Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 143 of 438
Found at i:42794321 original size:25 final size:25
Alignment explanation
Indices: 42794282--42794331 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
42794272 ATGATGGTAC
**
42794282 ATGATATATTGATATTTTGAAATGG
1 ATGATATATTGATATAATGAAATGG
42794307 ATGATATA-TGTATATAATGAAATGG
1 ATGATATATTG-ATATAATGAAATGG
42794332 TAAGATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (25 bp):
ATGATATATTGATATAATGAAATGG
Found at i:42795127 original size:17 final size:16
Alignment explanation
Indices: 42795105--42795136 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
42795095 TTCCAGATTA
42795105 TTGGAAGCTCGATCGGG
1 TTGGAAGCTC-ATCGGG
42795122 TTGGAAGCTCATCGG
1 TTGGAAGCTCATCGG
42795137 AGATTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.25
Consensus pattern (16 bp):
TTGGAAGCTCATCGGG
Found at i:42800244 original size:25 final size:25
Alignment explanation
Indices: 42800214--42800263 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
42800204 ATGATGGTAC
*
42800214 ATGATATAT-TGATATATTGAAATGG
1 ATGATATATGTG-TATAATGAAATGG
42800239 ATGATATATGTGTATAATGAAATGG
1 ATGATATATGTGTATAATGAAATGG
42800264 TAAGATAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.22, T:0.38
Consensus pattern (25 bp):
ATGATATATGTGTATAATGAAATGG
Found at i:42805933 original size:29 final size:28
Alignment explanation
Indices: 42805841--42805943 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
42805831 TACTCAATCA
** *
42805841 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-ACATTCAAGCT
* * * *
42805870 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATACA-TTCAAGCT
42805899 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCATACATT-CAAGCT
* *
42805928 CACACACTCAGTGCCA
1 CGCACACTTAGTGCCA
42805944 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATACATTCAAGCT
Found at i:42827909 original size:28 final size:30
Alignment explanation
Indices: 42827878--42827936 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 30
42827868 TGAAATTGTC
42827878 AATTAGGG-GCTAAAT-TAAGAAA-TGTGAA
1 AATT-GGGTGCTAAATGTAAGAAATTGTGAA
* *
42827906 AATTGGGTGTTAAATGTGAGAAATTGTGAA
1 AATTGGGTGCTAAATGTAAGAAATTGTGAA
42827936 A
1 A
42827937 TATATGGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 3 0.12
28 10 0.38
29 6 0.23
30 7 0.27
ACGTcount: A:0.42, C:0.02, G:0.27, T:0.29
Consensus pattern (30 bp):
AATTGGGTGCTAAATGTAAGAAATTGTGAA
Found at i:42835034 original size:93 final size:93
Alignment explanation
Indices: 42834922--42835093 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
42834912 CGCCCATAAG
*
42834922 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42834987 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGTTCGGATGCCTAGTTACATCTCT
* *
42835015 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42835080 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
42835094 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:42835090 original size:46 final size:46
Alignment explanation
Indices: 42834915--42835090 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
42834905 TGTAACCCGC
* * *
42834915 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
42834961 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
42835011 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
42835054 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
42835091 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 63 0.57
47 29 0.26
49 1 0.01
50 7 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:42837496 original size:15 final size:15
Alignment explanation
Indices: 42837478--42837518 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
42837468 ACAAAAAACC
42837478 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
42837493 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
42837508 GGATAAAGAAA
1 GAATAAAGAAA
42837519 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:42837527 original size:15 final size:15
Alignment explanation
Indices: 42837480--42837527 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
42837470 AAAAAACCGA
42837480 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
42837494 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
42837510 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
42837525 ATA
1 ATA
42837528 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:42840498 original size:46 final size:44
Alignment explanation
Indices: 42840431--42840604 Score: 206
Period size: 46 Copynumber: 3.8 Consensus size: 44
42840421 TGTAACCCGC
*
42840431 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TT-GCAT
* *
42840477 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-CTTGCAT
* *** *
42840523 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGGC-TTGCAT
42840569 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
42840605 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
44 1 0.01
45 30 0.28
46 45 0.42
47 29 0.27
48 2 0.02
49 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTGCAT
Found at i:42840597 original size:92 final size:93
Alignment explanation
Indices: 42840439--42840608 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
42840429 GCCCATAAGT
* *
42840439 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42840504 CGAGTTCGGATGCCTAGTTACATCTCTC
66 CGAGTTCGGATGCCTAGTTACATCTCTC
*
42840532 GAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42840596 CGAGTTCGGATGC
66 CGAGTTCGGATGC
42840609 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 44 0.59
93 30 0.41
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:42843044 original size:29 final size:29
Alignment explanation
Indices: 42843002--42843059 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
42842992 ATCAACAAGT
42843002 ATCATAATACACAAGTGGCATAAGTAAAA
1 ATCATAATACACAAGTGGCATAAGTAAAA
42843031 ATCATAATACACAAGTGGCATAAGTAAAA
1 ATCATAATACACAAGTGGCATAAGTAAAA
42843060 CTTACTCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (29 bp):
ATCATAATACACAAGTGGCATAAGTAAAA
Found at i:42843398 original size:46 final size:46
Alignment explanation
Indices: 42843306--42843472 Score: 175
Period size: 46 Copynumber: 3.6 Consensus size: 46
42843296 GTACCAATGC
* * *
42843306 CATGTCCCAAACATGGTCTTATACT-GAC--ACATCTCATAGCAGATG
1 CATGTCCCAGACATGGTCTTACACTAG-CTTACATCTCA-AGCCGATG
*
42843351 CATGTCCCAGACAT-GTCTTATACTAGCTTACATCTCAAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCAA-GCCGATG
* *
42843397 CATGTCCCAGACAT-GTCTTACACTAGCGCT-CATCTCAATGCCGGTG
1 CATGTCCCAGACATGGTCTTACACTAGC-TTACATCTCAA-GCCGATG
*
42843443 CCATGTCCCAGACATGGTCTTCCACTAGCT
1 -CATGTCCCAGACATGGTCTTACACTAGCT
42843473 CTCATAATGT
Statistics
Matches: 107, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
44 11 0.10
45 15 0.14
46 54 0.50
47 15 0.14
48 12 0.11
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCAAGCCGATG
Found at i:42843477 original size:48 final size:46
Alignment explanation
Indices: 42843347--42843519 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
42843337 TCTCATAGCA
*
42843347 GATGCATGTCCCAGACATGTCTTATACTAGCT-TACATCTCAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAGGCC
* *
42843393 GATGCATGTCCCAGACATGTCTTACACTAGCGCTCATCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCC
* * * ** *
42843439 GGTGCCATGTCCCAGACATGGTCTTCCACTAGCTCTCATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCAAGGCC
* *
42843487 GATGCATATCCTAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
42843520 ACAATAACCC
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
46 58 0.54
47 27 0.25
48 22 0.20
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCC
Found at i:42848991 original size:43 final size:43
Alignment explanation
Indices: 42848930--42849107 Score: 313
Period size: 43 Copynumber: 4.2 Consensus size: 43
42848920 TGTATGCATT
*
42848930 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
42848973 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
42849016 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* **
42849059 C-GTGATATGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
42849101 CGGTGAT
1 CGGTGAT
42849108 TCGAGCAAGG
Statistics
Matches: 130, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
42 39 0.30
43 91 0.70
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (43 bp):
CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:42849106 original size:85 final size:86
Alignment explanation
Indices: 42848930--42849107 Score: 313
Period size: 85 Copynumber: 2.1 Consensus size: 86
42848920 TGTATGCATT
*
42848930 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATTCGGGCCTT
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATTCGGGCCTT
**
42848995 CGTGCCTAGCAGGCTTCGTGC
66 CGTGCCTAGCAGGCTTAATGC
*
42849016 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCC-GTGATATGTATTCGGGTCTT
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATTCGGGCCTT
42849080 CGTGCCTAGCAGGCTTAATGC
66 CGTGCCTAGCAGGCTTAATGC
42849101 CGGTGAT
1 CGGTGAT
42849108 TCGAGCAAGG
Statistics
Matches: 88, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
85 45 0.51
86 43 0.49
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (86 bp):
CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATTCGGGCCTT
CGTGCCTAGCAGGCTTAATGC
Found at i:42849325 original size:29 final size:28
Alignment explanation
Indices: 42849287--42849369 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
42849277 AAATTCCGTT
42849287 AACCGAGCACTATGTGTGCGAGATCAGT-
1 AACCGAGCACTATGTGTGCGAGATC-GTC
** * * *
42849315 AATTGAGGCACTGTGTGTGCGAGTTCTTC
1 AACCGA-GCACTATGTGTGCGAGATCGTC
42849344 AACCGAGCACTATGTGTGCGAGATCG
1 AACCGAGCACTATGTGTGCGAGATCG
42849370 GTGGCACTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
28 22 0.51
29 21 0.49
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (28 bp):
AACCGAGCACTATGTGTGCGAGATCGTC
Found at i:42852828 original size:48 final size:48
Alignment explanation
Indices: 42852757--42852862 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
42852747 CAAGATTAAT
* * *
42852757 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
42852805 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
42852853 ATGTGTATAT
1 ATATGTATAT
42852863 ATTGTGGCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:42853046 original size:37 final size:37
Alignment explanation
Indices: 42852996--42853067 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
42852986 GAAATATATT
*
42852996 CCGGGTAAGACCCGATGGCTACGTGTAGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTAGAGATTATGC
* *
42853033 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTAGAGATTAT
42853068 TCGAGCTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTAGAGATTATGC
Found at i:42858918 original size:46 final size:46
Alignment explanation
Indices: 42858868--42858996 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
42858858 TGGTTGAGCA
*
42858868 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
42858914 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * **
42858960 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42858997 GCGGGTTACA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:42863492 original size:49 final size:49
Alignment explanation
Indices: 42863432--42863736 Score: 465
Period size: 49 Copynumber: 6.3 Consensus size: 49
42863422 GTATGAGATA
42863432 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
42863481 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
42863530 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
42863579 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
42863628 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * * * *
42863675 TATATATGTGATAGGGCCGAGTGGCCAAAGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
42863722 TATAAATGTGATAAG
1 TATATATGTGATAAG
42863737 TCCCGAAGGG
Statistics
Matches: 241, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 56 0.23
49 185 0.77
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:42865928 original size:40 final size:40
Alignment explanation
Indices: 42865862--42866146 Score: 426
Period size: 40 Copynumber: 7.1 Consensus size: 40
42865852 GAGAATTGAG
* * *
42865862 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
*
42865902 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
*
42865942 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
*
42865982 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
* *
42866022 AGTGATGTATCCGGGCTAGGTCCCGAAGAGAATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
* * *
42866062 AGTGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
* ** *
42866102 AGTGATGTATCCGTGCTAAACCCCGAAGAGCAATCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
*
42866142 GGTGA
1 AGTGA
42866147 CGTGTATTCG
Statistics
Matches: 223, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
Found at i:42869806 original size:49 final size:49
Alignment explanation
Indices: 42869740--42870144 Score: 647
Period size: 49 Copynumber: 8.3 Consensus size: 49
42869730 ATGTATGAGA
*
42869740 TATATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
42869789 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42869838 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
42869887 TGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42869936 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
42869985 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAGGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42870034 TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
42870083 --TATATATGTGATAGGGCCGAGTGGCCAAAGTGATGGATGTGGAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
42870130 TATA-A-ATGTGATAAG
1 TATATATATGTGATAAG
42870145 TCCCGAAGGG
Statistics
Matches: 337, Mismatches: 17, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
47 50 0.15
48 1 0.00
49 286 0.85
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:42874860 original size:26 final size:25
Alignment explanation
Indices: 42874824--42874894 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 25
42874814 AGGAAGTGCA
*
42874824 AAAAGGGCTTTTGCCCCAGTTTACC
1 AAAAGGGCTTTTGCCCCAATTTACC
*
42874849 GAAAAGGGCTTTTGCCCCAATTTATC
1 -AAAAGGGCTTTTGCCCCAATTTACC
*
42874875 AAAAGGGC-TGTGCCCCAATT
1 AAAAGGGCTTTTGCCCCAATT
42874895 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
24 11 0.26
25 8 0.19
26 23 0.55
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAATTTACC
Found at i:42875149 original size:31 final size:31
Alignment explanation
Indices: 42875114--42875177 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
42875104 CGTTTACAGT
42875114 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* * **
42875145 AAAGGCTTCGTCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
42875176 AA
1 AA
42875178 TATGAAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:42877165 original size:14 final size:14
Alignment explanation
Indices: 42877146--42877173 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42877136 ATTCGATGAG
42877146 TTAGAAGAAACTAT
1 TTAGAAGAAACTAT
42877160 TTAGAAGAAACTAT
1 TTAGAAGAAACTAT
42877174 GAGTGAGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (14 bp):
TTAGAAGAAACTAT
Found at i:42878466 original size:50 final size:51
Alignment explanation
Indices: 42878391--42878527 Score: 170
Period size: 50 Copynumber: 2.7 Consensus size: 51
42878381 TATGGATGAA
* *
42878391 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGAGTAC-CAGAT-GG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGAGTACTC-GATAGC
* * *
42878441 TTAGGTCACATGTGTATTACTAAGTGCAGGCTACTATGCGTACTCGATAGC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGAGTACTCGATAGC
* * * *
42878492 TTCGATCACATGTGTGGTACTAAGTGCAGGCCACTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
42878528 TGTGTAAGAG
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
50 42 0.56
51 33 0.44
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (51 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGAGTACTCGATAGC
Found at i:42878517 original size:51 final size:50
Alignment explanation
Indices: 42878391--42878573 Score: 170
Period size: 51 Copynumber: 3.6 Consensus size: 50
42878381 TATGGATGAA
* * * *
42878391 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATGG
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATGC
* * *
42878441 TTAGGTCACATGTGTATTACTAAGTGCAGGCTACTATGCGTACTC-GATAGC
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGAGTAC-CAGAT-GC
* * * * ** *
42878492 TTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATGGT
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGAT-GC
* * * *
42878543 TTTGATCACAAGTGTAGTACTATGTGAAGGC
1 TTAGATCACATGTGTAGTACTAAGTGCAGGC
42878574 CACTTTGTGA
Statistics
Matches: 110, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
50 42 0.38
51 68 0.62
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATGC
Found at i:42878598 original size:51 final size:51
Alignment explanation
Indices: 42878458--42878627 Score: 155
Period size: 51 Copynumber: 3.3 Consensus size: 51
42878448 ACATGTGTAT
* * * *** * *
42878458 TACTAAGTGCAGGCTACTATGCGTACTCGATAGCTTCGATCACATGTGTGG
1 TACTATGTGCAGGCCACTATGTGTAAGAGATAGCTTTGATCACAAGTGTGG
* * * *
42878509 TACTAAGTGCAGGCCACTATGTGTAAGAGATGGTTTTGATCACAAGTGTAG
1 TACTATGTGCAGGCCACTATGTGTAAGAGATAGCTTTGATCACAAGTGTGG
* * * *
42878560 TACTATGTGAAGGCCACTTTGTG-AAGAAGGTAGCTTTGA-CTACAAGGGTGG
1 TACTATGTGCAGGCCACTATGTGTAAG-AGATAGCTTTGATC-ACAAGTGTGG
*
42878611 TACCATGTGCAGGCCAC
1 TACTATGTGCAGGCCAC
42878628 CGAGTATCCG
Statistics
Matches: 97, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
50 4 0.04
51 93 0.96
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (51 bp):
TACTATGTGCAGGCCACTATGTGTAAGAGATAGCTTTGATCACAAGTGTGG
Found at i:42890871 original size:54 final size:54
Alignment explanation
Indices: 42890698--42890935 Score: 282
Period size: 54 Copynumber: 4.4 Consensus size: 54
42890688 CATGTAGTGA
* * ** *
42890698 CATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGTTATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGTCTTGG
** *
42890751 CATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGA
1 CATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATGCCATGTCTTGG
* * * * * *
42890806 CATGGTCTTACATGATTTCCTTACCTTATAAAACTTATCGATGCCATGTATTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGTCTTGG
* * * *
42890860 CATGGTCTTACATGGTTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGTCTTGG
42890914 CATGGTCTTACATGATATCCTT
1 CATGGTCTTACATGATATCCTT
42890936 ATCTTACCAA
Statistics
Matches: 158, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
52 2 0.01
53 25 0.16
54 88 0.56
55 41 0.26
56 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (54 bp):
CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGTCTTGG
Found at i:42890900 original size:108 final size:107
Alignment explanation
Indices: 42890660--42890941 Score: 314
Period size: 108 Copynumber: 2.6 Consensus size: 107
42890650 TTACTCGGGA
* * * * * ** * *
42890660 ACCTTTTCCTTTTTGAACTTACCATTGCCATGTAGTGACATGGTCTTACATGGTATCCTTGCCTT
1 ACCTTTGCCTTATAGAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTT
* ** *
42890725 ATGAACTCACCAATGTTATGCCTTGGCATGGTCTTACATGGG
66 ATAAACTCACCAATGCCATGCATTGGCATGGTCTTACATGGG
* *
42890767 ACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCT
1 ACCTTTGCCTTATAG-AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCT
* * * * *
42890832 TATAAAACTTATCGATGCCATGTATTGGCATGGTCTTACATGGTT
65 TAT-AAACTCACCAATGCCATGCATTGGCATGGTCTTACATGG-G
* * * *
42890877 TCC-TTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTT
1 ACCTTTGCCTTATAGAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTT
42890941 A
66 A
42890942 CCAAATGCCA
Statistics
Matches: 146, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
107 12 0.08
108 90 0.62
109 42 0.29
110 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (107 bp):
ACCTTTGCCTTATAGAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTT
ATAAACTCACCAATGCCATGCATTGGCATGGTCTTACATGGG
Found at i:42890972 original size:47 final size:47
Alignment explanation
Indices: 42890914--42891035 Score: 192
Period size: 47 Copynumber: 2.6 Consensus size: 47
42890904 CATGCCTTGG
42890914 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
42890961 CATGGTTTTACATTG-TATCCTTTTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACA-TGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
42891008 CATGGTCTTACATGATATACTTGTCTTA
1 CATGGTCTTACATGATATCCTTATCTTA
42891036 GTGCCAATGC
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
46 2 0.03
47 64 0.94
48 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:42893472 original size:55 final size:54
Alignment explanation
Indices: 42893413--42893549 Score: 168
Period size: 55 Copynumber: 2.5 Consensus size: 54
42893403 AACTTACCAT
42893413 TGCCATGCCTTGGCATGGTCTTACATG-GGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGAGGACC-TTGCCTTATAG-AACTCATCAA
* * * *** *
42893468 TGCCATGTCTTGACATGATCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGAGGACCTTGCCTTATAGAACTCATCAA
* *
42893522 TGCTATGCCTTGGCATGGACTTACATGA
1 TGCCATGCCTTGGCATGGTCTTACATGA
42893550 TATCATTATC
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
54 32 0.46
55 35 0.51
56 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (54 bp):
TGCCATGCCTTGGCATGGTCTTACATGAGGACCTTGCCTTATAGAACTCATCAA
Found at i:42893548 original size:54 final size:55
Alignment explanation
Indices: 42893388--42893550 Score: 170
Period size: 54 Copynumber: 3.0 Consensus size: 55
42893378 TTACTTGGGA
* * * * * * *
42893388 ACCTTTTCCTTTTTGAACTTACCATTGCCATGCCTTGGCATGGTCTTACATG-GG
1 ACCTTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGACTTACATGATG
* * * *
42893442 ACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACAT-GATCTTACATGATT
1 ACCTTTGCCTTATAG-AACTTATCAATGCCATGCCTTGGCATGGA-CTTACATGATG
* *
42893498 TCC-TTGCCTTATAGAACTTATCAATGCTATGCCTTGGCATGGACTTACATGAT
1 ACCTTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGACTTACATGAT
42893551 ATCATTATCT
Statistics
Matches: 89, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
54 45 0.51
55 42 0.47
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (55 bp):
ACCTTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGACTTACATGATG
Found at i:42895824 original size:19 final size:18
Alignment explanation
Indices: 42895785--42895827 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
42895775 CTTTATTATG
42895785 TTTTTGTATTGCAGCATA
1 TTTTTGTATTGCAGCATA
*
42895803 TTTTATGTATTGTAGC-TGA
1 TTTT-TGTATTGCAGCAT-A
42895822 TTTTTG
1 TTTTTG
42895828 AATCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.56
Consensus pattern (18 bp):
TTTTTGTATTGCAGCATA
Found at i:42899929 original size:99 final size:96
Alignment explanation
Indices: 42899752--42899933 Score: 260
Period size: 99 Copynumber: 1.9 Consensus size: 96
42899742 AGGGCATGAT
* * **
42899752 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCGTCCATCAAGTTGATGCCATGTCCCAG
1 GCCGATGCCACGTTCCAGACATGGTCTTACACTAGCTCGTCCATCAAGTCAATGCCATGTCCCAG
42899817 ACATGGTCTTACACTGACTATTGAAATTGAG
66 ACATGGTCTTACACTGACTATTGAAATTGAG
*
42899848 GCCGATGCCACG-TCTCAGACATGGTCTTACACTAGCTC-TCACATATCCATGTCAATGCCATGT
1 GCCGATGCCACGTTC-CAGACATGGTCTTACACTAGCTCGTC-C--AT-CAAGTCAATGCCATGT
42899911 CCCAGACATGGTCTTACACTGAC
61 CCCAGACATGGTCTTACACTGAC
42899934 AATCTCATAG
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
95 4 0.05
96 34 0.45
98 2 0.03
99 36 0.47
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (96 bp):
GCCGATGCCACGTTCCAGACATGGTCTTACACTAGCTCGTCCATCAAGTCAATGCCATGTCCCAG
ACATGGTCTTACACTGACTATTGAAATTGAG
Found at i:42900001 original size:46 final size:43
Alignment explanation
Indices: 42899900--42900019 Score: 141
Period size: 46 Copynumber: 2.7 Consensus size: 43
42899890 ATATCCATGT
42899900 CAATGCCATGTCCCAGACATGGTCTTACACTGACAATCTCATAGC
1 CAATG-CATGTCCCAGACAT-GTCTTACACTGACAATCTCATAGC
* * * *
42899945 CAATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTCCTGGC
1 CAATGCATGTCCCAGACATGTCTTACACTGAC--A-ATCTCATAGC
* *
42899991 CGATGCATGTCCCAGACATATCTTACACT
1 CAATGCATGTCCCAGACATGTCTTACACT
42900020 AGCTCTTGTC
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
43 12 0.18
44 13 0.20
45 6 0.09
46 34 0.52
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.27
Consensus pattern (43 bp):
CAATGCATGTCCCAGACATGTCTTACACTGACAATCTCATAGC
Found at i:42900071 original size:94 final size:94
Alignment explanation
Indices: 42899752--42900119 Score: 275
Period size: 94 Copynumber: 3.9 Consensus size: 94
42899742 AGGGCATGAT
* ** *
42899752 GCCGATGCCATGTTCC-AGACATGGTCTTACACTGGCTCGT-C-CAT-CAAGTTGATGCCATGTC
1 GCCGATGCCATG-TCCTAGACATGGTCTTACACTGGCTC-TACATATCCTGGTCGATG-CATGTC
* *
42899813 CCAGACATGGTCTTACACT-G-ACTAT-TGAAATTGA
63 CCAGACAT-GTCTTACACTAGCACAATCT--CA-T-A
* * *
42899847 GGCCGATGCCACGT-CTCAGACATGGTCTTACACTAGCTCTCACATATCCAT-GTCAATGCCATG
1 -GCCGATGCCATGTCCT-AGACATGGTCTTACACTGGCTCT-ACATATCC-TGGTCGATG-CATG
42899910 TCCCAGACATGGTCTTACACT-G-ACAATCTCATA
61 TCCCAGACAT-GTCTTACACTAGCACAATCTCATA
* * * * *
42899943 GCCAATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACATCTCCTGGCCGATGCATGTCCCA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACATATCCTGGTCGATGCATGTCCCA
* * **
42900005 GACATATCTTACACTAGCTCTTGTCTCAATA
66 GACATGTCTTACACTAGCAC-AATCTC-ATA
*
42900036 -CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGTCGATGCATGTCCC
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACAT-ATCCTGGTCGATGCATGTCCC
* *
42900098 AGACACGTCTTAGACTAGCACA
65 AGACATGTCTTACACTAGCACA
42900120 CAAATAACCC
Statistics
Matches: 223, Mismatches: 31, Indels: 39
0.76 0.11 0.13
Matches are distributed among these distances:
89 9 0.04
90 16 0.07
91 13 0.06
92 10 0.04
93 28 0.13
94 60 0.27
95 11 0.05
96 33 0.15
97 2 0.01
98 3 0.01
99 37 0.17
100 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (94 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACATATCCTGGTCGATGCATGTCCCA
GACATGTCTTACACTAGCACAATCTCATA
Found at i:42906352 original size:2 final size:2
Alignment explanation
Indices: 42906345--42906372 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
42906335 TTTATTCTTC
42906345 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
42906373 TCTCACCACA
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:42910966 original size:46 final size:44
Alignment explanation
Indices: 42910894--42911068 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 44
42910884 TGTAACCCGC
*
42910894 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAG-TC-GGACGTT-GCAT
* *
42910940 CCATGAGTGAACTCAGACTCAACTCAACGAGTTCGGTACCTAGTTACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAG-TCGG-A-C--GTTGCAT
* *
42910989 -C-TCA-TGAACTCAGACTCAACTCAACGAGTCCGGACATTTGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGT-CGGAC-GTTGCAT
*
42911032 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAG-TCGGA
42911069 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 6 0.05
46 85 0.77
47 3 0.03
48 2 0.02
49 3 0.03
50 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTCGGACGTTGCAT
Found at i:42913473 original size:15 final size:14
Alignment explanation
Indices: 42913438--42913481 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
42913428 AAGAAAACAG
42913438 AATAAAGAAATCCA
1 AATAAAGAAATCCA
*
42913452 AATAAAGAGATCCA
1 AATAAAGAAATCCA
* *
42913466 GGATAAAGAAACCCA
1 -AATAAAGAAATCCA
42913481 A
1 A
42913482 GATACGATAC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.11
Consensus pattern (14 bp):
AATAAAGAAATCCA
Found at i:42913485 original size:15 final size:15
Alignment explanation
Indices: 42913439--42913485 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
42913429 AGAAAACAGA
42913439 ATAAAGAAATCCAA-
1 ATAAAGAAATCCAAG
* *
42913453 ATAAAGAGATCCAGG
1 ATAAAGAAATCCAAG
*
42913468 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
42913483 ATA
1 ATA
42913486 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.57, C:0.15, G:0.15, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:42916553 original size:46 final size:46
Alignment explanation
Indices: 42916388--42916563 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
42916378 TGTAACCCGC
* * * ***
42916388 CCATAACTGAACTCGGACTCAACTCAATGAGCTCGGGTGTTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
* * *
42916434 CCATGAGTGAACTCGGACTCAACTCAGCGAGTTCGGATACCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--A-C-ATTTACAT
* * *
42916484 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
*
42916527 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
42916564 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 3 0.03
46 59 0.56
47 27 0.25
48 2 0.02
49 1 0.01
50 6 0.06
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
Found at i:42916560 original size:93 final size:93
Alignment explanation
Indices: 42916396--42916564 Score: 257
Period size: 93 Copynumber: 1.8 Consensus size: 93
42916386 GCCCATAACT
* *** * *
42916396 GAACTCGGACTCAACTCAATGAGCTCGGGTGTTTACATCCATGAGTGAACTCGGACTCAACTCAG
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTACATCCATAAGTGAACTCGGACTCAACTCAA
*
42916461 CGAGTTCGGATACCTAGTTACATCTCAC
66 CAAGTTCGGATACCTAGTTACATCTCAC
* *
42916489 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTACATCCATAAGTGAACTCGGACTCAACTCAA
42916554 CAAGTTCGGAT
66 CAAGTTCGGAT
42916565 GCTCAACCAT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTTACATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATACCTAGTTACATCTCAC
Found at i:42923737 original size:40 final size:40
Alignment explanation
Indices: 42923653--42923834 Score: 165
Period size: 40 Copynumber: 4.5 Consensus size: 40
42923643 ACATTCAAAT
* * * *
42923653 GCCTTCGGGACATAGCCCGG-TTACAGTAACTTGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAAA
* * *
42923693 GCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCGAAA
1 GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAAA
* * *
42923733 GCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTAT
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAAA
* ** * *
42923773 GCCGTC-GGATCTTATTCCGGATTTAGTCACTTAGCAC-AAA
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACGAAA
42923813 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
42923835 ATCATTCGAA
Statistics
Matches: 116, Mismatches: 22, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 103 0.89
41 10 0.09
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAAA
Found at i:42931669 original size:40 final size:40
Alignment explanation
Indices: 42931624--42931808 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
42931614 TACACATTCA
* *
42931624 AATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACG
* * *
42931664 AATGCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCG
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
* *
42931704 AAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACG
* * ** * *
42931744 TATGCCGTC-GGATCTTATTCCGGATTTAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACG
*
42931784 AAAGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAT
42931809 ATCATTCGAA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 107 0.89
41 10 0.08
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
Found at i:42931788 original size:80 final size:80
Alignment explanation
Indices: 42931627--42931808 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
42931617 ACATTCAAAT
* * *
42931627 GCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTT
1 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTTAACCCGGATTT
* *
42931691 AGTAGCTCGCTCGAAA
65 AGTAGCTAGCACGAAA
* * **
42931707 GCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTATTCCGGATT
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTTAACCCGGATT
42931770 TAGTCA-CTTAGCAC-AAA
64 TAGT-AGC-TAGCACGAAA
42931787 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
42931809 ATCATTCGAA
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
79 6 0.07
80 70 0.81
81 10 0.12
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTTAACCCGGATTTA
GTAGCTAGCACGAAA
Found at i:42935861 original size:25 final size:25
Alignment explanation
Indices: 42935822--42935871 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
42935812 ATGATGGTAC
**
42935822 ATGATATATTGATATTTTGAAATGG
1 ATGATATATTGATATAATGAAATGG
42935847 ATGATATA-TGTATATAATGAAATGG
1 ATGATATATTG-ATATAATGAAATGG
42935872 TAAGATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (25 bp):
ATGATATATTGATATAATGAAATGG
Found at i:42936666 original size:17 final size:16
Alignment explanation
Indices: 42936644--42936675 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
42936634 TTCCAGATTA
42936644 TTGGAAGCTCGATCGGG
1 TTGGAAGCTC-ATCGGG
42936661 TTGGAAGCTCATCGG
1 TTGGAAGCTCATCGG
42936676 AGATTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.25
Consensus pattern (16 bp):
TTGGAAGCTCATCGGG
Found at i:42936721 original size:13 final size:13
Alignment explanation
Indices: 42936705--42936730 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42936695 AGCGATTAAA
42936705 TCAATAGATTTTG
1 TCAATAGATTTTG
42936718 TCAATAGATTTTG
1 TCAATAGATTTTG
42936731 ATATCTTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TCAATAGATTTTG
Found at i:42941930 original size:25 final size:25
Alignment explanation
Indices: 42941890--42941939 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
42941880 ATGATGGTAC
*
42941890 ATGATATATTGATATATTGAAATGG
1 ATGATATATTGATATAATGAAATGG
*
42941915 ATGATATATGTG-TATAATGCAATGG
1 ATGATATAT-TGATATAATGAAATGG
42941940 TAAGATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (25 bp):
ATGATATATTGATATAATGAAATGG
Found at i:42945258 original size:81 final size:82
Alignment explanation
Indices: 42945168--42945341 Score: 298
Period size: 81 Copynumber: 2.1 Consensus size: 82
42945158 CGGGCATCGT
* *
42945168 GCCTAGCAGGCTTCTTGCCAGTGAATAAATATCAGACTTTGGGTCTAGCAGGCCTTTTG-CAGTG
1 GCCTAGCAGGCTTCTTGCCAGTGAATAAATATCAGACCTTGGGTCTAGCAGGCCTTGTGCCAGTG
*
42945232 AATGATTTAGGCTAAAA-
66 AATGATTCAGGC-AAAAG
42945249 GCCTAGCAGGCTTCTTGCCAGTGAATAAATATCAGACCTTGGGTCTAGCAGGCCTTGTGCCAGTG
1 GCCTAGCAGGCTTCTTGCCAGTGAATAAATATCAGACCTTGGGTCTAGCAGGCCTTGTGCCAGTG
42945314 AATGATTCAGGCAAAAG
66 AATGATTCAGGCAAAAG
42945331 GCCTAGCAGGC
1 GCCTAGCAGGC
42945342 CTTGAGCTGG
Statistics
Matches: 88, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
81 61 0.69
82 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (82 bp):
GCCTAGCAGGCTTCTTGCCAGTGAATAAATATCAGACCTTGGGTCTAGCAGGCCTTGTGCCAGTG
AATGATTCAGGCAAAAG
Found at i:42945300 original size:42 final size:42
Alignment explanation
Indices: 42945170--42945316 Score: 144
Period size: 42 Copynumber: 3.6 Consensus size: 42
42945160 GGCATCGTGC
*
42945170 CTAGCAGG-CTTCTTGCCAGTGAATAAATATCAGACTTTGGGT
1 CTAGCAGGCCTT-TTGCCAGTGAATAAATATCAGACCTTGGGT
* * * *** *
42945212 CTAGCAGGCCTTTTG-CAGTGAAT-GAT-TTAG-GCTAAAAGC
1 CTAGCAGGCCTTTTGCCAGTGAATAAATATCAGACCT-TGGGT
42945251 CTAGCAGG-CTTCTTGCCAGTGAATAAATATCAGACCTTGGGT
1 CTAGCAGGCCTT-TTGCCAGTGAATAAATATCAGACCTTGGGT
*
42945293 CTAGCAGGCCTTGTGCCAGTGAAT
1 CTAGCAGGCCTTTTGCCAGTGAAT
42945317 GATTCAGGCA
Statistics
Matches: 81, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
38 4 0.05
39 15 0.19
40 10 0.12
41 10 0.12
42 34 0.42
43 8 0.10
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (42 bp):
CTAGCAGGCCTTTTGCCAGTGAATAAATATCAGACCTTGGGT
Found at i:42945343 original size:40 final size:40
Alignment explanation
Indices: 42945212--42945345 Score: 121
Period size: 40 Copynumber: 3.3 Consensus size: 40
42945202 GACTTTGGGT
* *
42945212 CTAGCAGGCCTTTTG-CAGTGAATGATTTAGGCTAAAA-GC
1 CTAGCAGGCCTTGTGCCAGTGAATGATTCAGGC-AAAAGGC
* * * **** *
42945251 CTAGCAGG-CTTCTTGCCAGTGAATAAATATCAGACCTTGGGT
1 CTAGCAGGCCTT-GTGCCAGTGAAT-GAT-TCAGGCAAAAGGC
42945293 CTAGCAGGCCTTGTGCCAGTGAATGATTCAGGCAAAAGGC
1 CTAGCAGGCCTTGTGCCAGTGAATGATTCAGGCAAAAGGC
42945333 CTAGCAGGCCTTG
1 CTAGCAGGCCTTG
42945346 AGCTGGTGAG
Statistics
Matches: 73, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
38 3 0.04
39 11 0.15
40 28 0.38
41 4 0.05
42 24 0.33
43 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CTAGCAGGCCTTGTGCCAGTGAATGATTCAGGCAAAAGGC
Found at i:42951992 original size:40 final size:39
Alignment explanation
Indices: 42951802--42951992 Score: 161
Period size: 40 Copynumber: 4.8 Consensus size: 39
42951792 GGATATAACG
* ** * **
42951802 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
42951842 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
42951882 ACTTGCACAATGCCTTCGGG-CTTAGCCTGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
42951920 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATATAGTA
* *
42951960 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
42951993 CATCATTCGA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
38 23 0.19
39 21 0.17
40 69 0.57
41 8 0.07
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:42977781 original size:48 final size:46
Alignment explanation
Indices: 42977651--42977823 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
42977641 TCTCGTAGCA
*
42977651 GATGCATGTCCCAGACATGTCTTATACTAGCT-TACATCTCAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAGGCC
* * *
42977697 GATGCATGTCCCAGACATGTCTTACACTAGCGCTCATCTCAATGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCC
* * ** *
42977743 GGTGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCAAGGCC
* *
42977791 GATGCATATCCTAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
42977824 ACAATAACCC
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
46 58 0.54
47 27 0.25
48 22 0.20
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCC
Found at i:42980508 original size:37 final size:37
Alignment explanation
Indices: 42980458--42980548 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
42980448 TTATTACGAA
42980458 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
42980495 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
42980532 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
42980549 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:42980647 original size:48 final size:48
Alignment explanation
Indices: 42980588--42980787 Score: 364
Period size: 48 Copynumber: 4.2 Consensus size: 48
42980578 TGTTACAACA
*
42980588 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
42980636 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
42980684 TTCACATTAGCCCTTCGGCTTTACCACATATACTTATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
42980732 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
42980780 TTCACATT
1 TTCACATT
42980788 CATCACATCG
Statistics
Matches: 146, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 146 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:42980802 original size:57 final size:57
Alignment explanation
Indices: 42980741--42981185 Score: 242
Period size: 49 Copynumber: 8.4 Consensus size: 57
42980731 TTTCACATTA
* * *
42980741 GCCATTCGGCTTTACCACATATACATATCACACATATGTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATATCACACATATGTTTCACATTCATCACATCG
* * * * **
42980798 GCCATTAGGCCTTATCACATATATAGGCT-TTACCACATATACATATCACACATATGTTTCACAT
1 GCCATTAGGCCTTATCACATATACA---TATCA-CACATAT--GT-T-TCACAT-T-CATCACAT
**
42980862 TA
56 CG
* * *
42980864 GCCATTCGGCTTTACCACATATACATATCACACATATGTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATATCACACATATGTTTCACATTCATCACATCG
*
42980921 GCCATTAGGCCTTATCACATAT--ATAT-ACAC-----CTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATATCACACATATGTTTCACATTCATCACATCG
*** * * *
42980970 GCCATTAGGCCTTATCACATAT--ATACTCTTTCACA---TT--CA-TCA-CA-TTG-
1 GCCATTAGGCCTTATCACATATACATA-TCACACATATGTTTCACATTCATCACATCG
* *
42981017 GCCATTAGGCCTTATCACATGT--ATAT-ACAC-----TTTC-CATTCATCACATTG
1 GCCATTAGGCCTTATCACATATACATATCACACATATGTTTCACATTCATCACATCG
*
42981065 GCCATTAGGCCTTATCACATAT--ATAT-ACAC-----TTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATACATATCACACATATGTTTCACATTCATCACATCG
*
42981114 GCCATTAGGCCTTATCACATAT--ATAT-ACAC-----TTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATACATATCACACATATGTTTCACATTCATCACATCG
*
42981163 GCCATTAGGCCGTATCACATATA
1 GCCATTAGGCCTTATCACATATA
42981186 TACATCTCAT
Statistics
Matches: 325, Mismatches: 39, Indels: 55
0.78 0.09 0.13
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 4 0.01
46 3 0.01
47 25 0.08
48 34 0.10
49 129 0.40
50 4 0.01
51 3 0.01
53 2 0.01
54 4 0.01
55 4 0.01
57 46 0.14
58 1 0.00
59 7 0.02
60 9 0.03
61 1 0.00
62 1 0.00
63 9 0.03
64 7 0.02
65 1 0.00
66 27 0.08
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (57 bp):
GCCATTAGGCCTTATCACATATACATATCACACATATGTTTCACATTCATCACATCG
Found at i:42980834 original size:18 final size:18
Alignment explanation
Indices: 42980803--42980838 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
42980793 CATCGGCCAT
*
42980803 TAGGCCTTATCACATATA
1 TAGGCCTTACCACATATA
*
42980821 TAGGCTTTACCACATATA
1 TAGGCCTTACCACATATA
42980839 CATATCACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
TAGGCCTTACCACATATA
Found at i:42980845 original size:123 final size:123
Alignment explanation
Indices: 42980700--42980945 Score: 474
Period size: 123 Copynumber: 2.0 Consensus size: 123
42980690 TTAGCCCTTC
*
42980700 GGCTTTACCACATATACTTATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
42980765 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
42980823 GGCTTTACCACATATACATATCACACATATGTTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
42980888 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
42980946 TACACCTTCA
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 121 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.33
Consensus pattern (123 bp):
GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:42980958 original size:49 final size:49
Alignment explanation
Indices: 42980902--42981187 Score: 497
Period size: 49 Copynumber: 5.9 Consensus size: 49
42980892 CACACATATG
*
42980902 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
42980951 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
42980998 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
42981047 TTTC-CATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
42981095 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
42981144 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
42981188 CATCTCATAC
Statistics
Matches: 226, Mismatches: 8, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
47 44 0.19
48 47 0.21
49 135 0.60
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:42981004 original size:219 final size:216
Alignment explanation
Indices: 42980604--42981041 Score: 521
Period size: 219 Copynumber: 2.0 Consensus size: 216
42980594 TTAGCCATTC
42980604 GGCTTTACCACACATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACACATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
* * * * *
42980669 ATATCACACATATATTTCACATTAGCCCTTCGGCTTTACCACATATACTTATCACACATATATTT
66 ATATCACACATATATTTCACATTAGCACATCGGCATTACCACATATAC-TATCACACATACACTT
* *
42980734 CACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGTTTCACATTCATCACATCGG
130 CACATTAGCCATTCGGCATTACCACATATACATATCACAC--ATCTTTCACATTCATCACATCGG
42980799 CCATTAGGCCTTATCACATATATA
193 CCATTAGGCCTTATCACATATATA
* *
42980823 GGCTTTACCACATATACATATCACACATATGTTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACACATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
* * * * * *
42980888 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGC-CTTATCAC-AT-ATATATACA
66 ATATCACACATATATTTCACATT-AGCACATCGG-CATTA-CCACATAT-ACTATCACACATACA
* * * *
42980950 CCTTCACATTCATCACA-TCGGCCATTAGGC-CTTATCACATAT-ATAC-TCTTTCACATTCATC
127 -CTTCACATT-AGC-CATTCGG-CATTA-CCACATAT-ACATATCACACATCTTTCACATTCATC
* *
42981011 ACATTGGCCATTAGGCCTTATCACATGTATA
186 ACATCGGCCATTAGGCCTTATCACATATATA
42981042 TACACTTTCC
Statistics
Matches: 188, Mismatches: 21, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
219 134 0.71
220 17 0.09
221 14 0.07
222 16 0.09
223 7 0.04
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (216 bp):
GGCTTTACCACACATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ATATCACACATATATTTCACATTAGCACATCGGCATTACCACATATACTATCACACATACACTTC
ACATTAGCCATTCGGCATTACCACATATACATATCACACATCTTTCACATTCATCACATCGGCCA
TTAGGCCTTATCACATATATA
Found at i:42981055 original size:144 final size:146
Alignment explanation
Indices: 42980902--42981187 Score: 495
Period size: 144 Copynumber: 2.0 Consensus size: 146
42980892 CACACATATG
42980902 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
* *
42980967 TCGGCCATTAGGCCTTATCAC-ATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTA
66 TCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATTGGCCATTAGGCCGTA
*
42981031 TCACATGTATATACAC
131 TCACATATATATACAC
* *
42981047 TTTC-CATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
42981111 TTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCGT
66 TCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCGT
42981176 ATCACATATATA
130 ATCACATATATA
42981188 CATCTCATAC
Statistics
Matches: 133, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
144 78 0.59
145 4 0.03
146 51 0.38
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (146 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATTGGCCATTAGGCCGTA
TCACATATATATACAC
Found at i:42985119 original size:40 final size:40
Alignment explanation
Indices: 42984964--42985106 Score: 245
Period size: 40 Copynumber: 3.6 Consensus size: 40
42984954 CCAGCATGAT
* *
42984964 TGCTCTTCGG-ACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
42985003 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
42985043 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
42985083 TGCTCTTCGGAATTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
42985107 TAACCACAAG
Statistics
Matches: 100, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
39 17 0.17
40 83 0.83
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:42985119 original size:80 final size:79
Alignment explanation
Indices: 42984962--42985131 Score: 238
Period size: 80 Copynumber: 2.2 Consensus size: 79
42984952 CACCAGCATG
42984962 ATTGCTCTTCGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
1 ATTGCTCTTCGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
* * *
42985027 ACATCACTAGCACGA
66 AAACCACAAGCAC-A
* * *
42985042 A-TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAATTTAG-CCGGA
1 ATTGCTCTTCGG-ACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGA
42985105 TATAACCACAAGCACA
65 TA-AACCACAAGCACA
42985121 ATTGC-CTTCGG
1 ATTGCTCTTCGG
42985132 GTCTTAACCC
Statistics
Matches: 81, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
79 25 0.31
80 56 0.69
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (79 bp):
ATTGCTCTTCGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
AAACCACAAGCACA
Found at i:42985149 original size:40 final size:40
Alignment explanation
Indices: 42984977--42985223 Score: 146
Period size: 40 Copynumber: 6.2 Consensus size: 40
42984967 TCTTCGGACC
* * * * **
42984977 TAGCCCGGATA-CATCACTAGCACGAATGCTCTTCGGAACT
1 TAGCCCGGATATAACCACAAGCACAAATGC-CTTCGGGTCT
* * * * * **
42985017 TAGTCCGGATA-CATCACTAGCACGAATGCTCTTCGGAACT
1 TAGCCCGGATATAACCACAAGCACAAATGC-CTTCGGGTCT
* * * * * *
42985057 TAGTCCGGATA-CATCACTAGCACGAATGCTCTTCGGAAT-T
1 TAGCCCGGATATAACCACAAGCACAAATGC-CTTCGG-GTCT
*
42985097 TAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCT
1 TAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGTCT
* * * *
42985136 TAACCCGGGTATAACAACTCA-CACAAATGCCTTCGGGTCT
1 TAGCCCGGATATAACCAC-AAGCACAAATGCCTTCGGGTCT
** * * *
42985176 TAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGACT
1 TAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGTCT
42985216 TAGCCCGG
1 TAGCCCGG
42985224 GTATCATTCA
Statistics
Matches: 180, Mismatches: 21, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 17 0.09
40 160 0.89
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGTCT
Found at i:42987176 original size:37 final size:37
Alignment explanation
Indices: 42987126--42987213 Score: 169
Period size: 37 Copynumber: 2.4 Consensus size: 37
42987116 TTATTACGAA
42987126 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
42987163 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
42987200 GTC-TACCCGGACAT
1 GTCTTACCCGGACAT
42987214 TCTCACCCGA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 11 0.22
37 40 0.78
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:42987324 original size:48 final size:48
Alignment explanation
Indices: 42987267--42987418 Score: 286
Period size: 48 Copynumber: 3.2 Consensus size: 48
42987257 TGTTACAACA
*
42987267 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
42987315 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
42987363 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
42987411 TTCACATT
1 TTCACATT
42987419 CATCACATCG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:42987466 original size:122 final size:123
Alignment explanation
Indices: 42987332--42987576 Score: 474
Period size: 123 Copynumber: 2.0 Consensus size: 123
42987322 TAGCCATTCG
42987332 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGG-CTTTACCACATATAC
1 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCCTTTACCACATATAC
42987396 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
42987454 GCTTTACCACATATACATATCACACATATGTTTCACATTAGCCATTCGGCCTTTACCACATATAC
1 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCCTTTACCACATATAC
42987519 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
42987577 CTCTTTCACA
Statistics
Matches: 121, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
122 48 0.40
123 73 0.60
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (123 bp):
GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCCTTTACCACATATAC
ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:42987586 original size:170 final size:168
Alignment explanation
Indices: 42987284--42987623 Score: 481
Period size: 170 Copynumber: 2.0 Consensus size: 168
42987274 TAGCCATTCG
42987284 GCTTTACCACACATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
1 GCTTTACCACACATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
* *
42987349 TATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGTTTC
66 TATCACACATATATTTCACATTAGCCATTCGGCATTACCACATATACATATCACAC--ATCTTTC
42987414 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
129 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
* *
42987454 GCTTTACCACATATACATATCACACATATGTTTCACATTAGCCATTCGGCCTTTACCACATATAC
1 GCTTTACCACACATACATATCACACATATATTTCACATTAGCCATTCGG-CTTTACCACATATAC
* * * * *
42987519 ATATCACACATATGTTTCACATTCATCACA-TCGGCCATTAGGC-CTTATCACATAT-ATAC-TC
65 ATATCACACATATATTTCACATT-AGC-CATTCGG-CATTA-CCACATAT-ACATATCACACATC
* *
42987580 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATA
125 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
42987624 TACACTTTCA
Statistics
Matches: 153, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
170 90 0.59
171 37 0.24
172 6 0.04
173 13 0.08
174 7 0.05
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (168 bp):
GCTTTACCACACATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
TATCACACATATATTTCACATTAGCCATTCGGCATTACCACATATACATATCACACATCTTTCAC
ATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:42987711 original size:98 final size:99
Alignment explanation
Indices: 42987533--42987772 Score: 414
Period size: 100 Copynumber: 2.4 Consensus size: 99
42987523 CACACATATG
* *
42987533 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
42987596 TTGGCCATTAGGCCTTATCAC-ATGTATATACAC
66 TTGGCCATTAGGCCTTATCACAATATATATACAC
42987629 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
42987694 TTGGCCATTAGGCCTTATCACATATATATATACAC
66 TTGGCCATTAGGCCTTATCACA-ATATATATACAC
*
42987729 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
42987773 CATCTCATAC
Statistics
Matches: 136, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
96 36 0.26
98 46 0.34
100 54 0.40
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.35
Consensus pattern (99 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACAATATATATACAC
Found at i:42987742 original size:51 final size:49
Alignment explanation
Indices: 42987533--42987772 Score: 412
Period size: 49 Copynumber: 4.9 Consensus size: 49
42987523 CACACATATG
* *
42987533 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
42987580 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
42987629 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
42987678 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATATACAC
*
42987729 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
42987773 CATCTCATAC
Statistics
Matches: 184, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
47 36 0.20
49 100 0.54
51 48 0.26
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.35
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:42991583 original size:30 final size:29
Alignment explanation
Indices: 42991489--42991590 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
42991479 TATAGTGAAT
* * *
42991489 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
42991518 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
42991546 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
42991576 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
42991591 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:42993641 original size:41 final size:39
Alignment explanation
Indices: 42993581--42993659 Score: 140
Period size: 41 Copynumber: 2.0 Consensus size: 39
42993571 TTACGAAGTC
42993581 TTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTA
1 TTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTA
42993620 TTACACCGGAACATAATCTCCACACGTAGTCATCGGGTCT
1 TTAC-CCGG-ACATAATCTCCACACGTAGTCATCGGGTCT
42993660 CACCCGGAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 4 0.11
40 4 0.11
41 30 0.79
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (39 bp):
TTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTA
Found at i:42993764 original size:48 final size:48
Alignment explanation
Indices: 42993711--42993908 Score: 348
Period size: 48 Copynumber: 4.2 Consensus size: 48
42993701 ATGTTAAACA
*
42993711 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
42993759 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
42993807 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
42993855 TTCACATTAGCCA-T-GGCTTTACCACATATACATATCACAC-TATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
42993900 TTCACATTA
1 TTCACATTA
42993909 TCACATCGGC
Statistics
Matches: 146, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
45 13 0.09
46 26 0.18
47 1 0.01
48 106 0.73
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:42994013 original size:73 final size:72
Alignment explanation
Indices: 42993869--42994013 Score: 177
Period size: 73 Copynumber: 2.0 Consensus size: 72
42993859 CATTAGCCAT
* *
42993869 GGCTTTACCACATATACATATCACACTATGTTTCACATTATCACATCGGCCATTAGCCTTATCAC
1 GGCTTTACCACATATACATATCACACTATGTTTCACA-TATCACATCAGCCATTAGCCTTACCAC
*
42993934 ATATATAA
65 ACATATAA
* * * *
42993942 GGCTTTACCACATATACATATCCACACATATGTTTTA-A-ATCACATTAGCCATTCGGCTTTACC
1 GGCTTTACCACATATACATAT-CACAC-TATGTTTCACATATCACATCAGCCATT-AGCCTTACC
42994005 ACACATATA
63 ACACATATA
42994014 CATATCAACA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
72 13 0.21
73 35 0.56
74 6 0.10
75 8 0.13
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.32
Consensus pattern (72 bp):
GGCTTTACCACATATACATATCACACTATGTTTCACATATCACATCAGCCATTAGCCTTACCACA
CATATAA
Found at i:42994204 original size:144 final size:146
Alignment explanation
Indices: 42994028--42994315 Score: 481
Period size: 144 Copynumber: 2.0 Consensus size: 146
42994018 TCAACATATG
42994028 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
* *
42994093 TCGGCCATTAGGCCTTATCAC-ATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTA
66 TCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATTGGCCATTAGGCCGTA
*
42994157 TCACATGTATATACAC
131 TCACATATATATACAC
* *
42994173 TTTC-CATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
42994237 TTGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTAGGCC
66 TCGGCCATTAGGCCTTATCAC--A-ATATATACACTTTCACATTCATCACATTGGCCATTAGGCC
42994302 GTATCACATATATA
128 GTATCACATATATA
42994316 CATCTCATAC
Statistics
Matches: 133, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
144 78 0.59
145 4 0.03
148 51 0.38
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (146 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATTGGCCATTAGGCCGTA
TCACATATATATACAC
Found at i:42994285 original size:51 final size:49
Alignment explanation
Indices: 42994028--42994315 Score: 483
Period size: 49 Copynumber: 5.9 Consensus size: 49
42994018 TCAACATATG
*
42994028 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
42994077 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
42994124 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
42994173 TTTC-CATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
42994221 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATATACAC
*
42994272 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
42994316 CATCTCATAC
Statistics
Matches: 226, Mismatches: 8, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
47 44 0.19
48 47 0.21
49 87 0.38
51 48 0.21
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:42998236 original size:40 final size:40
Alignment explanation
Indices: 42998081--42998223 Score: 245
Period size: 40 Copynumber: 3.6 Consensus size: 40
42998071 CCAGCATGAT
* *
42998081 TGCTCTTCGG-ACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
42998120 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
42998160 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
42998200 TGCTCTTCGGAATTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
42998224 TAACCACAAG
Statistics
Matches: 100, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
39 17 0.17
40 83 0.83
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:42998320 original size:40 final size:40
Alignment explanation
Indices: 42998081--42998339 Score: 235
Period size: 40 Copynumber: 6.5 Consensus size: 40
42998071 CCAGCATGAT
* * *
42998081 TGCTCTTCGG-ACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACAAA
* * *
42998120 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACAAA
* * *
42998160 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACAAA
* * * *
42998200 TGCTCTTCGGAATTTAG-CCGGATATAACCACAAGCACAAT
1 TGCTCTTCGGAACTTAGCCCGGATAT-ATCACTAGCACAAA
* * * *
42998240 TGC-CTTCGG-TCTTAACCCGGGTATAACAACTCA-CACAAA
1 TGCTCTTCGGAACTTAGCCCGGATATATC-ACT-AGCACAAA
** *
42998279 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAA
1 TGCTCTTCGGAACTTAGCCCGGATATA-TCACTAGCACAAA
* *
42998319 TGC-CTTCGGGACTTATCCCGG
1 TGCTCTTCGGAACTTAGCCCGG
42998340 GTATCATTCA
Statistics
Matches: 191, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
38 5 0.03
39 47 0.25
40 138 0.72
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACAAA
Found at i:43000293 original size:37 final size:37
Alignment explanation
Indices: 43000243--43000338 Score: 192
Period size: 37 Copynumber: 2.6 Consensus size: 37
43000233 TTATTACGAA
43000243 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
43000280 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
43000317 GTCTTACCCGGACATAATCTCC
1 GTCTTACCCGGACATAATCTCC
43000339 TCACCCGAAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:43000450 original size:48 final size:48
Alignment explanation
Indices: 43000391--43000542 Score: 286
Period size: 48 Copynumber: 3.2 Consensus size: 48
43000381 TGTTACAACA
*
43000391 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
43000439 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
43000487 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
43000535 TTCACATT
1 TTCACATT
43000543 CATCACATCA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:43000549 original size:57 final size:57
Alignment explanation
Indices: 43000488--43000698 Score: 190
Period size: 57 Copynumber: 3.5 Consensus size: 57
43000478 CACATATATT
* * *
43000488 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGTTTCACATTCA
1 TCACATCAGCCATTAGGCCTTACCACATATACATATCACACATATGTTTCACATTCA
* * * * *
43000545 TCACATCAGCCATTAGGCCTTATCACATATATAGGCT-TTACCACATATACATATCACACATATG
1 TCACATCAGCCATTAGGCCTTACCACATATACA---TATCA-CACATAT--GT-T-TCACAT-T-
**
43000609 TT
56 CA
* * *
43000611 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGTTTCACATTCA
1 TCACATCAGCCATTAGGCCTTACCACATATACATATCACACATATGTTTCACATTCA
* *
43000668 TCACATCGGCCATTAGGCCTTATCACATATA
1 TCACATCAGCCATTAGGCCTTACCACATATA
43000699 TACTCTTTCA
Statistics
Matches: 118, Mismatches: 25, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
57 54 0.46
58 1 0.01
59 7 0.06
60 9 0.08
61 1 0.01
62 1 0.01
63 9 0.08
64 7 0.06
65 1 0.01
66 28 0.24
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (57 bp):
TCACATCAGCCATTAGGCCTTACCACATATACATATCACACATATGTTTCACATTCA
Found at i:43000589 original size:18 final size:18
Alignment explanation
Indices: 43000558--43000593 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
43000548 CATCAGCCAT
*
43000558 TAGGCCTTATCACATATA
1 TAGGCCTTACCACATATA
*
43000576 TAGGCTTTACCACATATA
1 TAGGCCTTACCACATATA
43000594 CATATCACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
TAGGCCTTACCACATATA
Found at i:43000591 original size:123 final size:123
Alignment explanation
Indices: 43000455--43000700 Score: 474
Period size: 123 Copynumber: 2.0 Consensus size: 123
43000445 TTAGCCATTC
43000455 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
43000520 ATATCACACATATGTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATA
66 ATATCACACATATGTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATA
*
43000578 GGCTTTACCACATATACATATCACACATATGTTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
*
43000643 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ATATCACACATATGTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATA
43000701 CTCTTTCACA
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 121 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (123 bp):
GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ATATCACACATATGTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATA
Found at i:43000829 original size:97 final size:99
Alignment explanation
Indices: 43000657--43000895 Score: 405
Period size: 97 Copynumber: 2.4 Consensus size: 99
43000647 CACACATATG
* *
43000657 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
43000720 TTGGCCATTAGGCCTTATCAC-ATGTATATACAC
66 TTGGCCATTAGGCCTTATCACAATATATATACAC
43000753 TTTC-CATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
43000817 TTGGCCATTAGGCCTTATCACATATATATATACAC
66 TTGGCCATTAGGCCTTATCACA-ATATATATACAC
*
43000852 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
43000896 CATCTCATAC
Statistics
Matches: 134, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
95 31 0.23
96 4 0.03
97 46 0.34
99 15 0.11
100 38 0.28
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (99 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACAATATATATACAC
Found at i:43000865 original size:51 final size:49
Alignment explanation
Indices: 43000657--43000895 Score: 403
Period size: 49 Copynumber: 4.9 Consensus size: 49
43000647 CACACATATG
* *
43000657 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
43000704 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
43000753 TTTC-CATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
43000801 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATATACAC
*
43000852 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
43000896 CATCTCATAC
Statistics
Matches: 182, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
47 36 0.20
48 47 0.26
49 51 0.28
51 48 0.26
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:43005212 original size:68 final size:66
Alignment explanation
Indices: 43005140--43005310 Score: 177
Period size: 66 Copynumber: 2.6 Consensus size: 66
43005130 CATCATGTGT
* * * *
43005140 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
43005203 TGTAG
62 TGTAG
** * *
43005208 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGTGAAGGACACCATGTA
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
43005273 G
66 G
* * * *
43005274 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
43005311 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
64 24 0.27
65 18 0.20
66 34 0.38
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:43005245 original size:64 final size:64
Alignment explanation
Indices: 43005164--43005346 Score: 210
Period size: 66 Copynumber: 2.8 Consensus size: 64
43005154 AGACATTATG
* * *
43005164 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
43005228 ATGTAGCTAGGTCGCATGCGTGGTTCCAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGATA
43005293 A
64 A
* * *
43005294 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
43005347 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
65 21 0.21
66 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:43013926 original size:14 final size:14
Alignment explanation
Indices: 43013907--43013935 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
43013897 CGAATAGACT
43013907 ATGAAAACATCCAA
1 ATGAAAACATCCAA
43013921 ATGAAAACATCCAA
1 ATGAAAACATCCAA
43013935 A
1 A
43013936 AACATCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.21, G:0.07, T:0.14
Consensus pattern (14 bp):
ATGAAAACATCCAA
Found at i:43020676 original size:93 final size:93
Alignment explanation
Indices: 43020432--43020750 Score: 359
Period size: 93 Copynumber: 3.4 Consensus size: 93
43020422 TGTAACCCGC
* * * *
43020432 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCATCCATAAGTGAACTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGCATCCATAAGCGAACTCGGA
* * *
43020495 CTCAACTCAACGAGTTCGGATGCCTAGTTACAT
65 CTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * * * *
43020528 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCATCCATAAGTGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATCCATAAGCGAACTCGGAC
* *
43020589 TCAACTCAACGAGCTCGGGCGTTCGCAT
66 TCAACTCAACGAGCTCGGACGCTCGCAT
*
43020617 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-CGAACTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG---CATCCATAAGCGAACTCG
*
43020679 GACTCAACTCAACGAGTTCGGACGCTCGCAT
63 GACTCAACTCAACGAGCTCGGACGCTCGCAT
43020710 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
43020751 CAAATATCCT
Statistics
Matches: 196, Mismatches: 18, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
89 3 0.02
90 1 0.01
91 2 0.01
92 32 0.16
93 148 0.76
94 4 0.02
95 3 0.02
96 3 0.02
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATCCATAAGCGAACTCGGAC
TCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:43020746 original size:46 final size:46
Alignment explanation
Indices: 43020432--43020746 Score: 390
Period size: 46 Copynumber: 6.8 Consensus size: 46
43020422 TGTAACCCGC
* * *
43020432 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
43020478 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43020528 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
43020571 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
43020617 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43020667 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
43020710 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43020747 TGCCCAAATA
Statistics
Matches: 230, Mismatches: 25, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.03
44 2 0.01
45 4 0.02
46 142 0.62
47 64 0.28
48 4 0.02
49 2 0.01
50 6 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:43020765 original size:139 final size:139
Alignment explanation
Indices: 43020432--43020745 Score: 619
Period size: 139 Copynumber: 2.3 Consensus size: 139
43020422 TGTAACCCGC
43020432 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
43020497 CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
66 CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
43020562 CGCTCGCAT
131 CGCTCGCAT
43020571 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
43020636 CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
66 CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
43020701 CGCTCGCAT
131 CGCTCGCAT
*
43020710 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
43020746 ATGCCCAAAT
Statistics
Matches: 174, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 174 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (139 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
CGCTCGCAT
Found at i:43022672 original size:47 final size:47
Alignment explanation
Indices: 43022619--43022718 Score: 166
Period size: 47 Copynumber: 2.1 Consensus size: 47
43022609 AGACAAGGAT
43022619 ACCATGTTTGGAACAAT-GCATTTGGTAAGACAAGGATACCATGTAAG
1 ACCATGTTTGGAAC-ATGGCATTTGGTAAGACAAGGATACCATGTAAG
* *
43022666 ACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAG
1 ACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAG
43022713 ACCATG
1 ACCATG
43022719 CCAAGGCATG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
46 2 0.04
47 48 0.96
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (47 bp):
ACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACCATGTAAG
Found at i:43022826 original size:55 final size:54
Alignment explanation
Indices: 43022697--43022893 Score: 245
Period size: 54 Copynumber: 3.6 Consensus size: 54
43022687 TTGGTAAGAT
* * *
43022697 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * * *
43022751 AAGGAAATCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-C
* * *
43022807 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
43022859 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
43022894 ATGGTAAGTT
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.26
54 41 0.34
55 41 0.34
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:43022923 original size:108 final size:109
Alignment explanation
Indices: 43022705--43022928 Score: 319
Period size: 108 Copynumber: 2.1 Consensus size: 109
43022695 ATAAGGATAT
* *
43022705 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* * *
43022770 ATGTCAAGACATGGAATTGATGAGTTACTATAAGGAAAAGGTCC
66 ATGTCAAGACATGGAATTGATAAGTTACAAAAAGGAAAAGGTCC
* * *
43022814 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
*
43022878 ATGTCAAGACATGGCAA-TGGTAAGTT-CAAAAAGGAAAAGGTTCC
66 ATGTCAAGACATGG-AATTGATAAGTTACAAAAAGGAAAAGG-TCC
*
43022922 CAAGTAA
1 CATGTAA
43022929 TCCAAAGACC
Statistics
Matches: 103, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
107 12 0.12
108 53 0.51
109 38 0.37
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATGTCAAGACATGGAATTGATAAGTTACAAAAAGGAAAAGGTCC
Found at i:43030169 original size:27 final size:27
Alignment explanation
Indices: 43030139--43030287 Score: 163
Period size: 27 Copynumber: 5.5 Consensus size: 27
43030129 ATTACCAAAG
*
43030139 TACCCCCGATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
* * * *
43030166 TACCCTCGATTTATAGAAGTACCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
** * **
43030193 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCATTT
**
43030220 TACCCTTGATTTACAGAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
43030247 TACCCCTGATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
*
43030274 TACCCCCGTTTTAC
1 TACCCCCGATTTAC
43030288 CCTCGACTTA
Statistics
Matches: 107, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCATTT
Found at i:43030197 original size:54 final size:54
Alignment explanation
Indices: 43030139--43030287 Score: 190
Period size: 54 Copynumber: 2.8 Consensus size: 54
43030129 ATTACCAAAG
* * *
43030139 TACCCCCGATTTACATAATTACCATTTTACCCTCGATTTATAGAAGTACCGTTT
1 TACCCCTGATTTACATAATTACCATTTTACCCTCGATTTACAGAAGTACCATTT
* * * ** * *
43030193 TACCCTTGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCATTT
1 TACCCCTGATTTACATAATTACCATTTTACCCTCGATTTACAGAAGTACCATTT
* *
43030247 TACCCCTGATTTACATAATTACCATTTTACCCCCGTTTTAC
1 TACCCCTGATTTACATAATTACCATTTTACCCTCGATTTAC
43030288 CCTCGACTTA
Statistics
Matches: 77, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCCTGATTTACATAATTACCATTTTACCCTCGATTTACAGAAGTACCATTT
Found at i:43030286 original size:38 final size:39
Alignment explanation
Indices: 43030244--43030325 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 39
43030234 AGAATTACCA
* *
43030244 TTTTACCCCT-GATTTACATAATTACCATTTTACCCCCG
1 TTTTACCCCTCGACTTACAGAATTACCATTTTACCCCCG
* * *
43030282 TTTTA-CCCTCGACTTACAGAATTATCGTTTTACCCTCG
1 TTTTACCCCTCGACTTACAGAATTACCATTTTACCCCCG
*
43030320 ATTTAC
1 TTTTAC
43030326 AAAATTATTG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
37 4 0.11
38 32 0.89
ACGTcount: A:0.23, C:0.29, G:0.07, T:0.40
Consensus pattern (39 bp):
TTTTACCCCTCGACTTACAGAATTACCATTTTACCCCCG
Found at i:43030310 original size:27 final size:26
Alignment explanation
Indices: 43030280--43030414 Score: 144
Period size: 27 Copynumber: 5.0 Consensus size: 26
43030270 ATTTTACCCC
*
43030280 CGTTTTACCCTCGACTTACAGAATTA
1 CGTTTTACCCTCGATTTACAGAATTA
*
43030306 TCGTTTTACCCTCGATTTACAAAATTA
1 -CGTTTTACCCTCGATTTACAGAATTA
* * *
43030333 TTGTTTTACCGTCGATTTATAGAATTA
1 -CGTTTTACCCTCGATTTACAGAATTA
* **
43030360 CTATTTTACCCTTAATTTACAGAATTA
1 C-GTTTTACCCTCGATTTACAGAATTA
* *
43030387 CTATTTTACCCTCGATTTACAAAATTA
1 C-GTTTTACCCTCGATTTACAGAATTA
43030414 C
1 C
43030415 AGGAATACCC
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (26 bp):
CGTTTTACCCTCGATTTACAGAATTA
Found at i:43030332 original size:119 final size:119
Alignment explanation
Indices: 43030163--43030406 Score: 326
Period size: 119 Copynumber: 2.1 Consensus size: 119
43030153 ATAATTACCA
* * * * * *
43030163 TTTTACCCTCGATTTATAGAAGTACCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTTG
1 TTTTACCCTCGACTTACAGAAGTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCG
* *
43030228 ATTTACAGAATTACCATTTTACCCCTGATTTACATAATTACCATTTTACCCCCG
66 ATTTACAGAATTACCATTTTACCCCTAATTTACAGAATTACCATTTTACCCCCG
* * * *
43030282 TTTTACCCTCGACTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTATTGTTTTACCGTCG
1 TTTTACCCTCGACTTACAGAAGTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCG
* * * * *
43030347 ATTTATAGAATTACTATTTTACCCTTAATTTACAGAATTACTATTTTACCCTCG
66 ATTTACAGAATTACCATTTTACCCCTAATTTACAGAATTACCATTTTACCCCCG
*
43030401 ATTTAC
1 TTTTAC
43030407 AAAATTACAG
Statistics
Matches: 107, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
119 107 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (119 bp):
TTTTACCCTCGACTTACAGAAGTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCG
ATTTACAGAATTACCATTTTACCCCTAATTTACAGAATTACCATTTTACCCCCG
Found at i:43030339 original size:54 final size:54
Alignment explanation
Indices: 43030281--43030414 Score: 162
Period size: 54 Copynumber: 2.5 Consensus size: 54
43030271 TTTTACCCCC
* * * *
43030281 GTTTTACCCTCGACTTACAGAATTA-TCGTTTTACCCTCGATTTACAAAATTATT
1 GTTTTACCCTCGATTTACAGAATTACT-ATTTTACCCTCAATTTACAAAATTACT
* * * *
43030335 GTTTTACCGTCGATTTATAGAATTACTATTTTACCCTTAATTTACAGAATTACT
1 GTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACT
* *
43030389 ATTTTACCCTCGATTTACAAAATTAC
1 GTTTTACCCTCGATTTACAGAATTAC
43030415 AGGAATACCC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 66 0.99
55 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (54 bp):
GTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACT
Found at i:43030340 original size:92 final size:92
Alignment explanation
Indices: 43030187--43030370 Score: 228
Period size: 92 Copynumber: 2.0 Consensus size: 92
43030177 TATAGAAGTA
* * * * *
43030187 CCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCATTTTACCC
1 CCGTTTTACCCTCGACTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCC
*
43030252 -CTGATTTACATAATTACCATTTTACCC
66 TC-GATTTACAGAATTACCATTTTACCC
***
43030279 CCGTTTTACCCTCGACTTACAGAATTA-TCGTTTTACCCTCGATTTACAAAATTATTGTTTTACC
1 CCGTTTTACCCTCGACTTACAGAATTACT-GTTTTACCCTCGATTTACAAAATTACCATTTTACC
* * *
43030343 GTCGATTTATAGAATTACTATTTTACCC
65 CTCGATTTACAGAATTACCATTTTACCC
43030371 TTAATTTACA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
91 1 0.01
92 76 0.97
93 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (92 bp):
CCGTTTTACCCTCGACTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCC
TCGATTTACAGAATTACCATTTTACCC
Found at i:43030404 original size:146 final size:146
Alignment explanation
Indices: 43030139--43030414 Score: 392
Period size: 146 Copynumber: 1.9 Consensus size: 146
43030129 ATTACCAAAG
* * * * *
43030139 TACCCCCGATTTACATAATTACCATTTTACCCTCGATTTATAGAAGTACCGTTTTACCCTTGATT
1 TACCCCCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAAGTACCGTTTTACCCTCGATT
* * *
43030204 TATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCATTTTACCCCTGATTTACATAATTAC
66 TATAGAATTACTATTTTACCCTTAATTTACAGAATTACCATTTTACCCCTGATTTACAAAATTAC
43030269 CATTTTACCCCCGTTT
131 CATTTTACCCCCGTTT
* * * * ** *
43030285 TACCCTCGACTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTATTGTTTTACCGTCGATT
1 TACCCCCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAAGTACCGTTTTACCCTCGATT
*
43030350 TATAGAATTACTATTTTACCCTTAATTTACAGAATTACTATTTTA-CCCTCGATTTACAAAATTA
66 TATAGAATTACTATTTTACCCTTAATTTACAGAATTACCATTTTACCCCT-GATTTACAAAATTA
43030414 C
130 C
43030415 AGGAATACCC
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
145 4 0.04
146 109 0.96
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.41
Consensus pattern (146 bp):
TACCCCCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAAGTACCGTTTTACCCTCGATT
TATAGAATTACTATTTTACCCTTAATTTACAGAATTACCATTTTACCCCTGATTTACAAAATTAC
CATTTTACCCCCGTTT
Found at i:43030448 original size:27 final size:27
Alignment explanation
Indices: 43030418--43030530 Score: 149
Period size: 27 Copynumber: 4.2 Consensus size: 27
43030408 AAATTACAGG
43030418 AATACCCTCAATTTGTAAAATTACCAA
1 AATACCCTCAATTTGTAAAATTACCAA
* *
43030445 AATACCCTTAGTTTGTAAAATTACCAA
1 AATACCCTCAATTTGTAAAATTACCAA
** * *
43030472 AATACCACT-GGTTTGTGAAATTACCGA
1 AATACC-CTCAATTTGTAAAATTACCAA
43030499 AATACCCTCAATTT-TAAAATTACCAA
1 AATACCCTCAATTTGTAAAATTACCAA
43030525 AATACC
1 AATACC
43030531 ACTGATTTAC
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 18 0.24
27 55 0.73
28 2 0.03
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
AATACCCTCAATTTGTAAAATTACCAA
Found at i:43030451 original size:81 final size:80
Alignment explanation
Indices: 43030295--43030530 Score: 179
Period size: 81 Copynumber: 2.9 Consensus size: 80
43030285 TACCCTCGAC
* ** *** * * *
43030295 TTACAGAATTA-TCGTTTTACCCTCGATTTACAAAATTATTGTTTTACCGTCGATTTATAGAATT
1 TTACAGAATTACT-ATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATTT-TAAAATT
* ***
43030359 ACTATTTTACCCTTAAT
64 ACCAAAATACCCTTAAT
*
43030376 TTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGGAATACCCTCAATTTGTAAAATTA
1 TTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATTT-TAAAATTA
*
43030441 CCAAAATACCCTTAGT
65 CCAAAATACCCTTAAT
** * * *** * *** *
43030457 TTGTAAAATTACCAAAATACCACT-GGTTTGTGAAATTACCGAAATACCCTCAATTTTAAAATTA
1 TTACAGAATTACTATTTTACC-CTCGATTTACAAAATTACAGAAATACCCTCAATTTTAAAATTA
43030521 CCAAAATACC
65 CCAAAATACC
43030531 ACTGATTTAC
Statistics
Matches: 125, Mismatches: 28, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
80 18 0.14
81 104 0.83
82 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (80 bp):
TTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATTTTAAAATTAC
CAAAATACCCTTAAT
Found at i:43030465 original size:54 final size:52
Alignment explanation
Indices: 43030393--43030538 Score: 141
Period size: 54 Copynumber: 2.7 Consensus size: 52
43030383 ATTACTATTT
* * *
43030393 TACCCTCGATTTACAAAATTACAGGAATACC-CTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTT-TAAAATTACA-AAATACCACT-AATTTGTAAAATTACCAAAA
* * ** * *
43030447 TACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTCAATTT-TAAAATTA-CAAAATACCACTAATTTGTAAAATTACCAAAA
*
43030501 TACCCTCAATTTTAAAATTACCAAAATACCACTGATTT
1 TACCCTCAATTTTAAAATTA-CAAAATACCACTAATTT
43030539 ACAAAGTTAC
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
53 25 0.32
54 48 0.62
55 4 0.05
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (52 bp):
TACCCTCAATTTTAAAATTACAAAATACCACTAATTTGTAAAATTACCAAAA
Found at i:43030534 original size:53 final size:54
Alignment explanation
Indices: 43030429--43030534 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
43030419 ATACCCTCAA
* *
43030429 TTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGG
1 TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGG
* *
43030483 TTTGTGAAATTACCGAAATACCCTCAATTT-TAAAATTACCAAAATACCACTG
1 TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCACTG
43030535 ATTTACAAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
53 22 0.46
54 26 0.54
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGG
Found at i:43030554 original size:53 final size:53
Alignment explanation
Indices: 43030435--43030615 Score: 170
Period size: 53 Copynumber: 3.3 Consensus size: 53
43030425 TCAATTTGTA
* * * **
43030435 AAATTACCA-AAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTG
1 AAATTA-CAGAAATACCCTCAATTTCTAAAATTACCAAAATACCACTGGTTT-AC
* *
43030489 AAATTACCGAAATACCCTCAATTT-TAAAATTACCAAAATACCACTGATTTAC
1 AAATTACAGAAATACCCTCAATTTCTAAAATTACCAAAATACCACTGGTTTAC
* * * *
43030541 AAAGTTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTAC
1 AAA-TTACAGAAATACCC-TCAATTTCT-AAAATTACCA-AAATACCACTGGTTTAC
*
43030597 AAAATTACTGAAATACCCT
1 -AAATTACAGAAATACCCT
43030616 TGGTTTGTAG
Statistics
Matches: 107, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 3 0.03
53 39 0.36
54 24 0.22
55 3 0.03
56 35 0.33
57 3 0.03
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.30
Consensus pattern (53 bp):
AAATTACAGAAATACCCTCAATTTCTAAAATTACCAAAATACCACTGGTTTAC
Found at i:43030621 original size:27 final size:27
Alignment explanation
Indices: 43030393--43030617 Score: 127
Period size: 27 Copynumber: 8.3 Consensus size: 27
43030383 ATTACTATTT
* * *
43030393 TACCCTCGATTTACAAAATTACAGGAA
1 TACCCTTGATTTACAAAATTACCGAAA
** ** *
43030420 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCGAAA
** *
43030447 TACCCTT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCGAAA
* ***
43030474 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGATTTACAAAATTACCGAAA
** * *
43030501 TACCCTCAATTT-TAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* *
43030527 TACCAC-TGATTTACAAAGTTACAGAAA
1 TACC-CTTGATTTACAAAATTACCGAAA
**
43030554 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTTGA-TTTAC--AAAATTACCGAAA
* * *
43030583 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
43030610 TACCCTTG
1 TACCCTTG
43030618 GTTTGTAGAT
Statistics
Matches: 159, Mismatches: 28, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
26 23 0.14
27 110 0.69
28 7 0.04
29 19 0.12
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCGAAA
Found at i:43030705 original size:27 final size:27
Alignment explanation
Indices: 43030674--43030766 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
43030664 TACCCCTATT
*
43030674 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
43030701 GGGTAAAGTGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
43030728 AGGTAAAGTGACTGTAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
43030755 TGGTAAAATGAC
1 AGGTAAAATGAC
43030767 GAATATGCCC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:43032020 original size:9 final size:9
Alignment explanation
Indices: 43032008--43032084 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
43031998 TTTGATAAAC
43032008 ATGATATGT
1 ATGATATGT
*
43032017 ATGATATGCAC
1 ATGATATG--T
43032028 ATGATATGT
1 ATGATATGT
*
43032037 ATGATATGCAC
1 ATGATATG--T
*
43032048 ATGACATGT
1 ATGATATGT
*
43032057 ATGATATGCAC
1 ATGATATG--T
43032068 ATGATATGT
1 ATGATATGT
43032077 ATGATATG
1 ATGATATG
43032085 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:43032033 original size:11 final size:11
Alignment explanation
Indices: 43032017--43032088 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
43032007 CATGATATGT
43032017 ATGATATGCAC
1 ATGATATGCAC
*
43032028 ATGATATG--T
1 ATGATATGCAC
43032037 ATGATATGCAC
1 ATGATATGCAC
* *
43032048 ATGACATG--T
1 ATGATATGCAC
43032057 ATGATATGCAC
1 ATGATATGCAC
*
43032068 ATGATATG--T
1 ATGATATGCAC
43032077 ATGATATGCAC
1 ATGATATGCAC
43032088 A
1 A
43032089 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:43032096 original size:20 final size:20
Alignment explanation
Indices: 43032006--43032088 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
43031996 ATTTTGATAA
43032006 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
43032026 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
43032046 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
43032066 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
43032086 ACA
1 ACA
43032089 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:43032174 original size:23 final size:24
Alignment explanation
Indices: 43032143--43032307 Score: 221
Period size: 24 Copynumber: 7.0 Consensus size: 24
43032133 GAGGAAATGA
43032143 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
43032166 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
43032190 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
43032214 AAAAGGGCTTACG-CCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
43032236 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
43032260 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
43032284 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43032308 ATGATAAAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
22 11 0.09
23 40 0.31
24 65 0.51
25 11 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:43032212 original size:47 final size:47
Alignment explanation
Indices: 43032143--43032308 Score: 221
Period size: 47 Copynumber: 3.5 Consensus size: 47
43032133 GAGGAAATGA
*
43032143 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
43032189 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACG-CCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
43032236 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
43032284 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
43032309 TGATAAAGCA
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
46 33 0.31
47 40 0.38
48 21 0.20
49 12 0.11
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:43032257 original size:70 final size:71
Alignment explanation
Indices: 43032143--43032307 Score: 253
Period size: 70 Copynumber: 2.3 Consensus size: 71
43032133 GAGGAAATGA
* *
43032143 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
43032208 GTTATC
66 GTTATC
*
43032214 AAAAGGGCTTACG-CCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
43032278 GTTATT
66 GTTATC
*
43032284 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
43032308 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
70 62 0.72
71 16 0.19
72 8 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:43032535 original size:31 final size:31
Alignment explanation
Indices: 43032500--43032563 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
43032490 CGTTTACAGT
*
43032500 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
43032531 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
43032562 AA
1 AA
43032564 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:43033490 original size:45 final size:47
Alignment explanation
Indices: 43033440--43033533 Score: 156
Period size: 45 Copynumber: 2.0 Consensus size: 47
43033430 AGACAAGGAT
*
43033440 ACCATGTTTGGAACATGGCATTTG-TAAGACAAGGATA-CATGTAAG
1 ACCATGTTTGGAACATGGCATTTGCTAAGACAAAGATATCATGTAAG
*
43033485 ACCATGTTTGGAACATGGCATTTGCTAAGATAAAGATATCATGTAAG
1 ACCATGTTTGGAACATGGCATTTGCTAAGACAAAGATATCATGTAAG
43033532 AC
1 AC
43033534 ATGCCAAGGC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 24 0.53
46 11 0.24
47 10 0.22
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (47 bp):
ACCATGTTTGGAACATGGCATTTGCTAAGACAAAGATATCATGTAAG
Done.