Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 60 of 93
Found at i:22770615 original size:88 final size:89
Alignment explanation
Indices: 22770459--22770623 Score: 210
Period size: 88 Copynumber: 1.9 Consensus size: 89
22770449 TAACATGTTT
* * * * *
22770459 GTCTTAATTTAGACAAGAAAACATGTTTGGCCTTAATTTAGATAAGAAAATATGTTTATCTTAAT
1 GTCTTAATCTAGACAAGAAAACATATTTGGCCTCAATTTAAACAAGAAAATATGTTTATCTTAAT
22770524 TT-AAGACAAAATAAATATTTTTA
66 TTAAAGACAAAATAAATATTTTTA
* * *
22770547 GTCTTAATCTAGACAAGAAAACATATTT-GTCTCAATTTAAACAAGGTAAAATATTTTTGTCTT-
1 GTCTTAATCTAGACAAGAAAACATATTTGGCCTCAATTTAAACAA-G-AAAATATGTTTATCTTA
*
22770610 TTTTAAAGACAAAA
64 ATTTAAAGACAAAA
22770624 GTTGTCTTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
87 12 0.18
88 30 0.46
89 23 0.35
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.38
Consensus pattern (89 bp):
GTCTTAATCTAGACAAGAAAACATATTTGGCCTCAATTTAAACAAGAAAATATGTTTATCTTAAT
TTAAAGACAAAATAAATATTTTTA
Found at i:22776392 original size:73 final size:74
Alignment explanation
Indices: 22776222--22776404 Score: 221
Period size: 73 Copynumber: 2.5 Consensus size: 74
22776212 AGACAGAGAA
* * * *
22776222 CTCTTAGTTGACTAACT-TGTTTCTTAGTCAATTAAATTGATTCTGTCTTTTGACCCCAGTTGCA
1 CTCTTAGTCGACTAACTATGTTTCTTAGTCAATTAAGTTGATTCTGTCTTCTGAACCCAGTTGCA
* *
22776286 GAGATTGAG
66 GAGAGTAAG
** * * *
22776295 CTCTTAGTCGACTAA-TATACTTCTTAGTCAATTAAGTTGATTCTGTC-TCTGAATCCAGTTTCT
1 CTCTTAGTCGACTAACTATGTTTCTTAGTCAATTAAGTTGATTCTGTCTTCTGAACCCAGTTGCA
22776358 G-GCAGTAAG
66 GAG-AGTAAG
*
22776367 CTCTTAGTCGACTAACTATGTTTCTTAGTCGATTAAGT
1 CTCTTAGTCGACTAACTATGTTTCTTAGTCAATTAAGT
22776405 CGTCTTTGTT
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
71 1 0.01
72 32 0.34
73 60 0.65
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (74 bp):
CTCTTAGTCGACTAACTATGTTTCTTAGTCAATTAAGTTGATTCTGTCTTCTGAACCCAGTTGCA
GAGAGTAAG
Found at i:22779176 original size:42 final size:42
Alignment explanation
Indices: 22779116--22779198 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
22779106 TGTTGATGTG
*
22779116 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* * *
22779158 GACCCGGTTATGTTCGAGTAGGAGTGCGCATAAGCCGTTGC
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGC
22779199 ATATGAGATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.19, C:0.23, G:0.35, T:0.23
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:22779352 original size:103 final size:103
Alignment explanation
Indices: 22779173--22779410 Score: 449
Period size: 103 Copynumber: 2.3 Consensus size: 103
22779163 GGTTATGTTC
* *
22779173 GAGTAGGAGTGCGCATAAGCCGTTGCATATGAGATGATGATGATTGGAGGGTGTACATGATGATT
1 GAGTGGGAGTGCGCATAAGCCGTTGCATATGAGATGATGATGATGGGAGGGTGTACATGATGATT
22779238 GATATATATATATACATATATGGTATATGGCTGTGTGT
66 GATATATATATATACATATATGGTATATGGCTGTGTGT
22779276 GAGTGGGAGTGCGCATAAGCCGTTGCATATGAGATGATGATGATGGGAGGGTGTACATGATGATT
1 GAGTGGGAGTGCGCATAAGCCGTTGCATATGAGATGATGATGATGGGAGGGTGTACATGATGATT
*
22779341 GATATATATATATATATATATGGTATATGGCTGTGTGT
66 GATATATATATATACATATATGGTATATGGCTGTGTGT
22779379 GAGTGGGAGTGCGCATAAGCCGTTGCATATGA
1 GAGTGGGAGTGCGCATAAGCCGTTGCATATGA
22779411 NTGTGAGAAT
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 132 1.00
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.32
Consensus pattern (103 bp):
GAGTGGGAGTGCGCATAAGCCGTTGCATATGAGATGATGATGATGGGAGGGTGTACATGATGATT
GATATATATATATACATATATGGTATATGGCTGTGTGT
Found at i:22792196 original size:25 final size:25
Alignment explanation
Indices: 22792162--22792213 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
22792152 ATTACTTTCA
22792162 CAAAGGATCTTGGATTTAGTGGAAG
1 CAAAGGATCTTGGATTTAGTGGAAG
*
22792187 CAAAGGATCTTGGATTTAGTGGGAG
1 CAAAGGATCTTGGATTTAGTGGAAG
22792212 CA
1 CA
22792214 TGATGGTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.27
Consensus pattern (25 bp):
CAAAGGATCTTGGATTTAGTGGAAG
Found at i:22792994 original size:249 final size:250
Alignment explanation
Indices: 22792553--22793057 Score: 789
Period size: 249 Copynumber: 2.0 Consensus size: 250
22792543 AAAATTTAAA
* *
22792553 GGACAAGCGACACAACCTGAAGTGACAAAATCATATACATGTATATAAACAAAGTCATATACATC
1 GGACAAGCGACACAACCAGAAGTGACAAAATCATATACATGTATATAAACAAAGTCAAATACATC
* * * * *
22792618 CTATTGAAGGCTCAAATAAAAGGATATTTAGATCATTAGTTTATGGAACTAATAAACGTTTCTAA
66 CTACTGAAGGCTAAAAAAAAAGGATATTTAGATCATTAATTCATGGAACTAATAAACGTTTCTAA
* ** * * *
22792683 ACCTTGTTAACGTAACAATAAAGCCGTACTTATAGAACTGTGTCTCACTAAATCTGAATATAGTA
131 ACATTGTTAACACAACAATAAAGCCATACTTATAGAACTATGTCTCACTAAATCTAAATATAGTA
22792748 ATATGACAAGATGTTATGACATCATAAATATAAAAGCAATTAACCACATTGAAGG
196 ATATGACAAGATGTTATGACATCATAAATATAAAAGCAATTAACCACATTGAAGG
22792803 GGACAAGCGACACAACCAGAAGTGAC-AAATCATATACATGTATATAAACAAAGTCAAATACATC
1 GGACAAGCGACACAACCAGAAGTGACAAAATCATATACATGTATATAAACAAAGTCAAATACATC
22792867 CTACTGAAGGCTAAAAAAAAAGGATATTTAGATCATTAATTCATGGAACTAATAAAC-TATTCTA
66 CTACTGAAGGCTAAAAAAAAAGGATATTTAGATCATTAATTCATGGAACTAATAAACGT-TTCTA
* * * * *
22792931 AACATTGTTAACACAATAATAGAGCCATACTTATTGAACTATGTCTCGCTAGATCTAAATATAGT
130 AACATTGTTAACACAACAATAAAGCCATACTTATAGAACTATGTCTCACTAAATCTAAATATAGT
* * *
22792996 AATATGACAAGATGTTATGACATTATAAATATAAAAGCAGTTAGCCACATTGAAGG
195 AATATGACAAGATGTTATGACATCATAAATATAAAAGCAATTAACCACATTGAAGG
*
22793052 GCACAA
1 GGACAA
22793058 ACAAGACTAC
Statistics
Matches: 232, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
248 1 0.00
249 206 0.89
250 25 0.11
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (250 bp):
GGACAAGCGACACAACCAGAAGTGACAAAATCATATACATGTATATAAACAAAGTCAAATACATC
CTACTGAAGGCTAAAAAAAAAGGATATTTAGATCATTAATTCATGGAACTAATAAACGTTTCTAA
ACATTGTTAACACAACAATAAAGCCATACTTATAGAACTATGTCTCACTAAATCTAAATATAGTA
ATATGACAAGATGTTATGACATCATAAATATAAAAGCAATTAACCACATTGAAGG
Found at i:22797813 original size:68 final size:68
Alignment explanation
Indices: 22797716--22797902 Score: 202
Period size: 67 Copynumber: 2.8 Consensus size: 68
22797706 CTTTTACAAT
* * * *
22797716 GCTCAACCAAAACCTTTTACACT-AGTTTTTCACGGGCTAAACTAAAACCCAAAAATGGTTTTTC
1 GCTCAACCAAAACCTTTCACAATGA-TTTTTCACGGGCTAAACCAAAACCCAAAAATGATTTTTC
22797780 AAAG
65 AAAG
* * * * *
22797784 GCTCAACCACAACCTTTCACAATGATTTTTCACGAGCTTAACCAAAACCC-AAAGTGATTTTTTA
1 GCTCAACCAAAACCTTTCACAATGATTTTTCACGGGCTAAACCAAAACCCAAAAATGATTTTTCA
22797848 AAG
66 AAG
* * * *
22797851 GCTCAACCATAACC-TACAACAATGATTTTT-ACCGGGATCAACCAAAACCCAA
1 GCTCAACCAAAACCTTTC-ACAATGATTTTTCA-CGGGCTAAACCAAAACCCAA
22797903 CAACCAACTT
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
66 3 0.03
67 54 0.53
68 43 0.43
69 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (68 bp):
GCTCAACCAAAACCTTTCACAATGATTTTTCACGGGCTAAACCAAAACCCAAAAATGATTTTTCA
AAG
Found at i:22797877 original size:35 final size:34
Alignment explanation
Indices: 22797750--22797905 Score: 92
Period size: 35 Copynumber: 4.6 Consensus size: 34
22797740 GTTTTTCACG
* * * * *
22797750 GGCTAAACTAAAACC-CAAAAATGGTTTTTCAAA
1 GGCTCAACCAAAACCTCAACAATGATTTTTTAAA
* * *
22797783 GGCTCAACCACAACCTTTC-ACAATGA-TTTTTCAC
1 GGCTCAACCAAAACC--TCAACAATGATTTTTTAAA
* *
22797817 GAGCTTAACCAAAACC-CAA-AGTGATTTTTTAAA
1 G-GCTCAACCAAAACCTCAACAATGATTTTTTAAA
* **
22797850 GGCTCAACCATAACCTACAACAATGA-TTTTTACCG
1 GGCTCAACCAAAACCT-CAACAATGATTTTTTA-AA
*
22797885 GGATCAACCAAAACC-CAACAA
1 GGCTCAACCAAAACCTCAACAA
22797906 CCAACTTTTC
Statistics
Matches: 93, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
32 17 0.18
33 26 0.28
34 15 0.16
35 34 0.37
36 1 0.01
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.24
Consensus pattern (34 bp):
GGCTCAACCAAAACCTCAACAATGATTTTTTAAA
Found at i:22809644 original size:19 final size:20
Alignment explanation
Indices: 22809603--22809644 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
22809593 AATTGATGAA
** *
22809603 TTAGACAATGAAACTTATTT
1 TTAGACAATGAAACGAATGT
22809623 TTAGAC-ATGAAACGAATGT
1 TTAGACAATGAAACGAATGT
22809642 TTA
1 TTA
22809645 TTACTCGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTAGACAATGAAACGAATGT
Found at i:22810966 original size:2 final size:2
Alignment explanation
Indices: 22810959--22811031 Score: 84
Period size: 2 Copynumber: 39.0 Consensus size: 2
22810949 TTATATTGGT
* *
22810959 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA -A CA TN T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
22810998 TA T- TG T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22811032 AATACATAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
1 5 0.08
2 59 0.92
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:22816637 original size:25 final size:24
Alignment explanation
Indices: 22816609--22816655 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
22816599 ATATTCTAGG
*
22816609 GTTTCTTTCTCTCTCTACTTCCATA
1 GTTTCTCTCTCTCTCTA-TTCCATA
22816634 GTTTCTCTCTCTCTCTATTCCA
1 GTTTCTCTCTCTCTCTATTCCA
22816656 CCCACTCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.11, C:0.34, G:0.04, T:0.51
Consensus pattern (24 bp):
GTTTCTCTCTCTCTCTATTCCATA
Found at i:22820482 original size:43 final size:43
Alignment explanation
Indices: 22820381--22820489 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
22820371 TGACTCGGCT
* * * * * **
22820381 ATGTGCAAGTAGGGAATGCCCATAACCCGGTGAGGACTCTGTT
1 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGAGGACCCAGCC
*
22820424 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGAGGACCCAGCC
22820467 ATGTGCGAGTAGGGAGTGCGCAT
1 ATGTGCGAGTAGGGAGTGCGCAT
22820490 GAGCTGGTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.24, C:0.21, G:0.35, T:0.20
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGAGGACCCAGCC
Found at i:22827130 original size:27 final size:26
Alignment explanation
Indices: 22827100--22827151 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
22827090 TCGAAGTATA
*
22827100 AGGGCAAAATC-GTAATTTTTTCGCCCT
1 AGGGC-AAATCGGTAAATTTTT-GCCCT
22827127 AGGGCAAATCGGTAAATTTTTGCCC
1 AGGGCAAATCGGTAAATTTTTGCCC
22827152 CAGCACTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (26 bp):
AGGGCAAATCGGTAAATTTTTGCCCT
Found at i:22827146 original size:26 final size:27
Alignment explanation
Indices: 22827100--22827151 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
22827090 TCGAAGTATA
*
22827100 AGGGCAAAATCGTAATTTTTTCGCCCT
1 AGGGCAAAATCGTAATATTTTCGCCCT
*
22827127 AGGGC-AAATCGGTAA-ATTTTTGCCC
1 AGGGCAAAATC-GTAATATTTTCGCCC
22827152 CAGCACTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (27 bp):
AGGGCAAAATCGTAATATTTTCGCCCT
Found at i:22828470 original size:43 final size:43
Alignment explanation
Indices: 22828409--22828559 Score: 216
Period size: 43 Copynumber: 3.5 Consensus size: 43
22828399 TTGACTCGGC
**
22828409 TATGTGCGAGTAGGGAGTGCGCATAAGTCGAGGATGACCC-GAT
1 TATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCCAG-T
* *
22828452 TATGTGCGAGTAAGGAGTGCGCATAACCCGATGATGACCCAGT
1 TATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCCAGT
*
22828495 TATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGATGACCCAGC
1 TATGTGCGAGTAGGGAGTGCGCATAACCCGAG-GATGACCCAGT
*
22828538 CATGTGCGAGTAGGGAGTGCGC
1 TATGTGCGAGTAGGGAGTGCGC
22828560 TAGTGATGAT
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
43 97 0.99
44 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.36, T:0.20
Consensus pattern (43 bp):
TATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCCAGT
Found at i:22828571 original size:3 final size:3
Alignment explanation
Indices: 22828563--22828618 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
22828553 AGTGCGCTAG
* * *
22828563 TGA TGA TGA TGA TGA -GC TGG TGA TGA TGA TGA TGGA TTGG TGA -GA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T-GA -TGA TGA TGA
22828608 TGA TGA TGA TG
1 TGA TGA TGA TG
22828619 GGTATACACG
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
2 3 0.07
3 37 0.84
4 3 0.07
5 1 0.02
ACGTcount: A:0.27, C:0.02, G:0.39, T:0.32
Consensus pattern (3 bp):
TGA
Found at i:22828587 original size:20 final size:21
Alignment explanation
Indices: 22828562--22828616 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
22828552 GAGTGCGCTA
22828562 GTGATGATGATGATGAG-CTG
1 GTGATGATGATGATGAGACTG
*
22828582 GTGATGATGATGATG-GATTG
1 GTGATGATGATGATGAGACTG
22828602 GTGA-GATGATGATGA
1 GTGATGATGATGATGA
22828617 TGGGTATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 11 0.34
20 21 0.66
ACGTcount: A:0.27, C:0.02, G:0.40, T:0.31
Consensus pattern (21 bp):
GTGATGATGATGATGAGACTG
Found at i:22832805 original size:80 final size:79
Alignment explanation
Indices: 22832670--22832824 Score: 233
Period size: 80 Copynumber: 1.9 Consensus size: 79
22832660 ATCATGTTTT
* * * *
22832670 TGTGCTCCCCCACATGCGCACAACTAATGCCATTATGTGCCTCCCCACATTGCGCACATAGGCAA
1 TGTGCTCCCCCACATGCCCACAACTAATGCCATCATGTGCCTCCCCACATCGCGCACATACGCAA
22832735 TATCATCATCATTG
66 TATCATCATCATTG
22832749 TGTGCTCCCCCACAT-CCCACATAACTAATGCCATCATGTG-CTCCCCCACATCGCGCACATACG
1 TGTGCTCCCCCACATGCCCAC--AACTAATGCCATCATGTGCCT-CCCCACATCGCGCACATACG
22832812 CAATATCATCATC
63 CAATATCATCATC
22832825 CACACTCTCG
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
78 4 0.06
79 17 0.25
80 48 0.70
ACGTcount: A:0.26, C:0.37, G:0.13, T:0.24
Consensus pattern (79 bp):
TGTGCTCCCCCACATGCCCACAACTAATGCCATCATGTGCCTCCCCACATCGCGCACATACGCAA
TATCATCATCATTG
Found at i:22832822 original size:38 final size:37
Alignment explanation
Indices: 22832749--22832823 Score: 91
Period size: 36 Copynumber: 2.0 Consensus size: 37
22832739 ATCATCATTG
* *
22832749 TGTGCTCCCCCACATC-C-CACATAACTAATGCCATCA
1 TGTGCTCCCCCACATCGCGCACAT-ACCAATACCATCA
*
22832785 TGTGCTCCCCCACATCGCGCACATACGCAATATCATCA
1 TGTGCTCCCCCACATCGCGCACATAC-CAATACCATCA
22832823 T
1 T
22832824 CCACACTCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 16 0.48
37 3 0.09
38 14 0.42
ACGTcount: A:0.27, C:0.40, G:0.11, T:0.23
Consensus pattern (37 bp):
TGTGCTCCCCCACATCGCGCACATACCAATACCATCA
Found at i:22843014 original size:55 final size:55
Alignment explanation
Indices: 22842850--22843016 Score: 192
Period size: 55 Copynumber: 3.0 Consensus size: 55
22842840 AGCATGTATA
* * * * * *
22842850 CACCCAACGGTCCTCAACTCATGTGCCCTTCCACACCGCACATAGCTGGATATAGAC
1 CACCCATCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGA-AT-CAC
** * ** * *
22842907 CA-CCATTAGTCATCAGCTCACGTGCACTCCCACACCGCACACGGTTGAAATCAC
1 CACCCATCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCAC
22842961 CACCCATCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCAC
1 CACCCATCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCAC
22843016 C
1 C
22843017 TGTCCTTATC
Statistics
Matches: 89, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
54 4 0.04
55 48 0.54
56 35 0.39
57 2 0.02
ACGTcount: A:0.26, C:0.40, G:0.16, T:0.19
Consensus pattern (55 bp):
CACCCATCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCAC
Found at i:22849067 original size:54 final size:54
Alignment explanation
Indices: 22848985--22849136 Score: 268
Period size: 54 Copynumber: 2.8 Consensus size: 54
22848975 TCATCATGTG
*
22848985 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGAACATCC
* *
22849039 CATCTCACCTAGCTCATGTGCATCCCACCACATTGTGCACATAGCCGAACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGAACATCC
*
22849093 CATCTCACCCAGCTCATGTACATCCCACCACATCGTGCACATAG
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAG
22849137 TTGGACAGTA
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.26, C:0.41, G:0.13, T:0.20
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGAACATCC
Found at i:22851054 original size:66 final size:66
Alignment explanation
Indices: 22850948--22851103 Score: 231
Period size: 66 Copynumber: 2.4 Consensus size: 66
22850938 TTACAATGAT
* * * * * *
22850948 TTTTCGCAGGCTCAGCCAAAACATTTTACATTAGTTTTTCATGGGATCAACTAAAACCCAAAGTG
1 TTTTCGAAGGCTCAACCACAACCTTTTACACTAGTTTTTCACGGGATCAACTAAAACCCAAAGTG
*
22851013 G
66 A
*
22851014 TTTTCGAAGGCTCAACCCCAACCTTTTACACTAGTTTTTCACGGGATCAACTAAAACCCAAAGTG
1 TTTTCGAAGGCTCAACCACAACCTTTTACACTAGTTTTTCACGGGATCAACTAAAACCCAAAGTG
22851079 A
66 A
*
22851080 TTTTCCAAGGCTCAACCACAACCT
1 TTTTCGAAGGCTCAACCACAACCT
22851104 ACAACAATCA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 80 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (66 bp):
TTTTCGAAGGCTCAACCACAACCTTTTACACTAGTTTTTCACGGGATCAACTAAAACCCAAAGTG
A
Found at i:22859983 original size:35 final size:35
Alignment explanation
Indices: 22859944--22860050 Score: 87
Period size: 35 Copynumber: 3.2 Consensus size: 35
22859934 AGGCTCAGCC
22859944 AAAACCTTTTACACTAGTTTTTCACGGGATCAATT
1 AAAACCTTTTACACTAGTTTTTCACGGGATCAATT
* * * * * * * *
22859979 AAAACC---CAAAGTGGTTTTCCA-AGGCTCAATC
1 AAAACCTTTTACACTAGTTTTTCACGGGATCAATT
* * *
22860010 ACAACCTTTTACACTAGTTTTTCACGAGATCAACT
1 AAAACCTTTTACACTAGTTTTTCACGGGATCAATT
22860045 AAAACC
1 AAAACC
22860051 CAAAGTGGTT
Statistics
Matches: 48, Mismatches: 20, Indels: 8
0.63 0.26 0.11
Matches are distributed among these distances:
31 12 0.25
32 10 0.21
34 10 0.21
35 16 0.33
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (35 bp):
AAAACCTTTTACACTAGTTTTTCACGGGATCAATT
Found at i:22860008 original size:31 final size:31
Alignment explanation
Indices: 22859973--22860073 Score: 76
Period size: 31 Copynumber: 3.1 Consensus size: 31
22859963 TTTCACGGGA
22859973 TCAATTAAAACCCAAAGTGGTTTTCCAAGGC
1 TCAATTAAAACCCAAAGTGGTTTTCCAAGGC
* * * * * * * * *
22860004 TCAATCACAACCTTTTACACTAGTTTTTCACGAGA
1 TCAATTAAAACC---CAAAGTGGTTTTCCAAG-GC
*
22860039 TCAACTAAAACCCAAAGTGGTTTTCCAAGGC
1 TCAATTAAAACCCAAAGTGGTTTTCCAAGGC
22860070 TCAA
1 TCAA
22860074 CCACAACTTA
Statistics
Matches: 47, Mismatches: 19, Indels: 8
0.64 0.26 0.11
Matches are distributed among these distances:
31 15 0.32
32 11 0.23
34 11 0.23
35 10 0.21
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.28
Consensus pattern (31 bp):
TCAATTAAAACCCAAAGTGGTTTTCCAAGGC
Found at i:22860016 original size:66 final size:66
Alignment explanation
Indices: 22859934--22860080 Score: 249
Period size: 66 Copynumber: 2.2 Consensus size: 66
22859924 GGCTTTTCGC
* * * *
22859934 AGGCTCAGCCAAAACCTTTTACACTAGTTTTTCACGGGATCAATTAAAACCCAAAGTGGTTTTCC
1 AGGCTCAACCACAACCTTTTACACTAGTTTTTCACGAGATCAACTAAAACCCAAAGTGGTTTTCC
22859999 A
66 A
*
22860000 AGGCTCAATCACAACCTTTTACACTAGTTTTTCACGAGATCAACTAAAACCCAAAGTGGTTTTCC
1 AGGCTCAACCACAACCTTTTACACTAGTTTTTCACGAGATCAACTAAAACCCAAAGTGGTTTTCC
22860065 A
66 A
22860066 AGGCTCAACCACAAC
1 AGGCTCAACCACAAC
22860081 TTACAACAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 75 1.00
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (66 bp):
AGGCTCAACCACAACCTTTTACACTAGTTTTTCACGAGATCAACTAAAACCCAAAGTGGTTTTCC
A
Found at i:22874776 original size:21 final size:21
Alignment explanation
Indices: 22874746--22874793 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
22874736 TGTTAAGTGG
22874746 TTAA-TTTAAGTTATTTTAG-T
1 TTAATTTTAAGTTATTTT-GCT
22874766 TTAATTTTAAGTTATTTTGCT
1 TTAATTTTAAGTTATTTTGCT
22874787 TTAATTT
1 TTAATTT
22874794 ACTTTAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.62
Consensus pattern (21 bp):
TTAATTTTAAGTTATTTTGCT
Found at i:22881453 original size:96 final size:96
Alignment explanation
Indices: 22881329--22881518 Score: 362
Period size: 96 Copynumber: 2.0 Consensus size: 96
22881319 TTCTCTGATG
*
22881329 CATCAGACCCTGAAAATGATAGAGGCTTAAGCTTTAGGAAATCAAAAAGGGAAATCTCTAAATGA
1 CATCAGACCCTGAAAATGATAGAAGCTTAAGCTTTAGGAAATCAAAAAGGGAAATCTCTAAATGA
22881394 CCCCTCTCAACCTCAAAATGTTGGTGATCTA
66 CCCCTCTCAACCTCAAAATGTTGGTGATCTA
*
22881425 CATCAGACCCTGAAAATGATAGAAGCTTAAGCTTTAGGAAATCAAAAAGGGAAATCTCTACATGA
1 CATCAGACCCTGAAAATGATAGAAGCTTAAGCTTTAGGAAATCAAAAAGGGAAATCTCTAAATGA
22881490 CCCCTCTCAACCTCAAAATGTTGGTGATC
66 CCCCTCTCAACCTCAAAATGTTGGTGATC
22881519 GGCCTACCCT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 92 1.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (96 bp):
CATCAGACCCTGAAAATGATAGAAGCTTAAGCTTTAGGAAATCAAAAAGGGAAATCTCTAAATGA
CCCCTCTCAACCTCAAAATGTTGGTGATCTA
Found at i:22887059 original size:37 final size:38
Alignment explanation
Indices: 22887005--22887088 Score: 125
Period size: 37 Copynumber: 2.2 Consensus size: 38
22886995 ACATATACAT
* * *
22887005 ACATCGTCATCATGTGTGCACTCCCTACTTGCACACTC
1 ACATCATCGTCATGTGTGCACTCCCTACTCGCACACTC
22887043 -CATCATCGTCATGTGTGCACTCCCTACTCGCACACTC
1 ACATCATCGTCATGTGTGCACTCCCTACTCGCACACTC
22887080 AACATCATC
1 -ACATCATC
22887089 ACCCAACATC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
37 34 0.83
39 7 0.17
ACGTcount: A:0.23, C:0.38, G:0.12, T:0.27
Consensus pattern (38 bp):
ACATCATCGTCATGTGTGCACTCCCTACTCGCACACTC
Found at i:22887885 original size:3 final size:3
Alignment explanation
Indices: 22887877--22887901 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22887867 AACGTGAAAG
22887877 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
22887902 TAAAAGCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:22888673 original size:37 final size:37
Alignment explanation
Indices: 22888632--22888713 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
22888622 CGATGCAGAA
*
22888632 TCAAATCACACGCACTGCCA-AA-ACAATTGATGAAGGT
1 TCAAATCACACGCAATG-CAGAAGA-AATTGATGAAGGT
* * *
22888669 TCAAATCACACTCAATGTAGAAGAAATTGATGGAGGT
1 TCAAATCACACGCAATGCAGAAGAAATTGATGAAGGT
22888706 TCAAATCA
1 TCAAATCA
22888714 AGTTTAGTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 1 0.03
37 37 0.95
38 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (37 bp):
TCAAATCACACGCAATGCAGAAGAAATTGATGAAGGT
Found at i:22888788 original size:37 final size:37
Alignment explanation
Indices: 22888700--22888788 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 37
22888690 AGAAATTGAT
* * * *
22888700 GGAGGTTCAAATCAAGTTTAGTGTCGAAGTAACTGGC
1 GGAGGTTCAAATCACGTTTAGTGCCGAAGCAACTAGC
* *
22888737 GAAAGTTCAAATCACGTTTAGTGCCGAAGCAACTAGC
1 GGAGGTTCAAATCACGTTTAGTGCCGAAGCAACTAGC
22888774 GGAGGTTCAAATCAC
1 GGAGGTTCAAATCAC
22888789 ACACAAGGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (37 bp):
GGAGGTTCAAATCACGTTTAGTGCCGAAGCAACTAGC
Found at i:22890368 original size:61 final size:59
Alignment explanation
Indices: 22890243--22890422 Score: 141
Period size: 61 Copynumber: 3.0 Consensus size: 59
22890233 ATACATATTT
* * * * * *
22890243 CATAGAATGTTCCTATTTCAAATTTATCGATACATTTTAGACATTGTA-TCACTAGAATTTA
1 CATAGAATGTCCCT-TTTCAAATCTATCGATACA-TTTAGACAATGTATTGA-TAGAAATCA
*
22890304 CATAGAATGCTCCCTTCTTCAAATCTATCGATACATTTGGACAATGTATTGATAGAAATCA
1 CATAGAATG-TCCCTT-TTCAAATCTATCGATACATTTAGACAATGTATTGATAGAAATCA
* * * * * * *
22890365 CATAAAATTTTCCGTAATTCAAATCTATCAATACATTCTTG--AATGTATCGATAGAAAT
1 CATAGAA-TGTCCCT-TTTCAAATCTATCGATACATT-TAGACAATGTATTGATAGAAAT
22890423 TAACAAAATG
Statistics
Matches: 99, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
60 16 0.16
61 57 0.58
62 26 0.26
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.37
Consensus pattern (59 bp):
CATAGAATGTCCCTTTTCAAATCTATCGATACATTTAGACAATGTATTGATAGAAATCA
Found at i:22897817 original size:37 final size:37
Alignment explanation
Indices: 22897767--22897881 Score: 212
Period size: 37 Copynumber: 3.1 Consensus size: 37
22897757 GTTGTGTGAA
*
22897767 GATGTTGAAGTGTGTGAGTAGGGAGTGCACACATGAT
1 GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
*
22897804 GATGTTAAAGTGTGCGAGTAGGGAGTGCACACATGAT
1 GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
22897841 GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
1 GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
22897878 GATG
1 GATG
22897882 AATGCATATG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.28, C:0.10, G:0.37, T:0.25
Consensus pattern (37 bp):
GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
Found at i:22899329 original size:25 final size:25
Alignment explanation
Indices: 22899300--22899352 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
22899290 GTGGTCGCAA
*
22899300 CCACGTATATCAACTCATGGCCTAG
1 CCACGTATATCAACCCATGGCCTAG
*
22899325 CCACGTATATCAACCCATGGCCTTG
1 CCACGTATATCAACCCATGGCCTAG
22899350 CCA
1 CCA
22899353 TATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (25 bp):
CCACGTATATCAACCCATGGCCTAG
Found at i:22899358 original size:25 final size:25
Alignment explanation
Indices: 22899300--22899359 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
22899290 GTGGTCGCAA
* *
22899300 CCACGTATATCAACTCATGGCCTAG
1 CCACATATATCAACCCATGGCCTAG
* *
22899325 CCACGTATATCAACCCATGGCCTTG
1 CCACATATATCAACCCATGGCCTAG
*
22899350 CCATATATAT
1 CCACATATAT
22899360 ATATATCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (25 bp):
CCACATATATCAACCCATGGCCTAG
Found at i:22904497 original size:42 final size:42
Alignment explanation
Indices: 22904408--22904532 Score: 173
Period size: 42 Copynumber: 2.9 Consensus size: 42
22904398 CCACACTTAA
* *
22904408 CTCATGTGCACTCC-CTACTCACACATAGCCGGGTCATCATAAG
1 CTCATGTGCACTCCAC-AC-CGCACATAGCTGGGTCATCATAAG
*
22904451 CTCATGTGCACTCTCACACCGCACAT-GCTGGGTCATCATCAG
1 CTCATGTGCACTC-CACACCGCACATAGCTGGGTCATCATAAG
22904493 CTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCAT
1 CTCATGTGCACT-CCACACCGCACATAGCTGGGTCATCAT
22904533 TATCACACAA
Statistics
Matches: 75, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
42 38 0.51
43 33 0.44
44 3 0.04
45 1 0.01
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
CTCATGTGCACTCCACACCGCACATAGCTGGGTCATCATAAG
Found at i:22905336 original size:6 final size:6
Alignment explanation
Indices: 22905325--22905378 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
22905315 GCCATGCCCA
22905325 CTTTTT CTTTTT C-TTTT -TTTTT CTTTTT CTTTTT C-TTTT C-TTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
22905369 CTTTTC CTTT
1 CTTTTT CTTT
22905379 CTGTTCTTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
5 18 0.41
6 26 0.59
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:22905341 original size:5 final size:5
Alignment explanation
Indices: 22905327--22905395 Score: 70
Period size: 5 Copynumber: 13.6 Consensus size: 5
22905317 CATGCCCACT
*
22905327 TTTTC TTTTTC TTTTT TTTTC TTTTTC TTTTTC TTTTC TTTTC TTTTC
1 TTTTC -TTTTC TTTTC TTTTC -TTTTC -TTTTC TTTTC TTTTC TTTTC
* *
22905375 CTTTC TGTTC -TTTC -TTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTT
22905396 CACCGTTCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
4 7 0.13
5 32 0.58
6 16 0.29
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:22905347 original size:16 final size:16
Alignment explanation
Indices: 22905326--22905373 Score: 80
Period size: 16 Copynumber: 3.0 Consensus size: 16
22905316 CCATGCCCAC
22905326 TTTTTCTTTTTCTTTT
1 TTTTTCTTTTTCTTTT
22905342 TTTTTCTTTTTCTTTT
1 TTTTTCTTTTTCTTTT
22905358 TCTTTTC-TTTTCTTTT
1 T-TTTTCTTTTTCTTTT
22905374 CCTTTCTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 26 0.84
17 5 0.16
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTCTTTTTCTTTT
Found at i:22905350 original size:22 final size:22
Alignment explanation
Indices: 22905325--22905378 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
22905315 GCCATGCCCA
*
22905325 CTTTTTCTTTTTCTTTTTTTTT
1 CTTTTTCTTTTTCTTTTCTTTT
22905347 CTTTTTCTTTTTCTTTTCTTTT
1 CTTTTTCTTTTTCTTTTCTTTT
*
22905369 CTTTTCCTTT
1 CTTTTTCTTT
22905379 CTGTTCTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (22 bp):
CTTTTTCTTTTTCTTTTCTTTT
Found at i:22905378 original size:16 final size:16
Alignment explanation
Indices: 22905327--22905380 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
22905317 CATGCCCACT
*
22905327 TTTTCTTTTTCTTTTT
1 TTTTCTTTTTCTTTTC
22905343 TTTTCTTTTTCTTTTTC
1 TTTTCTTTTTC-TTTTC
22905360 TTTTC-TTTTCTTTTC
1 TTTTCTTTTTCTTTTC
*
22905375 CTTTCT
1 TTTTCT
22905381 GTTCTTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 9 0.26
16 16 0.47
17 9 0.26
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCTTTTTCTTTTC
Found at i:22905614 original size:34 final size:34
Alignment explanation
Indices: 22905551--22905627 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
22905541 CTCATATTGA
*
22905551 CTTC-AAAATCAGCAGCTAAGCTGCTCTATT-TC
1 CTTCAAAAATCAGCAGCTAAGCTGCACTATTCTC
*
22905583 TCTTCAAAAATCAGTAGCTTAA-CTGCACTATTCTC
1 -CTTCAAAAATCAGCAGC-TAAGCTGCACTATTCTC
22905618 CTTCAAAAAT
1 CTTCAAAAAT
22905628 TAACAGCCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
33 4 0.10
34 30 0.77
35 5 0.13
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (34 bp):
CTTCAAAAATCAGCAGCTAAGCTGCACTATTCTC
Found at i:22905746 original size:35 final size:37
Alignment explanation
Indices: 22905663--22905755 Score: 106
Period size: 35 Copynumber: 2.6 Consensus size: 37
22905653 CAACCAAATC
*
22905663 GCACCTTTCAGCCTTCAAAATCAACAACTAAAACCAT
1 GCACCTTTCAGCCTTCAAAATCAACAACTAAAAACAT
* *
22905700 --ACCGTTT-AGCCTTCAAAATCAA-TAGTAAAAAC-T
1 GCACC-TTTCAGCCTTCAAAATCAACAACTAAAAACAT
*
22905733 GCACTTTTCAGCCTTCAAAATCA
1 GCACCTTTCAGCCTTCAAAATCA
22905756 GCAGCAAAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
33 1 0.02
34 10 0.21
35 34 0.71
36 3 0.06
ACGTcount: A:0.39, C:0.28, G:0.08, T:0.26
Consensus pattern (37 bp):
GCACCTTTCAGCCTTCAAAATCAACAACTAAAAACAT
Found at i:22909501 original size:12 final size:13
Alignment explanation
Indices: 22909479--22909550 Score: 50
Period size: 12 Copynumber: 6.0 Consensus size: 13
22909469 GCCGGCATGT
22909479 GAAGAGAAAAAGA
1 GAAGAGAAAAAGA
22909492 GAAG-GAAAAAGA
1 GAAGAGAAAAAGA
*
22909504 CAA-A-AAAGAAGA
1 GAAGAGAAA-AAGA
* * *
22909516 TAAAAGAAAGA-A
1 GAAGAGAAAAAGA
22909528 GAAGA-AAAAAGA
1 GAAGAGAAAAAGA
22909540 GAA-A-AAAAAGA
1 GAAGAGAAAAAGA
22909551 AGAAAAGTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
11 15 0.31
12 24 0.50
13 6 0.12
14 3 0.06
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.01
Consensus pattern (13 bp):
GAAGAGAAAAAGA
Found at i:22909532 original size:10 final size:10
Alignment explanation
Indices: 22909483--22909556 Score: 57
Period size: 10 Copynumber: 7.6 Consensus size: 10
22909473 GCATGTGAAG
22909483 AGAAAAAGAGA
1 AGAAAAA-AGA
*
22909494 AGGAAAAAG-
1 AGAAAAAAGA
*
22909503 ACAAAAAAGA
1 AGAAAAAAGA
*
22909513 AG--ATAA-A
1 AGAAAAAAGA
*
22909520 AGAAAGAAGA
1 AGAAAAAAGA
22909530 AGAAAAAAGA
1 AGAAAAAAGA
*
22909540 GAAAAAAAAGA
1 -AGAAAAAAGA
22909551 AGAAAA
1 AGAAAA
22909557 GTTAAGCCGG
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
7 3 0.06
8 3 0.06
9 10 0.20
10 18 0.37
11 15 0.31
ACGTcount: A:0.76, C:0.01, G:0.22, T:0.01
Consensus pattern (10 bp):
AGAAAAAAGA
Found at i:22909544 original size:24 final size:24
Alignment explanation
Indices: 22909479--22909554 Score: 75
Period size: 24 Copynumber: 3.1 Consensus size: 24
22909469 GCCGGCATGT
*
22909479 GAAGAGAAAAAGAG-AAGGAAA-AA
1 GAAGA-AAAAAGAGAAAAGAAAGAA
* *
22909502 GACAAAAAAGAAGATAAAAGAAAGAA
1 GA-AGAAAA-AAGAGAAAAGAAAGAA
*
22909528 GAAGAAAAAAGAGAAAAAAAAGAA
1 GAAGAAAAAAGAGAAAAGAAAGAA
22909552 GAA
1 GAA
22909555 AAGTTAAGCC
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
23 5 0.12
24 23 0.53
25 11 0.26
26 4 0.09
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.01
Consensus pattern (24 bp):
GAAGAAAAAAGAGAAAAGAAAGAA
Found at i:22909557 original size:36 final size:36
Alignment explanation
Indices: 22909479--22909557 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
22909469 GCCGGCATGT
* *
22909479 GAAGAGAA-AAAGAGAAGGAAAAAGACAAAAAAGAA
1 GAAGAAAAGAAAGAGAAGAAAAAAGACAAAAAAGAA
* *
22909514 G-ATAAAAGAAAGAAGAAGAAAAAAGAGAAAAAA-AA
1 GAAGAAAAGAAAG-AGAAGAAAAAAGACAAAAAAGAA
22909549 GAAGAAAAG
1 GAAGAAAAG
22909558 TTAAGCCGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
34 4 0.11
35 8 0.22
36 24 0.67
ACGTcount: A:0.73, C:0.01, G:0.24, T:0.01
Consensus pattern (36 bp):
GAAGAAAAGAAAGAGAAGAAAAAAGACAAAAAAGAA
Found at i:22909645 original size:4 final size:4
Alignment explanation
Indices: 22909638--22909679 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
22909628 TGAAGAAAAA
*
22909638 AAAG AAAG AAAG AGAAG -AAG AAAG AAAA AAAG AAAAG AAAG A
1 AAAG AAAG AAAG A-AAG AAAG AAAG AAAG AAAG -AAAG AAAG A
22909680 TAGTGGAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 3 0.09
4 23 0.70
5 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:22909663 original size:20 final size:17
Alignment explanation
Indices: 22909630--22909679 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 17
22909620 GGTGCCGGTG
*
22909630 AAGAAAAAAAAGAAAGAA
1 AAGAAAAGAAAGAAA-AA
22909648 AGAGAAGAAGAAAGAAAAA
1 A-AGAA-AAGAAAGAAAAA
22909667 AAGAAAAGAAAGA
1 AAGAAAAGAAAGA
22909680 TAGTGGAGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 8 0.28
18 5 0.17
19 7 0.24
20 9 0.31
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AAGAAAAGAAAGAAAAA
Found at i:22910657 original size:60 final size:59
Alignment explanation
Indices: 22910563--22910743 Score: 263
Period size: 60 Copynumber: 3.0 Consensus size: 59
22910553 ATTTGATTTA
* * *
22910563 AAAAGGGAGACCTAAAGTCCCGATTTATATATGGTGGCGTGGGTAGTTCCCACAAGTAGGT
1 AAAAGGG-GACCTGAAG-CCCGATTTATGTATGGTGGCGTGGGTAGTTCCCACGAGTAGGT
*
22910624 AAAAGGGGACCTGAAGCCCTGATTTATGCATGGTGGCGTGGGTAGTTCCCACGAGTAGGT
1 AAAAGGGGACCTGAAGCCC-GATTTATGTATGGTGGCGTGGGTAGTTCCCACGAGTAGGT
* * *
22910684 AAAAGGAGACTTGAAGCCCCGATTTATGTATGGTGGCATGGGTAGTTCCCACGAGTAGGT
1 AAAAGGGGACCTGAAG-CCCGATTTATGTATGGTGGCGTGGGTAGTTCCCACGAGTAGGT
22910744 GATGATGTCG
Statistics
Matches: 110, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
59 3 0.03
60 97 0.88
61 10 0.09
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (59 bp):
AAAAGGGGACCTGAAGCCCGATTTATGTATGGTGGCGTGGGTAGTTCCCACGAGTAGGT
Found at i:22914189 original size:42 final size:43
Alignment explanation
Indices: 22914121--22914201 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 43
22914111 CACACTCCGT
*
22914121 TCATATGCACTCCCTACTCGCACATAGCT-AGGTCATCATCAGC
1 TCATATGCACTCCCTACACGCACATAGCTGA-GTCATCATCAGC
*
22914164 TCATGTGCACTCCC-ACACGCACATAGCTGAGTCATCAT
1 TCATATGCACTCCCTACACGCACATAGCTGAGTCATCAT
22914202 TATCACACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
42 21 0.60
43 14 0.40
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.25
Consensus pattern (43 bp):
TCATATGCACTCCCTACACGCACATAGCTGAGTCATCATCAGC
Found at i:22938423 original size:19 final size:18
Alignment explanation
Indices: 22938389--22938424 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
22938379 CCACTACAGC
*
22938389 ACCACCAACTAAGGCAAT
1 ACCACCAACAAAGGCAAT
22938407 ACCACCAACCAAAGGCAA
1 ACCACCAA-CAAAGGCAA
22938425 AAAGACTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.47, C:0.36, G:0.11, T:0.06
Consensus pattern (18 bp):
ACCACCAACAAAGGCAAT
Found at i:22938724 original size:22 final size:20
Alignment explanation
Indices: 22938680--22938725 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
22938670 AAAAGAGTAG
**
22938680 AATGGGTGCAGGAACCAAAA
1 AATGGGTGCAGGAAAAAAAA
22938700 AATGGGTGCAGGAATTAAAAAA
1 AATGGGTGCAGGAA--AAAAAA
22938722 AATG
1 AATG
22938726 TTAAGGTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
22 8 0.36
ACGTcount: A:0.48, C:0.09, G:0.28, T:0.15
Consensus pattern (20 bp):
AATGGGTGCAGGAAAAAAAA
Found at i:22954259 original size:15 final size:15
Alignment explanation
Indices: 22954239--22954268 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22954229 TATACTACTA
22954239 CATTGATTTATGTAG
1 CATTGATTTATGTAG
*
22954254 CATTGATTTGTGTAG
1 CATTGATTTATGTAG
22954269 ATGCTAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (15 bp):
CATTGATTTATGTAG
Found at i:22960624 original size:16 final size:17
Alignment explanation
Indices: 22960592--22960624 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22960582 CCTTCACTCG
*
22960592 TATTTTTTTTCATTAAA
1 TATTTTTTTTCAGTAAA
22960609 TATTTTTTTT-AGTAAA
1 TATTTTTTTTCAGTAAA
22960625 GTTTTAACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (17 bp):
TATTTTTTTTCAGTAAA
Found at i:22961554 original size:43 final size:43
Alignment explanation
Indices: 22961465--22961546 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
22961455 AAGACAACCA
*
22961465 CAATTAAAGCAAGCCTAAGTACCGTTGAATTAAGACTAAAGCG
1 CAATTAAAGCAAGCCTAAGTAACGTTGAATTAAGACTAAAGCG
22961508 CAATTAAAGCAAGCCTAAGTAACGTTGAATTAAGACTAA
1 CAATTAAAGCAAGCCTAAGTAACGTTGAATTAAGACTAA
22961547 CTTGCAATCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (43 bp):
CAATTAAAGCAAGCCTAAGTAACGTTGAATTAAGACTAAAGCG
Found at i:22962050 original size:3 final size:3
Alignment explanation
Indices: 22962042--22962070 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
22962032 TAAATAAGAG
22962042 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22962071 TTGAGATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:22964659 original size:19 final size:20
Alignment explanation
Indices: 22964635--22964675 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
22964625 TAAAAATTTT
* *
22964635 AAAAATATAAAA-TAAATAA
1 AAAAATACAAAACAAAATAA
22964654 AAAAATACAAAACAAAATAA
1 AAAAATACAAAACAAAATAA
22964674 AA
1 AA
22964676 TAACAGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAAATACAAAACAAAATAA
Found at i:22966941 original size:32 final size:28
Alignment explanation
Indices: 22966825--22967026 Score: 208
Period size: 28 Copynumber: 7.0 Consensus size: 28
22966815 TGACAACTTT
*
22966825 AACATGTTTTATCTTAATTTAGACAAGAAA
1 AACATG-TTTGTCTTAATTTAGACAA-AAA
*
22966855 AA-ATGTTTGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAAAA
*
22966882 GACATGTTTGTCTTAATTTAGACAAAAA
1 AACATGTTTGTCTTAATTTAGACAAAAA
*
22966910 AACATGTTTGTTTTAATTTAAGACAAAAAAAA
1 AACATGTTTGTCTTAATTT-AGAC---AAAAA
* *
22966942 AATATGTTTTGTCTTAATCTAGACAAAAA
1 AACATG-TTTGTCTTAATTTAGACAAAAA
* * * *
22966971 AACATATTTGTCTCAATTTAGACAAGAT
1 AACATGTTTGTCTTAATTTAGACAAAAA
* * *
22966999 AACATGTTTTGTTTTAATTAAAACAAAA
1 AACATG-TTTGTCTTAATTTAGACAAAA
22967027 GTTATCTTAA
Statistics
Matches: 144, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
27 3 0.02
28 82 0.57
29 32 0.22
30 2 0.01
32 14 0.10
33 11 0.08
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAAAA
Found at i:22966965 original size:61 final size:59
Alignment explanation
Indices: 22966825--22967026 Score: 218
Period size: 61 Copynumber: 3.5 Consensus size: 59
22966815 TGACAACTTT
* *
22966825 AACATGTTTTATCTTAATTTAGACAAGAAAAA-ATGTTTGTCTTAATTTAGAC--AAGAA
1 AACATGTTTTGTCTTAATTTAGACAA-AAAAACATGTTTGTCTTAATTTAGACAAAAAAA
* *
22966882 GACATG-TTTGTCTTAATTTAGACAAAAAAACATGTTTGTTTTAATTTAAGACAAAAAAAA
1 AACATGTTTTGTCTTAATTTAGACAAAAAAACATGTTTGTCTTAATTT-AGAC-AAAAAAA
* * * * * *
22966942 AATATGTTTTGTCTTAATCTAGACAAAAAAACATATTTGTCTCAATTTAGAC--AAGAT
1 AACATGTTTTGTCTTAATTTAGACAAAAAAACATGTTTGTCTTAATTTAGACAAAAAAA
* * *
22966999 AACATGTTTTGTTTTAATTAAAACAAAA
1 AACATGTTTTGTCTTAATTTAGACAAAA
22967027 GTTATCTTAA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
55 5 0.04
56 33 0.27
57 35 0.29
60 12 0.10
61 37 0.30
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (59 bp):
AACATGTTTTGTCTTAATTTAGACAAAAAAACATGTTTGTCTTAATTTAGACAAAAAAA
Found at i:22966965 original size:89 final size:87
Alignment explanation
Indices: 22966852--22967026 Score: 244
Period size: 89 Copynumber: 2.0 Consensus size: 87
22966842 TTTAGACAAG
* * * * *
22966852 AAAAAATGTTTGTCTTAATTTAGACAAGAAGACATGTTTGTCTTAATTTAGACAAAAAAACATG-
1 AAAAAATGTTTGTCTTAATCTAGACAAAAAAACATATTTGTCTCAATTTAGACAAAAAAACATGT
*
22966916 TTTGTTTTAATTTAAGACAAAAA
66 TTTGTTTTAA-TTAAAACAAAAA
* *
22966939 AAAAATATGTTTTGTCTTAATCTAGACAAAAAAACATATTTGTCTCAATTTAGACAAGATAACAT
1 AAAAA-ATG-TTTGTCTTAATCTAGACAAAAAAACATATTTGTCTCAATTTAGACAAAAAAACAT
22967004 GTTTTGTTTTAATTAAAACAAAA
64 GTTTTGTTTTAATTAAAACAAAA
22967027 GTTATCTTAA
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
87 5 0.06
88 3 0.04
89 59 0.77
90 10 0.13
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (87 bp):
AAAAAATGTTTGTCTTAATCTAGACAAAAAAACATATTTGTCTCAATTTAGACAAAAAAACATGT
TTTGTTTTAATTAAAACAAAAA
Found at i:22968408 original size:19 final size:19
Alignment explanation
Indices: 22968360--22968408 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
22968350 AAATTCTAGT
*
22968360 TTTATAAAAAATATTTTTC
1 TTTAAAAAAAATATTTTTC
* *
22968379 TGCT-AATAAAATATTTTTC
1 T-TTAAAAAAAATATTTTTC
22968398 TTTAAAAAAAA
1 TTTAAAAAAAA
22968409 AGGAAAGGGT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
18 1 0.04
19 21 0.91
20 1 0.04
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTAAAAAAAATATTTTTC
Found at i:22969861 original size:20 final size:18
Alignment explanation
Indices: 22969838--22969894 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 18
22969828 ATATGTATGT
22969838 ATACATATAAATACATATAC
1 ATACATAT--ATACATATAC
*
22969858 ATACACATATACATATAC
1 ATACATATATACATATAC
22969876 ATCTACATATATACATATA
1 A--TACATATATACATATA
22969895 TGTGTGTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 11 0.33
20 22 0.67
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.32
Consensus pattern (18 bp):
ATACATATATACATATAC
Found at i:22969894 original size:6 final size:6
Alignment explanation
Indices: 22969837--22969886 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
22969827 TATATGTATG
* *
22969837 TATACA TATA-A -ATACA TATACA TACACA TATACA TATACA TCTACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
22969883 TATA
1 TATA
22969887 TACATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
4 3 0.08
5 2 0.05
6 33 0.87
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (6 bp):
TATACA
Found at i:22969954 original size:2 final size:2
Alignment explanation
Indices: 22969949--22969979 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22969939 CATACATATA
22969949 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
22969980 ATGTATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:22970025 original size:6 final size:6
Alignment explanation
Indices: 22970004--22970152 Score: 54
Period size: 6 Copynumber: 24.7 Consensus size: 6
22969994 ACACATACAC
* * ** **
22970004 ATATGT ATAAGT ATATGT ATATGTGT GTATGT ATATACAC ATATAC ATATGT
1 ATATGT ATATGT ATATGT ATA--TGT ATATGT ATAT--GT ATATGT ATATGT
* * * * * * *
22970056 ATAAGT ATATGT ATATGAT GTATGT ATATG- -CATGT ACATAT ACATAT
1 ATATGT ATATGT ATATG-T ATATGT ATATGT ATATGT ATATGT ATATGT
** ** * *
22970103 ATATAC ATATAC ATATGC ATATAT ATATGT ATATGT ATA--T ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
22970149 ATAT
1 ATAT
22970153 ATGCATGTTA
Statistics
Matches: 114, Mismatches: 20, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
4 7 0.06
6 93 0.82
7 5 0.04
8 9 0.08
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (6 bp):
ATATGT
Found at i:22970039 original size:46 final size:45
Alignment explanation
Indices: 22969989--22970084 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 45
22969979 TATGTATATA
*
22969989 TATATACACATACACATATGTATAAGTATATGTATATGTGTGTATG
1 TATATACACATACACATATGTATAAGTATATGTATATG-ATGTATG
*
22970035 TATATACACATATACATATGTATAAGTATATGTATATGATGTATG
1 TATATACACATACACATATGTATAAGTATATGTATATGATGTATG
22970080 TATAT
1 TATAT
22970085 GCATGTACAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 11 0.23
46 37 0.77
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.41
Consensus pattern (45 bp):
TATATACACATACACATATGTATAAGTATATGTATATGATGTATG
Found at i:22970063 original size:26 final size:26
Alignment explanation
Indices: 22969979--22970065 Score: 71
Period size: 26 Copynumber: 3.6 Consensus size: 26
22969969 TGTGTGTGTG
*
22969979 TATGTATATA-TATATACACATACACA
1 TATGTATA-AGTATATACACATATACA
*
22970005 TATGTATAAGTATAT----GTAT--A
1 TATGTATAAGTATATACACATATACA
* * *
22970025 TGTGTGTATGTATATACACATATACA
1 TATGTATAAGTATATACACATATACA
22970051 TATGTATAAGTATAT
1 TATGTATAAGTATAT
22970066 GTATATGATG
Statistics
Matches: 45, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
20 13 0.29
22 2 0.04
24 3 0.07
25 1 0.02
26 26 0.58
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.40
Consensus pattern (26 bp):
TATGTATAAGTATATACACATATACA
Found at i:22970081 original size:13 final size:14
Alignment explanation
Indices: 22970063--22970091 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22970053 TGTATAAGTA
22970063 TATGTATATG-ATG
1 TATGTATATGCATG
22970076 TATGTATATGCATG
1 TATGTATATGCATG
22970090 TA
1 TA
22970092 CATATACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (14 bp):
TATGTATATGCATG
Found at i:22970115 original size:22 final size:22
Alignment explanation
Indices: 22970080--22970129 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
22970070 ATGATGTATG
* *
22970080 TATATGCATGTACATATACATA
1 TATATACATATACATATACATA
*
22970102 TATATACATATACATATGCATA
1 TATATACATATACATATACATA
22970124 TATATA
1 TATATA
22970130 TGTATATGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (22 bp):
TATATACATATACATATACATA
Found at i:22970135 original size:10 final size:10
Alignment explanation
Indices: 22970031--22970154 Score: 63
Period size: 10 Copynumber: 12.1 Consensus size: 10
22970021 TATATGTGTG
22970031 TATGTATATA
1 TATGTATATA
* ** *
22970041 CACATATACA
1 TATGTATATA
22970051 TATGTATAAGTA
1 TATGTAT-A-TA
22970063 TATGTATATGA
1 TATGTATAT-A
*
22970074 TGTATGTATATG
1 --TATGTATATA
* *
22970086 CATGTACATA
1 TATGTATATA
**
22970096 TACATATATA
1 TATGTATATA
** *
22970106 TACATATACA
1 TATGTATATA
*
22970116 TATGCATATA
1 TATGTATATA
*
22970126 TA--TATGTA
1 TATGTATATA
22970134 TATGTATATA
1 TATGTATATA
22970144 TATGTATATA
1 TATGTATATA
22970154 T
1 T
22970155 GCATGTTATG
Statistics
Matches: 83, Mismatches: 24, Indels: 14
0.69 0.20 0.12
Matches are distributed among these distances:
8 6 0.07
10 57 0.69
11 3 0.04
12 8 0.10
13 9 0.11
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (10 bp):
TATGTATATA
Found at i:22970141 original size:16 final size:16
Alignment explanation
Indices: 22970122--22970152 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22970112 TACATATGCA
22970122 TATATATATGTATATG
1 TATATATATGTATATG
22970138 TATATATATGTATAT
1 TATATATATGTATAT
22970153 ATGCATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (16 bp):
TATATATATGTATATG
Found at i:22970160 original size:22 final size:22
Alignment explanation
Indices: 22970080--22970160 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 22
22970070 ATGATGTATG
*
22970080 TATATGCATGTACATATACATA
1 TATATGCATGTACATATATATA
* *
22970102 TATATACATATACATATGCATATA
1 TATATGCATGTACATAT--ATATA
* * *
22970126 TATATGTATATGTATATATATGTA
1 TATATG--CATGTACATATATATA
22970150 TATATGCATGT
1 TATATGCATGT
22970161 TATGAGGTTC
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
22 19 0.41
24 19 0.41
26 8 0.17
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.42
Consensus pattern (22 bp):
TATATGCATGTACATATATATA
Found at i:22971137 original size:11 final size:12
Alignment explanation
Indices: 22971109--22971143 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
22971099 ATGGTCGGCC
22971109 ATAAG-GAGAAA
1 ATAAGAGAGAAA
22971120 ATAAGAGAGAAA
1 ATAAGAGAGAAA
22971132 AT-AGAGAGAAA
1 ATAAGAGAGAAA
22971143 A
1 A
22971144 GGAAGAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (12 bp):
ATAAGAGAGAAA
Found at i:22984500 original size:2 final size:2
Alignment explanation
Indices: 22984493--22984520 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22984483 TTAAATTCAA
22984493 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
22984521 TCCTTGGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22988284 original size:20 final size:20
Alignment explanation
Indices: 22988239--22988276 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22988229 TTTTGGCCCC
22988239 ATTTGACTTATTAGAGTATA
1 ATTTGACTTATTAGAGTATA
*
22988259 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTAGAGTA
22988277 AGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTAGAGTATA
Found at i:22988360 original size:27 final size:27
Alignment explanation
Indices: 22988330--22988387 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
22988320 TTGGAGTAAA
*
22988330 AGGGTAAAATGGTAATTTTGCCACC-CC
1 AGGGCAAAATGGTAATTTT-CCACCACC
*
22988357 AGGGGCAAAATTGTAATTTTCCACCACC
1 A-GGGCAAAATGGTAATTTTCCACCACC
22988385 AGG
1 AGG
22988388 ACATTTTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (27 bp):
AGGGCAAAATGGTAATTTTCCACCACC
Found at i:22991027 original size:5 final size:5
Alignment explanation
Indices: 22990987--22991026 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
22990977 CCCCAAGTCC
* *
22990987 AGTTA AGTTA AGATA AGTTA AGTTA AGTTA AGTTA GGTTA
1 AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA
22991027 GATTGAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
AGTTA
Found at i:23003649 original size:28 final size:28
Alignment explanation
Indices: 23003592--23003647 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
23003582 TTTCGAGCAT
* *
23003592 AAGGGCAAAATAGTCATTTTGCCACCCC
1 AAGGGCAAAATAGTAATTTTACCACCCC
*
23003620 AAGGGCAAAATGGTAATTTTACACACCC
1 AAGGGCAAAATAGTAATTTTAC-CACCC
23003648 AACACTTGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (28 bp):
AAGGGCAAAATAGTAATTTTACCACCCC
Found at i:23006253 original size:41 final size:41
Alignment explanation
Indices: 23006164--23006326 Score: 158
Period size: 41 Copynumber: 4.0 Consensus size: 41
23006154 GGAGTCATGG
* *
23006164 TGTGCATCCCCCCAACATCGTGAACAAGCAATATCAT--TGCTT
1 TGTGCATCCCCCC-ACATCGTGCACAAGCAATATCATCAT-C-A
* * *
23006206 TATGCATCCCCCCACATCATGCACAAGCGATATCATCATCA
1 TGTGCATCCCCCCACATCGTGCACAAGCAATATCATCATCA
* *
23006247 TGTGCATCCCCCCACATCGTGCAC-AGCTAAT-GC--CATCG
1 TGTGCATCCCCCCACATCGTGCACAAGC-AATATCATCATCA
*
23006285 TGTGCATCCCCCCACATCGTGCACACAGGCAATATCACCATC
1 TGTGCATCCCCCCACATCGTGCACA-A-GCAATATCATCATC
23006327 CATCTCCCTC
Statistics
Matches: 101, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
38 28 0.28
40 8 0.08
41 47 0.47
42 13 0.13
43 5 0.05
ACGTcount: A:0.27, C:0.37, G:0.14, T:0.22
Consensus pattern (41 bp):
TGTGCATCCCCCCACATCGTGCACAAGCAATATCATCATCA
Found at i:23010012 original size:22 final size:22
Alignment explanation
Indices: 23009987--23010030 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
23009977 ACTTCCATCA
23009987 AACACT-TTCTAAGTTTACATGT
1 AACACTATTCTAA-TTTACATGT
*
23010009 AACACTATTCTCATTTACATGT
1 AACACTATTCTAATTTACATGT
23010031 TGCCACCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (22 bp):
AACACTATTCTAATTTACATGT
Found at i:23013312 original size:55 final size:55
Alignment explanation
Indices: 23013224--23013344 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 55
23013214 GTATACCAAC
* * *
23013224 TTTATAGTTCACTTGCTTAATAAAATTAATTAAGCT-TTTTTTGTAGTTTAGCAAT
1 TTTATACTTCACTTGCTTAATAAAATTAATTAAG-TAGTTTTTATAGTTTAGCAAT
* ** *
23013279 TTTATACTTCGCTTGCTT-ATCAAAATTGGTTAAGTAGTTTTTATTGTTTAGCAAT
1 TTTATACTTCACTTGCTTAAT-AAAATTAATTAAGTAGTTTTTATAGTTTAGCAAT
*
23013334 TATATACTTCA
1 TTTATACTTCA
23013345 GTTGTTTTGT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
54 3 0.05
55 52 0.95
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.49
Consensus pattern (55 bp):
TTTATACTTCACTTGCTTAATAAAATTAATTAAGTAGTTTTTATAGTTTAGCAAT
Found at i:23014549 original size:55 final size:55
Alignment explanation
Indices: 23014461--23014565 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
23014451 AGGGTCGGGT
* *
23014461 TTTACATGTTTAACAAAATTGATCAAATCTTTTTTATAGTAT-GACAATTTTATAA
1 TTTACATGCTTAACAAAATTGATCAAAGCTTTTTTATAGTATAG-CAATTTTATAA
* *
23014516 TTTACTTGCTTAACAAAATTGATC-AGGCATTTTTTATAGTATAGCAATTT
1 TTTACATGCTTAACAAAATTGATCAAAGC-TTTTTTATAGTATAGCAATTT
23014566 CATGTAAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
54 2 0.05
55 41 0.93
56 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (55 bp):
TTTACATGCTTAACAAAATTGATCAAAGCTTTTTTATAGTATAGCAATTTTATAA
Found at i:23026692 original size:25 final size:25
Alignment explanation
Indices: 23026664--23026725 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
23026654 CCATTTATTT
*
23026664 TTATTTCCTATTGGGCCATGCCCAC
1 TTATTTTCTATTGGGCCATGCCCAC
* *
23026689 TTATTTTCTATTGGGTCATGCCCAT
1 TTATTTTCTATTGGGCCATGCCCAC
23026714 TTATTTTCTATT
1 TTATTTTCTATT
23026726 TATTTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.16, C:0.23, G:0.13, T:0.48
Consensus pattern (25 bp):
TTATTTTCTATTGGGCCATGCCCAC
Found at i:23026742 original size:11 final size:11
Alignment explanation
Indices: 23026728--23026752 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23026718 TTTCTATTTA
23026728 TTTTCTTTCTT
1 TTTTCTTTCTT
23026739 TTTTCTTTCTT
1 TTTTCTTTCTT
23026750 TTT
1 TTT
23026753 CTCTCTTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTCTTTCTT
Found at i:23026835 original size:22 final size:22
Alignment explanation
Indices: 23026807--23026851 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
23026797 ATCACTCCCC
*
23026807 TCACCACCATGGCTTCCTTTCT
1 TCACCACCATGGCTTCCTCTCT
* *
23026829 TCACCACCGTTGCTTCCTCTCT
1 TCACCACCATGGCTTCCTCTCT
23026851 T
1 T
23026852 TCTTTCCTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.42, G:0.09, T:0.38
Consensus pattern (22 bp):
TCACCACCATGGCTTCCTCTCT
Found at i:23027378 original size:11 final size:11
Alignment explanation
Indices: 23027358--23027399 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
23027348 TCTCCCATGG
23027358 TTTTTCTTTCC
1 TTTTTCTTTCC
*
23027369 TTTTTTTTTCC
1 TTTTTCTTTCC
*
23027380 TTTGTTCTTTGC
1 TTT-TTCTTTCC
23027392 -TTTTCTTT
1 TTTTTCTTT
23027400 TGCTCCCCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 6 0.22
11 15 0.56
12 6 0.22
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.76
Consensus pattern (11 bp):
TTTTTCTTTCC
Found at i:23027652 original size:20 final size:20
Alignment explanation
Indices: 23027627--23027667 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
23027617 TGACTTTTCT
23027627 TCATTCCCATCCAAACCACA
1 TCATTCCCATCCAAACCACA
*
23027647 TCATTCCCATCTAAACCACA
1 TCATTCCCATCCAAACCACA
23027667 T
1 T
23027668 TCACCCCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.24
Consensus pattern (20 bp):
TCATTCCCATCCAAACCACA
Found at i:23027675 original size:20 final size:20
Alignment explanation
Indices: 23027627--23027676 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
23027617 TGACTTTTCT
*
23027627 TCATTCCCATCCAAACCACA
1 TCATCCCCATCCAAACCACA
* *
23027647 TCATTCCCATCTAAACCACA
1 TCATCCCCATCCAAACCACA
23027667 TTCA-CCCCAT
1 -TCATCCCCAT
23027677 TCTTTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 24 0.89
21 3 0.11
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (20 bp):
TCATCCCCATCCAAACCACA
Found at i:23028867 original size:16 final size:17
Alignment explanation
Indices: 23028835--23028867 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23028825 TTCAACATTA
23028835 GTGTCTTTCTCTATTTT
1 GTGTCTTTCTCTATTTT
*
23028852 GTGTTTTTCT-TATTTT
1 GTGTCTTTCTCTATTTT
23028868 CTTTAACTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.70
Consensus pattern (17 bp):
GTGTCTTTCTCTATTTT
Found at i:23030215 original size:35 final size:35
Alignment explanation
Indices: 23030121--23030239 Score: 166
Period size: 35 Copynumber: 3.4 Consensus size: 35
23030111 CTTACTCAGC
***
23030121 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCA
23030156 TCATGTGCACTCCCTACACGCACATTTCAATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCA
* * *
23030191 TGATGTGCACTTCCTACACGCACATTTCAATATAA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCA
**
23030226 TCACATGCACTCCC
1 TCATGTGCACTCCC
23030240 ACCCACGTCA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 74 1.00
ACGTcount: A:0.29, C:0.34, G:0.11, T:0.26
Consensus pattern (35 bp):
TCATGTGCACTCCCTACACGCACATTTCAATATCA
Found at i:23038214 original size:42 final size:41
Alignment explanation
Indices: 23038148--23038257 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 41
23038138 AATGATATTG
** * *
23038148 ACCCGACTATGTGTTAGTAAGAGTGCGCGTAAGCCAATGCTA
1 ACCCGACTATGTG-TAGTGGGAGTGCGCATAAGCCAATGATA
* * *
23038190 ACCCGACTATGTGTGAGTGGGAGTGCGCATAAGTCGATGATG
1 ACCCGACTATGTGT-AGTGGGAGTGCGCATAAGCCAATGATA
* *
23038232 ACCCAACCATGTGCTAGTGGGAGTGC
1 ACCCGACTATGTG-TAGTGGGAGTGC
23038258 ATATGAGCTG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.02
42 55 0.96
43 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (41 bp):
ACCCGACTATGTGTAGTGGGAGTGCGCATAAGCCAATGATA
Found at i:23043553 original size:20 final size:20
Alignment explanation
Indices: 23043528--23043565 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23043518 GGGAAGAAGA
23043528 AGAAGAAGCTGCTGGAAGTG
1 AGAAGAAGCTGCTGGAAGTG
*
23043548 AGAAGAAGGTGCTGGAAG
1 AGAAGAAGCTGCTGGAAG
23043566 AAATTAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.08, G:0.42, T:0.13
Consensus pattern (20 bp):
AGAAGAAGCTGCTGGAAGTG
Found at i:23048115 original size:21 final size:22
Alignment explanation
Indices: 23048090--23048130 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23048080 CCTAGGTGGA
*
23048090 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
23048111 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
23048131 ACAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:23048136 original size:22 final size:21
Alignment explanation
Indices: 23048090--23048136 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
23048080 CCTAGGTGGA
* **
23048090 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGAAAAAGTGAC
23048111 AAAATTCAAGGAAACAAGTGAC
1 AAAATTCAAGGAAA-AAGTGAC
23048133 AAAA
1 AAAA
23048137 GGTAAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.55, C:0.09, G:0.21, T:0.15
Consensus pattern (21 bp):
AAAATTCAAGGAAAAAGTGAC
Found at i:23061934 original size:2 final size:2
Alignment explanation
Indices: 23061927--23061963 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
23061917 TTCACTTAAG
23061927 AT 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 AT A
23061964 NNNNNNNNNN
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23063024 original size:2 final size:2
Alignment explanation
Indices: 23063017--23063071 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
23063007 NNNNNNTGTG
23063017 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23063059 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
23063072 GTCAACACAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23066342 original size:22 final size:22
Alignment explanation
Indices: 23066314--23066365 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
23066304 GATTGGACTT
*
23066314 TAGGCATTGCATGACTCCATAG
1 TAGGCATTGCATGACCCCATAG
** *
23066336 TAGGCATTGTGTGACCCCATAT
1 TAGGCATTGCATGACCCCATAG
23066358 TAGGCATT
1 TAGGCATT
23066366 ATGTGACTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (22 bp):
TAGGCATTGCATGACCCCATAG
Found at i:23066370 original size:22 final size:22
Alignment explanation
Indices: 23066325--23066372 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
23066315 AGGCATTGCA
* *
23066325 TGACTCCATAGTAGGCATTGTG
1 TGACCCCATAGTAGGCATTATG
*
23066347 TGACCCCATATTAGGCATTATG
1 TGACCCCATAGTAGGCATTATG
23066369 TGAC
1 TGAC
23066373 TAGTTATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (22 bp):
TGACCCCATAGTAGGCATTATG
Found at i:23069243 original size:42 final size:42
Alignment explanation
Indices: 23069159--23069243 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
23069149 TCATAAATAG
* *
23069159 GGTCATCACACTGAACATCTTCTAAGACAATAGTTGTAGCAT
1 GGTCATCACACTGAACATCTTCTAAGACAACAATTGTAGCAT
*
23069201 GGTCATCACACTGAACATCTTCTAAGACAACAATTGTGGCAT
1 GGTCATCACACTGAACATCTTCTAAGACAACAATTGTAGCAT
23069243 G
1 G
23069244 TTCTGTACTG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (42 bp):
GGTCATCACACTGAACATCTTCTAAGACAACAATTGTAGCAT
Found at i:23070303 original size:54 final size:54
Alignment explanation
Indices: 23070221--23070331 Score: 204
Period size: 54 Copynumber: 2.1 Consensus size: 54
23070211 CAAACCGCCT
* *
23070221 ATGTCTCGCAATGCCTAAAAACCAGTCACACAATGCCTACAACCTAATCATGTA
1 ATGTCTCGCAATGCCTAAAAACCAGTCACACAATGCCTACAACCCAATCATGCA
23070275 ATGTCTCGCAATGCCTAAAAACCAGTCACACAATGCCTACAACCCAATCATGCA
1 ATGTCTCGCAATGCCTAAAAACCAGTCACACAATGCCTACAACCCAATCATGCA
23070329 ATG
1 ATG
23070332 CCTAAAATCC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.37, C:0.31, G:0.12, T:0.21
Consensus pattern (54 bp):
ATGTCTCGCAATGCCTAAAAACCAGTCACACAATGCCTACAACCCAATCATGCA
Found at i:23070309 original size:22 final size:22
Alignment explanation
Indices: 23070281--23070511 Score: 124
Period size: 22 Copynumber: 10.5 Consensus size: 22
23070271 TGTAATGTCT
23070281 CGCAATGCCTAAAAACCAGTCA
1 CGCAATGCCTAAAAACCAGTCA
* * * *
23070303 CACAATGCCTACAACCCAATCA
1 CGCAATGCCTAAAAACCAGTCA
* * *
23070325 TGCAATGCCTAAAATCCAGTCT
1 CGCAATGCCTAAAAACCAGTCA
* * *
23070347 CGTAATGTCTAAAAACTAGTCA
1 CGCAATGCCTAAAAACCAGTCA
* * * *
23070369 TGTAATGCC-AACAACCCAATCA
1 CGCAATGCCTAA-AAACCAGTCA
*** * *
23070391 AATAATGCCTAAATACCAGTCT
1 CGCAATGCCTAAAAACCAGTCA
* * *
23070413 CGCAATGCCTACAAACTAGTGA
1 CGCAATGCCTAAAAACCAGTCA
* ** *
23070435 CACAATGCCTAAAAACCTTTCT
1 CGCAATGCCTAAAAACCAGTCA
* * *
23070457 C-CTATGCCTAGAAACCAGTGA
1 CGCAATGCCTAAAAACCAGTCA
** * * * *
23070478 TTCAATACTTAAAAACCAATAA
1 CGCAATGCCTAAAAACCAGTCA
23070500 CGCAATGCCTAA
1 CGCAATGCCTAA
23070512 TAACTAATTG
Statistics
Matches: 147, Mismatches: 59, Indels: 6
0.69 0.28 0.03
Matches are distributed among these distances:
21 16 0.11
22 129 0.88
23 2 0.01
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (22 bp):
CGCAATGCCTAAAAACCAGTCA
Found at i:23070360 original size:66 final size:66
Alignment explanation
Indices: 23070277--23070445 Score: 214
Period size: 66 Copynumber: 2.6 Consensus size: 66
23070267 ATCATGTAAT
* **
23070277 GTCTCGCAATGCCTAAAAACCAGTCACACAATGCCTACAACCCAATCATGCAATGCCTAAA-ATC
1 GTCTCGCAATGCCTAAAAACTAGTCACACAATGCCTACAACCCAATCAAACAATGCCTAAATA-C
23070341 CA
65 CA
* * *** * *
23070343 GTCTCGTAATGTCTAAAAACTAGTCATGTAATGCCAACAACCCAATCAAATAATGCCTAAATACC
1 GTCTCGCAATGCCTAAAAACTAGTCACACAATGCCTACAACCCAATCAAACAATGCCTAAATACC
23070408 A
66 A
* *
23070409 GTCTCGCAATGCCTACAAACTAGTGACACAATGCCTA
1 GTCTCGCAATGCCTAAAAACTAGTCACACAATGCCTA
23070446 AAAACCTTTC
Statistics
Matches: 84, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
66 83 0.99
67 1 0.01
ACGTcount: A:0.38, C:0.29, G:0.12, T:0.21
Consensus pattern (66 bp):
GTCTCGCAATGCCTAAAAACTAGTCACACAATGCCTACAACCCAATCAAACAATGCCTAAATACC
A
Found at i:23071601 original size:188 final size:189
Alignment explanation
Indices: 23071256--23071631 Score: 684
Period size: 188 Copynumber: 2.0 Consensus size: 189
23071246 TTAGTTCTAC
23071256 CCTTCAAAAGAATTCATTGACACTTTTGGTTGTCTGTCACTTTTGAAGTAGAAAATTTTCTAAGT
1 CCTTCAAAAGAATTCATTGACACTTTTGGTTGTCTGTCACTTTTGAAGTAGAAAATTTTCTAAGT
*
23071321 CTAGAAGGGGTCAAAATATATTATTTTTATAGAACAATCTTTTGGAAATTAAAAATGGTGATAAT
66 CTAGAAGGGGTCAAAATATATTATTTTTATAGAACAATCTTTTGGAAATAAAAAATGGTGATAAT
23071386 GATTCCCTTGATTTTTAGATGACCAAAAATGATTTTTTTTTTCATAATTTTTTGAGTANA
131 GATTCCCTTGATTTTTAGATGACCAAAAATGATTTTTTTTTTCATAATTTTTTGAGTA-A
* *
23071446 CCTTCAAAAGACTT-ATTGACA-TTTTTGTTGTCTGTCACTTTTGAAGTAGAAAATTTTCTAAGT
1 CCTTCAAAAGAATTCATTGACACTTTTGGTTGTCTGTCACTTTTGAAGTAGAAAATTTTCTAAGT
*
23071509 CTAGAAGGGGTCAAAATATATTATTTTTATAGAACAATCTTTTGGAAATAAAAAATGGTGGTAAT
66 CTAGAAGGGGTCAAAATATATTATTTTTATAGAACAATCTTTTGGAAATAAAAAATGGTGATAAT
*
23071574 GATTCCTTTGATTTTTAGATGACCAAAAATGATTTTTTTTTTCATAATTTTTTGAGTA
131 GATTCCCTTGATTTTTAGATGACCAAAAATGATTTTTTTTTTCATAATTTTTTGAGTA
23071632 CATTTGCTAT
Statistics
Matches: 181, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
188 161 0.89
189 7 0.04
190 13 0.07
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (189 bp):
CCTTCAAAAGAATTCATTGACACTTTTGGTTGTCTGTCACTTTTGAAGTAGAAAATTTTCTAAGT
CTAGAAGGGGTCAAAATATATTATTTTTATAGAACAATCTTTTGGAAATAAAAAATGGTGATAAT
GATTCCCTTGATTTTTAGATGACCAAAAATGATTTTTTTTTTCATAATTTTTTGAGTAA
Found at i:23071741 original size:16 final size:16
Alignment explanation
Indices: 23071706--23071742 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
23071696 GAAACCAAAA
23071706 TTTTAGATTTTGATTC
1 TTTTAGATTTTGATTC
* *
23071722 TTTTGGATTTTGATTT
1 TTTTAGATTTTGATTC
23071738 TTTTA
1 TTTTA
23071743 TAATTTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.16, C:0.03, G:0.14, T:0.68
Consensus pattern (16 bp):
TTTTAGATTTTGATTC
Found at i:23073418 original size:22 final size:21
Alignment explanation
Indices: 23073389--23073430 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
23073379 GGACAAGTGT
*
23073389 ATGGTGAAAATTTGAAAACAA
1 ATGGTGAAAATTTAAAAACAA
*
23073410 ATGGATGAAATTTTAAAAACA
1 ATGG-TGAAAATTTAAAAACA
23073431 GACCAATGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.52, C:0.05, G:0.17, T:0.26
Consensus pattern (21 bp):
ATGGTGAAAATTTAAAAACAA
Found at i:23081682 original size:20 final size:20
Alignment explanation
Indices: 23081665--23081702 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
23081655 CCTCAAATCT
23081665 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
23081685 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
23081703 GGAGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:23083304 original size:20 final size:21
Alignment explanation
Indices: 23083269--23083307 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
23083259 AAAACTAATA
*
23083269 AATAACAATCAAATTAAAAGG
1 AATAACAATAAAATTAAAAGG
23083290 AATAAC-ATAAAATTAAAA
1 AATAACAATAAAATTAAAA
23083308 CAACTCACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.67, C:0.08, G:0.05, T:0.21
Consensus pattern (21 bp):
AATAACAATAAAATTAAAAGG
Found at i:23085750 original size:80 final size:79
Alignment explanation
Indices: 23085666--23085966 Score: 437
Period size: 80 Copynumber: 3.8 Consensus size: 79
23085656 CATACTTAAC
*
23085666 CCATAGTGTATATGACTAT-TTCAACACATACATCTCATGGCATACATTCCATAATCTCATAAAT
1 CCATAGTGTATATGACTATCTT-AACACATACATCTCATGGCATACATTTCATAATCTCATAAAT
23085730 CACTTACATGCTTAG
65 CACTTACATGCTTAG
* *
23085745 TCCATAGTGTATATGACTATCTTAACGCATACATCTCATGGCATACATTTCATAGTCTCATAAAT
1 -CCATAGTGTATATGACTATCTTAACACATACATCTCATGGCATACATTTCATAATCTCATAAAT
*
23085810 CACTTACATGTTTAG
65 CACTTACATGCTTAG
* * *
23085825 CCTATAGTGTATATGACTATCTCAACATATACATCTCATGGCATACATTTCATAACCTCATAAAT
1 CC-ATAGTGTATATGACTATCTTAACACATACATCTCATGGCATACATTTCATAATCTCATAAAT
23085890 CACTTACATGCTTAG
65 CACTTACATGCTTAG
* * *
23085905 CCCATAATGTACATGA-TATGCTTAACACATACATCTCATGGCATACATGTT-ACAATCTCATA
1 -CCATAGTGTATATGACTAT-CTTAACACATACATCTCATGGCATACAT-TTCATAATCTCATA
23085967 GATGGAACTC
Statistics
Matches: 200, Mismatches: 16, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
79 5 0.03
80 189 0.94
81 6 0.03
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.34
Consensus pattern (79 bp):
CCATAGTGTATATGACTATCTTAACACATACATCTCATGGCATACATTTCATAATCTCATAAATC
ACTTACATGCTTAG
Found at i:23087077 original size:21 final size:21
Alignment explanation
Indices: 23087053--23087107 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
23087043 TCTGGGCTAA
23087053 ATGTATCGATACATCATAAAC
1 ATGTATCGATACATCATAAAC
23087074 ATGTATCGATACATCATAAAC
1 ATGTATCGATACATCATAAAC
*
23087095 ATGTATCAATACA
1 ATGTATCGATACA
23087108 ATTGAGACAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATCATAAAC
Found at i:23088690 original size:13 final size:14
Alignment explanation
Indices: 23088664--23088693 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
23088654 TTCCACACTA
23088664 ATGAATGTTTAAAG
1 ATGAATGTTTAAAG
23088678 ATGAATG-TTAAAG
1 ATGAATGTTTAAAG
23088691 ATG
1 ATG
23088694 CTTGCTTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (14 bp):
ATGAATGTTTAAAG
Found at i:23089817 original size:22 final size:22
Alignment explanation
Indices: 23089792--23089849 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
23089782 AAAATTGATG
23089792 CTTACATGACATGTAGCAGTGT
1 CTTACATGACATGTAGCAGTGT
23089814 CTTACATGACATGTAGCAGTGT
1 CTTACATGACATGTAGCAGTGT
*
23089836 CTTACATGATATGT
1 CTTACATGACATGT
23089850 CACACCAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (22 bp):
CTTACATGACATGTAGCAGTGT
Found at i:23090904 original size:2 final size:2
Alignment explanation
Indices: 23090897--23090946 Score: 59
Period size: 2 Copynumber: 25.0 Consensus size: 2
23090887 TGAGAGGTTA
*
23090897 AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT A- AT AT GACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -A-T AT
23090940 A- AT AT AT
1 AT AT AT AT
23090947 GTTAATAGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
1 2 0.05
2 37 0.88
3 2 0.05
4 1 0.02
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:23097878 original size:26 final size:26
Alignment explanation
Indices: 23097822--23097880 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
23097812 GGCCGGCCAT
* *
23097822 AAGGAAAGAACAAGAGAGAAAATAGA
1 AAGGAAAGAACAAAAGAGAAAATACA
* *
23097848 GAGGAAAGGAAGAAAAGAGAAAA-ACA
1 AAGGAAA-GAACAAAAGAGAAAATACA
23097874 AAGGAAA
1 AAGGAAA
23097881 ACTAGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.66, C:0.03, G:0.29, T:0.02
Consensus pattern (26 bp):
AAGGAAAGAACAAAAGAGAAAATACA
Found at i:23104741 original size:22 final size:22
Alignment explanation
Indices: 23104699--23104739 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23104689 ACCTTTCTTT
*
23104699 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
23104721 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
23104740 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:23119970 original size:9 final size:9
Alignment explanation
Indices: 23119956--23119981 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
23119946 CCAGTAGGTG
23119956 GTGGAGGAT
1 GTGGAGGAT
23119965 GTGGAGGAT
1 GTGGAGGAT
23119974 GTGGAGGA
1 GTGGAGGA
23119982 GTCTCGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.58, T:0.19
Consensus pattern (9 bp):
GTGGAGGAT
Found at i:23132431 original size:22 final size:23
Alignment explanation
Indices: 23132392--23132436 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
23132382 TGAACCTTAA
*
23132392 TATATGTTAATATCAAT-ATAAT
1 TATATGGTAATATCAATAATAAT
23132414 TATATGGTAATAAT-AATAATAAT
1 TATATGGTAAT-ATCAATAATAAT
23132437 AATAATGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (23 bp):
TATATGGTAATATCAATAATAAT
Found at i:23133140 original size:68 final size:67
Alignment explanation
Indices: 23133009--23133144 Score: 166
Period size: 68 Copynumber: 2.0 Consensus size: 67
23132999 ATCTAATTGG
* * * *
23133009 TTTTTTTAAATCATATTTTACAATTTAATTGTTGTTTTTATTTTAAAAAAAAGTTTCATAGGTGG
1 TTTTTTGAAATAAGATTTTACAATTTAATTGTTGTTTTTATTTT-AAAAAAAGTTTCACAGGTGG
23133074 CAA
65 CAA
* * **
23133077 TTTTTTGAAATAAGATTTTACCATTTAATTGTTGTTTTTTATTTT-TAAAAAGCTTTTGCAGGTG
1 TTTTTTGAAATAAGATTTTACAATTTAATTGTTG-TTTTTATTTTAAAAAAAG-TTTCACAGGTG
23133141 GCAA
64 GCAA
23133145 GATTCATCTA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
67 6 0.10
68 42 0.72
69 10 0.17
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (67 bp):
TTTTTTGAAATAAGATTTTACAATTTAATTGTTGTTTTTATTTTAAAAAAAGTTTCACAGGTGGC
AA
Found at i:23140850 original size:129 final size:129
Alignment explanation
Indices: 23140617--23140877 Score: 414
Period size: 129 Copynumber: 2.0 Consensus size: 129
23140607 GTGGCCCGAA
****
23140617 CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCTTGGAGGTAAAT
1 CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCCCAAAGGTAAAT
* * *
23140682 ATATAATTGAGTTACCGTGCTCCTCTCATAGGCAGTCCACGGAAACCCCCACCACTGCAGTGAC
66 ATATAATTGAGTTACCGTGCCCCTCTCATAAGCAATCCACGGAAACCCCCACCACTGCAGTGAC
* * * *
23140746 CGTGAGGTGCATTCAAATCTTACCTTAGGAGATACTTCATCCAACATCTCCCCCCAAAGGTAAAT
1 CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCCCAAAGGTAAAT
*
23140811 ATATAATTGGGTTACCGTGCCCCTCTCATAAGCAATCCACGGAAACCCCCACCACTGCAGTGAC
66 ATATAATTGAGTTACCGTGCCCCTCTCATAAGCAATCCACGGAAACCCCCACCACTGCAGTGAC
23140875 CGT
1 CGT
23140878 TTAACATACC
Statistics
Matches: 120, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (129 bp):
CGTGAGGTGCACTCAAATCATACCTCAGGAGATACTTCACCCAACATCTCCCCCCAAAGGTAAAT
ATATAATTGAGTTACCGTGCCCCTCTCATAAGCAATCCACGGAAACCCCCACCACTGCAGTGAC
Found at i:23142341 original size:29 final size:29
Alignment explanation
Indices: 23142280--23142343 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
23142270 GCAAATTTTT
** *
23142280 AAAAATTACACTTTTACCCCGGTAAATTG
1 AAAAATTACACTTTTACCCCGAAAAACTG
*
23142309 AAAAATTACATTTTTACCCC-AAAAACTG
1 AAAAATTACACTTTTACCCCGAAAAACTG
23142337 AAAAATT
1 AAAAATT
23142344 GCCCATAGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCCGAAAAACTG
Done.