTGTAGGCTATTGA
1 GTAGCTTGGCTACATAAGTGCTGTAGGCTATTGA
55655096 GT
1 GT
55655098 TTGTCTAGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (34 bp):
GTAGCTTGGCTACATAAGTGCTGTAGGCTATTGA
Found at i:55658359 original size:29 final size:29
Alignment explanation
Indices: 55658326--55658428 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 29
55658316 TGAATGTGAA
*
55658326 TGGGCCTAACGGGCCATATAAATATTATT
1 TGGGCCTAATGGGCCATATAAATATTATT
* * *
55658355 TGGGCCTAATGGGCCATATACATGTGATT
1 TGGGCCTAATGGGCCATATAAATATTATT
* *
55658384 TGGGCCTAAATGGGCCATATGAATA-TGTT
1 TGGGCCT-AATGGGCCATATAAATATTATT
*
55658413 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
55658429 GATATAGGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
28 9 0.14
29 40 0.63
30 14 0.22
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATATTATT
Found at i:55659353 original size:16 final size:16
Alignment explanation
Indices: 55659332--55659362 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55659322 TTATTTTCAT
55659332 TGTAATTACGAGAAGA
1 TGTAATTACGAGAAGA
*
55659348 TGTAATTACTAGAAG
1 TGTAATTACGAGAAG
55659363 TTGAACATGG
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:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (16 bp):
TGTAATTACGAGAAGA
Found at i:55661136 original size:79 final size:82
Alignment explanation
Indices: 55661025--55661209 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
55661015 GCTACTCGTT
* *
55661025 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
55661088 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
55661105 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
55661168 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
55661185 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55661210 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:55661209 original size:40 final size:40
Alignment explanation
Indices: 55661006--55661209 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
55660996 CGGAATTTAA
** *
55661006 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55661046 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
55661086 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55661125 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
55661165 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55661205 CCGGA
1 CCGGA
55661210 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55672574 original size:13 final size:14
Alignment explanation
Indices: 55672556--55672586 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
55672546 TTAGCCGATT
55672556 ACAAATATG-TTTA
1 ACAAATATGCTTTA
55672569 ACAAATATGCTTTA
1 ACAAATATGCTTTA
55672583 ACAA
1 ACAA
55672587 TTGTCCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (14 bp):
ACAAATATGCTTTA
Found at i:55675618 original size:55 final size:56
Alignment explanation
Indices: 55675463--55675652 Score: 274
Period size: 56 Copynumber: 3.4 Consensus size: 56
55675453 TCCCAGACAG
* * *
55675463 GGTCTTACTCACACACATAAATCGGAGTCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
*
55675519 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
* * * * * *
55675575 GGTCTTA-TTGCACACATATATCGGTGTGACATATTGATACCAACGTATTAAACAT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
*
55675630 GGTCTTACTCACACACATATATC
1 GGTCTTACTCGCACACATATATC
55675653 AATGCCATGG
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
55 48 0.40
56 72 0.60
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
Found at i:55681039 original size:40 final size:39
Alignment explanation
Indices: 55680995--55681099 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
55680985 AGTGACCATA
*
55680995 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
55681035 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
55681073 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
55681100 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:55681056 original size:39 final size:40
Alignment explanation
Indices: 55680955--55681118 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
55680945 TTGAATGATG
* *
55680955 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
55680995 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
55681034 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
55681074 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
55681114 TCCGG
1 TCCGG
55681119 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:55681118 original size:79 final size:80
Alignment explanation
Indices: 55680955--55681105 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
55680945 TTGAATGATG
*
55680955 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
55681020 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
55681035 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
55681097 TTGAACGAG
64 TTGAACGAG
55681106 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:55690320 original size:39 final size:40
Alignment explanation
Indices: 55690219--55690359 Score: 157
Period size: 40 Copynumber: 3.5 Consensus size: 40
55690209 TTGAATGATG
* *
55690219 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
55690258 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
55690299 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
55690338 TCCGGGTTAAGTCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCA
55690360 NNNNNNNNNN
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
39 35 0.40
40 40 0.45
41 12 0.14
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:55706443 original size:17 final size:17
Alignment explanation
Indices: 55706413--55706453 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
55706403 TACTACTCCC
55706413 CTTCTCATCGTTTCTTTT
1 CTTC-CATCGTTTCTTTT
*
55706431 CTTCCATCTTTTCTTTT
1 CTTCCATCGTTTCTTTT
55706448 C-TCCAT
1 CTTCCAT
55706454 AGCTGAACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.23
17 13 0.59
18 4 0.18
ACGTcount: A:0.07, C:0.32, G:0.02, T:0.59
Consensus pattern (17 bp):
CTTCCATCGTTTCTTTT
Found at i:55711420 original size:21 final size:21
Alignment explanation
Indices: 55711380--55711421 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
55711370 GGCTAATAGG
*
55711380 GCAAAGATAAGTTTTCATCGA
1 GCAAAGATAAGTTGTCATCGA
*
55711401 GCAAAGATAAGTTGTGATCGA
1 GCAAAGATAAGTTGTCATCGA
55711422 ATGTGTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (21 bp):
GCAAAGATAAGTTGTCATCGA
Found at i:55722338 original size:35 final size:35
Alignment explanation
Indices: 55722291--55722367 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
55722281 AACTCTCATG
* *
55722291 ACTATATCATTATCCATATACCAATTATATCATAT
1 ACTATATAATTATCCATATACCAAGTATATCATAT
* *
55722326 ACTATATAATTATCCGTGTACCAAGTATATCATAT
1 ACTATATAATTATCCATATACCAAGTATATCATAT
55722361 ACT-TATA
1 ACTATATA
55722368 GTATACATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
34 4 0.11
35 34 0.89
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (35 bp):
ACTATATAATTATCCATATACCAAGTATATCATAT
Found at i:55724710 original size:14 final size:15
Alignment explanation
Indices: 55724691--55724719 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55724681 ACACGAAAAT
55724691 TTCACACAT-ATAAA
1 TTCACACATAATAAA
55724705 TTCACACATAATAAA
1 TTCACACATAATAAA
55724720 CACAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:55732592 original size:38 final size:38
Alignment explanation
Indices: 55732541--55732616 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
55732531 TACTTGGTTA
55732541 GATAGCATAGTAACTGCGTCGAGGTTGAAAACACAGCC
1 GATAGCATAGTAACTGCGTCGAGGTTGAAAACACAGCC
55732579 GATAGCATAGTAACTGCGTCGAGGTTGAAAACACAGCC
1 GATAGCATAGTAACTGCGTCGAGGTTGAAAACACAGCC
55732617 TGCTTTCATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.18
Consensus pattern (38 bp):
GATAGCATAGTAACTGCGTCGAGGTTGAAAACACAGCC
Found at i:55735095 original size:41 final size:44
Alignment explanation
Indices: 55735028--55735145 Score: 118
Period size: 45 Copynumber: 2.7 Consensus size: 44
55735018 ATCTCATATT
* * * *
55735028 GATGCCACTATCCCAAACA-GGTTCTTACACGAATC-CA-AT-GC
1 GATGCCAATGTCCCAGACATGG-TCTTACACGAACCACATATAGC
*
55735069 GATGCCAATGTCCCAGACATGGTCTTACACGTAACCACATATATC
1 GATGCCAATGTCCCAGACATGGTCTTACACG-AACCACATATAGC
* **
55735114 GATGCCAACGTCCCAGATGTGGTCTTACACGA
1 GATGCCAATGTCCCAGACATGGTCTTACACGA
55735146 CAACACAACG
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 25 0.39
42 5 0.08
43 2 0.03
44 3 0.05
45 29 0.45
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (44 bp):
GATGCCAATGTCCCAGACATGGTCTTACACGAACCACATATAGC
Found at i:55747773 original size:24 final size:24
Alignment explanation
Indices: 55747704--55747861 Score: 97
Period size: 24 Copynumber: 6.5 Consensus size: 24
55747694 AATGACATTG
* *
55747704 GCACTAAGTGTGCGGATTTTGAATG
1 GCACTATGTGTGCGGA-TTTGAATA
** *
55747729 GCACTATGTCCGCGGAATTGAATA
1 GCACTATGTGTGCGGATTTGAATA
*
55747753 GCACTATGTGTGCTGATTTGAAT-
1 GCACTATGTGTGCGGATTTGAATA
* * * * *
55747776 GTCAATACGAGTGTGTGGATTTCTAA-G
1 G-CACTA--TGTGTGCGGATTT-GAATA
* * * *
55747803 GCACTATGTGTACAGG-TTAGCATG
1 GCACTATGTGTGC-GGATTTGAATA
*
55747827 GCACTAAGTGTGCGGATTTGAATA
1 GCACTATGTGTGCGGATTTGAATA
55747851 GCACTATGTGT
1 GCACTATGTGT
55747862 ACGAAATCGA
Statistics
Matches: 98, Mismatches: 27, Indels: 17
0.69 0.19 0.12
Matches are distributed among these distances:
23 4 0.04
24 62 0.63
25 15 0.15
26 14 0.14
27 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (24 bp):
GCACTATGTGTGCGGATTTGAATA
Found at i:55757493 original size:24 final size:24
Alignment explanation
Indices: 55757341--55757500 Score: 99
Period size: 24 Copynumber: 6.5 Consensus size: 24
55757331 GAAATGACAT
*
55757341 TGGCACTAAGTGTGCGGATTTTGAA
1 TGGCACTATGTGTGCGGA-TTTGAA
** * *
55757366 TGGCACTATGTCCGCGAAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
55757390 TAGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * * *
55757414 TGTCAATACGAGTGTGTGGATTTCTAA
1 TGGCACTA--TGTGTGCGGATTT-GAA
* * **
55757441 -GGCACTATGTGTACAGG-TTAGCG
1 TGGCACTATGTGTGC-GGATTTGAA
*
55757464 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
55757488 TAGCACTATGTGT
1 TGGCACTATGTGT
55757501 ACGAAATCGA
Statistics
Matches: 95, Mismatches: 34, Indels: 13
0.67 0.24 0.09
Matches are distributed among these distances:
23 2 0.02
24 60 0.63
25 16 0.17
26 15 0.16
27 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:55763173 original size:14 final size:15
Alignment explanation
Indices: 55763156--55763184 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55763146 TCACTAAAAT
55763156 TTCACACAT-ATAAA
1 TTCACACATAATAAA
55763170 TTCACACATAATAAA
1 TTCACACATAATAAA
55763185 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:55765017 original size:42 final size:43
Alignment explanation
Indices: 55764947--55765034 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 43
55764937 ACATAGTCTT
* * * *
55764947 AAATCAATTATCGATGCCACTGTCCCAGACAGGGTCTTACATG
1 AAATCAAATATCGATGCCAATGTACCAGACAGGGTCTTACACG
*
55764990 AAATCAAATA-CGATGCCAATGTACCAGACATGGTCTTACACG
1 AAATCAAATATCGATGCCAATGTACCAGACAGGGTCTTACACG
55765032 AAA
1 AAA
55765035 AAACATATCG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 31 0.77
43 9 0.22
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (43 bp):
AAATCAAATATCGATGCCAATGTACCAGACAGGGTCTTACACG
Found at i:55772644 original size:46 final size:46
Alignment explanation
Indices: 55772523--55772652 Score: 145
Period size: 46 Copynumber: 2.8 Consensus size: 46
55772513 TGTAACCCGC
* * * *
55772523 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGCCTAGAT
* *** * *
55772569 ACATCTCTCGAACTCAAACTCAACTCAACGAGTTCGGACG-CTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGTTCGGACGCCTAG-AT
55772616 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
55772653 GGCCCAAATA
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
46 35 0.52
47 32 0.48
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGCCTAGAT
Found at i:55778447 original size:27 final size:27
Alignment explanation
Indices: 55778417--55778594 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55778407 ATATTGAGTC
* * * *
55778417 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
55778444 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55778471 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
55778499 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
55778526 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
55778553 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55778580 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55778595 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:55778556 original size:82 final size:81
Alignment explanation
Indices: 55778438--55778593 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55778428 TGCTATATAA
* *
55778438 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
55778503 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55778520 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
55778584 CACTTAGTGC
65 CACTTAGTGC
55778594 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55786637 original size:27 final size:27
Alignment explanation
Indices: 55786607--55786784 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55786597 ATATTGAGTC
* * * *
55786607 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
55786634 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55786661 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
55786689 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
55786716 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
55786743 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55786770 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55786785 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:55786746 original size:82 final size:81
Alignment explanation
Indices: 55786628--55786783 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55786618 TGCTATATAA
* *
55786628 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
55786693 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55786710 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
55786774 CACTTAGTGC
65 CACTTAGTGC
55786784 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55791032 original size:44 final size:42
Alignment explanation
Indices: 55790969--55791080 Score: 136
Period size: 44 Copynumber: 2.6 Consensus size: 42
55790959 ATGTGTATTG
55790969 GTGTAAGACCACATCTGGGACGTTGGAATCGAT-TTATAATTTAC
1 GTGTAAGACCACATCTGGGACGTTGGAATC-ATATT-TAA-TTAC
** * * *
55791013 GTGTAAGACCATGTCTGGGACATTGGCATCATATTTGATTAC
1 GTGTAAGACCACATCTGGGACGTTGGAATCATATTTAATTAC
*
55791055 ATGTAAGACCACATCTGGGACGTTGG
1 GTGTAAGACCACATCTGGGACGTTGG
55791081 CGTTGTACGA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
42 26 0.45
43 4 0.07
44 28 0.48
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCACATCTGGGACGTTGGAATCATATTTAATTAC
Found at i:55791072 original size:42 final size:44
Alignment explanation
Indices: 55790970--55791081 Score: 140
Period size: 42 Copynumber: 2.6 Consensus size: 44
55790960 TGTGTATTGG
* *
55790970 TGTAAGACCACATCTGGGACGTTGGAATCGATTTATAATTTACG
1 TGTAAGACCACATCTGGGACGTTGGCATCGATTTATAATTTACA
** * *
55791014 TGTAAGACCATGTCTGGGACATTGGCATC-ATATT-TGA-TTACA
1 TGTAAGACCACATCTGGGACGTTGGCATCGAT-TTATAATTTACA
55791056 TGTAAGACCACATCTGGGACGTTGGC
1 TGTAAGACCACATCTGGGACGTTGGC
55791082 GTTGTACGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
42 27 0.47
43 4 0.07
44 27 0.47
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (44 bp):
TGTAAGACCACATCTGGGACGTTGGCATCGATTTATAATTTACA
Found at i:55801496 original size:38 final size:38
Alignment explanation
Indices: 55801453--55801989 Score: 347
Period size: 38 Copynumber: 12.9 Consensus size: 38
55801443 TTTCAAATTA
* * * *
55801453 ACATGTATAACTGTGGCATATCCACTTAGCACCATGTT
1 ACATATATAACCGTGGTATATCCACTTAGCACCACGTT
* * * * *
55801491 ACATGTTTAACTGTGGTATATCAACTTAGCACCATGTTAAT
1 ACATATATAACCGTGGTATATCCACTTAGCACCACG-T--T
* * *
55801532 GAATCAATATATGTAACCGTGGCATATGCACTTAGCACCATGTT
1 --A-C-ATATA--TAACCGTGGTATATCCACTTAGCACCACGTT
* * *
55801576 ACATGTTTAACCGTGGTATATCCACTTAGAACCACGTTAAT
1 ACATATATAACCGTGGTATATCCACTTAGCACCACG-T--T
*
55801617 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATATA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
55801661 ACATGTATAACTGTGGTATATCCACTTAGCACCACGTT
1 ACATATATAACCGTGGTATATCCACTTAGCACCACGTT
* * *
55801699 ACACATATAACCGTGGTATATCTACTTAGCACCACATTAAT
1 ACATATATAACCGTGGTATATCCACTTAGCACCAC-GT--T
*
55801740 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATATA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
55801784 ACATGTATAACTGTGGTATATCCACTTAGCACCACGTT
1 ACATATATAACCGTGGTATATCCACTTAGCACCACGTT
* * *
55801822 ACACATATAACCGTGGTATATCTACTTAGCACCACATTAAT
1 ACATATATAACCGTGGTATATCCACTTAGCACCAC-GT--T
*
55801863 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATATA--TAACCGTGGTATATCCACTTAGCACCACGTT
* * *
55801907 ACATGTATCAATATGTGTAATCGTGGTATATCCAGTTAGCACCATGTT
1 AC----AT--ATA----TAACCGTGGTATATCCACTTAGCACCACGTT
**
55801955 ACA-AGTATAATAGTGGTATATCCACTTAGCACCAC
1 ACATA-TATAACCGTGGTATATCCACTTAGCACCAC
55801990 ATTTTTTTCA
Statistics
Matches: 404, Mismatches: 51, Indels: 88
0.74 0.09 0.16
Matches are distributed among these distances:
38 203 0.50
39 4 0.01
40 11 0.03
41 9 0.02
42 6 0.01
43 4 0.01
44 11 0.03
45 14 0.03
46 7 0.02
47 104 0.26
48 31 0.08
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATATATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:55801564 original size:85 final size:85
Alignment explanation
Indices: 55801460--55801912 Score: 458
Period size: 85 Copynumber: 5.4 Consensus size: 85
55801450 TTAACATGTA
* *
55801460 TAACTGTGGCATATCCACTTAGCACCATGTTACATGTTTAACTGTGGTATATCAACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCATGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
*
55801525 TGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
* * *
55801545 TAACCGTGGCATATGCACTTAGCACCATGTTACATGTTTAACCGTGGTATATCCACTTAGAACCA
1 TAACCGTGGCATATCCACTTAGCACCATGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
55801610 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
* *
55801630 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATAACTGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCATGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
*
55801695 CG-T--T--A-C-ACATA--
66 CGTTAATGAATCAATATATG
* * * * *
55801706 TAACCGTGGTATATCTACTTAGCACCACAT-TAATGAATCAATATATGTAACCGTGGCATATCCA
1 TAACCGTGGCATATCCACTTAGCA-C-CATGT--T--A-C-ATGT-T-TAACTGTGGTATATCCA
*
55801770 CTTAGCACCACG-T--T--A-C-ATGTA--
56 CTTAGCACCACGTTAATGAATCAATATATG
* * * ** * * *
55801791 TAACTGTGGTATATCCACTTAGCACCACGTTACACATATAACCGTGGTATATCTACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCATGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
*
55801856 CATTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
*
55801876 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCATGTTACATGT
55801913 ATCAATATGT
Statistics
Matches: 314, Mismatches: 34, Indels: 40
0.81 0.09 0.10
Matches are distributed among these distances:
76 48 0.15
77 3 0.01
78 9 0.03
79 4 0.01
80 2 0.01
81 2 0.01
82 4 0.01
83 9 0.03
84 3 0.01
85 230 0.73
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCATGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
CGTTAATGAATCAATATATG
Found at i:55801715 original size:123 final size:123
Alignment explanation
Indices: 55801545--55801914 Score: 650
Period size: 123 Copynumber: 3.0 Consensus size: 123
55801535 TCAATATATG
* * * * ** * * *
55801545 TAACCGTGGCATATGCACTTAGCACCATGTTACATGTTTAACCGTGGTATATCCACTTAGAACCA
1 TAACTGTGGTATATCCACTTAGCACCACGTTACACATATAACCGTGGTATATCTACTTAGCACCA
*
55801610 CGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTA
66 CATTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTA
55801668 TAACTGTGGTATATCCACTTAGCACCACGTTACACATATAACCGTGGTATATCTACTTAGCACCA
1 TAACTGTGGTATATCCACTTAGCACCACGTTACACATATAACCGTGGTATATCTACTTAGCACCA
55801733 CATTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTA
66 CATTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTA
55801791 TAACTGTGGTATATCCACTTAGCACCACGTTACACATATAACCGTGGTATATCTACTTAGCACCA
1 TAACTGTGGTATATCCACTTAGCACCACGTTACACATATAACCGTGGTATATCTACTTAGCACCA
55801856 CATTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTA
66 CATTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTA
55801914 T
1 T
55801915 CAATATGTGT
Statistics
Matches: 237, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 237 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (123 bp):
TAACTGTGGTATATCCACTTAGCACCACGTTACACATATAACCGTGGTATATCTACTTAGCACCA
CATTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTA
Found at i:55801938 original size:48 final size:48
Alignment explanation
Indices: 55801829--55801966 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 48
55801819 GTTACACATA
* * *
55801829 TAACCGTGGTATATCTACTTAGCACCACATTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* *
55801876 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * * *
55801924 TAATCGTGGTATATCCAGTTAGCACCATGTTACAAGTAT-AATA
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATA
55801967 GTGGTATATC
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 33 0.41
48 47 0.59
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:55804730 original size:15 final size:15
Alignment explanation
Indices: 55804707--55804752 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
55804697 ACTGATAAGC
*
55804707 CCAAAATAAGGAAAT
1 CCAAGATAAGGAAAT
*
55804722 CCAAGATAAAGAAAT
1 CCAAGATAAGGAAAT
*
55804737 CCATGATAAGGAAAT
1 CCAAGATAAGGAAAT
55804752 C
1 C
55804753 TCATTTACAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (15 bp):
CCAAGATAAGGAAAT
Found at i:55808067 original size:38 final size:38
Alignment explanation
Indices: 55808025--55808157 Score: 115
Period size: 38 Copynumber: 3.3 Consensus size: 38
55808015 TCCACTTAGA
*
55808025 ACCACATTACATGTTTAACCGTGGTTTATTTACATAGC
1 ACCACATTACATGTTTAACCGTGGATTATTTACATAGC
* ** *
55808063 ACCACATTACTGAATCAATATATGTAACCGTGGCA-TATCCACTTAGC
1 ACCACA-T--T--A-C-ATGT-T-TAACCGTGG-ATTATTTACATAGC
55808110 ACCACATTACATGTTTAACCGTGGATTATTTACATAGC
1 ACCACATTACATGTTTAACCGTGGATTATTTACATAGC
*
55808148 CCCACATTAC
1 ACCACATTAC
55808158 TGAATCAATA
Statistics
Matches: 74, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
37 1 0.01
38 33 0.45
39 2 0.03
40 3 0.04
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 2 0.03
47 24 0.32
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (38 bp):
ACCACATTACATGTTTAACCGTGGATTATTTACATAGC
Found at i:55808107 original size:85 final size:85
Alignment explanation
Indices: 55808002--55808208 Score: 360
Period size: 85 Copynumber: 2.4 Consensus size: 85
55807992 TTAACATGTA
* * * *
55808002 TAACTGTGGCATGTCCACTTAGAACCACATTACATGTTTAACCGTGGTTTATTTACATAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACATTACATGTTTAACCGTGGATTATTTACATAGCACCA
55808067 CATTACTGAATCAATATATG
66 CATTACTGAATCAATATATG
*
55808087 TAACCGTGGCATATCCACTTAGCACCACATTACATGTTTAACCGTGGATTATTTACATAGCCCCA
1 TAACCGTGGCATATCCACTTAGCACCACATTACATGTTTAACCGTGGATTATTTACATAGCACCA
55808152 CATTACTGAATCAATATATG
66 CATTACTGAATCAATATATG
*
55808172 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACATTACATGT
55808209 ATCAATATGT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 116 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACATTACATGTTTAACCGTGGATTATTTACATAGCACCA
CATTACTGAATCAATATATG
Found at i:55808110 original size:47 final size:47
Alignment explanation
Indices: 55808059--55808247 Score: 182
Period size: 48 Copynumber: 4.2 Consensus size: 47
55808049 TTTATTTACA
55808059 TAGCACCACATTACTGAATCAATATATGTAACCGTGGCATATCCACT
1 TAGCACCACATTACTGAATCAATATATGTAACCGTGGCATATCCACT
* ** *
55808106 TAGCACCACA-T--T--A-C-ATGT-T-TAACCGTGG-ATTATTTACA
1 TAGCACCACATTACTGAATCAATATATGTAACCGTGGCA-TATCCACT
*
55808144 TAGCCCCACATTACTGAATCAATATATGTAACCGTGGCATATCCACT
1 TAGCACCACATTACTGAATCAATATATGTAACCGTGGCATATCCACT
* * * * * * *
55808191 TAGCACCACGTTACATGTATCAATATGTGTAATCATGGTATAACCACT
1 TAGCACCACATTAC-TGAATCAATATATGTAACCGTGGCATATCCACT
55808239 TAGCACCAC
1 TAGCACCAC
55808248 GTTTTTTCAT
Statistics
Matches: 113, Mismatches: 17, Indels: 23
0.74 0.11 0.15
Matches are distributed among these distances:
37 1 0.01
38 23 0.20
39 2 0.02
40 3 0.03
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 3 0.03
46 2 0.02
47 36 0.32
48 37 0.33
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (47 bp):
TAGCACCACATTACTGAATCAATATATGTAACCGTGGCATATCCACT
Found at i:55818788 original size:49 final size:49
Alignment explanation
Indices: 55818715--55818902 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
55818705 TAGCCGAACC
* *
55818715 TATCTGGTACGCATAGTAGACTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
55818764 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * * *
55818815 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACGTGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
55818864 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTGCACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
55818903 CGTGACCTCA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 75 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:55818839 original size:100 final size:100
Alignment explanation
Indices: 55818720--55818904 Score: 334
Period size: 100 Copynumber: 1.9 Consensus size: 100
55818710 GAACCTATCT
55818720 GGTACGCATAGTAGACTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGACTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
55818785 TGCACTTAGTACTACACACGCGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGCGATCACAGTTTTCG
* * *
55818820 GGTACGCATAGTAGCCTGCACTTAGTACTACACGTGCGACCAATTATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGACTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
*
55818885 TGCACTTAGTACTGCACACG
66 TGCACTTAGTACTACACACG
55818905 TGACCTCACA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGTAGACTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGCGATCACAGTTTTCG
Found at i:55821039 original size:383 final size:383
Alignment explanation
Indices: 55820332--55821099 Score: 1428
Period size: 383 Copynumber: 2.0 Consensus size: 383
55820322 CAATTATATC
*
55820332 ATAGACCTCAAAATAATCATAAAATAATTATTTCTATCTCGGATTTGTGGTCACAAAACCACTAT
1 ATAGACCTCAAAATAATCATAAAATAATTATTTCTATCTCGAATTTGTGGTCACAAAACCACTAT
* *
55820397 TCTGATTAGGCCCTAATTCGGGATATTACATACATGAACCATACACGCTTTGAAATGAAAAAATT
66 TCCGATTAGGCCCTAATTCAGGATATTACATACATGAACCATACACGCTTTGAAATGAAAAAATT
*
55820462 TATGAAATTCATGGCTAACTTGGTGAATAAAAATGTGATAGGTTGTGTATTATTATGAATTGTAC
131 TATGAAATTCATGGCTAACTTGGTGAATAAAAATGTGATAGGTTGTGTATTATTATGAATTATAC
*
55820527 CATGATATGTTAAATTGTTTGGATTGTATTTTTATGGTAAGATGAGTTTATTATTATATGAACTT
196 CATGATATGTTAAATTGTTTGGATTGTATTTTTATGGTAAGATAAGTTTATTATTATATGAACTT
*
55820592 ACTATGTTTTATAGCTTACATCGTTTATCTTTCAGTGTTTTATAGTGAAATCAAAGCTAGCTCGG
261 ACTATGTTTTATAGCTTACATCATTTATCTTTCAGTGTTTTATAGTGAAATCAAAGCTAGCTCGG
* *
55820657 ATTCGAGAATCGTCAGAGACCTCATCACACTATCAAATTATCAGTTTGGGACTTTTGA
326 ATTCGAGAATCGTCAGAGACCCCATCACACTATCAAATTATCACTTTGGGACTTTTGA
*
55820715 ATAGACCTCAAAATAATCATAAAATAATTATTTCTATCTCGAATTTGTGGTCACGAAACCACTAT
1 ATAGACCTCAAAATAATCATAAAATAATTATTTCTATCTCGAATTTGTGGTCACAAAACCACTAT
*
55820780 TCCGATTAGGCCCTAATTCAGGATATTACATACATGAACCATACATGCTTTGAAATGAAAAAATT
66 TCCGATTAGGCCCTAATTCAGGATATTACATACATGAACCATACACGCTTTGAAATGAAAAAATT
55820845 TATGAAATTCATGGCTAACTTGGTGAATAAAAATGTGATAGGTTGTGTATTATTATGAATTATAC
131 TATGAAATTCATGGCTAACTTGGTGAATAAAAATGTGATAGGTTGTGTATTATTATGAATTATAC
55820910 CATGATATGTTAAATTGTTTGGATTGTATTTTTATGGTAAGATAAGTTTATTATTATATGAACTT
196 CATGATATGTTAAATTGTTTGGATTGTATTTTTATGGTAAGATAAGTTTATTATTATATGAACTT
*
55820975 ACTATGTTTTATAGCTTACATCATTTATTTTTCAGTGTTTTATAGTGAAATCAAAGCTAGCTCGG
261 ACTATGTTTTATAGCTTACATCATTTATCTTTCAGTGTTTTATAGTGAAATCAAAGCTAGCTCGG
*
55821040 ATTCGAGAATCGTTAGAGACCCCATCACACTATCAAATTATCACTTTGGGACTTTTGA
326 ATTCGAGAATCGTCAGAGACCCCATCACACTATCAAATTATCACTTTGGGACTTTTGA
55821098 AT
1 AT
55821100 CTATGATTTT
Statistics
Matches: 373, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
383 373 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (383 bp):
ATAGACCTCAAAATAATCATAAAATAATTATTTCTATCTCGAATTTGTGGTCACAAAACCACTAT
TCCGATTAGGCCCTAATTCAGGATATTACATACATGAACCATACACGCTTTGAAATGAAAAAATT
TATGAAATTCATGGCTAACTTGGTGAATAAAAATGTGATAGGTTGTGTATTATTATGAATTATAC
CATGATATGTTAAATTGTTTGGATTGTATTTTTATGGTAAGATAAGTTTATTATTATATGAACTT
ACTATGTTTTATAGCTTACATCATTTATCTTTCAGTGTTTTATAGTGAAATCAAAGCTAGCTCGG
ATTCGAGAATCGTCAGAGACCCCATCACACTATCAAATTATCACTTTGGGACTTTTGA
Found at i:55826695 original size:35 final size:35
Alignment explanation
Indices: 55826656--55826725 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
55826646 CAGGGTAGGG
55826656 GATGAAGCCAAGGTAATCAAAATATCACTCCCAAA
1 GATGAAGCCAAGGTAATCAAAATATCACTCCCAAA
*
55826691 GATGAAGCCAGGGTAATCAAAATATCACTCCCAAA
1 GATGAAGCCAAGGTAATCAAAATATCACTCCCAAA
55826726 AATCCTTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.17
Consensus pattern (35 bp):
GATGAAGCCAAGGTAATCAAAATATCACTCCCAAA
Found at i:55828776 original size:29 final size:29
Alignment explanation
Indices: 55828733--55828862 Score: 190
Period size: 29 Copynumber: 4.5 Consensus size: 29
55828723 TCATCAACCA
* *
55828733 ATGAAAAGGGATAGCTTTGGGTATTGAAT
1 ATGAAAAGGGATAGCTTTGGCTATCGAAT
* * *
55828762 ATGAAAAGTGG-TAGCTTCGACTATTGAAT
1 ATGAAAAG-GGATAGCTTTGGCTATCGAAT
55828791 ATGAAAAGGGATAGCTTTGGCTATCGAAT
1 ATGAAAAGGGATAGCTTTGGCTATCGAAT
*
55828820 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTTGGCTATCGAAT
55828849 ATGAAAAGGGATAG
1 ATGAAAAGGGATAG
55828863 GGATGACCAT
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
28 2 0.02
29 88 0.96
30 2 0.02
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.28
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTTGGCTATCGAAT
Found at i:55828875 original size:58 final size:58
Alignment explanation
Indices: 55828758--55828875 Score: 139
Period size: 58 Copynumber: 2.0 Consensus size: 58
55828748 TTTGGGTATT
* ** * *
55828758 GAATATGAAAAGTGGTAGCTTCGACTATTGAATATGAAAAGGGATAGCTTTGGCTATC
1 GAATATGAAAAGTGGTAGCTTCGACTATCGAATATGAAAAGGGATAGCGATGACCATC
* * * *
55828816 GAATATGAAAAG-GGATAGCTTTGGCTATCGATTATGAAAAGGGATAGGGATGACCATC
1 GAATATGAAAAGTGG-TAGCTTCGACTATCGAATATGAAAAGGGATAGCGATGACCATC
55828874 GA
1 GA
55828876 TTAATAAAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 2 0.04
58 48 0.96
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (58 bp):
GAATATGAAAAGTGGTAGCTTCGACTATCGAATATGAAAAGGGATAGCGATGACCATC
Found at i:55846108 original size:46 final size:46
Alignment explanation
Indices: 55845973--55846241 Score: 235
Period size: 47 Copynumber: 5.7 Consensus size: 46
55845963 GTTATTTTTG
* * ** *
55845973 GCTAGTGCAAGACATGTCTGGGACATGCATCGGCC-ACATTATGAGA
1 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTTGA-GATGAGA
* * * *
55846019 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAA-AACATGTCTGGGACAT-GCATCGGCCTTGAGATGAGA
*
55846067 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTTGAGACATAAG-
1 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTTGAG--ATGAGA
* * *
55846114 GC-AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGATA
1 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCT-TGAGATGAGA
* * *
55846159 G-TCAGTGTAAGACTATGTCTGGGACATGGCATC-GACTTGAGATGTGA
1 GCT-AGTGTAAAAC-ATGTCTGGGACAT-GCATCGGCCTTGAGATGAGA
* *
55846206 GCCAGTGTAAGACCATGTCTGGGACATTGCATCGGC
1 GCTAGTGTAA-AACATGTCTGGGACA-TGCATCGGC
55846242 ACCTTACCCA
Statistics
Matches: 182, Mismatches: 25, Indels: 30
0.77 0.11 0.13
Matches are distributed among these distances:
44 3 0.02
45 3 0.02
46 63 0.35
47 77 0.42
48 35 0.19
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTTGAGATGAGA
Found at i:55852074 original size:40 final size:39
Alignment explanation
Indices: 55852030--55852134 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 39
55852020 ACTACTTGCT
*
55852030 CAAATGCCTTCGAGACTTAGCCCGG-ATATAGTAACTCGCA
1 CAAATGCCTTCG-GACTTAGCCCGGAAT-TAGTAACTAGCA
* *
55852070 CAAATGCATTCGGAGCTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGAATTAGTAACTAGCA
55852110 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG
55852135 TTATCATCCA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
39 2 0.03
40 51 0.88
41 5 0.09
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGAATTAGTAACTAGCA
Found at i:55861851 original size:39 final size:40
Alignment explanation
Indices: 55861797--55861934 Score: 181
Period size: 40 Copynumber: 3.5 Consensus size: 40
55861787 AAACCAAGTA
* * * *
55861797 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATG
* *
55861836 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
55861876 CCTTCGGGACTTAGCCCGGAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
55861916 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55861935 TTATCATCCA
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 13 0.15
40 75 0.85
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:55861874 original size:40 final size:40
Alignment explanation
Indices: 55861830--55861938 Score: 182
Period size: 40 Copynumber: 2.7 Consensus size: 40
55861820 GCTACTTGCT
*
55861830 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
** *
55861870 CAAATGCCTTCGGGACTTAGCCCGGAAATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
55861910 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
55861939 CATCCAAATA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
Found at i:55866252 original size:28 final size:27
Alignment explanation
Indices: 55866189--55866340 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
55866179 ATATTAAGTC
* *
55866189 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
55866216 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
55866244 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
55866271 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
55866299 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
55866326 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55866341 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:55866273 original size:55 final size:55
Alignment explanation
Indices: 55866189--55866365 Score: 264
Period size: 55 Copynumber: 3.2 Consensus size: 55
55866179 ATATTAAGTC
* * *
55866189 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
55866244 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
55866299 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
55866355 CGCACACTTAG
1 CGCACACTTAG
55866366 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 95 0.86
56 16 0.14
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:55870893 original size:39 final size:39
Alignment explanation
Indices: 55870849--55871004 Score: 303
Period size: 39 Copynumber: 4.0 Consensus size: 39
55870839 AATTATATTA
*
55870849 CCAGCACGAAGCCTGCGGGACTTTAACCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
55870888 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
55870927 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
55870966 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
55871005 TCAGTGTCTT
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 116 1.00
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:55876658 original size:39 final size:39
Alignment explanation
Indices: 55876614--55876928 Score: 612
Period size: 39 Copynumber: 8.1 Consensus size: 39
55876604 ATTATATTAT
* *
55876614 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55876653 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55876692 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55876731 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55876770 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55876809 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55876848 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55876887 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55876926 CAG
1 CAG
55876929 TGTCTTGCAT
Statistics
Matches: 274, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 274 1.00
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.20
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:55880929 original size:42 final size:42
Alignment explanation
Indices: 55880813--55880962 Score: 126
Period size: 42 Copynumber: 3.5 Consensus size: 42
55880803 ATCTGAGATA
* *
55880813 TCGTGTAAGACCGTGTCT-GGACACAGGCCTCG-ATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGTATTGA-ATT
* ** *
55880854 TACGTATAAGACCATGTCTGGGACATTGACATCGTATCT-AATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCGTAT-TGAATT
* * *
55880897 TCGTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCG-TATTGAATT
* * * *
55880940 ACATGTAAGACCACGTCCGGGAC
1 TCGTGTAAGACCATGTCTGGGAC
55880963 CTCAGAGTTG
Statistics
Matches: 85, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.01
42 42 0.49
43 38 0.45
44 3 0.04
45 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGTATTGAATT
Found at i:55880949 original size:85 final size:85
Alignment explanation
Indices: 55880793--55880962 Score: 195
Period size: 85 Copynumber: 2.0 Consensus size: 85
55880783 CTAAAGGAAT
* * *
55880793 ATTGACATCTATCTGAGATATCGTGTAAGACCGTGTCTGGACACAGGCCTCGATTGAGATTTACG
1 ATTGACATCTATCTGAGATATCGTGTAAGACCCTGTCTGGACACAGGCATCGATTGAGATTTACA
* *
55880858 TATAAGACCATGTCTGGGAC
66 TATAAGACCACGTCCGGGAC
* * *
55880878 ATTGACATCGTATCT-A-ATTTCGTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGA-A-T
1 ATTGACATC-TATCTGAGATATCGTGTAAGACCCTGTCT-GGACACAGGCATCG--ATTGAGATT
*
55880939 TACATGTAAGACCACGTCCGGGAC
62 TACATATAAGACCACGTCCGGGAC
55880963 CTCAGAGTTG
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
84 19 0.26
85 42 0.58
86 6 0.08
87 5 0.07
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (85 bp):
ATTGACATCTATCTGAGATATCGTGTAAGACCCTGTCTGGACACAGGCATCGATTGAGATTTACA
TATAAGACCACGTCCGGGAC
Found at i:55892318 original size:23 final size:23
Alignment explanation
Indices: 55892287--55892332 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
55892277 TAGAAAAATA
* * *
55892287 ATTAAATATTATTTTTCATGTTT
1 ATTAAATATGAATTTGCATGTTT
*
55892310 ATTATATATGAATTTGCATGTTT
1 ATTAAATATGAATTTGCATGTTT
55892333 GAAAATTTCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (23 bp):
ATTAAATATGAATTTGCATGTTT
Found at i:55894173 original size:17 final size:17
Alignment explanation
Indices: 55894129--55894165 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
55894119 ACTAAGCTAA
55894129 GTTAGCTTACTATGTGT
1 GTTAGCTTACTATGTGT
55894146 GTTAGCTTACTATGTGT
1 GTTAGCTTACTATGTGT
55894163 GTT
1 GTT
55894166 TTGTTACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.11, G:0.24, T:0.49
Consensus pattern (17 bp):
GTTAGCTTACTATGTGT
Found at i:55897798 original size:47 final size:47
Alignment explanation
Indices: 55897741--55898091 Score: 567
Period size: 47 Copynumber: 7.4 Consensus size: 47
55897731 ATTGATGTAC
* * * * *
55897741 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
55897788 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
55897837 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
55897884 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
55897931 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
55897978 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * * * * * *
55898025 AAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
55898072 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
55898092 TCCCGAAGGG
Statistics
Matches: 287, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 244 0.85
49 43 0.15
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:55908721 original size:30 final size:30
Alignment explanation
Indices: 55908685--55908745 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
55908675 TTCTTAACTC
55908685 AAACTTTGGCAAAATTACAATTTTACCCCT
1 AAACTTTGGCAAAATTACAATTTTACCCCT
* * * * *
55908715 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTACCCCT
55908745 A
1 A
55908746 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTACCCCT
Found at i:55911193 original size:12 final size:12
Alignment explanation
Indices: 55911176--55911200 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55911166 ATGGTTTAGT
55911176 TGATTATCGTAC
1 TGATTATCGTAC
55911188 TGATTATCGTAC
1 TGATTATCGTAC
55911200 T
1 T
55911201 AACATAGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TGATTATCGTAC
Found at i:55916752 original size:26 final size:27
Alignment explanation
Indices: 55916566--55917051 Score: 402
Period size: 27 Copynumber: 18.2 Consensus size: 27
55916556 ACCCTACAGA
* * *
55916566 GGTATGTCGGTCATTTTACAATAT-AAG
1 GGTATTTCGGTAATTTTACAA-ATCGAG
** * **
55916593 GGTATTTTAGTAATTTTACACTATAAAG
1 GGTATTTCGGTAATTTTACA-AATCGAG
* * * * *
55916621 GTTATTTTGATAATTTTACAAATTGGG
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
55916648 GGTGTTTCGGTAATTTTAGAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
55916675 GGTATTTCGGTAATTTTACAAATC-AGG
1 GGTATTTCGGTAATTTTACAAATCGA-G
* *
55916702 GGTATTTCGATAATTTTACAAATCGAA
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
55916729 GATATTTCGGTAA-TTTATAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* **
55916755 GGTATTTCAGTAA-TTT-CATAATTAAG
1 GGTATTTCGGTAATTTTACA-AATCGAG
** *
55916781 GGTATTTCAATAATTTTACAAATC-AA
1 GGTATTTCGGTAATTTTACAAATCGAG
*
55916807 GGTATTTCGGTAA-TTTACAAATTGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * * * *
55916833 GGTGTTTCGATAATTTCATAAATCGGG
1 GGTATTTCGGTAATTTTACAAATCGAG
**
55916860 GGTATTTTTGT-ATTTTCACAAATCGAG
1 GGTATTTCGGTAATTTT-ACAAATCGAG
** *
55916887 GGTATTTTAGTAATTTTACAAATTGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
** *
55916914 GGTATTTTAGTAATTTCAC-AATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
** *
55916940 GGTATTTTAGTAGTTTT-CAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * *
55916966 GGTATTTCAGTAACTTCAC-AATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
55916992 GGTATTTCGATAATTTTTCAAATC-AGG
1 GGTATTTCGGTAATTTTACAAATCGA-G
*
55917019 GGTATTTCGATAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
55917046 GGTATT
1 GGTATT
55917052 CTAGTAATTT
Statistics
Matches: 375, Mismatches: 68, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
25 11 0.03
26 134 0.36
27 201 0.54
28 29 0.08
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAG
Found at i:55916904 original size:185 final size:186
Alignment explanation
Indices: 55916589--55917051 Score: 510
Period size: 185 Copynumber: 2.5 Consensus size: 186
55916579 TTTTACAATA
* * * * *
55916589 TAAGGGTATTTTAGTAATTTTACACTATAAAGGTTATTTTGATAATTTTACAAATTGGGGGTGTT
1 TAAGGGTATTTCAGTAATTTTACA-AATCAAGG-TATTTCGATAATTTTACAAATTGAGGGTGTT
* * *
55916654 TCGGTAATTTTAGAAATCGAGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCGATAATTTT
64 TCGATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTAGATAATTTT
*
55916719 ACAAATCGAAGATATTTCGGTAATTT-ATAAATCGAGGGTATTTCAGTA-ATTTCATAAT
129 ACAAATCGAAGATATTTCAGTAATTTCA-AAATCGAGGGTATTTCAGTAGATTTCA-AAT
* *
55916777 TAAGGGTATTTCAATAATTTTACAAATCAAGGTATTTCGGTAA-TTTACAAATTGAGGGTGTTTC
1 TAAGGGTATTTCAGTAATTTTACAAATCAAGGTATTTCGATAATTTTACAAATTGAGGGTGTTTC
* * * **
55916841 GATAATTTCATAAATCGGGGGTATTTTTGT-ATTTTCACAAATC-GAGGGTATTTTAG-TAATTT
66 GATAATTTTACAAATCGAGGGTATTTCGGTAATTTT-ACAAATCAG-GGGTA-TTTAGATAATTT
* * * * * * *
55916903 TACAAATTGAGGGTATTTTAGTAATTTCACAATCGAGGGTATTTTAGTAGTTTTCAAAT
128 TACAAATCGAAGATATTTCAGTAATTTCAAAATCGAGGGTATTTCAGTAGATTTCAAAT
** * * * * * *
55916962 CGAGGGTATTTCAGTAACTTCAC-AATCGAGGGTATTTCGATAATTTTTCAAA-TCAGGGGTATT
1 TAAGGGTATTTCAGTAATTTTACAAATC-AAGGTATTTCGATAATTTTACAAATTGA-GGGTGTT
55917025 TCGATAATTTTACAAATCGAGGGTATT
64 TCGATAATTTTACAAATCGAGGGTATT
55917052 CTAGTAATTT
Statistics
Matches: 232, Mismatches: 35, Indels: 18
0.81 0.12 0.06
Matches are distributed among these distances:
184 10 0.04
185 138 0.59
186 56 0.24
187 6 0.03
188 22 0.09
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (186 bp):
TAAGGGTATTTCAGTAATTTTACAAATCAAGGTATTTCGATAATTTTACAAATTGAGGGTGTTTC
GATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTAGATAATTTTAC
AAATCGAAGATATTTCAGTAATTTCAAAATCGAGGGTATTTCAGTAGATTTCAAAT
Found at i:55917000 original size:159 final size:158
Alignment explanation
Indices: 55916578--55917061 Score: 476
Period size: 159 Copynumber: 3.0 Consensus size: 158
55916568 TATGTCGGTC
* * * * * **
55916578 ATTTTACAATAT-AAGGGTATTTTAGTAATTTTACACTATAAAGGTTATTTTGATAATTTTACAA
1 ATTTTACAA-ATCGAGGGTATTTCAGTAA-TTT-CACAATCAAGGGTATTTCAATAATTTTACAA
*** * * * * * *
55916642 ATTGGGGGTGTTTCGGTAATTTTAGAAATCGAGGGTATTTCGGTAATTTTACAAATCAGGGGTAT
63 A-TCAAGGTATTTCAGTAA-TTCACAAATCGAGGGTATTTCGATAA-TTTATAAATCAGGGGTAT
* * **
55916707 TTCGATAATTTTACAAATCGAAGATATTTCGGTA
125 TTCGATAATTTTACAAATCGAGGGTATTTTAGTA
* * *
55916741 A-TTTATAAATCGAGGGTATTTCAGTAATTTCATAATTAAGGGTATTTCAATAATTTTACAAATC
1 ATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCAAGGGTATTTCAATAATTTTACAAATC
* * * * * *
55916805 AAGGTATTTCGGTAATTTACAAATTGAGGGTGTTTCGATAATTTCATAAATCGGGGGTATTTTTG
66 AAGGTATTTCAGTAATTCACAAATCGAGGGTATTTCGATAATTT-ATAAATCAGGGGTA-TTTCG
55916870 -T-ATTTTCACAAATCGAGGGTATTTTAGTA
129 ATAATTTT-ACAAATCGAGGGTATTTTAGTA
* * * * * *
55916899 ATTTTACAAATTGAGGGTATTTTAGTAATTTCACAATCGAGGGTATTTTAGTAGTTTT-CAAATC
1 ATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCAAGGGTATTTCAATAATTTTACAAATC
* *
55916963 GAGGGTATTTCAGTAACTTCAC-AATCGAGGGTATTTCGATAATTTTTCAAATCAGGGGTATTTC
66 -AAGGTATTTCAGTAA-TTCACAAATCGAGGGTATTTCGATAATTTAT-AAATCAGGGGTATTTC
*
55917027 GATAATTTTACAAATCGAGGGTATTCTAGTA
128 GATAATTTTACAAATCGAGGGTATTTTAGTA
55917058 ATTT
1 ATTT
55917062 CTCTTTATTA
Statistics
Matches: 269, Mismatches: 42, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
157 8 0.03
158 65 0.24
159 135 0.50
160 35 0.13
161 5 0.02
162 20 0.07
163 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (158 bp):
ATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCAAGGGTATTTCAATAATTTTACAAATC
AAGGTATTTCAGTAATTCACAAATCGAGGGTATTTCGATAATTTATAAATCAGGGGTATTTCGAT
AATTTTACAAATCGAGGGTATTTTAGTA
Found at i:55917414 original size:28 final size:28
Alignment explanation
Indices: 55917377--55917496 Score: 177
Period size: 28 Copynumber: 4.3 Consensus size: 28
55917367 TGGCACCTTT
* *
55917377 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
55917405 AAGCCCAATCACATTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
* * *
55917433 AGGCCCAATCACCTTCATATGGTCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
55917461 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
55917489 AGGCCCAA
1 AGGCCCAA
55917497 CTACTTCCCA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 83 1.00
ACGTcount: A:0.28, C:0.38, G:0.15, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:55928689 original size:27 final size:27
Alignment explanation
Indices: 55928658--55928799 Score: 162
Period size: 27 Copynumber: 5.3 Consensus size: 27
55928648 TTAGTTTACC
* *
55928658 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
55928685 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
55928712 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
55928739 AAATTACAGAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
55928766 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
55928793 AAATTAC
1 AAATTAC
55928800 CCAATTATCG
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
26 4 0.04
27 88 0.91
28 5 0.05
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:55928795 original size:81 final size:81
Alignment explanation
Indices: 55928658--55928808 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
55928648 TTAGTTTACC
* *
55928658 AAATTACTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
1 AAATTACAGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
55928723 ATATCCTCGATTTGTA
66 ATATCCTCGATTTGTA
** * * *
55928739 AAATTACAGAAATACCCTCAGTTTGCAAAATTACTGAAA-TACCCTCGATTTGTAAAATTACCCA
1 AAATTACAGAAATACCCTCAACTTGCAAAATTAC-CAAAGTACCCCCGATTTATAAAATTACCCA
*
55928803 ATTATC
65 AATATC
55928809 GTTTTACCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 58 0.95
82 3 0.05
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.30
Consensus pattern (81 bp):
AAATTACAGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
ATATCCTCGATTTGTA
Found at i:55928884 original size:54 final size:54
Alignment explanation
Indices: 55928802--55928968 Score: 235
Period size: 54 Copynumber: 3.1 Consensus size: 54
55928792 AAAATTACCC
* * *
55928802 AATTATCGTTTTACCCTCGATTTATAGAATTGCTATTTTACCCTCGATTTACAG
1 AATTATCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTAAAA
*
55928856 AATTATCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTAAAA
1 AATTATCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTAAAA
* ** * * * *
55928910 AATTACCGACTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATGTAAAA
1 AATTATCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTAAAA
55928964 AATTA
1 AATTA
55928969 CTGAAATACC
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (54 bp):
AATTATCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTAAAA
Found at i:55928967 original size:27 final size:27
Alignment explanation
Indices: 55928810--55928969 Score: 169
Period size: 27 Copynumber: 5.9 Consensus size: 27
55928800 CCAATTATCG
* * *
55928810 TTTTACCCTCGATTTATAGAATTGCTA
1 TTTTACCCTCGATTTAAAGAATTACCA
* * *
55928837 TTTTACCCTCGATTTACAGAATTATCG
1 TTTTACCCTCGATTTAAAGAATTACCA
* *
55928864 TTTTACCCTCGATTTATAGAATTACTA
1 TTTTACCCTCGATTTAAAGAATTACCA
* *
55928891 TTTTACCCTTGATTTAAAAAATTACCGA
1 TTTTACCCTCGATTTAAAGAATTACC-A
* *
55928919 -CTTACCCTCGATTTACAGAATTACCA
1 TTTTACCCTCGATTTAAAGAATTACCA
* * *
55928945 TTTTACCCTCAATGTAAAAAATTAC
1 TTTTACCCTCGATTTAAAGAATTAC
55928970 TGAAATACCC
Statistics
Matches: 109, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.01
27 107 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.39
Consensus pattern (27 bp):
TTTTACCCTCGATTTAAAGAATTACCA
Found at i:55928968 original size:81 final size:81
Alignment explanation
Indices: 55928839--55929011 Score: 213
Period size: 81 Copynumber: 2.1 Consensus size: 81
55928829 AATTGCTATT
* * * * * * **
55928839 TTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACT-ATTTTACCCTTGA
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCAATGTAAAAAATTACTGA-AATACCCTTGA
* *
55928903 TTTAAAAAATTACCGAC
65 TTTAAAAAATTACCAAA
*
55928920 TTACCCTCGATTTACAGAATTACCATTTTACCCTCAATGTAAAAAATTACTGAAATACCCTTGGT
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCAATGTAAAAAATTACTGAAATACCCTTGAT
*
55928985 TTACAAAATTACCAAA
66 TTAAAAAATTACCAAA
*
55929001 ATACCCTCGAT
1 TTACCCTCGAT
55929012 CAATAAAATT
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 77 0.99
82 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (81 bp):
TTACCCTCGATTTACAGAATTACCATTTTACCCTCAATGTAAAAAATTACTGAAATACCCTTGAT
TTAAAAAATTACCAAA
Found at i:55928969 original size:54 final size:54
Alignment explanation
Indices: 55928812--55928998 Score: 203
Period size: 54 Copynumber: 3.5 Consensus size: 54
55928802 AATTATCGTT
* * * * * * **
55928812 TTACCCTCGATTTATAGAATTGCTATTTTACCCTCGATTTACAGAATTATCGTT
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAAAAAATTACCGAA
* * * *
55928866 TTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTAAAAAATTACCGAC
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAAAAAATTACCGAA
* * *
55928920 TTACCCTCGATTTACAGAATTACCATTTTACCCTCAATGTAAAAAATTACTGAA
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAAAAAATTACCGAA
* * * *
55928974 ATACCCTTGGTTTACAAAATTACCA
1 TTACCCTCGATTTACAGAATTACCA
55928999 AAATACCCTC
Statistics
Matches: 115, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 115 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (54 bp):
TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAAAAAATTACCGAA
Found at i:55929006 original size:54 final size:53
Alignment explanation
Indices: 55928904--55929060 Score: 143
Period size: 54 Copynumber: 2.9 Consensus size: 53
55928894 TACCCTTGAT
* ** * * * ***
55928904 TTAAAAAATTACCGACTTACCCTCGATTTACAGAATTACCATTTTACCCTCAA
1 TTAAAAAATTACAGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAA
* *
55928957 TGTAAAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA
1 T-TAAAAAATTACAGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAA
* * * * **
55929011 TCAATAAAATTAAAAAAATACCATTGGTTTGTAAAATTACCAAAATACCC
1 TTAA-AAAATTACAGAAATACCCTTGGTTTACAAAATTACCAAAATACCC
55929061 CTGCTTTGTG
Statistics
Matches: 85, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
53 3 0.04
54 82 0.96
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (53 bp):
TTAAAAAATTACAGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAA
Found at i:55929069 original size:27 final size:27
Alignment explanation
Indices: 55928962--55929063 Score: 80
Period size: 27 Copynumber: 3.8 Consensus size: 27
55928952 CTCAATGTAA
** * *
55928962 AAAATTACTGAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTAT
* **
55928989 AAAATTACCAAAATA-CCCTCGATCAAT
1 AAAATTACCAAAATACCCCT-GGTTTAT
** ** *
55929016 AAAATTAAAAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTAT
55929043 AAAATTACCAAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
55929064 CTTTGTGTAA
Statistics
Matches: 54, Mismatches: 19, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
26 3 0.06
27 49 0.91
28 2 0.04
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTAT
Found at i:55929102 original size:27 final size:27
Alignment explanation
Indices: 55929072--55929267 Score: 266
Period size: 27 Copynumber: 7.3 Consensus size: 27
55929062 TGCTTTGTGT
* * *
55929072 AATTATCGAAATACCCTTGTAGGTTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
55929099 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
55929126 AATAACCGAAACACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
55929153 AATTACCGAAACACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
55929180 AATGACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
55929207 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
55929234 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
55929261 AATTACC
1 AATTACC
55929268 ATTTTGCCCC
Statistics
Matches: 150, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:55929707 original size:31 final size:31
Alignment explanation
Indices: 55929669--55929770 Score: 159
Period size: 31 Copynumber: 3.3 Consensus size: 31
55929659 TTGCATTCAC
*
55929669 ATTCTGATTTTGATTCTGTTACTTGATACCG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
*
55929700 ATTCTGATTTTGATTCTGCTACCTGATACCG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
* *
55929731 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
*
55929762 ATTTTGATT
1 ATTCTGATT
55929771 CTGTCACCTA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACCG
Found at i:55929713 original size:6 final size:6
Alignment explanation
Indices: 55929669--55929812 Score: 62
Period size: 6 Copynumber: 23.3 Consensus size: 6
55929659 TTGCATTCAC
* * * *
55929669 ATTCTG ATTTTG ATTCTG -TTACTTG ATACCG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * * * *
55929718 CTACCTG ATACCG ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTTTG
1 AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* *
55929768 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
55929813 AATGTTTCTT
Statistics
Matches: 99, Mismatches: 27, Indels: 24
0.66 0.18 0.16
Matches are distributed among these distances:
5 6 0.06
6 77 0.78
7 13 0.13
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:55929774 original size:25 final size:25
Alignment explanation
Indices: 55929737--55929798 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
55929727 ACCGATTCTA
* *
55929737 ATTTTGATTCTGTTACCTGATACTG
1 ATTTTGATTCTGTCACCTAATACTG
*
55929762 ATTTTGATTCTGTCACCTAATTCTG
1 ATTTTGATTCTGTCACCTAATACTG
*
55929787 ATTCTGATTCTG
1 ATTTTGATTCTG
55929799 ATTCTAGTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (25 bp):
ATTTTGATTCTGTCACCTAATACTG
Found at i:55931842 original size:27 final size:27
Alignment explanation
Indices: 55931811--55931952 Score: 153
Period size: 27 Copynumber: 5.3 Consensus size: 27
55931801 TTAGTTTACC
* *
55931811 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACTCAAATACCCTCAATTTGTA
* *
55931838 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTCAAA-TACCCTCAATTTGTA
* * *
55931865 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTCAAATACCCTCAATTTGTA
* *
55931892 AAATTA-TAGAAATACCCTCAATTTGCA
1 AAATTACT-CAAATACCCTCAATTTGTA
* *
55931919 AAATTACTTAAATACCCTCGATTTGTA
1 AAATTACTCAAATACCCTCAATTTGTA
55931946 AAATTAC
1 AAATTAC
55931953 CCAATTATTA
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 3 0.03
27 87 0.92
28 5 0.05
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (27 bp):
AAATTACTCAAATACCCTCAATTTGTA
Found at i:55932040 original size:54 final size:54
Alignment explanation
Indices: 55931955--55932107 Score: 243
Period size: 54 Copynumber: 2.8 Consensus size: 54
55931945 AAAATTACCC
* *
55931955 AATTATTATTTTACCCTCGATTTATATAATTACTATTTTACCCTCGATTTACAG
1 AATTATCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
55932009 AATTATCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
1 AATTATCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
* * * * *
55932063 AATTACCGTCTTACCCTCGATTTACAGAATTACCATTTTACCCTC
1 AATTATCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTC
55932108 AATGTAAAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.42
Consensus pattern (54 bp):
AATTATCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
Found at i:55932090 original size:81 final size:81
Alignment explanation
Indices: 55931955--55932107 Score: 243
Period size: 81 Copynumber: 1.9 Consensus size: 81
55931945 AAAATTACCC
* * * * * *
55931955 AATTATTATTTTACCCTCGATTTATATAATTACTATTTTACCCTCGATTTACAGAATTATCATTT
1 AATTACTATTTTACCCTCGATTTACAGAATTACCATCTTACCCTCGATTTACAGAATTACCATTT
55932020 TACCCTCGATTTATAG
66 TACCCTCGATTTATAG
*
55932036 AATTACTATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTTACAGAATTACCATTT
1 AATTACTATTTTACCCTCGATTTACAGAATTACCATCTTACCCTCGATTTACAGAATTACCATTT
55932101 TACCCTC
66 TACCCTC
55932108 AATGTAAAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.42
Consensus pattern (81 bp):
AATTACTATTTTACCCTCGATTTACAGAATTACCATCTTACCCTCGATTTACAGAATTACCATTT
TACCCTCGATTTATAG
Found at i:55932122 original size:27 final size:27
Alignment explanation
Indices: 55931962--55932107 Score: 220
Period size: 27 Copynumber: 5.4 Consensus size: 27
55931952 CCCAATTATT
* * *
55931962 ATTTTACCCTCGATTTATATAATTACT
1 ATTTTACCCTCGATTTACAGAATTACC
*
55931989 ATTTTACCCTCGATTTACAGAATTATC
1 ATTTTACCCTCGATTTACAGAATTACC
* *
55932016 ATTTTACCCTCGATTTATAGAATTACT
1 ATTTTACCCTCGATTTACAGAATTACC
55932043 ATTTTACCCTCGATTTACAGAATTACC
1 ATTTTACCCTCGATTTACAGAATTACC
* *
55932070 GTCTTACCCTCGATTTACAGAATTACC
1 ATTTTACCCTCGATTTACAGAATTACC
55932097 ATTTTACCCTC
1 ATTTTACCCTC
55932108 AATGTAAAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTCGATTTACAGAATTACC
Found at i:55932132 original size:54 final size:54
Alignment explanation
Indices: 55931965--55932151 Score: 196
Period size: 54 Copynumber: 3.5 Consensus size: 54
55931955 AATTATTATT
* * * * *
55931965 TTACCCTCGATTTATATAATTACTATTTTACCCTCGATTTACAGAATTA-TCATT
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGA-A
* * * **
55932019 TTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTC
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGAA
* * * *
55932073 TTACCCTCGATTTACAGAATTACCATTTTACCCTCAATGTAAAAAATTACTGAA
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGAA
* * * *
55932127 ATACCCTTGGTTTACAAAATTACCA
1 TTACCCTCGATTTACAGAATTACCA
55932152 AAATACCCTC
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
54 114 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.38
Consensus pattern (54 bp):
TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGAA
Found at i:55932132 original size:81 final size:81
Alignment explanation
Indices: 55931966--55932151 Score: 221
Period size: 81 Copynumber: 2.3 Consensus size: 81
55931956 ATTATTATTT
* * * * * * *
55931966 TACCCTCGATTTATATAATTACTATTTTACCCTCGATTTACAGAATTATCATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATCTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATG
* * **
55932031 TATAGAATTACTATTT
66 TAAAAAATTACTATAA
* *
55932047 TACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATG
1 TACCCTCGATTTACAAAATTACCATCTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATG
55932112 TAAAAAATTACTGA-AA
66 TAAAAAATTACT-ATAA
* *
55932128 TACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAAAATTACCA
55932152 AAATACCCTC
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 87 0.99
82 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCATCTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATG
TAAAAAATTACTATAA
Found at i:55932159 original size:54 final size:54
Alignment explanation
Indices: 55932074--55932213 Score: 156
Period size: 54 Copynumber: 2.6 Consensus size: 54
55932064 ATTACCGTCT
* * * *** * **
55932074 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATGTAA-AAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCTCAAT-CAATAAAATTACCAAAA
55932128 TACCCTTGGTTTACAAAATTACCAAAATACCCTCAATCAATAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCTCAATCAATAAAATTACCAAAA
* **
55932182 TACCATTGGTTTGTAAAATTACCAAAATACCC
1 TACCCTTGGTTTACAAAATTACCAAAATACCC
55932214 CTGCTTTGTG
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 2 0.03
54 71 0.97
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.29
Consensus pattern (54 bp):
TACCCTTGGTTTACAAAATTACCAAAATACCCTCAATCAATAAAATTACCAAAA
Found at i:55932221 original size:27 final size:27
Alignment explanation
Indices: 55932168--55932239 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
55932158 CCTCAATCAA
** *
55932168 TAAAATTACCAAAATACCATTGGTTTG
1 TAAAATTACCAAAATACCCCTGCTTTG
55932195 TAAAATTACCAAAATACCCCTGCTTTG
1 TAAAATTACCAAAATACCCCTGCTTTG
** *
55932222 TGTAA-TACCGAAATACCC
1 TAAAATTACCAAAATACCC
55932240 TTGTAGGTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 12 0.31
27 27 0.69
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTGCTTTG
Found at i:55932261 original size:27 final size:27
Alignment explanation
Indices: 55932227--55932365 Score: 179
Period size: 27 Copynumber: 5.1 Consensus size: 27
55932217 CTTTGTGTAA
*
55932227 TACCGAAATACCCTTGTAGGTTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAT
*
55932254 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAT
* ** *
55932281 GACTAAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAT
* *
55932308 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAT
* * *
55932335 TACCGAGATACCCTTGTGGGGTAAAAT
1 TACCGAAATACCCTTGTAGGGTAGAAT
55932362 TACC
1 TACC
55932366 ATTTTGCCCT
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAT
Found at i:55932263 original size:53 final size:53
Alignment explanation
Indices: 55932198--55932365 Score: 169
Period size: 54 Copynumber: 3.1 Consensus size: 53
55932188 TGGTTTGTAA
* * * * *
55932198 AATTACCAAAATACCCCTGCTTTGTGT-AAT-ACCGAAATACCCTTGTAGGTTAG
1 AATTACCGAAATACCCCTG--TAGGGTAAATGACCAAAATACCCTTGTAGGGTAG
*
55932251 AATTACCGAAATACCCCTGTAGGGTAGAATGACTAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTA-AATGACCAAAATACCCTTGTAGGGTAG
* * * * * * *
55932305 AAATACTGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTA-AATGACCAAAATACCCTTGTAGGGTAG
55932359 AATTACC
1 AATTACC
55932366 ATTTTGCCCT
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
51 4 0.04
53 21 0.22
54 71 0.74
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (53 bp):
AATTACCGAAATACCCCTGTAGGGTAAATGACCAAAATACCCTTGTAGGGTAG
Found at i:55932805 original size:31 final size:31
Alignment explanation
Indices: 55932767--55932868 Score: 177
Period size: 31 Copynumber: 3.3 Consensus size: 31
55932757 TTGCATTCAC
55932767 ATTCTGATTTTGATTCTGTTACCTGATACCG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
*
55932798 ATTCTGATTTTGATTCTGTTACATGATACCG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
* *
55932829 ATTCTGATTTTGATTTTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
55932860 ATTCTGATT
1 ATTCTGATT
55932869 CTGTCACCTA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACCG
Found at i:55932811 original size:6 final size:6
Alignment explanation
Indices: 55932767--55932901 Score: 71
Period size: 6 Copynumber: 21.8 Consensus size: 6
55932757 TTGCATTCAC
* * * *
55932767 ATTCTG ATTTTG ATTCTG -TTACCTG ATACCG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
55932816 -TTACATG ATACCG ATTCTG ATTTTG ATTTTG -TTACCTG ATACTG ATTCTG
1 ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* *
55932866 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
55932902 AGTTTTGATA
Statistics
Matches: 97, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
5 7 0.07
6 76 0.78
7 10 0.10
8 4 0.04
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:55932885 original size:25 final size:25
Alignment explanation
Indices: 55932829--55932896 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
55932819 CATGATACCG
* * * *
55932829 ATTCTGATTTTGATTTTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
*
55932854 ATACTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
55932879 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
55932897 ATTCTAGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:55939750 original size:11 final size:11
Alignment explanation
Indices: 55939734--55939758 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
55939724 AAGTTGGTGA
55939734 TAAGGTATTTT
1 TAAGGTATTTT
55939745 TAAGGTATTTT
1 TAAGGTATTTT
55939756 TAA
1 TAA
55939759 AAGTTTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (11 bp):
TAAGGTATTTT
Found at i:55943157 original size:25 final size:25
Alignment explanation
Indices: 55943099--55943148 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
55943089 TATGTATATG
55943099 TATGAATGGTTTTAAGTTGCATGAA
1 TATGAATGGTTTTAAGTTGCATGAA
*
55943124 TATGAATGGTTTTAAGTTGCCTGAA
1 TATGAATGGTTTTAAGTTGCATGAA
55943149 ATTTTATGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (25 bp):
TATGAATGGTTTTAAGTTGCATGAA
Found at i:55945411 original size:42 final size:42
Alignment explanation
Indices: 55945352--55945473 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
55945342 TAGGGTTTGT
* * *
55945352 TGAGATTACGTGTAAGACCATATCCGGGATATGGCATCGATA
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCAATA
* * * *
55945394 TGAGATTTCATGTAAGACCATAGCTGGGCTATTGACATCAATA
1 TGAGATTACATGTAAGACCATATCTGGGATA-TGGCATCAATA
**
55945437 TGAGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCAT
55945474 TTGTATGATA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 31 0.46
43 36 0.54
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:55972083 original size:23 final size:22
Alignment explanation
Indices: 55972031--55972083 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
55972021 TCCTCGTCTT
*
55972031 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
55972053 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
55972076 TTTCTTTT
1 TTTCTTTT
55972084 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:55975926 original size:93 final size:93
Alignment explanation
Indices: 55975819--55975989 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
55975809 GCCCCTAAGT
* *
55975819 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55975884 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
55975912 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55975977 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55975990 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55975986 original size:46 final size:46
Alignment explanation
Indices: 55975814--55975986 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
55975804 AACCCGCCCC
* * *
55975814 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
55975860 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
55975908 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
55975953 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55975987 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:55976443 original size:30 final size:30
Alignment explanation
Indices: 55976409--55976468 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
55976399 ATTTAATACG
55976409 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
55976439 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
55976469 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:55983516 original size:93 final size:93
Alignment explanation
Indices: 55983409--55983579 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
55983399 GCCCCTAAGT
* *
55983409 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55983474 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
55983502 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55983567 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55983580 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55983576 original size:46 final size:46
Alignment explanation
Indices: 55983404--55983576 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
55983394 AACCCGCCCC
* * *
55983404 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
55983450 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
55983498 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
55983543 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55983577 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:55984031 original size:30 final size:30
Alignment explanation
Indices: 55983997--55984056 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
55983987 ATTTAATACG
55983997 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
55984027 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
55984057 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:55989094 original size:37 final size:34
Alignment explanation
Indices: 55989044--55989115 Score: 81
Period size: 37 Copynumber: 2.0 Consensus size: 34
55989034 AGTGTGCCAT
* *
55989044 TTTTTCTGACCATCTTTCCTCCTCCTCCTTTCTTTTC
1 TTTTTCTCACCATC-TACCTCCTCCT-C-TTCTTTTC
* *
55989081 TTTTTCTCTCCATCTACCTTCTCCTCTTCTTTTC
1 TTTTTCTCACCATCTACCTCCTCCTCTTCTTTTC
55989115 T
1 T
55989116 CCATAGCCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
34 9 0.29
35 1 0.03
36 9 0.29
37 12 0.39
ACGTcount: A:0.06, C:0.38, G:0.01, T:0.56
Consensus pattern (34 bp):
TTTTTCTCACCATCTACCTCCTCCTCTTCTTTTC
Found at i:55999906 original size:5 final size:5
Alignment explanation
Indices: 55999896--55999920 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
55999886 TTCTTCATTC
55999896 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
55999921 GATTCTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:56004223 original size:46 final size:46
Alignment explanation
Indices: 56004165--56004284 Score: 231
Period size: 46 Copynumber: 2.6 Consensus size: 46
56004155 ATTTGGGCAT
*
56004165 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
56004211 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
56004257 CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTC
56004285 GCTTATGGTG
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.25
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
Found at i:56006458 original size:69 final size:70
Alignment explanation
Indices: 56006326--56006458 Score: 196
Period size: 69 Copynumber: 1.9 Consensus size: 70
56006316 TAGTTTATTA
* * * * * *
56006326 CTAATTCATTTGCTGCTGTAATGCTGTAAACTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAACTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
56006391 CTTAG
66 CTTAG
*
56006396 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAACTATTGGCTCTCCAAATTAGGACAAAATCATGGT
56006459 GTTATGTACT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
69 34 0.61
70 22 0.39
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAACTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Done.