Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 51 of 62
Found at i:11939059 original size:2 final size:2
Alignment explanation
Indices: 11939052--11939105 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
11939042 TATGTTGTTA
11939052 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11939094 AT AT AT AT AT AT
1 AT AT AT AT AT AT
11939106 CAGTACTATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11939208 original size:55 final size:55
Alignment explanation
Indices: 11939121--11939279 Score: 257
Period size: 55 Copynumber: 2.9 Consensus size: 55
11939111 CTATGTGTAC
* *
11939121 TACAGGCACTTTGTGTGCAGATTCACGGAATTCATCATGAGTTGATGAATCACCG
1 TACAGGCACTTCGTGTGCAGATTCACGAAATTCATCATGAGTTGATGAATCACCG
11939176 TACAGGCACTTCGTGTGCAGATTCACGAAATTCATCATGAGTTGATGAATCACCG
1 TACAGGCACTTCGTGTGCAGATTCACGAAATTCATCATGAGTTGATGAATCACCG
* ** *
11939231 TTCAGGCACTTCGTGTGCAG-CCCACGAAATTCATCATGGGTTGATGAAT
1 TACAGGCACTTCGTGTGCAGATTCACGAAATTCATCATGAGTTGATGAAT
11939280 TCTCATATAG
Statistics
Matches: 98, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
54 26 0.27
55 72 0.73
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (55 bp):
TACAGGCACTTCGTGTGCAGATTCACGAAATTCATCATGAGTTGATGAATCACCG
Found at i:11945252 original size:16 final size:16
Alignment explanation
Indices: 11945231--11945270 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
11945221 GAATTCAACA
11945231 AGCTGAGTAGATTTAC
1 AGCTGAGTAGATTTAC
*
11945247 AGCTGAGTAGATTTGC
1 AGCTGAGTAGATTTAC
*
11945263 AGCGGAGT
1 AGCTGAGT
11945271 TAGTCCCTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.28
Consensus pattern (16 bp):
AGCTGAGTAGATTTAC
Found at i:11950619 original size:23 final size:23
Alignment explanation
Indices: 11950585--11950671 Score: 104
Period size: 23 Copynumber: 3.8 Consensus size: 23
11950575 GAGTCGAGGG
*
11950585 TTCTACGCGGTCCTTCGGGACAA
1 TTCTACGTGGTCCTTCGGGACAA
* * * *
11950608 TTCTACGTGGTCCCTCAGGATAT
1 TTCTACGTGGTCCTTCGGGACAA
11950631 TTCTACGTGGTCCTTCGGGAC-A
1 TTCTACGTGGTCCTTCGGGACAA
*
11950653 TATCTATGTGGTCCTTCGG
1 T-TCTACGTGGTCCTTCGG
11950672 TGCATTTTCT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
22 1 0.02
23 52 0.98
ACGTcount: A:0.15, C:0.26, G:0.25, T:0.33
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAA
Found at i:11950722 original size:24 final size:24
Alignment explanation
Indices: 11950666--11950723 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
11950656 CTATGTGGTC
*
11950666 CTTCGGTGCATTTTCTATGCGGCA
1 CTTCGGTGTATTTTCTATGCGGCA
11950690 CTTCGGTGTATTTTCTATGCGGCA
1 CTTCGGTGTATTTTCTATGCGGCA
11950714 CTTCGGTGTA
1 CTTCGGTGTA
11950724 ATTTATACGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.12, C:0.22, G:0.26, T:0.40
Consensus pattern (24 bp):
CTTCGGTGTATTTTCTATGCGGCA
Found at i:11957960 original size:15 final size:14
Alignment explanation
Indices: 11957941--11957967 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11957931 TAATATCTTA
11957941 AAAAAAAATTAAAC
1 AAAAAAAATTAAAC
11957955 AAAAAAAATTAAA
1 AAAAAAAATTAAA
11957968 ATTGTCATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAAAAATTAAAC
Found at i:11973005 original size:20 final size:21
Alignment explanation
Indices: 11972959--11973005 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
11972949 GAGTTTGTTT
*
11972959 TAATTTTTCAATTTTGAAACA
1 TAATTTTTCAATTTTGAAAAA
*
11972980 TCATTTTT-ATATTTT-AAAAA
1 TAATTTTTCA-ATTTTGAAAAA
11973000 TAATTT
1 TAATTT
11973006 CTCATAATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (21 bp):
TAATTTTTCAATTTTGAAAAA
Found at i:11985269 original size:23 final size:23
Alignment explanation
Indices: 11985249--11985298 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
11985239 GCCCTAAATT
11985249 GAAAA-AAAAGAAAGAAATAAAAA
1 GAAAATAAAA-AAAGAAATAAAAA
*
11985272 GAAAATAAAAAAAGAGA-AAAAA
1 GAAAATAAAAAAAGAAATAAAAA
11985294 GAAAA
1 GAAAA
11985299 AGAAAAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 10 0.40
23 11 0.44
24 4 0.16
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (23 bp):
GAAAATAAAAAAAGAAATAAAAA
Found at i:11985279 original size:11 final size:10
Alignment explanation
Indices: 11985252--11985309 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 10
11985242 CTAAATTGAA
11985252 AAAAAAGAAAG
1 AAAAAA-AAAG
*
11985263 AAATAAAAAG
1 AAAAAAAAAG
11985273 AAAATAAAAA-
1 AAAA-AAAAAG
11985283 AAGAGAAAAAAG
1 AA-A-AAAAAAG
11985295 AAAAAGAAAAG
1 AAAAA-AAAAG
11985306 AAAA
1 AAAA
11985310 GAAGGTGGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
10 11 0.28
11 26 0.65
12 3 0.08
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:11985282 original size:28 final size:28
Alignment explanation
Indices: 11985249--11985309 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
11985239 GCCCTAAATT
*
11985249 GAAAAAAA-AGAAAGAAATAAAAAGAAAA
1 GAAAAAAAGAGAAA-AAAGAAAAAGAAAA
*
11985277 TAAAAAAAGAGAAAAAAGAAAAAGAAAA
1 GAAAAAAAGAGAAAAAAGAAAAAGAAAA
11985305 GAAAA
1 GAAAA
11985310 GAAGGTGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (28 bp):
GAAAAAAAGAGAAAAAAGAAAAAGAAAA
Found at i:11985289 original size:15 final size:13
Alignment explanation
Indices: 11985250--11985309 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 13
11985240 CCCTAAATTG
11985250 AAAAAAAAGAAAGA
1 AAAAAAAAGAAA-A
*
11985264 AATAAAAAGAAAA
1 AAAAAAAAGAAAA
11985277 TAAAAAAAGAGAAAA
1 -AAAAAAA-AGAAAA
*
11985292 AAGAAAAAGAAAA
1 AAAAAAAAGAAAA
11985305 GAAAA
1 -AAAA
11985310 GAAGGTGGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
13 7 0.18
14 26 0.67
15 6 0.15
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:11985299 original size:23 final size:22
Alignment explanation
Indices: 11985249--11985312 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
11985239 GCCCTAAATT
* *
11985249 GAAAAAAAAGAAAGAAATAAAAA
1 GAAAAAAAAAAAAGAGA-AAAAA
*
11985272 GAAAATAAAAAAAGAGAAAAAA
1 GAAAAAAAAAAAAGAGAAAAAA
11985294 GAAAAAGAAAAGAAA-AGAA
1 GAAAAA-AAAA-AAAGAGAA
11985313 GGTGGGTCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 10 0.29
23 22 0.63
24 3 0.09
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (22 bp):
GAAAAAAAAAAAAGAGAAAAAA
Found at i:11988458 original size:38 final size:36
Alignment explanation
Indices: 11988384--11988458 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 36
11988374 TATTCTAATA
* *
11988384 TATATATATATTATCATTATTATTTGTTTTCTTTTT
1 TATATATAAATAATCATTATTATTTGTTTTCTTTTT
*
11988420 TATATATAAATAAT-ATTATATATTTTTTATTCTATTTT
1 TATATATAAATAATCATTAT-TATTTGTT-TTCT-TTTT
11988458 T
1 T
11988459 TTTGTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 5 0.15
36 19 0.58
37 4 0.12
38 5 0.15
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (36 bp):
TATATATAAATAATCATTATTATTTGTTTTCTTTTT
Found at i:11988468 original size:11 final size:11
Alignment explanation
Indices: 11988454--11988479 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11988444 TTTTATTCTA
11988454 TTTTTTTTGTT
1 TTTTTTTTGTT
11988465 TTTTTTTTGTT
1 TTTTTTTTGTT
11988476 TTTT
1 TTTT
11988480 CTCTGTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:11988578 original size:24 final size:24
Alignment explanation
Indices: 11988551--11988613 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 24
11988541 TTCAATCATT
*
11988551 TTTTTTATTTTTTATGGTGT-TTTA
1 TTTTTTATTTTTTATGCT-TATTTA
* *
11988575 TTTTCTGTTTTTTA-GCTTATTTA
1 TTTTTTATTTTTTATGCTTATTTA
*
11988598 TTTATTTACTTTTTAT
1 TTT-TTTATTTTTTAT
11988614 TCTTCCTTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
22 1 0.03
23 9 0.30
24 20 0.67
ACGTcount: A:0.14, C:0.05, G:0.08, T:0.73
Consensus pattern (24 bp):
TTTTTTATTTTTTATGCTTATTTA
Found at i:11990700 original size:2 final size:2
Alignment explanation
Indices: 11990693--11990728 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11990683 ATGAAAATGA
11990693 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11990729 GTTCAACACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11991090 original size:58 final size:58
Alignment explanation
Indices: 11991025--11991138 Score: 140
Period size: 59 Copynumber: 2.0 Consensus size: 58
11991015 ACTATTATTT
* * * * * *
11991025 TTATTTTAAA-TAATTCTTAAACTTTTGGATATTTCAATTTCATCCCCCAAACTATGAC
1 TTATTTTAAATTAATCCCTAAACTTTTGAACAGTCCAATTTCAT-CCCCAAACTATGAC
* *
11991083 TTATTTTAAATTAGTCCCTAAGCTTTTGAACAGTCCAATTTCATCCCCAAACTATG
1 TTATTTTAAATTAATCCCTAAACTTTTGAACAGTCCAATTTCATCCCCAAACTATG
11991139 TCCATCATTC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
58 22 0.47
59 25 0.53
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (58 bp):
TTATTTTAAATTAATCCCTAAACTTTTGAACAGTCCAATTTCATCCCCAAACTATGAC
Found at i:11991405 original size:60 final size:60
Alignment explanation
Indices: 11991312--11991425 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
11991302 GTATATATGT
* *
11991312 ATAGTTTGGGATGAAATTGGAATGGTCAAAAAGTTTTG-GGACCAATTTAGAATAAAGGTC
1 ATAGTTTGGGATGAAACTGAAATGGTCAAAAAG-TTTGAGGACCAATTTAGAATAAAGGTC
* * *
11991372 ATAGTTTGGGGATGAAACTGAAATGTTC-AAAAGTTTGAGGACTATTTTAGAATA
1 ATAGTTT-GGGATGAAACTGAAATGGTCAAAAAGTTTGAGGACCAATTTAGAATA
11991426 CTAGTCAAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 4 0.09
60 26 0.55
61 17 0.36
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (60 bp):
ATAGTTTGGGATGAAACTGAAATGGTCAAAAAGTTTGAGGACCAATTTAGAATAAAGGTC
Found at i:11991454 original size:60 final size:61
Alignment explanation
Indices: 11991320--11991455 Score: 143
Period size: 60 Copynumber: 2.2 Consensus size: 61
11991310 GTATAGTTTG
* * **
11991320 GGATGAAATTGGAATGGTCAAAAAGTTTTGGGACCAATTTAGAATAAAGGTCATAGTTTGG
1 GGATGAAATTGAAATGGTCAAAAAGTTTTGGGACCAATTTAGAATAAAGGTCAAAGTTTAA
* * * * *
11991381 GGATGAAACTGAAATGTTC-AAAAG-TTTGAGGACTATTTTAGAATACTA-GTCAAAGTTTAA
1 GGATGAAATTGAAATGGTCAAAAAGTTTTG-GGACCAATTTAGAATA-AAGGTCAAAGTTTAA
*
11991441 GGATGAATTTGAAAT
1 GGATGAAATTGAAAT
11991456 ATTTAAAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
59 4 0.06
60 41 0.66
61 17 0.27
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (61 bp):
GGATGAAATTGAAATGGTCAAAAAGTTTTGGGACCAATTTAGAATAAAGGTCAAAGTTTAA
Found at i:11995690 original size:31 final size:30
Alignment explanation
Indices: 11995639--11995697 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
11995629 AAATTACATG
11995639 TTTTGTACCTAAACTATTATTTTTGTTTTGT
1 TTTTGTACCTAAACTATTATTTTT-TTTTGT
*
11995670 TTTTGATACTTAAACT-TTATTTTTTTTT
1 TTTTG-TACCTAAACTATTATTTTTTTTT
11995698 CAAAACATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 13 0.50
32 9 0.35
ACGTcount: A:0.20, C:0.08, G:0.07, T:0.64
Consensus pattern (30 bp):
TTTTGTACCTAAACTATTATTTTTTTTTGT
Found at i:12000356 original size:2 final size:2
Alignment explanation
Indices: 12000351--12000385 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12000341 TAATTATCAA
12000351 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12000386 ATTATTTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12018296 original size:44 final size:44
Alignment explanation
Indices: 12018246--12018335 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
12018236 CGTTTGAAAA
*
12018246 TATATCTATATGAAACAAAGACCTCGGGGATGATTTGGTAAACT
1 TATATCTATATGAAACAAAGACCTCGGGGATGATTCGGTAAACT
*
12018290 TATATCTATATGAAACAAAGACCTTGGGGATGATTCGGTAAACT
1 TATATCTATATGAAACAAAGACCTCGGGGATGATTCGGTAAACT
12018334 TA
1 TA
12018336 GTCATACTAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (44 bp):
TATATCTATATGAAACAAAGACCTCGGGGATGATTCGGTAAACT
Found at i:12033944 original size:19 final size:19
Alignment explanation
Indices: 12033920--12033958 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
12033910 TTCCTTATTC
12033920 CTTTCTTTTCTCTGTTTTG
1 CTTTCTTTTCTCTGTTTTG
12033939 CTTTCTTTTCTCTGTTTTG
1 CTTTCTTTTCTCTGTTTTG
12033958 C
1 C
12033959 ATTTTCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.23, G:0.10, T:0.67
Consensus pattern (19 bp):
CTTTCTTTTCTCTGTTTTG
Found at i:12052753 original size:23 final size:23
Alignment explanation
Indices: 12052717--12052760 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
12052707 AATTAAAAGC
* *
12052717 ATTTCTTAATTTATGAAGGGGGT
1 ATTTCATAAGTTATGAAGGGGGT
12052740 ATTTCATAAGTTATGAAGGGG
1 ATTTCATAAGTTATGAAGGGG
12052761 TTTTTTAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.39
Consensus pattern (23 bp):
ATTTCATAAGTTATGAAGGGGGT
Found at i:12085066 original size:32 final size:31
Alignment explanation
Indices: 12085025--12085088 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 31
12085015 ACATAGTGAT
12085025 ACATTTTGAT-AAATTTAAGGACTATTTTTGTA
1 ACATTTTGATCAAA-TTAAGGACTA-TTTTGTA
**
12085057 ACATTTTGATCAAATTAATTACTATTTTGTA
1 ACATTTTGATCAAATTAAGGACTATTTTGTA
12085088 A
1 A
12085089 ATGATCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 8 0.28
32 18 0.62
33 3 0.10
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (31 bp):
ACATTTTGATCAAATTAAGGACTATTTTGTA
Found at i:12086887 original size:95 final size:95
Alignment explanation
Indices: 12086684--12086887 Score: 284
Period size: 95 Copynumber: 2.1 Consensus size: 95
12086674 ATCGACAAGG
* * *
12086684 TAGTATCGATACCATGGAAAGGGTATTGATACCAAGCATCATCAAAGCTAAAATTGGTATCAATA
1 TAGTATCGATACCATGGAAAGGGTATCGATACCAAGCAACATCAAACCTAAAATTGGTATCAATA
*
12086749 CCGGAAGGGGGTATCGGTACCATAGTATGA
66 CCGAAAGGGGGTATCGGTACCATAGTATGA
** ** * * *
12086779 TAGTATATATACCATGGTTAGGGTATCGATACTAGGCAACATCAAACCTAAAATTGGTATCGATA
1 TAGTATCGATACCATGGAAAGGGTATCGATACCAAGCAACATCAAACCTAAAATTGGTATCAATA
12086844 CCGAAAGGGGGTATCGGTACCATAGTATAGA
66 CCGAAAGGGGGTATCGGTACCATAGTAT-GA
*
12086875 -AGTATCGGTACCA
1 TAGTATCGATACCA
12086888 AGGTAGTAGT
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 92 0.98
96 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (95 bp):
TAGTATCGATACCATGGAAAGGGTATCGATACCAAGCAACATCAAACCTAAAATTGGTATCAATA
CCGAAAGGGGGTATCGGTACCATAGTATGA
Found at i:12087428 original size:79 final size:79
Alignment explanation
Indices: 12087294--12087738 Score: 755
Period size: 79 Copynumber: 5.6 Consensus size: 79
12087284 GAACGAATGA
* * *
12087294 ATAAAATAATAATGCATATGGGTGCATTATTGACATGAAAGGATGCCATATCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
*
12087359 GGTGTATTATCAGC
66 GGTGCATTATCAGC
*
12087373 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAATGATGCCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
* *
12087438 GGTACATTATCAAC
66 GGTGCATTATCAGC
* * * *
12087452 ATAAAAGAATAATGCATATGGTTGCATTATTTGCATGAAAGGATGACATAGTTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
12087517 GGTGCATTATCAGC
66 GGTGCATTATCAGC
12087531 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
*
12087596 GGTGCATTATCAAC
66 GGTGCATTATCAGC
* *
12087610 ATAAAAGAATAATGCATTTGGGTGCATTATTGGCATGAAAGGATCCCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
12087675 GGTGCATTATCAGC
66 GGTGCATTATCAGC
*
12087689 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAAGATGCCATA
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATA
12087739 ACTAAAAATG
Statistics
Matches: 341, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 341 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
GGTGCATTATCAGC
Found at i:12087466 original size:34 final size:34
Alignment explanation
Indices: 12087428--12087718 Score: 177
Period size: 34 Copynumber: 7.6 Consensus size: 34
12087418 CCATAGCTGA
* *
12087428 AATGCATATGGGTACATTATCAACATAAAAGAAT
1 AATGCATATGGGTGCATTATCAGCATAAAAGAAT
* **
12087462 AATGCATATGGTTGCATTATTTGCATGAAAGGATGACATAGTT
1 AATGCATATGGGTGCATTATCAGCAT-AAA--A-G--A-A--T
12087505 GAAATGCATATGGGTGCATTATCAGCATAAAAGAAT
1 --AATGCATATGGGTGCATTATCAGCATAAAAGAAT
**
12087541 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
1 AATGCATATGGGTGCATTATCAGCAT-AAA--A-G--A-A--T
*
12087584 GAAATGCATATGGGTGCATTATCAACATAAAAGAAT
1 --AATGCATATGGGTGCATTATCAGCATAAAAGAAT
* ** *
12087620 AATGCATTTGGGTGCATTATTGGCATGAAAGGATCCCATAGCT
1 AATGCATATGGGTGCATTATCAGCAT-AAA--A---GA-A--T
12087663 GAAATGCATATGGGTGCATTATCAGCATAAAAGAAT
1 --AATGCATATGGGTGCATTATCAGCATAAAAGAAT
12087699 AATGCATATGGGTGCATTAT
1 AATGCATATGGGTGCATTAT
12087719 TGGCATGAAA
Statistics
Matches: 202, Mismatches: 22, Indels: 66
0.70 0.08 0.23
Matches are distributed among these distances:
34 87 0.43
35 9 0.04
36 3 0.01
37 3 0.01
38 5 0.02
39 3 0.01
40 3 0.01
41 5 0.02
42 3 0.01
43 3 0.01
44 9 0.04
45 69 0.34
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.29
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATCAGCATAAAAGAAT
Found at i:12090403 original size:30 final size:30
Alignment explanation
Indices: 12090367--12090447 Score: 135
Period size: 30 Copynumber: 2.7 Consensus size: 30
12090357 TATTTGGTTA
*
12090367 AAGTCGTTAGGACTACATGATCATCTGTGG
1 AAGTCGTTAGGACTACATGATCATATGTGG
*
12090397 AAGTCGTTAGGACTACATGATGATATGTGG
1 AAGTCGTTAGGACTACATGATCATATGTGG
*
12090427 AAGTCGTTAGGATTACATGAT
1 AAGTCGTTAGGACTACATGAT
12090448 TATTTCTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (30 bp):
AAGTCGTTAGGACTACATGATCATATGTGG
Found at i:12091731 original size:23 final size:22
Alignment explanation
Indices: 12091688--12091730 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
12091678 ATCGAAATAT
*
12091688 GTGCCAAAAGCCAGAAGAAAAC
1 GTGCCAAAAGACAGAAGAAAAC
12091710 GTGCCATAAAGACAG-AGAAAA
1 GTGCCA-AAAGACAGAAGAAAA
12091731 ATGTTTCGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.51, C:0.19, G:0.23, T:0.07
Consensus pattern (22 bp):
GTGCCAAAAGACAGAAGAAAAC
Found at i:12094106 original size:18 final size:18
Alignment explanation
Indices: 12094083--12094122 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
12094073 TAAAAAAAAT
12094083 AAATCAACTCCTTTTAAA
1 AAATCAACTCCTTTTAAA
* *
12094101 AAATCAATTTCTTTTAAA
1 AAATCAACTCCTTTTAAA
12094119 AAAT
1 AAAT
12094123 TCACGACTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATCAACTCCTTTTAAA
Found at i:12095914 original size:5 final size:5
Alignment explanation
Indices: 12095887--12095928 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
12095877 AACGGTCAAC
* *
12095887 GGTCG GGTCA GGTCG GGT-T GGTCG GGTCG GGTC- GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
12095929 AAACCGGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 7 0.23
5 24 0.77
ACGTcount: A:0.02, C:0.19, G:0.55, T:0.24
Consensus pattern (5 bp):
GGTCG
Found at i:12095914 original size:14 final size:14
Alignment explanation
Indices: 12095887--12095928 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
12095877 AACGGTCAAC
*
12095887 GGTCGGGTCAGGTCG
1 GGTC-GGTCGGGTCG
*
12095902 GGTTGGTCGGGTCG
1 GGTCGGTCGGGTCG
12095916 GGTCGGTCGGGTC
1 GGTCGGTCGGGTC
12095929 AAACCGGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 21 0.88
15 3 0.12
ACGTcount: A:0.02, C:0.19, G:0.55, T:0.24
Consensus pattern (14 bp):
GGTCGGTCGGGTCG
Found at i:12095928 original size:19 final size:18
Alignment explanation
Indices: 12095886--12095925 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
12095876 CAACGGTCAA
12095886 CGGTCGGGTCAGGTCGGGT
1 CGGTCGGGTCAGGTC-GGT
* *
12095905 TGGTCGGGTCGGGTCGGT
1 CGGTCGGGTCAGGTCGGT
12095923 CGG
1 CGG
12095926 GTCAAACCGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.03, C:0.20, G:0.55, T:0.23
Consensus pattern (18 bp):
CGGTCGGGTCAGGTCGGT
Found at i:12095945 original size:10 final size:10
Alignment explanation
Indices: 12095927--12095989 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
12095917 GTCGGTCGGG
12095927 TCAAACCGGT
1 TCAAACCGGT
*
12095937 TCTAACCGG-
1 TCAAACCGGT
*
12095946 TCAAACTGGT
1 TCAAACCGGT
12095956 TCAAACCGG-
1 TCAAACCGGT
*
12095965 TCGAAACCAG-
1 TC-AAACCGGT
*
12095975 TCAAACCGAT
1 TCAAACCGGT
12095985 TCAAA
1 TCAAA
12095990 ACTGGTCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
9 14 0.33
10 29 0.67
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:12095947 original size:19 final size:19
Alignment explanation
Indices: 12095925--12095982 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
12095915 GGGTCGGTCG
*
12095925 GGTCAAACCGGTTCTAACC
1 GGTCAAACCGGTTCAAACC
*
12095944 GGTCAAACTGGTTCAAACC
1 GGTCAAACCGGTTCAAACC
*
12095963 GGTCGAAACCAG-TCAAACC
1 GGTC-AAACCGGTTCAAACC
12095982 G
1 G
12095983 ATTCAAAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 29 0.85
20 5 0.15
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.17
Consensus pattern (19 bp):
GGTCAAACCGGTTCAAACC
Found at i:12096000 original size:29 final size:29
Alignment explanation
Indices: 12095927--12095989 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
12095917 GTCGGTCGGG
* * * *
12095927 TCAAACCGGTTC-TAACCGGTCAAACTGGT
1 TCAAACCGG-TCGAAACCAGTCAAACCGAT
12095956 TCAAACCGGTCGAAACCAGTCAAACCGAT
1 TCAAACCGGTCGAAACCAGTCAAACCGAT
12095985 TCAAA
1 TCAAA
12095990 ACTGGTCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (29 bp):
TCAAACCGGTCGAAACCAGTCAAACCGAT
Found at i:12107197 original size:3 final size:3
Alignment explanation
Indices: 12107191--12107242 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
12107181 TTTTTTTATT
**
12107191 TAA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTT TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12107237 TAA TAA
1 TAA TAA
12107243 AAGCAAACTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:12107609 original size:45 final size:45
Alignment explanation
Indices: 12107545--12107635 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
12107535 GTGAGGTCTT
* * * * * * *
12107545 ATCATCTTGTACTGTAGGTCTTACAGATTACCCGGAGGTTTTGAA
1 ATCATCATGCACTGAAGGTCTTACAAATGACCCGAAGGGTTTGAA
12107590 ATCATCATGCACTGAAGGTCTTACAAATGACCCGAAGGGTTTGAA
1 ATCATCATGCACTGAAGGTCTTACAAATGACCCGAAGGGTTTGAA
12107635 A
1 A
12107636 ATATCAGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (45 bp):
ATCATCATGCACTGAAGGTCTTACAAATGACCCGAAGGGTTTGAA
Found at i:12107709 original size:76 final size:76
Alignment explanation
Indices: 12107583--12107793 Score: 305
Period size: 76 Copynumber: 2.8 Consensus size: 76
12107573 TACCCGGAGG
* * * * * * *
12107583 TTTTGAAATCATCATGCACTGAAGGTCTTACAAATGACCCGAAGGGTTTGAAAATATCAGAAAGT
1 TTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGC
12107648 TCCCAAAGGCT
66 TCCCAAAGGCT
*
12107659 TTTTGAAAACATCCTGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGC
1 TTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGC
*
12107724 TCCCGAAGGCT
66 TCCCAAAGGCT
* * * *
12107735 TTTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCA
1 TTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAATATCA
12107794 TGCACTGAAG
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 121 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (76 bp):
TTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGC
TCCCAAAGGCT
Found at i:12107786 original size:121 final size:121
Alignment explanation
Indices: 12107649--12108192 Score: 696
Period size: 121 Copynumber: 4.4 Consensus size: 121
12107639 TCAGAAAGTT
* * * *
12107649 CCCAAAGGCTTTTTGAAAACATCCTGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAAT
1 CCCAAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
12107714 ATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGGCTTACAGATGA
64 ATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGGCTTACAGATGA
* *
12107772 CCCAAAGGTTTTGAAAACATCATGCACTGAAGGCCTTACAGATGACCCGAAGGCTTTGAAAATAT
1 CCCAAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
* * *
12107837 CAAAAAGATCCTGAAGGCTTTTTGAAAACATCCTGCACTGTAGGGCTTACAGATGA
66 CAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGGCTTACAGATGA
* * * *
12107893 CCCGAAGGTTTTGAAAACAACATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTAAAAACAT
1 CCCAAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
* *
12107958 CAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACGGATGA
66 CAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGGCTTACAGATGA
* * *
12108014 CCCGAAGGTTTTGAAAACATCATTCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCAAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
* *
12108079 CAAGCACTGAAGGTCTTACAGAAGACCCGAAGG--TTTTGAAAACATCATGCACTGGAGGTCTTA
66 CAA--A---AA-G-C-T--------CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGGCTTA
12108142 CAGATGA
115 CAGATGA
** * *
12108149 CCTGAAGGTTTTGAAAGCATCATGCACTAAAGGGCTTACAGATG
1 CCCAAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
12108193 TGGGAAATAG
Statistics
Matches: 378, Mismatches: 27, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
121 282 0.75
123 9 0.02
126 2 0.01
127 1 0.00
128 1 0.00
129 1 0.00
135 74 0.20
137 8 0.02
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (121 bp):
CCCAAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
CAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGGCTTACAGATGA
Found at i:12107799 original size:45 final size:45
Alignment explanation
Indices: 12107735--12107838 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 45
12107725 CCCGAAGGCT
* *
12107735 TTTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCAAAGG
1 TTTTGAAAACATCATGCACTGAAGGCCTTACAGATGACCCAAAGG
*
12107780 TTTTGAAAACATCATGCACTGAAGGCCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGCCTTACAGATGACCCAAAGG
* *
12107825 CTTTGAAAATATCA
1 TTTTGAAAACATCA
12107839 AAAAGATCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGCCTTACAGATGACCCAAAGG
Found at i:12107890 original size:197 final size:197
Alignment explanation
Indices: 12107555--12107909 Score: 584
Period size: 197 Copynumber: 1.8 Consensus size: 197
12107545 ATCATCTTGT
* * ** * *
12107555 ACTGTAGGTCTTACAGATTACCCGGAGGTTTTGAAATCATCATGCACTGAAGGTCTTACAAATGA
1 ACTGTAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGCCTTACAAATGA
* * *
12107620 CCCGAAGGGTTTGAAAATATCAGAAAGTTCCCAAAGGCTTTTTGAAAACATCCTGCACTGTAGGA
66 CCCGAAGGCTTTGAAAATATCAAAAAGATCCCAAAGGCTTTTTGAAAACATCCTGCACTGTAGGA
12107685 CTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCAT
131 CTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCAT
12107750 GC
196 GC
*
12107752 ACTGTAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGCCTTACAGATGA
1 ACTGTAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGCCTTACAAATGA
** *
12107817 CCCGAAGGCTTTGAAAATATCAAAAAGATCCTGAAGGCTTTTTGAAAACATCCTGCACTGTAGGG
66 CCCGAAGGCTTTGAAAATATCAAAAAGATCCCAAAGGCTTTTTGAAAACATCCTGCACTGTAGGA
*
12107882 CTTACAGATGACCCGAAGGTTTTGAAAA
131 CTTACAGATGACCCGAAGGCTTTGAAAA
12107910 CAACATGCAC
Statistics
Matches: 144, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
197 144 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (197 bp):
ACTGTAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGCCTTACAAATGA
CCCGAAGGCTTTGAAAATATCAAAAAGATCCCAAAGGCTTTTTGAAAACATCCTGCACTGTAGGA
CTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCAT
GC
Found at i:12107919 original size:45 final size:45
Alignment explanation
Indices: 12107856--12107956 Score: 166
Period size: 45 Copynumber: 2.2 Consensus size: 45
12107846 CCTGAAGGCT
* * *
12107856 TTTTGAAAACATCCTGCACTGTAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACAACATGCACTGAAGGGCTTACAGATGACCCGAAGG
12107901 TTTTGAAAACAACATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACAACATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
12107946 TTTTAAAAACA
1 TTTTGAAAACA
12107957 TCAAAAAGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (45 bp):
TTTTGAAAACAACATGCACTGAAGGGCTTACAGATGACCCGAAGG
Found at i:12107929 original size:166 final size:163
Alignment explanation
Indices: 12107725--12108164 Score: 445
Period size: 166 Copynumber: 2.6 Consensus size: 163
12107715 TCAAAAAGCT
* *
12107725 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCAAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
* *
12107790 ATCATGCACTGAAGGCCTTACAGATGACCCGAAGGCTTTGAAAATATCA-AAAAGATCCTGAAGG
64 ATCATGCACTGAAGG-CTTACAGATGACCCGAAGGCTTTGAAAAGATCACAAAAGA-CCCGAAGG
* *
12107854 CTTTTTGAAAACATCCTGCACTGTAGGGCTTACAGATGA
127 --TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* *
12107893 CCCGAAGGTTTTGAAAACAACATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTAAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* * * *** ** * * ** ** * * ** *
12107958 CAAAAAGCTCCCGAAGGCTTTTTGAAAACATC--ATGCACTGAAGGGCTTACGGATGACCCGAAG
66 C---ATGC-ACTGAAGGCTTACAGATGAC-CCGAAGGCTTTGAAAAGATCACAAAAGACCCGAAG
*
12108021 GTTTTGAAAACATCATTCACTGAAGGGCTTACAGATGA
126 GTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* * *
12108059 CCCGAAGGTTTTGAAAACATCAAGCACTGAAGGTCTTACAGAAGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* * *
12108124 CATGCACTGGAGGTCTTACAGATGACCTGAAGGTTTTGAAA
66 CATGCACTGAAGG-CTTACAGATGACCCGAAGGCTTTGAAA
12108165 GCATCATGCA
Statistics
Matches: 214, Mismatches: 49, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
162 5 0.02
163 10 0.05
164 6 0.03
166 149 0.70
168 24 0.11
169 13 0.06
170 7 0.03
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.23
Consensus pattern (163 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
CATGCACTGAAGGCTTACAGATGACCCGAAGGCTTTGAAAAGATCACAAAAGACCCGAAGGTTTT
GAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:12107981 original size:76 final size:74
Alignment explanation
Indices: 12107893--12108035 Score: 241
Period size: 76 Copynumber: 1.9 Consensus size: 74
12107883 TTACAGATGA
12107893 CCCGAAGGTTTTGAAAACAACATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTAAAAACAT
1 CCCGAAGGTTTTGAAAACAACATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTAAAAACAT
12107958 CAAAAAGCT
66 CAAAAAGCT
* * *
12107967 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACGGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACAACATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTAAAAAC
12108032 ATCA
64 ATCA
12108036 TTCACTGAAG
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
74 8 0.12
76 56 0.88
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.22
Consensus pattern (74 bp):
CCCGAAGGTTTTGAAAACAACATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTAAAAACAT
CAAAAAGCT
Found at i:12108033 original size:45 final size:45
Alignment explanation
Indices: 12107967--12108192 Score: 344
Period size: 45 Copynumber: 5.0 Consensus size: 45
12107957 TCAAAAAGCT
*
12107967 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACGGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
12108014 CCCGAAGGTTTTGAAAACATCATTCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* * *
12108059 CCCGAAGGTTTTGAAAACATCAAGCACTGAAGGTCTTACAGAAGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* *
12108104 CCCGAAGGTTTTGAAAACATCATGCACTGGAGGTCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* * *
12108149 CCTGAAGGTTTTGAAAGCATCATGCACTAAAGGGCTTACAGATG
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
12108193 TGGGAAATAG
Statistics
Matches: 165, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 157 0.95
47 8 0.05
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:12109819 original size:105 final size:106
Alignment explanation
Indices: 12109612--12109834 Score: 276
Period size: 105 Copynumber: 2.1 Consensus size: 106
12109602 GATTGTCTAT
* *
12109612 AAGGACCAC--AAATAAATTCCTTAAGAACCATATACATATACCAAGGATCAAGTAAGTGTCTCA
1 AAGGACCACGTAAATAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCTCA
* *
12109675 AAAGACCTCATATATGCTCCAAAGAATACATATACGTCCCG
66 AAAGACCTCAAAGATGCTCCAAAGAATACATATACGTCCCG
* * * *
12109716 AAGGACCACGTAAA-AAATTCCTTAAGAATCATATACATATGCTAAGGACCAAATATGTGTCGT-
1 AAGGACCACGTAAATAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTC-TC
* * * * *
12109779 AAAAGACCTCAAAGATGTTCCATATG-TTACCTATATGTCCCG
65 AAAAGACCTCAAAGATGCTCCA-AAGAATACATATACGTCCCG
12109821 AAGGACCACGTAAA
1 AAGGACCACGTAAA
12109835 CCCTCCACTC
Statistics
Matches: 102, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
104 9 0.09
105 87 0.85
106 6 0.06
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (106 bp):
AAGGACCACGTAAATAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCTCA
AAAGACCTCAAAGATGCTCCAAAGAATACATATACGTCCCG
Found at i:12111782 original size:12 final size:12
Alignment explanation
Indices: 12111765--12111798 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
12111755 CACGGTGGAA
12111765 AAGAAGAGAATG
1 AAGAAGAGAATG
12111777 AAGAAGAGAATG
1 AAGAAGAGAATG
12111789 AAGAAGAGAA
1 AAGAAGAGAA
12111799 GTCTGGAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.32, T:0.06
Consensus pattern (12 bp):
AAGAAGAGAATG
Found at i:12112092 original size:22 final size:22
Alignment explanation
Indices: 12112039--12112093 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
12112029 AATAAAGCTT
* *
12112039 ATCTTTGAAAACAGAATCTATA
1 ATCTTTGAAGACAAAATCTATA
* *
12112061 ATCTTTGAAGAGAAAATCTATC
1 ATCTTTGAAGACAAAATCTATA
12112083 ATCTTTGAAGA
1 ATCTTTGAAGA
12112094 ATGTAGATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCTTTGAAGACAAAATCTATA
Found at i:12116516 original size:72 final size:72
Alignment explanation
Indices: 12116398--12116532 Score: 216
Period size: 72 Copynumber: 1.9 Consensus size: 72
12116388 TATAATAGGT
* *
12116398 TAGCTGAATATTATCCATAAAGCCGGGGCGATTAACCAATTGCTTTAGGGGGACAACTCAAGCAT
1 TAGCTGAATATTATCCATAAAGCCGGGGCGATTAACCAATTACTTTAGGGGGACAAATCAAGCAT
12116463 AACAAAC
66 AACAAAC
* * * *
12116470 TAGCTGAATGTTATCCATAAAGCCGGGGCTATTATCCAATTACTTTAGGGGGATAAATCAAGC
1 TAGCTGAATATTATCCATAAAGCCGGGGCGATTAACCAATTACTTTAGGGGGACAAATCAAGC
12116533 TTTATTGTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (72 bp):
TAGCTGAATATTATCCATAAAGCCGGGGCGATTAACCAATTACTTTAGGGGGACAAATCAAGCAT
AACAAAC
Found at i:12118927 original size:14 final size:14
Alignment explanation
Indices: 12118897--12118966 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 14
12118887 AAATGTAAAT
*
12118897 ATGCAAAGATGCAA
1 ATGCAAAAATGCAA
12118911 ATGCAAAAATG-ACA
1 ATGCAAAAATGCA-A
* *
12118925 ATG--TAAATACAA
1 ATGCAAAAATGCAA
*
12118937 ATGTAAAAATGCAAA
1 ATGCAAAAATGC-AA
12118952 ATGC--AAATGCAA
1 ATGCAAAAATGCAA
12118964 ATG
1 ATG
12118967 TAAATATGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
12 13 0.29
13 8 0.18
14 19 0.42
15 5 0.11
ACGTcount: A:0.54, C:0.11, G:0.16, T:0.19
Consensus pattern (14 bp):
ATGCAAAAATGCAA
Found at i:12118954 original size:27 final size:26
Alignment explanation
Indices: 12118908--12118970 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 26
12118898 TGCAAAGATG
* * *
12118908 CAAATGCAAAAATGACAATGTAAATA
1 CAAATGTAAAAATGAAAATGCAAATA
*
12118934 CAAATGTAAAAATGCAAAATGCAAATG
1 CAAATGTAAAAATG-AAAATGCAAATA
12118961 CAAATGTAAA
1 CAAATGTAAA
12118971 TATGTGAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 13 0.41
27 19 0.59
ACGTcount: A:0.57, C:0.11, G:0.13, T:0.19
Consensus pattern (26 bp):
CAAATGTAAAAATGAAAATGCAAATA
Found at i:12119058 original size:8 final size:7
Alignment explanation
Indices: 12119030--12119070 Score: 50
Period size: 6 Copynumber: 6.0 Consensus size: 7
12119020 ATAAAAGTAT
12119030 AAATGCA
1 AAATGCA
12119037 AAATG-A
1 AAATGCA
12119043 AAATGCA
1 AAATGCA
12119050 AAGATGCA
1 AA-ATGCA
*
12119058 AAATAC-
1 AAATGCA
12119064 AAATGCA
1 AAATGCA
12119071 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 11 0.38
7 11 0.38
8 7 0.24
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (7 bp):
AAATGCA
Found at i:12119209 original size:43 final size:44
Alignment explanation
Indices: 12119145--12119231 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 44
12119135 CCGTGCATCA
*
12119145 AACAAAACTTTTACATGTAGGGGACAACTTT-CTGTCCTAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCCT-TCCTAACTTC
*
12119189 AACAAAAC-TTTACATATAGGGGATAACTTTCCTTCCTAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCCTTCCTAACTTC
12119232 TCTAAAGCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
43 30 0.75
44 10 0.25
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.32
Consensus pattern (44 bp):
AACAAAACTTTTACATATAGGGGACAACTTTCCTTCCTAACTTC
Found at i:12120569 original size:18 final size:18
Alignment explanation
Indices: 12120542--12120581 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
12120532 AAATTAATAT
*
12120542 CTAA-AAAGGATATAAAA
1 CTAATAAAGGATAAAAAA
12120559 CTAATAAAGGATAAAAAA
1 CTAATAAAGGATAAAAAA
*
12120577 ATAAT
1 CTAAT
12120582 TGAAAGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.65, C:0.05, G:0.10, T:0.20
Consensus pattern (18 bp):
CTAATAAAGGATAAAAAA
Found at i:12120575 original size:17 final size:17
Alignment explanation
Indices: 12120542--12120575 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
12120532 AAATTAATAT
12120542 CTAAAAAGGATATAAAA
1 CTAAAAAGGATATAAAA
12120559 CTAATAAAGGATA-AAAA
1 CTAA-AAAGGATATAAAA
12120576 AATAATTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (17 bp):
CTAAAAAGGATATAAAA
Found at i:12122541 original size:23 final size:23
Alignment explanation
Indices: 12122511--12122556 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12122501 TGGTGACACG
12122511 TGTGCGGCTGTTGTTGTGGCAGC
1 TGTGCGGCTGTTGTTGTGGCAGC
12122534 TGTGCGGCTGTTGTTGTGGCAGC
1 TGTGCGGCTGTTGTTGTGGCAGC
12122557 AAAGCTTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.04, C:0.17, G:0.43, T:0.35
Consensus pattern (23 bp):
TGTGCGGCTGTTGTTGTGGCAGC
Found at i:12122881 original size:3 final size:3
Alignment explanation
Indices: 12122875--12122933 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
12122865 TTTTTTTATT
* *
12122875 TAA TAA TAA TAA TGCA TAT TAA TAA TAA TAA TAAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
**
12122922 TTT TAA TAA TAA
1 TAA TAA TAA TAA
12122934 AAGCAAACTG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 41 0.89
4 5 0.11
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:12122896 original size:19 final size:19
Alignment explanation
Indices: 12122874--12122922 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
12122864 ATTTTTTTAT
**
12122874 TTAATAATAATAATGCATA
1 TTAATAATAATAATAAATA
12122893 TTAATAATAATAATAAATA
1 TTAATAATAATAATAAATA
*
12122912 ATAATAATAAT
1 TTAATAATAAT
12122923 TTTAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
TTAATAATAATAATAAATA
Found at i:12124333 original size:23 final size:23
Alignment explanation
Indices: 12124257--12124333 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
12124247 CAAAGGATTG
*
12124257 CGTAGAATTTGTCCCGAATGACCA
1 CGTAGAA-TTGTCCCGAAGGACCA
*
12124281 TGTAGAATTGTCCCGAAGGACCA
1 CGTAGAATTGTCCCGAAGGACCA
** * *
12124304 CAAAGAATTATCCCGAAGGACCG
1 CGTAGAATTGTCCCGAAGGACCA
12124327 CGTAGAA
1 CGTAGAA
12124334 ACCTCTAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 38 0.86
24 6 0.14
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.19
Consensus pattern (23 bp):
CGTAGAATTGTCCCGAAGGACCA
Found at i:12129926 original size:17 final size:17
Alignment explanation
Indices: 12129918--12129978 Score: 104
Period size: 17 Copynumber: 3.5 Consensus size: 17
12129908 TCAACGGTCA
12129918 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
12129935 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
*
12129952 GGTCGGGTCGGGTCGATC
1 GGTCGGGTCGGGTC-AAC
12129970 GGTCGGGTC
1 GGTCGGGTC
12129979 AGACCGGTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
17 31 0.74
18 11 0.26
ACGTcount: A:0.08, C:0.23, G:0.49, T:0.20
Consensus pattern (17 bp):
GGTCGGGTCGGGTCAAC
Found at i:12129932 original size:22 final size:21
Alignment explanation
Indices: 12129906--12129966 Score: 76
Period size: 17 Copynumber: 3.0 Consensus size: 21
12129896 GAAAGTCAAT
12129906 GGTCAACGGTCAGGTCGGGTCG
1 GGTCAACGGTC-GGTCGGGTCG
12129928 GGTCAA----CGGTCGGGTCG
1 GGTCAACGGTCGGTCGGGTCG
12129945 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTC-GGTCGGGTCG
12129967 ATCGGTCGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
17 16 0.47
18 1 0.03
21 1 0.03
22 16 0.47
ACGTcount: A:0.11, C:0.23, G:0.48, T:0.18
Consensus pattern (21 bp):
GGTCAACGGTCGGTCGGGTCG
Found at i:12130050 original size:10 final size:10
Alignment explanation
Indices: 12129975--12130053 Score: 55
Period size: 10 Copynumber: 8.3 Consensus size: 10
12129965 CGATCGGTCG
12129975 GGTCAG-ACC
1 GGTCAGAACC
*
12129984 GGTCA-AACT
1 GGTCAGAACC
12129993 GGTTCAG-ACC
1 GG-TCAGAACC
*
12130003 GATTCAG-ACC
1 G-GTCAGAACC
12130013 GGTCA-AACC
1 GGTCAGAACC
*
12130022 GGTC-GAAATC
1 GGTCAG-AACC
12130032 GGTCA-AACC
1 GGTCAGAACC
12130041 GGTCAGAACC
1 GGTCAGAACC
12130051 GGT
1 GGT
12130054 TGAAAACCGA
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
9 27 0.49
10 28 0.51
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (10 bp):
GGTCAGAACC
Found at i:12130053 original size:19 final size:19
Alignment explanation
Indices: 12129975--12130053 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
12129965 CGATCGGTCG
* *
12129975 GGTCAGACCGGTCA-AACT
1 GGTCAAACCGGTCAGAACC
* *
12129993 GGTTCAGACCGATTCAG-ACC
1 GG-TCAAACCG-GTCAGAACC
*
12130013 GGTCAAACCGGTC-GAAATC
1 GGTCAAACCGGTCAG-AACC
12130032 GGTCAAACCGGTCAGAACC
1 GGTCAAACCGGTCAGAACC
12130051 GGT
1 GGT
12130054 TGAAAACCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.02
18 4 0.08
19 36 0.73
20 8 0.16
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (19 bp):
GGTCAAACCGGTCAGAACC
Found at i:12137309 original size:19 final size:19
Alignment explanation
Indices: 12137285--12137362 Score: 97
Period size: 19 Copynumber: 4.1 Consensus size: 19
12137275 ATCGGTCGGG
12137285 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
12137304 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
12137323 TC-GAACCGGTCGAATCCGG-
1 TCAG-ACCGGTC-AAACCGGT
*
12137342 TCAAACCGGTCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
12137362 T
1 T
12137363 GAAAACTGGT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
18 2 0.04
19 42 0.82
20 7 0.14
ACGTcount: A:0.26, C:0.31, G:0.27, T:0.17
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:12137313 original size:10 final size:9
Alignment explanation
Indices: 12137283--12137361 Score: 86
Period size: 10 Copynumber: 8.3 Consensus size: 9
12137273 TGATCGGTCG
*
12137283 GGTCAGACC
1 GGTCAAACC
12137292 GGTCAAACC
1 GGTCAAACC
*
12137301 GGTTCAGACC
1 GG-TCAAACC
12137311 GGTCAAACC
1 GGTCAAACC
*
12137320 GGTTCGAACC
1 GG-TCAAACC
*
12137330 GGTCGAATCC
1 GGTC-AAACC
12137340 GGTCAAACC
1 GGTCAAACC
12137349 GGTCAGAACC
1 GGTCA-AACC
12137359 GGT
1 GGT
12137362 TGAAAACTGG
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
9 29 0.49
10 30 0.51
ACGTcount: A:0.25, C:0.30, G:0.29, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:12137382 original size:9 final size:9
Alignment explanation
Indices: 12137289--12137382 Score: 53
Period size: 9 Copynumber: 9.8 Consensus size: 9
12137279 GTCGGGTCAG
*
12137289 ACCGGTCAA
1 ACCGGTTAA
*
12137298 ACCGGTTCAG
1 ACCGGTT-AA
*
12137308 ACCGGTCAA
1 ACCGGTTAA
*
12137317 ACCGGTTCGA
1 ACCGGTT-AA
*
12137327 ACCGGTCGAA
1 ACCGGT-TAA
* *
12137337 TCCGGTCAA
1 ACCGGTTAA
*
12137346 ACCGGTCAGA
1 ACCGGTTA-A
12137356 ACCGGTTGAAA
1 ACCGGTT--AA
*
12137367 ACTGGTTAA
1 ACCGGTTAA
12137376 ACCGGTT
1 ACCGGTT
12137383 TCCAGCAGCC
Statistics
Matches: 65, Mismatches: 14, Indels: 12
0.71 0.15 0.13
Matches are distributed among these distances:
9 30 0.46
10 27 0.42
11 7 0.11
12 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.18
Consensus pattern (9 bp):
ACCGGTTAA
Found at i:12138893 original size:22 final size:22
Alignment explanation
Indices: 12138839--12138935 Score: 153
Period size: 22 Copynumber: 4.5 Consensus size: 22
12138829 TTTCTGGGCT
12138839 AGGGGAATCGGTACCCATTC-A
1 AGGGGAATCGGTACCCATTCAA
* *
12138860 ATGGGAATCGGTATCCATTC-A
1 AGGGGAATCGGTACCCATTCAA
12138881 AGGGGAAATCGGTACCCATTCAA
1 AGGGG-AATCGGTACCCATTCAA
12138904 AGGGGAATCGGTACCCATTCAA
1 AGGGGAATCGGTACCCATTCAA
12138926 AGGGGAATCG
1 AGGGGAATCG
12138936 ATGCCCCCTC
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
21 23 0.33
22 41 0.59
23 6 0.09
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.20
Consensus pattern (22 bp):
AGGGGAATCGGTACCCATTCAA
Found at i:12138947 original size:22 final size:22
Alignment explanation
Indices: 12138839--12138947 Score: 87
Period size: 22 Copynumber: 5.0 Consensus size: 22
12138829 TTTCTGGGCT
* *
12138839 AGGGGAATCGGTACCCATTC-A
1 AGGGGAATCGATACCCACTCAA
* * * *
12138860 ATGGGAATCGGTATCCATTC-A
1 AGGGGAATCGATACCCACTCAA
* *
12138881 AGGGGAAATCGGTACCCATTCAA
1 AGGGG-AATCGATACCCACTCAA
* *
12138904 AGGGGAATCGGTACCCATTCAA
1 AGGGGAATCGATACCCACTCAA
* *
12138926 AGGGGAATCGATGCCCCCTCAA
1 AGGGGAATCGATACCCACTCAA
12138948 CCGAACCAGA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
21 23 0.29
22 49 0.63
23 6 0.08
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.19
Consensus pattern (22 bp):
AGGGGAATCGATACCCACTCAA
Found at i:12143593 original size:22 final size:22
Alignment explanation
Indices: 12143513--12143586 Score: 114
Period size: 22 Copynumber: 3.4 Consensus size: 22
12143503 TTTCTGGGCT
12143513 AGGGGAATCGGTACCCATTC-A
1 AGGGGAATCGGTACCCATTCAA
*
12143534 ATGGGAATCGGTACCCATTCAA
1 AGGGGAATCGGTACCCATTCAA
* *
12143556 GGGGGAATCGGTACCCATGCAA
1 AGGGGAATCGGTACCCATTCAA
12143578 AGGGGAATC
1 AGGGGAATC
12143587 AATACCCCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 19 0.40
22 28 0.60
ACGTcount: A:0.30, C:0.22, G:0.31, T:0.18
Consensus pattern (22 bp):
AGGGGAATCGGTACCCATTCAA
Found at i:12144670 original size:23 final size:24
Alignment explanation
Indices: 12144625--12144670 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
12144615 AATCTTATAT
*
12144625 GGCACTACGGTACAAATTCTACGC
1 GGCACTACGGTACAAATTATACGC
* *
12144649 GGCACTTCGGTGC-AATTATACG
1 GGCACTACGGTACAAATTATACG
12144671 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (24 bp):
GGCACTACGGTACAAATTATACGC
Found at i:12145716 original size:278 final size:278
Alignment explanation
Indices: 12145219--12145776 Score: 1116
Period size: 278 Copynumber: 2.0 Consensus size: 278
12145209 GCTCTGATTA
12145219 ATTTTAGTTATTGTGGTCAAATTATGTAAATAAACTGCTTTTACTTTAATTAAAGTTTTAATTTT
1 ATTTTAGTTATTGTGGTCAAATTATGTAAATAAACTGCTTTTACTTTAATTAAAGTTTTAATTTT
12145284 TTTTTTTGAATTTTGTCAAGAGTCAAAGTTTGAAATGTCAATGTGACACCTCGGACTCGTATCCG
66 TTTTTTTGAATTTTGTCAAGAGTCAAAGTTTGAAATGTCAATGTGACACCTCGGACTCGTATCCG
12145349 GGTCGGGTACGGGTTGGGGGTGTTACAGTGATCCTATAACTAGCTGATCGATCACATGTTCGTCC
131 GGTCGGGTACGGGTTGGGGGTGTTACAGTGATCCTATAACTAGCTGATCGATCACATGTTCGTCC
12145414 TAAGGGCATAATTGAAGATGTCATTGTAAAAGTGGACAAGTTTGTGTTTCCAGTTGACTTCTTCA
196 TAAGGGCATAATTGAAGATGTCATTGTAAAAGTGGACAAGTTTGTGTTTCCAGTTGACTTCTTCA
12145479 TTTTAGTCGTCGTGGCTG
261 TTTTAGTCGTCGTGGCTG
12145497 ATTTTAGTTATTGTGGTCAAATTATGTAAATAAACTGCTTTTACTTTAATTAAAGTTTTAATTTT
1 ATTTTAGTTATTGTGGTCAAATTATGTAAATAAACTGCTTTTACTTTAATTAAAGTTTTAATTTT
12145562 TTTTTTTGAATTTTGTCAAGAGTCAAAGTTTGAAATGTCAATGTGACACCTCGGACTCGTATCCG
66 TTTTTTTGAATTTTGTCAAGAGTCAAAGTTTGAAATGTCAATGTGACACCTCGGACTCGTATCCG
12145627 GGTCGGGTACGGGTTGGGGGTGTTACAGTGATCCTATAACTAGCTGATCGATCACATGTTCGTCC
131 GGTCGGGTACGGGTTGGGGGTGTTACAGTGATCCTATAACTAGCTGATCGATCACATGTTCGTCC
12145692 TAAGGGCATAATTGAAGATGTCATTGTAAAAGTGGACAAGTTTGTGTTTCCAGTTGACTTCTTCA
196 TAAGGGCATAATTGAAGATGTCATTGTAAAAGTGGACAAGTTTGTGTTTCCAGTTGACTTCTTCA
12145757 TTTTAGTCGTCGTGGCTG
261 TTTTAGTCGTCGTGGCTG
12145775 AT
1 AT
12145777 GAAAACGCAC
Statistics
Matches: 280, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
278 280 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (278 bp):
ATTTTAGTTATTGTGGTCAAATTATGTAAATAAACTGCTTTTACTTTAATTAAAGTTTTAATTTT
TTTTTTTGAATTTTGTCAAGAGTCAAAGTTTGAAATGTCAATGTGACACCTCGGACTCGTATCCG
GGTCGGGTACGGGTTGGGGGTGTTACAGTGATCCTATAACTAGCTGATCGATCACATGTTCGTCC
TAAGGGCATAATTGAAGATGTCATTGTAAAAGTGGACAAGTTTGTGTTTCCAGTTGACTTCTTCA
TTTTAGTCGTCGTGGCTG
Found at i:12149423 original size:20 final size:20
Alignment explanation
Indices: 12149400--12149447 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
12149390 TTACTCTTGG
*
12149400 TATCGATACTAATTCTTCAA
1 TATCGATACTAATTCATCAA
*
12149420 TATCGATACTAATTCATCAG
1 TATCGATACTAATTCATCAA
12149440 TATCGATA
1 TATCGATA
12149448 TTGTTCATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (20 bp):
TATCGATACTAATTCATCAA
Found at i:12151514 original size:20 final size:19
Alignment explanation
Indices: 12151488--12151538 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
12151478 CCTAAATAAT
*
12151488 AGTATCGATACCTTACTCTT
1 AGTATCGATACCTTACT-TC
*
12151508 GGTATCGATAACCTTACTTC
1 AGTATCGAT-ACCTTACTTC
12151528 AGTATCGATAC
1 AGTATCGATAC
12151539 TAATTCAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 17 0.63
21 8 0.30
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (19 bp):
AGTATCGATACCTTACTTC
Found at i:12157027 original size:40 final size:40
Alignment explanation
Indices: 12156983--12157067 Score: 91
Period size: 42 Copynumber: 2.1 Consensus size: 40
12156973 TTTACATTCC
* **
12156983 AAACGCCATAAAATAGTA-ACTTTAGCGGTGTTTTTATACA
1 AAACGCCACAAAATAGTAGACTTTAGCGGCATTTTTATA-A
* * *
12157023 AAACGTCACGACATAGTAGTACTTTAGCGGCATTTTTATAA
1 AAACGCCACAAAATAGTAG-ACTTTAGCGGCATTTTTATAA
12157064 AAAC
1 AAAC
12157068 ACCGCTATAG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
40 14 0.38
41 5 0.14
42 18 0.49
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (40 bp):
AAACGCCACAAAATAGTAGACTTTAGCGGCATTTTTATAA
Found at i:12157090 original size:41 final size:41
Alignment explanation
Indices: 12157045--12157561 Score: 463
Period size: 41 Copynumber: 12.6 Consensus size: 41
12157035 ATAGTAGTAC
* * * * *
12157045 TTTAGCGGCATTTTTATAAAAACACCGCTATAGACTCGTAT
1 TTTAGTGGCGTTTTTATATAAACGCCGCTAAAGACTCGTAT
** * * *
12157086 TTTAGTGGCGTTTTGGTACAAACGCCGCTATATACTCGTAT
1 TTTAGTGGCGTTTTTATATAAACGCCGCTAAAGACTCGTAT
* * * * * *
12157127 TTTAGTGGCGTTTTTGTTTTTAAAGGCCGCTATAGACTCATAC
1 TTTAGTGGCG-TTTT-TATATAAACGCCGCTAAAGACTCGTAT
* * * * * *
12157170 GTTAGTGGCATTTTTATACAAATGTCGCTAAAGACTCGTGT
1 TTTAGTGGCGTTTTTATATAAACGCCGCTAAAGACTCGTAT
* *
12157211 TTTAGTGGCGTTTTTATATAAACGCCGCTAAA-AGCTCATAA
1 TTTAGTGGCGTTTTTATATAAACGCCGCTAAAGA-CTCGTAT
* *
12157252 TTTAGTGGCGTTTTTATATAAACGCCACGT--AGACTCTTAT
1 TTTAGTGGCGTTTTTATATAAACGCCGC-TAAAGACTCGTAT
* * *
12157292 TTTAGTGGCGTTTCTATATAAATGCCG-TAAAAGACTCGTAC
1 TTTAGTGGCGTTTTTATATAAACGCCGCT-AAAGACTCGTAT
* * *
12157333 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAAACTCGTGT
1 TTTAGTGGCGTTTTTATATAAACGCCGCTAAAGACTCGTAT
* * *
12157374 TTTAGTAGCGTTTTTATATAAACGCCTCTAAAGACT-GATGT
1 TTTAGTGGCGTTTTTATATAAACGCCGCTAAAGACTCG-TAT
* ** *
12157415 TTTAGTAGCGTTTTTATATAAACGCAACTAAAGACTCATAT
1 TTTAGTGGCGTTTTTATATAAACGCCGCTAAAGACTCGTAT
** ** * *
12157456 TTTAGTGGCGTTTTTATATAAACGCAACTGTAGACTCTTGT
1 TTTAGTGGCGTTTTTATATAAACGCCGCTAAAGACTCGTAT
* * *
12157497 TTTAGTGGCATTTTTA-A-AAATGCCGCTAAAGACTCGTGT
1 TTTAGTGGCGTTTTTATATAAACGCCGCTAAAGACTCGTAT
* * **
12157536 TTCAGTGGCATTTTTATGCAAACGCC
1 TTTAGTGGCGTTTTTATATAAACGCC
12157562 ACATGTTTAC
Statistics
Matches: 392, Mismatches: 71, Indels: 26
0.80 0.15 0.05
Matches are distributed among these distances:
38 1 0.00
39 31 0.08
40 33 0.08
41 290 0.74
42 10 0.03
43 27 0.07
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTATATAAACGCCGCTAAAGACTCGTAT
Found at i:12157199 original size:125 final size:122
Alignment explanation
Indices: 12157046--12157480 Score: 417
Period size: 122 Copynumber: 3.5 Consensus size: 122
12157036 TAGTAGTACT
* ** * **
12157046 TTAGCGGCATTTTTATAAAAACACCGCTATAGACTCGTATTTTAGTGGCGTTTTGGTACAAACGC
1 TTAGTGGCATTTTTATAAAAATGCCGCTAAAGACTCGTATTTTAGTGGCGTTTTTATACAAACGC
* * * * *
12157111 CGCTATATACTCGTATTTTAGTGGCGTTTTTGTTTTTAAAGGCCGCTATAGACTCATACG
66 CGCTA-AAACTCGTATTTTAGTGGCGTTTTT-TATATAAACGCCAC-ATAGACTCATACG
* * * *
12157171 TTAGTGGCATTTTTATACAAATGTCGCTAAAGACTCGTGTTTTAGTGGCGTTTTTATATAAACGC
1 TTAGTGGCATTTTTATAAAAATGCCGCTAAAGACTCGTATTTTAGTGGCGTTTTTATACAAACGC
* * * * **
12157236 CGCTAAAAGCTCATAATTTAGTGGCG-TTTTTATATAAACGCCACGTAGACTCTTATT
66 CGCTAAAA-CTCGTATTTTAGTGGCGTTTTTTATATAAACGCCACATAGACTCATACG
* * * *
12157293 TTAGTGGCGTTTCTATATAAATGCCG-TAAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACG
1 TTAGTGGCATTTTTATAAAAATGCCGCT-AAAGACTCGTATTTTAGTGGCGTTTTTATACAAACG
* * * * * ***
12157357 CCGCTAAAAACTCGTGTTTTAGTAGCG-TTTTTATATAAACGCCTCTAAAGACTGATGTT
65 CCGCT-AAAACTCGTATTTTAGTGGCGTTTTTTATATAAACGCCAC-ATAGACTCATACG
* * * * ** * *
12157416 TTAGTAGCGTTTTTATATAAACGCAACTAAAGACTCATATTTTAGTGGCGTTTTTATATAAACGC
1 TTAGTGGCATTTTTATAAAAATGCCGCTAAAGACTCGTATTTTAGTGGCGTTTTTATACAAACGC
12157481 AACTGTAGAC
Statistics
Matches: 259, Mismatches: 46, Indels: 12
0.82 0.15 0.04
Matches are distributed among these distances:
121 1 0.00
122 99 0.38
123 77 0.30
124 7 0.03
125 75 0.29
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (122 bp):
TTAGTGGCATTTTTATAAAAATGCCGCTAAAGACTCGTATTTTAGTGGCGTTTTTATACAAACGC
CGCTAAAACTCGTATTTTAGTGGCGTTTTTTATATAAACGCCACATAGACTCATACG
Found at i:12157372 original size:163 final size:160
Alignment explanation
Indices: 12157045--12157561 Score: 520
Period size: 163 Copynumber: 3.2 Consensus size: 160
12157035 ATAGTAGTAC
* * * * * ** *
12157045 TTTAGCGGCATTTTTATAAAAACACCGCTATAGACTCGTATTTTAGTGGCGTTTTGGTACAAACG
1 TTTAGTGGCATTTTTATATAAACGCCGCTAAAGACTCATATTTTAGTGGCGTTTTTATATAAACG
* * * * * * * *
12157110 CCGCTATATACTCGTATTTTAGTGGCGTTTTTGTTTTTAAAGGCCGCTATAGACTCATACGTTAG
66 CCAC--TAGACTCATATTTTAGTGGCG--TTTCTATATAAACGCCG-TA-AGACTCATACTTTAG
*
12157175 TGGCATTTTTATACAAATGTCGCTAAAGACTCGTGT
125 TGGCATTTTTATACAAATGCCGCTAAAGACTCGTGT
* *
12157211 TTTAGTGGCGTTTTTATATAAACGCCGCTAAA-AGCTCATAATTTAGTGGCGTTTTTATATAAAC
1 TTTAGTGGCATTTTTATATAAACGCCGCTAAAGA-CTCATATTTTAGTGGCGTTTTTATATAAAC
* * *
12157275 GCCACGTAGACTCTTATTTTAGTGGCGTTTCTATATAAATGCCGTAAAAGACTCGTACTTTAGTG
65 GCCAC-TAGACTCATATTTTAGTGGCGTTTCTATATAAACGCCGT--AAGACTCATACTTTAGTG
* * *
12157340 GCGTTTTTATACAAACGCCGCTAAAAACTCGTGT
127 GCATTTTTATACAAATGCCGCTAAAGACTCGTGT
* * * * * *
12157374 TTTAGTAGCGTTTTTATATAAACGCCTCTAAAGACTGATGTTTTAGTAGCGTTTTTATATAAACG
1 TTTAGTGGCATTTTTATATAAACGCCGCTAAAGACTCATATTTTAGTGGCGTTTTTATATAAACG
* * * **
12157439 CAACTAAAGACTCATATTTTAGTGGCGTTTTTATATAAACGCAACTGT-AGACTCTTGTTTTAGT
66 CCACT--AGACTCATATTTTAGTGGCGTTTCTATATAAACGC--C-GTAAGACTCATACTTTAGT
12157503 GGCATTTTTA-A-AAATGCCGCTAAAGACTCGTGT
126 GGCATTTTTATACAAATGCCGCTAAAGACTCGTGT
* **
12157536 TTCAGTGGCATTTTTATGCAAACGCC
1 TTTAGTGGCATTTTTATATAAACGCC
12157562 ACATGTTTAC
Statistics
Matches: 297, Mismatches: 45, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
162 43 0.14
163 119 0.40
164 56 0.19
165 20 0.07
166 57 0.19
167 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (160 bp):
TTTAGTGGCATTTTTATATAAACGCCGCTAAAGACTCATATTTTAGTGGCGTTTTTATATAAACG
CCACTAGACTCATATTTTAGTGGCGTTTCTATATAAACGCCGTAAGACTCATACTTTAGTGGCAT
TTTTATACAAATGCCGCTAAAGACTCGTGT
Found at i:12159490 original size:43 final size:43
Alignment explanation
Indices: 12159305--12159742 Score: 485
Period size: 43 Copynumber: 10.2 Consensus size: 43
12159295 AAGGTAATTA
*
12159305 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTCGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACACCGCTATAGATCTCGACCTTTT
* ** *
12159349 GCGGCGTTTGTTCCCAAAATGCCGCTATAGATAT-GACCTTTT
1 GCGGCGTTTGTTCCAAAAACACCGCTATAGATCTCGACCTTTT
* *
12159391 GCGGTGTTTGTTCCAAAAACGA-CGCTATAGATAT-GACCTTTT
1 GCGGCGTTTGTTCCAAAAAC-ACCGCTATAGATCTCGACCTTTT
* * *
12159433 GTGGCGTTTGTTCCAAAAACACCGTTATAGATCTCGACTTTTT
1 GCGGCGTTTGTTCCAAAAACACCGCTATAGATCTCGACCTTTT
* * * *
12159476 GCGGCGTTTATTCCAAAAACGA-TGCTATAGATAT-GACCTTCT
1 GCGGCGTTTGTTCCAAAAAC-ACCGCTATAGATCTCGACCTTTT
* * ** *
12159518 GCGGCGTTTGTATCCAAAAA-AGCTGCTATAGAAAC-AAACTTTTT
1 GCGGCGTTTGT-TCCAAAAACA-CCGCTATAG-ATCTCGACCTTTT
* * *
12159562 ACGACGTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTT
1 GCGGCGTTTGTTCCAAAAACACCGCTATAGATCTCGACCTTTT
*
12159605 GCGGCGTTTGTTCCAAAAATACCGCTATAGATCTCGACCTTTT
1 GCGGCGTTTGTTCCAAAAACACCGCTATAGATCTCGACCTTTT
** *
12159648 GCGGCGTTTGTTCCAAAAATGCCACTATAGATCTCGACCTTTT
1 GCGGCGTTTGTTCCAAAAACACCGCTATAGATCTCGACCTTTT
* * * * * *
12159691 GCGGCATTTGTTACAAAAACGCCGCTATAGATCTTGACCTATG
1 GCGGCGTTTGTTCCAAAAACACCGCTATAGATCTCGACCTTTT
12159734 GCGGCGTTT
1 GCGGCGTTT
12159743 TTGGTTCTCA
Statistics
Matches: 336, Mismatches: 47, Indels: 23
0.83 0.12 0.06
Matches are distributed among these distances:
41 2 0.01
42 91 0.27
43 216 0.64
44 27 0.08
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (43 bp):
GCGGCGTTTGTTCCAAAAACACCGCTATAGATCTCGACCTTTT
Found at i:12164396 original size:30 final size:30
Alignment explanation
Indices: 12164355--12164438 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
12164345 GTATGATTTT
*
12164355 GAAAC-AAATGAAAGTTTAGGTACTAAAAA
1 GAAACAAAATGAAAGTTTAGGTACAAAAAA
* *
12164384 TAAA-ATAAATGAAAGTTTAGGCACAAAAAA
1 GAAACA-AAATGAAAGTTTAGGTACAAAAAA
*
12164414 GAAACAAAATTAATAGTTTAGGTAC
1 GAAACAAAATGAA-AGTTTAGGTAC
12164439 GAAACGTGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
29 3 0.07
30 31 0.69
31 11 0.24
ACGTcount: A:0.55, C:0.07, G:0.15, T:0.23
Consensus pattern (30 bp):
GAAACAAAATGAAAGTTTAGGTACAAAAAA
Found at i:12175091 original size:20 final size:19
Alignment explanation
Indices: 12175068--12175104 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12175058 AGAACCCCAG
*
12175068 GGGGGTATCGATTCCCCTA
1 GGGGGAATCGATTCCCCTA
*
12175087 GGGGGAATCGGTTCCCCT
1 GGGGGAATCGATTCCCCT
12175105 TTAAAGGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.27, G:0.35, T:0.24
Consensus pattern (19 bp):
GGGGGAATCGATTCCCCTA
Found at i:12175133 original size:22 final size:23
Alignment explanation
Indices: 12175086--12175136 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
12175076 CGATTCCCCT
*
12175086 AGGGGGAATCGGTTCCCCTTTAA
1 AGGGGGAATCGGTTACCCTTTAA
*
12175109 AGGGGGAATCGGTTACCC-TTCA
1 AGGGGGAATCGGTTACCCTTTAA
12175131 AGGGGG
1 AGGGGG
12175137 TATTGATTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.22, C:0.20, G:0.37, T:0.22
Consensus pattern (23 bp):
AGGGGGAATCGGTTACCCTTTAA
Found at i:12184769 original size:28 final size:29
Alignment explanation
Indices: 12184738--12184794 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
12184728 CTCAGACACC
12184738 ATGA-AAACATTAATATGATGATTAAAAA
1 ATGATAAACATTAATATGATGATTAAAAA
* *
12184766 ATGATTTTATCATTAATATGATGATTAAA
1 ATGA--TAAACATTAATATGATGATTAAA
12184795 CTTGCTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.17
31 20 0.83
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.37
Consensus pattern (29 bp):
ATGATAAACATTAATATGATGATTAAAAA
Found at i:12188713 original size:59 final size:60
Alignment explanation
Indices: 12188643--12188756 Score: 185
Period size: 59 Copynumber: 1.9 Consensus size: 60
12188633 TCAAATTGAT
*
12188643 CCTTAAACTTTTAAACATTTTAATTTCAT-CCCAAACTATGACCCTCATTCTAAAACAGC
1 CCTTAAACTTTTAAACATTCTAATTTCATCCCCAAACTATGACCCTCATTCTAAAACAGC
** *
12188702 CCTTAAACTTTTAAACATTCTAATTTTGTCCCCAAACTATGACTCTCATTCTAAA
1 CCTTAAACTTTTAAACATTCTAATTTCATCCCCAAACTATGACCCTCATTCTAAA
12188757 TTGGTCCTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
59 26 0.52
60 24 0.48
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (60 bp):
CCTTAAACTTTTAAACATTCTAATTTCATCCCCAAACTATGACCCTCATTCTAAAACAGC
Found at i:12188770 original size:60 final size:59
Alignment explanation
Indices: 12188609--12188773 Score: 181
Period size: 59 Copynumber: 2.8 Consensus size: 59
12188599 AATTGCATCA
* * * *
12188609 TGTCCCTAAATTATGACCTTCA-TCTCAAATTGATCCTTAAACTTTTAAACATTTTAATTT
1 TGTCCCCAAACTATGACC-TCATTCT-AAATTGGTCCTTAAACTTTTAAACATTCTAATTT
** *** *
12188669 CAT-CCCAAACTATGACCCTCATTCTAAAACAGCCCTTAAACTTTTAAACATTCTAATTT
1 TGTCCCCAAACTATGA-CCTCATTCTAAATTGGTCCTTAAACTTTTAAACATTCTAATTT
*
12188728 TGTCCCCAAACTATGACTCTCATTCTAAATTGGTCCTCAAACTTTT
1 TGTCCCCAAACTATGAC-CTCATTCTAAATTGGTCCTTAAACTTTT
12188774 GAATCTTCCA
Statistics
Matches: 84, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
59 43 0.51
60 41 0.49
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (59 bp):
TGTCCCCAAACTATGACCTCATTCTAAATTGGTCCTTAAACTTTTAAACATTCTAATTT
Found at i:12188787 original size:60 final size:60
Alignment explanation
Indices: 12188647--12188787 Score: 151
Period size: 60 Copynumber: 2.4 Consensus size: 60
12188637 ATTGATCCTT
** ** *
12188647 AAACTTTTAAACATTTTAATTTCAT-CCCAAACTATGACCCTCATTCTAAAACAGCCCTT
1 AAACTTTTAAACATTCCAATTTTGTCCCCAAACTATGACCCTCATTCTAAAACAGCCCTC
* * *** *
12188706 AAACTTTTAAACATTCTAATTTTGTCCCCAAACTATGACTCTCATTCTAAATTGGTCCTC
1 AAACTTTTAAACATTCCAATTTTGTCCCCAAACTATGACCCTCATTCTAAAACAGCCCTC
*
12188766 AAACTTTTGAATC-TTCCAATTT
1 AAACTTTT-AAACATTCCAATTT
12188788 CATCTGCAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
59 22 0.32
60 44 0.64
61 3 0.04
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (60 bp):
AAACTTTTAAACATTCCAATTTTGTCCCCAAACTATGACCCTCATTCTAAAACAGCCCTC
Found at i:12189027 original size:60 final size:60
Alignment explanation
Indices: 12188924--12189095 Score: 183
Period size: 60 Copynumber: 2.9 Consensus size: 60
12188914 ATATAATTTA
* * * *
12188924 GGATGAAACTGAAATGTTCAAAATGTTTGGGGACTAATTTAGAATGAAGA-TCACAGCTTGG
1 GGATGAAATTGAAATGTTTAAAA-GTTTGAGGACTAA-TTAGAATGAAGAGTCACAGCTTAG
* * * *
12188985 GGATGAAATTGAAATGTTTAAAAGTTTGAGGACTAATCTAGAA-CAATAGTCATAGTTTAG
1 GGATGAAATTGAAATGTTTAAAAGTTTGAGGACTAAT-TAGAATGAAGAGTCACAGCTTAG
*
12189045 GGATGAAATTGGAAA-GTTTAAAAGTTT-AGGGACCAATTAGAATG-AGAGTCA
1 GGATGAAATT-GAAATGTTTAAAAGTTTGA-GGACTAATTAGAATGAAGAGTCA
12189096 TAATTGAAGG
Statistics
Matches: 95, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
59 16 0.17
60 54 0.57
61 25 0.26
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (60 bp):
GGATGAAATTGAAATGTTTAAAAGTTTGAGGACTAATTAGAATGAAGAGTCACAGCTTAG
Found at i:12190546 original size:28 final size:29
Alignment explanation
Indices: 12190448--12190555 Score: 118
Period size: 28 Copynumber: 3.8 Consensus size: 29
12190438 TATTTTTATT
*
12190448 TTAATTAAATATAATTATTTTACTTTTAT-
1 TTAATTAAATATAATTATTTTA-TTATATA
*
12190477 TTAATTAAAT-TAATT-TTTTGTTA-ATA
1 TTAATTAAATATAATTATTTTATTATATA
* *
12190503 TTAAATATAATATAATAATTTTATTATATA
1 TTAATTA-AATATAATTATTTTATTATATA
*
12190533 TT-ATTAAATTTAATTATTTTATT
1 TTAATTAAATATAATTATTTTATT
12190556 TTCATTTAGA
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
25 2 0.03
26 8 0.12
27 7 0.11
28 24 0.36
29 20 0.30
30 5 0.08
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (29 bp):
TTAATTAAATATAATTATTTTATTATATA
Found at i:12191753 original size:28 final size:28
Alignment explanation
Indices: 12191710--12191764 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
12191700 GCGGGCGGGC
12191710 CTAGGGGCTTCACAAGGCACACGTGGGA
1 CTAGGGGCTTCACAAGGCACACGTGGGA
*
12191738 CTAGGGGCTTCGCAAGGCACACGTGGG
1 CTAGGGGCTTCACAAGGCACACGTGGG
12191765 CCTCGGTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.15
Consensus pattern (28 bp):
CTAGGGGCTTCACAAGGCACACGTGGGA
Found at i:12192218 original size:64 final size:64
Alignment explanation
Indices: 12192150--12192308 Score: 225
Period size: 64 Copynumber: 2.5 Consensus size: 64
12192140 GAATAAATTG
* *
12192150 AACATCGAATGCATTTTATGCATCGATGCAC-ATACTATGCATCGATGCACTCAGG-T-TTTATG
1 AACATCGAATGCATTTCATGCATCGATGCACAAGAC-ATGCATCGATGCACTCAGGCTATTT-TG
12192212 AA
64 -A
*
12192214 AACATCGAATGCATTTGATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCTATTTTGA
* *
12192278 AACATCAAATGCACTTCATGCATCGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
12192309 TCTTAGTACA
Statistics
Matches: 87, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
64 78 0.90
65 6 0.07
66 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCTATTTTGA
Found at i:12211069 original size:21 final size:21
Alignment explanation
Indices: 12211043--12211137 Score: 99
Period size: 21 Copynumber: 4.6 Consensus size: 21
12211033 GTTTCTAGAT
*
12211043 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
12211064 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
12211085 TCGCAATGCGAA-TAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
*
12211105 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
12211126 TCGCAATGCGAA
1 TCGCAATGCGAA
12211138 TATGTAAATC
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
20 17 0.27
21 47 0.73
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:12211109 original size:20 final size:20
Alignment explanation
Indices: 12211084--12211156 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
12211074 AACTTGGACT
12211084 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
12211104 ATCGCAATGCG-ATA-GTCGACT
1 ATCGCAATGCGAATATGT--A-A
12211125 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
12211145 ATCGCAATGCGA
1 ATCGCAATGCGA
12211157 TAGTCGAAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
19 3 0.07
20 24 0.52
21 12 0.26
22 3 0.07
23 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:12211114 original size:41 final size:41
Alignment explanation
Indices: 12211063--12211219 Score: 169
Period size: 41 Copynumber: 3.8 Consensus size: 41
12211053 AACTTCGACT
* *
12211063 ATCGCAATGCGA-ACTTGGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAATATGTAA
12211104 ATCGCAATGCGATAGTCGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATAGTCGACTATCGCAATGCGAATATGTAA
* *
12211145 ATCGCAATGCGATAGTCGAAGT-TCGCATTGCG-ATA-GTCCAA
1 ATCGCAATGCGATAGTCG-ACTATCGCAATGCGAATATGT--AA
* * * *
12211186 GTTTGCATTGCGATAGTCGACTATCGCATTGCGA
1 -ATCGCAATGCGATAGTCGACTATCGCAATGCGA
12211220 TAGTCCAAGT
Statistics
Matches: 101, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
39 2 0.02
40 3 0.03
41 68 0.67
42 28 0.28
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (41 bp):
ATCGCAATGCGATAGTCGACTATCGCAATGCGAATATGTAA
Found at i:12211176 original size:21 final size:21
Alignment explanation
Indices: 12211146--12211248 Score: 145
Period size: 21 Copynumber: 4.9 Consensus size: 21
12211136 AATATGTAAA
* *
12211146 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
12211167 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* * *
12211188 TTGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
12211208 ATCGCATTGCGATAGTCCAAGT
1 -TCGCATTGCGATAGTCCAAGT
12211230 TCGCATTGCGATAGTCCAA
1 TCGCATTGCGATAGTCCAA
12211249 AATCGCAACG
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
20 3 0.04
21 66 0.92
22 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.28
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:12211204 original size:42 final size:42
Alignment explanation
Indices: 12211105--12211245 Score: 173
Period size: 42 Copynumber: 3.4 Consensus size: 42
12211095 AATATGTAAA
* * *
12211105 TCGCAATGCGATAGTCGACTATCGCAATGCGAATATGT--AA-A
1 TCGCATTGCGATAGTCGACTATCGCATTGCG-ATA-GTCCAAGT
* *
12211146 TCGCAATGCGATAGTCGAAGT-TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCG-ACTATCGCATTGCGATAGTCCAAGT
*
12211188 TTGCATTGCGATAGTCGACTATCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGACTATCGCATTGCGATAGTCCAAGT
12211230 TCGCATTGCGATAGTC
1 TCGCATTGCGATAGTC
12211246 CAAAATCGCA
Statistics
Matches: 88, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
39 2 0.02
40 3 0.03
41 30 0.34
42 53 0.60
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (42 bp):
TCGCATTGCGATAGTCGACTATCGCATTGCGATAGTCCAAGT
Found at i:12211906 original size:6 final size:6
Alignment explanation
Indices: 12211873--12211902 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
12211863 GTCTCGTCTC
*
12211873 GGGTCG GGGTCG GGGTCG GGGTCG TGGTCG
1 GGGTCG GGGTCG GGGTCG GGGTCG GGGTCG
12211903 TGGTAATACG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.63, T:0.20
Consensus pattern (6 bp):
GGGTCG
Found at i:12212053 original size:21 final size:21
Alignment explanation
Indices: 12212024--12212160 Score: 138
Period size: 21 Copynumber: 6.6 Consensus size: 21
12212014 TTTGGAATAA
*
12212024 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
* *
12212045 ATTGCAATGCGAA-TAT-GTA-A
1 ATCGCAATGCGAACT-TCG-ACT
* *
12212065 ATCGTAATGCGATA-GTCGACT
1 ATCGCAATGCGA-ACTTCGACT
*
12212086 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
*
12212107 ATCGCAATGCGAGCTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
12212128 ATCGCAATACGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
12212149 ATCGCATTGCGA
1 ATCGCAATGCGA
12212161 TTTACATATT
Statistics
Matches: 95, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
20 15 0.16
21 80 0.84
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:12212076 original size:41 final size:41
Alignment explanation
Indices: 12212021--12212140 Score: 109
Period size: 41 Copynumber: 2.9 Consensus size: 41
12212011 GAATTTGGAA
* * *
12212021 TAAATCGCAATGCGA-ACTTGGACTATTGCAATGCGAATATG
1 TAAATCGCAATGCGATA-GTCGACTATCGCAATGCGAATATG
*
12212062 TAAATCGTAATGCGATAGTCGACTATCGCAATGCGAACT-TG
1 TAAATCGCAATGCGATAGTCGACTATCGCAATGCGAA-TATG
* * *** *
12212103 GACTATCGCAATGCGAGCTTCGACTATCGCAATACGAA
1 TA-AATCGCAATGCGATAGTCGACTATCGCAATGCGAA
12212141 CTTCGACTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
41 34 0.52
42 31 0.48
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (41 bp):
TAAATCGCAATGCGATAGTCGACTATCGCAATGCGAATATG
Found at i:12212128 original size:42 final size:42
Alignment explanation
Indices: 12211999--12212160 Score: 145
Period size: 42 Copynumber: 3.9 Consensus size: 42
12211989 TGCGATTTTG
* * *
12211999 GACTATCGCAA--CGAATTTGGAATAAATCGCAATGCGAACTTG
1 GACTATCGCAATGCGAACTTGGACT--ATCGCAATGCGAACTTC
* * * * *
12212041 GACTATTGCAATGCGAA-TATGTA-AATCGTAATGCGATA-GTC
1 GACTATCGCAATGCGAACT-TGGACTATCGCAATGCGA-ACTTC
*
12212082 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAGCTTC
1 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTC
* * *
12212124 GACTATCGCAATACGAACTTCGACTATCGCATTGCGA
1 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGA
12212161 TTTACATATT
Statistics
Matches: 98, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
41 31 0.32
42 59 0.60
43 1 0.01
44 7 0.07
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (42 bp):
GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTC
Found at i:12212195 original size:21 final size:21
Alignment explanation
Indices: 12212169--12212243 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
12212159 GATTTACATA
12212169 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
12212190 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
12212211 TTTGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
12212232 TTCGCGTTGCGA
1 TTCGCATTGCGA
12212244 ATCTGGAAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:12213983 original size:15 final size:15
Alignment explanation
Indices: 12213963--12213995 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
12213953 ACATTGGTAC
12213963 TACCCTCAGGTCTAT
1 TACCCTCAGGTCTAT
12213978 TACCCTCAGGTCTAT
1 TACCCTCAGGTCTAT
12213993 TAC
1 TAC
12213996 TTCTCCTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.33
Consensus pattern (15 bp):
TACCCTCAGGTCTAT
Found at i:12215032 original size:18 final size:18
Alignment explanation
Indices: 12215006--12215075 Score: 131
Period size: 18 Copynumber: 3.9 Consensus size: 18
12214996 TTGAGAATTT
12215006 TGTCCCGTAGGACCACTA
1 TGTCCCGTAGGACCACTA
*
12215024 TGACCCGTAGGACCACTA
1 TGTCCCGTAGGACCACTA
12215042 TGTCCCGTAGGACCACTA
1 TGTCCCGTAGGACCACTA
12215060 TGTCCCGTAGGACCAC
1 TGTCCCGTAGGACCAC
12215076 GTAGAACTCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (18 bp):
TGTCCCGTAGGACCACTA
Found at i:12215037 original size:9 final size:10
Alignment explanation
Indices: 12215011--12215079 Score: 51
Period size: 9 Copynumber: 7.5 Consensus size: 10
12215001 AATTTTGTCC
12215011 CGTAGGACCA
1 CGTAGGACCA
*
12215021 C-TATGACC-
1 CGTAGGACCA
12215029 CGTAGGACCA
1 CGTAGGACCA
* *
12215039 C-TATGTCC-
1 CGTAGGACCA
12215047 CGTAGGACCA
1 CGTAGGACCA
* *
12215057 C-TATGTCC-
1 CGTAGGACCA
12215065 CGTAGGACCA
1 CGTAGGACCA
12215075 CGTAG
1 CGTAG
12215080 AACTCTCGTC
Statistics
Matches: 43, Mismatches: 10, Indels: 12
0.66 0.15 0.18
Matches are distributed among these distances:
8 3 0.07
9 32 0.74
10 8 0.19
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.19
Consensus pattern (10 bp):
CGTAGGACCA
Found at i:12216468 original size:21 final size:21
Alignment explanation
Indices: 12216442--12216536 Score: 99
Period size: 21 Copynumber: 4.6 Consensus size: 21
12216432 GTTTCCAGAT
*
12216442 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
12216463 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
12216484 TCGCAATGCGAA-TAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
*
12216504 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
12216525 TCGCAATGCGAA
1 TCGCAATGCGAA
12216537 TATGTAAATC
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
20 17 0.27
21 47 0.73
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:12216508 original size:20 final size:20
Alignment explanation
Indices: 12216483--12216555 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
12216473 AACTTGGACT
12216483 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
12216503 ATCGCAATGCG-ATA-GTCGACT
1 ATCGCAATGCGAATATGT--A-A
12216524 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
12216544 ATCGCAATGCGA
1 ATCGCAATGCGA
12216556 TAGTCGAAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
19 3 0.07
20 24 0.52
21 12 0.26
22 3 0.07
23 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:12216575 original size:21 final size:21
Alignment explanation
Indices: 12216545--12216644 Score: 139
Period size: 21 Copynumber: 4.8 Consensus size: 21
12216535 AATATGTAAA
*
12216545 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
12216566 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
* *
12216587 TCGCGTTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
* *
12216608 TTGCATTGCGATAGTCG-ACT
1 TCGCATTGCGATAGTCGAAGT
12216628 ATCGCATTGCGATAGTC
1 -TCGCATTGCGATAGTC
12216645 CAAAATTGCA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
20 2 0.03
21 68 0.97
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:12216576 original size:41 final size:41
Alignment explanation
Indices: 12216462--12216562 Score: 168
Period size: 41 Copynumber: 2.5 Consensus size: 41
12216452 AACTTCGACT
* *
12216462 ATCGCAATGCGA-ACTTGGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAATATGTAA
12216503 ATCGCAATGCGATAGTCGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATAGTCGACTATCGCAATGCGAATATGTAA
12216544 ATCGCAATGCGATAGTCGA
1 ATCGCAATGCGATAGTCGA
12216563 AGTTCGCATT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
41 56 0.98
42 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (41 bp):
ATCGCAATGCGATAGTCGACTATCGCAATGCGAATATGTAA
Found at i:12216751 original size:6 final size:6
Alignment explanation
Indices: 12216737--12216790 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
12216727 GACACGTATT
*
12216737 ACCAAG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
12216783 ACC-CG ACC
1 ACCACG ACC
12216791 CGAGACGAGA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
5 15 0.32
6 32 0.68
ACGTcount: A:0.31, C:0.52, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:12217579 original size:21 final size:21
Alignment explanation
Indices: 12217443--12217571 Score: 113
Period size: 21 Copynumber: 6.2 Consensus size: 21
12217433 TTTGGAATAA
* * *
12217443 ATCGCAATGTGAACATGGACT
1 ATCGCAATGCGAACTTCGACT
*
12217464 ATCGCAATGCGAA-TAT-GTA-A
1 ATCGCAATGCGAACT-TCG-ACT
* * *
12217484 ATCGCAATACGATA-GTCAACT
1 ATCGCAATGCGA-ACTTCGACT
* *
12217505 ATCGCAATGCAAACTTAGACT
1 ATCGCAATGCGAACTTCGACT
*
12217526 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
12217547 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
12217568 ATCG
1 ATCG
12217572 TATTGCGATT
Statistics
Matches: 86, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
20 15 0.17
21 71 0.83
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:12217598 original size:20 final size:20
Alignment explanation
Indices: 12217573--12217641 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
12217563 CGACTATCGT
12217573 ATTGCGATTTACATATTCGC
1 ATTGCGATTTACATATTCGC
*
12217593 ATTGCGATAGT-CGACTA-TCGC
1 ATTGCGAT-TTAC-A-TATTCGC
*
12217614 ATTGCGATTTACATATTCGT
1 ATTGCGATTTACATATTCGC
12217634 ATTGCGAT
1 ATTGCGAT
12217642 AGTCAAAGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
19 2 0.05
20 22 0.54
21 15 0.37
22 2 0.05
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (20 bp):
ATTGCGATTTACATATTCGC
Found at i:12217607 original size:41 final size:41
Alignment explanation
Indices: 12217562--12217689 Score: 152
Period size: 41 Copynumber: 3.1 Consensus size: 41
12217552 AATGCGAACT
12217562 TCGACTATCGTATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCGTATTGCGATTTACATATTCGCATTGCGATAG
* *
12217603 TCGACTATCGCATTGCGATTTACATATTCGTATTGCGATAG
1 TCGACTATCGTATTGCGATTTACATATTCGCATTGCGATAG
* * * * *
12217644 TCAAAGT-TCGTATTGCGATAGTCCA-AGTTTGCATTGCGATAG
1 TC-GACTATCGTATTGCGAT-TTACATA-TTCGCATTGCGATAG
12217686 TCGA
1 TCGA
12217690 AGTTCGCGTT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 54 0.73
42 20 0.27
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (41 bp):
TCGACTATCGTATTGCGATTTACATATTCGCATTGCGATAG
Found at i:12217615 original size:21 final size:20
Alignment explanation
Indices: 12217541--12217621 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 20
12217531 AACGCGAACT
*
12217541 TCGACTATCGCAATGCGA-A
1 TCGACTATCGCATTGCGATA
*
12217560 CTTCGACTATCGTATTGCGAT-
1 --TCGACTATCGCATTGCGATA
*
12217581 T-TACATATTCGCATTGCGATA
1 TCGAC-TA-TCGCATTGCGATA
12217602 GTCGACTATCGCATTGCGAT
1 -TCGACTATCGCATTGCGAT
12217622 TTACATATTC
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
18 2 0.04
19 3 0.06
20 11 0.22
21 28 0.57
22 3 0.06
23 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (20 bp):
TCGACTATCGCATTGCGATA
Found at i:12217701 original size:21 final size:21
Alignment explanation
Indices: 12217588--12217703 Score: 103
Period size: 21 Copynumber: 5.6 Consensus size: 21
12217578 GATTTACATA
* *
12217588 TTCGCATTGCGATAGTC-GAC
1 TTCGCATTGCGATAGTCAAAG
* *
12217608 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGT-CAAAG
*
12217629 TTCGTATTGCGATAGTCAAAG
1 TTCGCATTGCGATAGTCAAAG
* *
12217650 TTCGTATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCAAAG
* *
12217671 TTTGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCAAAG
*
12217692 TTCGCGTTGCGA
1 TTCGCATTGCGA
12217704 ATCTGGAAAC
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
20 16 0.20
21 63 0.79
22 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCAAAG
Found at i:12219444 original size:15 final size:15
Alignment explanation
Indices: 12219424--12219456 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
12219414 ACATTGGTAC
12219424 TACCCTCAGGTCTAT
1 TACCCTCAGGTCTAT
12219439 TACCCTCAGGTCTAT
1 TACCCTCAGGTCTAT
12219454 TAC
1 TAC
12219457 TTCTCCTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.33
Consensus pattern (15 bp):
TACCCTCAGGTCTAT
Found at i:12224175 original size:44 final size:43
Alignment explanation
Indices: 12224107--12224208 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 43
12224097 TTTGTGCTTA
* * **
12224107 ATGCATCGATACACTTAACAGTGCATCGATGTGTCCCTTTGAAT
1 ATGCATCGATACACATAACAGTGCACCGATG-CACCCTTTGAAT
* *
12224151 ATGCATCGATACACCATAA-GGTGCACCGATGCACTCTTTGAAT
1 ATGCATCGATACA-CATAACAGTGCACCGATGCACCCTTTGAAT
* *
12224194 GTGCATCGATGCACA
1 ATGCATCGATACACA
12224209 AGGCCATGCA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 2 0.04
43 20 0.41
44 23 0.47
45 4 0.08
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (43 bp):
ATGCATCGATACACATAACAGTGCACCGATGCACCCTTTGAAT
Found at i:12224935 original size:862 final size:862
Alignment explanation
Indices: 12223269--12225138 Score: 3553
Period size: 861 Copynumber: 2.2 Consensus size: 862
12223259 AACTCCGGTA
12223269 ATCGATGTGTCCCTTTGAATGTGCATCGATACACCATGAAGGTGAACCGATGCACTCTTTGAATG
1 ATCGATGTGTCCCTTTGAATGTGCATCGATACACCATGAAGGTGAACCGATGCACTCTTTGAATG
*
12223334 TGCATCGATGCACAAGGCCATGCATCGATGCATCGATCAGGTTTTTGGATAAAAACCCTGATTTT
66 TGCATCGATGCACAAGGCCATGCATCGATGCATCGATCGGGTTTTTGGATAAAAACCCTGATTTT
*
12223399 CTTCATTTTCTCAAAATTAGATAGGAAAAACACCTCCGGTATTTGCCAATTCCATAGAAATATGT
131 CTTCATTTTCTCAAAATTAGATAGGAAAAACACATCCGGTATTTGCCAATTCCATAGAAATATGT
12223464 TGATTTCTTGGTTTTCAAAGAAACAAAATTGTGTGGCATTATCTACCACTGAAGCGGAATACATT
196 TGATTTCTTGGTTTTCAAAGAAACAAAATTGTGTGGCATTATCTACCACTGAAGCGGAATACATT
12223529 TCAGCCGGTAGTTGTTGTGCACAAGTTTTATGGATGAAACAACAACTTTTTTATTATAGAATTGA
261 TCAGCCGGTAGTTGTTGTGCACAAGTTTTATGGATGAAACAACAACTTTTTTATTATAGAATTGA
12223594 AGTAGGTACCATTCCTATCAAGTGTGACAATACTAGTGCTATTTGTCTCACTAAAAATCCCATCC
326 AGTAGGTACCATTCCTATCAAGTGTGACAATACTAGTGCTATTTGTCTCACTAAAAATCCCATCC
12223659 AACACTCTAGAACTAAGCATATTGAAATTAGACATCACTTCATTAGAGACCATGTCGCTAAGGAA
391 AACACTCTAGAACTAAGCATATTGAAATTAGACATCACTTCATTAGAGACCATGTCGCTAAGGAA
*
12223724 GATGTAGTTCTAGAATTTGTTGATACTTTGCACCAATTAGAAGATATTTTTACGAAACCTTTAGA
456 GATGTAGTTCTAGAATTTGTTGATACTTTGCACCAATTAGAAGATATTTTTACAAAACCTTTAGA
12223789 TAAAGAAAGATTTTGGACACTTAGGAGAGAATTAGGTTTAACTAGCCTATCTTCACTTAGTGTTT
521 TAAAGAAAGATTTTGGACACTTAGGAGAGAATTAGGTTTAACTAGCCTATCTTCACTTAGTGTTT
12223854 AAATTAATTTTAGCACTTTTAAGAATAAATGAAAAATGCTTATAATAATAATTTTTGATTGCATT
586 AAATTAATTTTAGCACTTTTAAGAATAAATGAAAAATGCTTATAATAATAATTTTTGATTGCATT
12223919 CTTTGCTATTAGTTAGGGGGAGTTTATGTTCTTAGGTGAAAATTAACTTTATGTTCAAATGTAGT
651 CTTTGCTATTAGTTAGGGGGAGTTTATGTTCTTAGGTGAAAATTAACTTTATGTTCAAATGTAGT
*
12223984 TTAAGGATTAATTTGATTGATTGAACATGATTAATTTTCAATATATGAGTTGCCAATACCACTAG
716 TTAAGGATTAATTTGATTGATTGAACACGATTAATTTTCAATATATGAGTTGCCAATACCACTAG
12224049 AGCTAATTAATTTAGCAATTTGAGTGTTTAAAACGGATTTTTGACATTTTTGTGCTTAATGCATC
781 AGCTAATTAATTTAGCAATTTGAGTGTTTAAAACGGATTTTTGACATTTTTGTGCTTAATGCATC
12224114 GATACACTTAACAGTGC
846 GATACACTTAACAGTGC
* *
12224131 ATCGATGTGTCCCTTTGAATATGCATCGATACACCAT-AAGGTGCACCGATGCACTCTTTGAATG
1 ATCGATGTGTCCCTTTGAATGTGCATCGATACACCATGAAGGTGAACCGATGCACTCTTTGAATG
12224195 TGCATCGATGCACAAGGCCATGCATCGATGCATCGATCGGGTTTTTGGATAAAAACCCTGATTTT
66 TGCATCGATGCACAAGGCCATGCATCGATGCATCGATCGGGTTTTTGGATAAAAACCCTGATTTT
* * * *
12224260 CTTCATTTTCTCAAAATTAGATAGGAAAAGCACATCCGGTATTTGTCAATTCCTTGGAAATATGT
131 CTTCATTTTCTCAAAATTAGATAGGAAAAACACATCCGGTATTTGCCAATTCCATAGAAATATGT
12224325 TGATTTCTTGGTTTTCAAAGAAACAAAATTGTGTGGCATTATCTACCACTGAAGCGGAATACATT
196 TGATTTCTTGGTTTTCAAAGAAACAAAATTGTGTGGCATTATCTACCACTGAAGCGGAATACATT
12224390 TCAGCCGGTAGTTGTTGTGCACAAGTTTTATGGATGAAACAACAACTTTTTTATTATAGAATTGA
261 TCAGCCGGTAGTTGTTGTGCACAAGTTTTATGGATGAAACAACAACTTTTTTATTATAGAATTGA
*
12224455 AGTAGGTACCATTCCTATCAAGTGTGACAATACTAGTGTTATTTGTCTCACTAAAAATCCCATCC
326 AGTAGGTACCATTCCTATCAAGTGTGACAATACTAGTGCTATTTGTCTCACTAAAAATCCCATCC
12224520 AACACTCTAGAACTAAGCATATTGAAATTAGACATCACTTCATTAGAGACCATGTCGCTAAGGAA
391 AACACTCTAGAACTAAGCATATTGAAATTAGACATCACTTCATTAGAGACCATGTCGCTAAGGAA
*
12224585 GATGTAGTTCTAGAATTTGTTGATACTTTGCACCAATTAGCAGATATTTTTTACAAAACCTTTAG
456 GATGTAGTTCTAGAATTTGTTGATACTTTGCACCAATTAGAAGATA-TTTTTACAAAACCTTTAG
*
12224650 ATAAAGAAAGATTTTGGACACTTAGGAGAGAATTAGGTTTAACTAGCCTATTTTCACTTAGTGTT
520 ATAAAGAAAGATTTTGGACACTTAGGAGAGAATTAGGTTTAACTAGCCTATCTTCACTTAGTGTT
12224715 TAAATTAATTTTAGCACTTTTAAGAATAAATGAAAAATGCTTATAATAATAATTTTTGATTGCAT
585 TAAATTAATTTTAGCACTTTTAAGAATAAATGAAAAATGCTTATAATAATAATTTTTGATTGCAT
*
12224780 TCTTTGTTATTAGTTAGGGGGAGTTTATGTTCTTAGGTGAAAATTAACTTTATGTTCAAATGTAG
650 TCTTTGCTATTAGTTAGGGGGAGTTTATGTTCTTAGGTGAAAATTAACTTTATGTTCAAATGTAG
12224845 TTTAAGGATTAATTTGATTGATTGAACACGATTAATTTTCAATATATGAGTTGCCAATACCACTA
715 TTTAAGGATTAATTTGATTGATTGAACACGATTAATTTTCAATATATGAGTTGCCAATACCACTA
* *
12224910 GAGCTAATTAATTTAGCATTTTGAGTGTTTAAAATGGATTTTTGACATTTTTGTGCTTAATGCAT
780 GAGCTAATTAATTTAGCAATTTGAGTGTTTAAAACGGATTTTTGACATTTTTGTGCTTAATGCAT
12224975 CGATACACTTAACAGTGC
845 CGATACACTTAACAGTGC
* **
12224993 ATCGATGCGTCCCTTTGAATGTGCATCGATACACCATGAAGGTTTACCGATGCACTCTTTGAATG
1 ATCGATGTGTCCCTTTGAATGTGCATCGATACACCATGAAGGTGAACCGATGCACTCTTTGAATG
12225058 TGCATCGATGCACAAGGCCATGCATCGATGCATCGATCGGGTTTTTGGATAAAAACCCTGATTTT
66 TGCATCGATGCACAAGGCCATGCATCGATGCATCGATCGGGTTTTTGGATAAAAACCCTGATTTT
12225123 CTTCATTTTCTCAAAA
131 CTTCATTTTCTCAAAA
12225139 CTCTTCAAAA
Statistics
Matches: 986, Mismatches: 20, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
861 454 0.46
862 426 0.43
863 106 0.11
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (862 bp):
ATCGATGTGTCCCTTTGAATGTGCATCGATACACCATGAAGGTGAACCGATGCACTCTTTGAATG
TGCATCGATGCACAAGGCCATGCATCGATGCATCGATCGGGTTTTTGGATAAAAACCCTGATTTT
CTTCATTTTCTCAAAATTAGATAGGAAAAACACATCCGGTATTTGCCAATTCCATAGAAATATGT
TGATTTCTTGGTTTTCAAAGAAACAAAATTGTGTGGCATTATCTACCACTGAAGCGGAATACATT
TCAGCCGGTAGTTGTTGTGCACAAGTTTTATGGATGAAACAACAACTTTTTTATTATAGAATTGA
AGTAGGTACCATTCCTATCAAGTGTGACAATACTAGTGCTATTTGTCTCACTAAAAATCCCATCC
AACACTCTAGAACTAAGCATATTGAAATTAGACATCACTTCATTAGAGACCATGTCGCTAAGGAA
GATGTAGTTCTAGAATTTGTTGATACTTTGCACCAATTAGAAGATATTTTTACAAAACCTTTAGA
TAAAGAAAGATTTTGGACACTTAGGAGAGAATTAGGTTTAACTAGCCTATCTTCACTTAGTGTTT
AAATTAATTTTAGCACTTTTAAGAATAAATGAAAAATGCTTATAATAATAATTTTTGATTGCATT
CTTTGCTATTAGTTAGGGGGAGTTTATGTTCTTAGGTGAAAATTAACTTTATGTTCAAATGTAGT
TTAAGGATTAATTTGATTGATTGAACACGATTAATTTTCAATATATGAGTTGCCAATACCACTAG
AGCTAATTAATTTAGCAATTTGAGTGTTTAAAACGGATTTTTGACATTTTTGTGCTTAATGCATC
GATACACTTAACAGTGC
Found at i:12225066 original size:23 final size:22
Alignment explanation
Indices: 12224989--12225070 Score: 67
Period size: 23 Copynumber: 3.6 Consensus size: 22
12224979 ACACTTAACA
*
12224989 GTGCATCGATGCGTCCCTTTGAAT
1 GTGCATCGATGC--ACCTTTGAAT
* * *
12225013 GTGCATCGATACACC-ATGAAG
1 GTGCATCGATGCACCTTTGAAT
** *
12225034 GTTTACCGATGCACTCTTTGAAT
1 GTGCATCGATGCAC-CTTTGAAT
12225057 GTGCATCGATGCAC
1 GTGCATCGATGCAC
12225071 AAGGCCATGC
Statistics
Matches: 43, Mismatches: 13, Indels: 5
0.70 0.21 0.08
Matches are distributed among these distances:
21 14 0.33
22 3 0.07
23 15 0.35
24 11 0.26
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (22 bp):
GTGCATCGATGCACCTTTGAAT
Found at i:12227820 original size:46 final size:46
Alignment explanation
Indices: 12227761--12227883 Score: 210
Period size: 46 Copynumber: 2.7 Consensus size: 46
12227751 GAATAAATTG
* *
12227761 AACATCAAATGCATTTTATGCATCAATGCACTCAGGGTTTTATGAA
1 AACATCGAATGCATTTTATGCATCAATGCACTCAAGGTTTTATGAA
12227807 AACATCGAATGCATTTTATGCATCAATGCACTCAAGGTTTTATGAA
1 AACATCGAATGCATTTTATGCATCAATGCACTCAAGGTTTTATGAA
* *
12227853 AACATCGAATGCATTTGATGCATCGATGCAC
1 AACATCGAATGCATTTTATGCATCAATGCAC
12227884 AAGACATGCA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (46 bp):
AACATCGAATGCATTTTATGCATCAATGCACTCAAGGTTTTATGAA
Found at i:12227826 original size:22 final size:22
Alignment explanation
Indices: 12227798--12227868 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
12227788 GCACTCAGGG
12227798 TTTTATGAAAACATCGAATGCA
1 TTTTATGAAAACATCGAATGCA
* *
12227820 TTTTATGCATCAATGCACTC-AA-G-G
1 TTTTATG-A--AA-ACA-TCGAATGCA
12227844 TTTTATGAAAACATCGAATGCA
1 TTTTATGAAAACATCGAATGCA
12227866 TTT
1 TTT
12227869 GATGCATCGA
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
19 2 0.05
20 4 0.11
21 3 0.08
22 10 0.27
23 2 0.05
24 7 0.19
25 3 0.08
26 4 0.11
27 2 0.05
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (22 bp):
TTTTATGAAAACATCGAATGCA
Done.