Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 68 of 343
Found at i:22197668 original size:42 final size:43
Alignment explanation
Indices: 22197607--22197736 Score: 133
Period size: 43 Copynumber: 3.0 Consensus size: 43
22197597 ATATTGTCAG
* *
22197607 ATATCGATGCCACTGTCCCAGACA-GGATTTTACACG-AATCA-A
1 ATAT-GATGCCAATGTCCCAGACATGG-TCTTACACGTAATCACA
*
22197649 TATATGATGCCAATATCCCATG-CATGGTCTTACACGTAATCACA
1 -ATATGATGCCAATGTCCCA-GACATGGTCTTACACGTAATCACA
** * *
22197693 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATTACA
1 ATATGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
22197736 A
1 A
22197737 CTCGATAACC
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
42 24 0.32
43 49 0.66
44 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
ATATGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
Found at i:22201722 original size:14 final size:13
Alignment explanation
Indices: 22201699--22201729 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
22201689 AATCCAGAAG
22201699 TTTTTAATTTTAA
1 TTTTTAATTTTAA
22201712 TTTTGTAATTTTAA
1 TTTT-TAATTTTAA
22201726 TTTT
1 TTTT
22201730 CTTTATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
TTTTTAATTTTAA
Found at i:22202860 original size:22 final size:22
Alignment explanation
Indices: 22202835--22202879 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22202825 TCTTAGAGAG
22202835 TATGAGAGTATCCAAAAAACCC
1 TATGAGAGTATCCAAAAAACCC
22202857 TATGAGAGTATCCAAAAAACCC
1 TATGAGAGTATCCAAAAAACCC
22202879 T
1 T
22202880 TCAGAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20
Consensus pattern (22 bp):
TATGAGAGTATCCAAAAAACCC
Found at i:22205456 original size:21 final size:21
Alignment explanation
Indices: 22205414--22205456 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22205404 GAGGCATAGG
*
22205414 TTTGGGTTTAGGGTTCTAGAT
1 TTTGGGTTTAGGGTTCGAGAT
*
22205435 TTTGGGTTTAGGGTTCGGGAT
1 TTTGGGTTTAGGGTTCGAGAT
22205456 T
1 T
22205457 CTATATTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.05, G:0.37, T:0.47
Consensus pattern (21 bp):
TTTGGGTTTAGGGTTCGAGAT
Found at i:22208919 original size:3 final size:3
Alignment explanation
Indices: 22208913--22208965 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
22208903 AATAATAATA
*
22208913 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22208961 ATT AT
1 ATT AT
22208966 CACTACTACT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:22214920 original size:25 final size:25
Alignment explanation
Indices: 22214877--22214925 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
22214867 ATGTAGAAAA
* *
22214877 ACTAAACCCAACAACTATGGAGAAG
1 ACTAAACCCAACAAATATGAAGAAG
22214902 ACTAAACCCTAA-AAATATGAAGAA
1 ACTAAACCC-AACAAATATGAAGAA
22214926 AAAAACTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.53, C:0.20, G:0.12, T:0.14
Consensus pattern (25 bp):
ACTAAACCCAACAAATATGAAGAAG
Found at i:22219281 original size:41 final size:41
Alignment explanation
Indices: 22219233--22219462 Score: 295
Period size: 41 Copynumber: 5.6 Consensus size: 41
22219223 AACTGAACAA
* *
22219233 TAGCGGCGCTTTTGAAAAAACGCCGCTATAGGTCGAGCTTT
1 TAGCGGCGCTTTTGAAAAAACGCCGCTATAGATCGAGGTTT
* * *
22219274 TAGCGGCGCTTTTTG-AAAAACGCTGCTATTGCTC-AGGTTT
1 TAGCGGCGC-TTTTGAAAAAACGCCGCTATAGATCGAGGTTT
*
22219314 TAGCGGCGCTTTT-AGAAAAACGCCACTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGA-AAAAACGCCGCTATAGATCGAGGTTT
** *
22219355 TAGCGGCGCTTTTGGGAAAATGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGAAAAAACGCCGCTATAGATCGAGGTTT
* * *
22219396 TAGAGGCGCTTTTGAAAAAACGCCACTATAGATCTAGGTTT
1 TAGCGGCGCTTTTGAAAAAACGCCGCTATAGATCGAGGTTT
**
22219437 TAGCGGCGCTTTTGGGAAAACGCCGC
1 TAGCGGCGCTTTTGAAAAAACGCCGC
22219463 AAAAAATTAA
Statistics
Matches: 162, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.02
40 29 0.18
41 124 0.77
42 5 0.03
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (41 bp):
TAGCGGCGCTTTTGAAAAAACGCCGCTATAGATCGAGGTTT
Found at i:22219318 original size:81 final size:82
Alignment explanation
Indices: 22219233--22219462 Score: 338
Period size: 82 Copynumber: 2.8 Consensus size: 82
22219223 AACTGAACAA
* * * * * *
22219233 TAGCGGCGCTTTTGAAAAAACGCCGCTATAGGTCGAGCTTTTAGCGGCGCTTTTTGAAAAACGCT
1 TAGCGGCGCTTTTGAAAAAACGCCACTATAGATCGAGGTTTTAGCGGCGCTTTTGGGAAAACGCC
* *
22219298 GCTATTGCTC-AGGTTT
66 GCTATAGATCGAGGTTT
*
22219314 TAGCGGCGCTTTT-AGAAAAACGCCACTATAGATCGAGGTTTTAGCGGCGCTTTTGGGAAAATGC
1 TAGCGGCGCTTTTGA-AAAAACGCCACTATAGATCGAGGTTTTAGCGGCGCTTTTGGGAAAACGC
22219378 CGCTATAGATCGAGGTTT
65 CGCTATAGATCGAGGTTT
* *
22219396 TAGAGGCGCTTTTGAAAAAACGCCACTATAGATCTAGGTTTTAGCGGCGCTTTTGGGAAAACGCC
1 TAGCGGCGCTTTTGAAAAAACGCCACTATAGATCGAGGTTTTAGCGGCGCTTTTGGGAAAACGCC
22219461 GC
66 GC
22219463 AAAAAATTAA
Statistics
Matches: 134, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
80 1 0.01
81 64 0.48
82 68 0.51
83 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (82 bp):
TAGCGGCGCTTTTGAAAAAACGCCACTATAGATCGAGGTTTTAGCGGCGCTTTTGGGAAAACGCC
GCTATAGATCGAGGTTT
Found at i:22219595 original size:15 final size:15
Alignment explanation
Indices: 22219572--22219603 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22219562 GATTTTTTTT
*
22219572 ATAATATAAATCTAA
1 ATAAGATAAATCTAA
22219587 ATAAGATAAATCTAA
1 ATAAGATAAATCTAA
22219602 AT
1 AT
22219604 TATTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (15 bp):
ATAAGATAAATCTAA
Found at i:22219877 original size:21 final size:21
Alignment explanation
Indices: 22219831--22219882 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
22219821 TTAATTATCA
* *
22219831 TTATAGTTTAGGGTTTATGGT
1 TTATGGTTAAGGGTTTATGGT
*
22219852 ATATGGTTAAGGGTTTAAT-GT
1 TTATGGTTAAGGGTTT-ATGGT
22219873 TTATGAGTTA
1 TTATG-GTTA
22219883 CTATTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTATGGT
Found at i:22219927 original size:22 final size:21
Alignment explanation
Indices: 22219902--22219994 Score: 87
Period size: 22 Copynumber: 4.2 Consensus size: 21
22219892 GCTTTATAAA
* *
22219902 TTATGGGTTTAGGGATTATGGT
1 TTATGGGTTAAGGG-TTAGGGT
22219924 TTATGGGTTAAGGGTTAGGGT
1 TTATGGGTTAAGGGTTAGGGT
* ** *
22219945 TTAAGTTTTAGAGGGGTTGGGGT
1 TTATGGGTTA-A-GGGTTAGGGT
*
22219968 TTAAGGGTTAAGGGTTAAGGGT
1 TTATGGGTTAAGGGTT-AGGGT
22219990 TTATG
1 TTATG
22219995 TTTTATGATT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
21 18 0.31
22 23 0.40
23 17 0.29
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (21 bp):
TTATGGGTTAAGGGTTAGGGT
Found at i:22220038 original size:8 final size:7
Alignment explanation
Indices: 22219906--22220043 Score: 64
Period size: 7 Copynumber: 19.1 Consensus size: 7
22219896 TATAAATTAT
22219906 GGGTTTA
1 GGGTTTA
*
22219913 GGGATTA
1 GGGTTTA
*
22219920 TGGTTTA
1 GGGTTTA
*
22219927 TGGGTTAA
1 -GGGTTTA
22219935 GGG-TTA
1 GGGTTTA
22219941 GGGTTTA
1 GGGTTTA
* *
22219948 AGTTTTAGA
1 GGGTTT--A
* *
22219957 GGGGTTG
1 GGGTTTA
22219964 GGGTTTAA
1 GGGTTT-A
*
22219972 GGGTTAA
1 GGGTTTA
*
22219979 GGGTTAA
1 GGGTTTA
22219986 GGGTTTA
1 GGGTTTA
* *
22219993 TGTTTTA
1 GGGTTTA
* *
22220000 TGATTTA
1 GGGTTTA
*
22220007 AGGTTTA
1 GGGTTTA
*
22220014 GGGTTCA
1 GGGTTTA
*
22220021 GAAG-TTA
1 G-GGTTTA
22220028 GGGATTTA
1 GGG-TTTA
22220036 GGGTTTA
1 GGGTTTA
22220043 G
1 G
22220044 ATTAATTAGT
Statistics
Matches: 97, Mismatches: 26, Indels: 16
0.70 0.19 0.12
Matches are distributed among these distances:
6 6 0.06
7 70 0.72
8 17 0.18
9 4 0.04
ACGTcount: A:0.22, C:0.01, G:0.38, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:22221664 original size:201 final size:201
Alignment explanation
Indices: 22221319--22221720 Score: 795
Period size: 201 Copynumber: 2.0 Consensus size: 201
22221309 TTCTGGGATG
22221319 GCTACTCTTTTTCAGAGAGTTTTTATTACGTTGAGATTGTGGTTTGTGAAGAATGCTTAGGAATA
1 GCTACTCTTTTTCAGAGAGTTTTTATTACGTTGAGATTGTGGTTTGTGAAGAATGCTTAGGAATA
*
22221384 AGAAATATATACGAACATACAGATTTTAATTACAAAATTCCTTTTGCTGGTATTATTTGACATTG
66 AGAAATATATACGAACATACAGATTTTAATTACAAAATTCCCTTTGCTGGTATTATTTGACATTG
22221449 TACTTTTTTAGAGGGCTAGAGCTTTGCAGGGACTTGCTGGTTTAGGAATGAAGATGGCAACTGTT
131 TACTTTTTTAGAGGGCTAGAGCTTTGCAGGGACTTGCTGGTTTAGGAATGAAGATGGCAACTGTT
22221514 ATAAAA
196 ATAAAA
22221520 GCTACTCTTTTTCAGAGAGTTTTTATTACGTTGAGATTGTGGTTTGTGAAGAATGCTTAGGAATA
1 GCTACTCTTTTTCAGAGAGTTTTTATTACGTTGAGATTGTGGTTTGTGAAGAATGCTTAGGAATA
22221585 AGAAATATATACGAACATACAGATTTTAATTACAAAATTCCCTTTGCTGGTATTATTTGACATTG
66 AGAAATATATACGAACATACAGATTTTAATTACAAAATTCCCTTTGCTGGTATTATTTGACATTG
22221650 TACTTTTTTAGAGGGCTAGAGCTTTGCAGGGACTTGCTGGTTTAGGAATGAAGATGGCAACTGTT
131 TACTTTTTTAGAGGGCTAGAGCTTTGCAGGGACTTGCTGGTTTAGGAATGAAGATGGCAACTGTT
22221715 ATAAAA
196 ATAAAA
22221721 TAACTCACTT
Statistics
Matches: 200, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 200 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (201 bp):
GCTACTCTTTTTCAGAGAGTTTTTATTACGTTGAGATTGTGGTTTGTGAAGAATGCTTAGGAATA
AGAAATATATACGAACATACAGATTTTAATTACAAAATTCCCTTTGCTGGTATTATTTGACATTG
TACTTTTTTAGAGGGCTAGAGCTTTGCAGGGACTTGCTGGTTTAGGAATGAAGATGGCAACTGTT
ATAAAA
Found at i:22222351 original size:23 final size:23
Alignment explanation
Indices: 22222325--22222370 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
22222315 ACTAGAGAAC
22222325 ATCTGTTAAATCGGATTAGGTGG
1 ATCTGTTAAATCGGATTAGGTGG
22222348 ATCTGTTAAATCGGATTAGGTGG
1 ATCTGTTAAATCGGATTAGGTGG
22222371 CATTTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.30, T:0.35
Consensus pattern (23 bp):
ATCTGTTAAATCGGATTAGGTGG
Found at i:22224435 original size:21 final size:21
Alignment explanation
Indices: 22224411--22224452 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22224401 ATAAATCCTC
22224411 TACAGAAAGTTTAAAGGTTAA
1 TACAGAAAGTTTAAAGGTTAA
22224432 TACAGAAAGTTTAAAGGTTAA
1 TACAGAAAGTTTAAAGGTTAA
22224453 CTTCCAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.29
Consensus pattern (21 bp):
TACAGAAAGTTTAAAGGTTAA
Found at i:22225484 original size:22 final size:23
Alignment explanation
Indices: 22225442--22225484 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
22225432 TTTCAAAAAT
*
22225442 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
22225465 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
22225485 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:22225642 original size:42 final size:43
Alignment explanation
Indices: 22225519--22225701 Score: 255
Period size: 42 Copynumber: 4.3 Consensus size: 43
22225509 GTTTATGATT
* *
22225519 TTTAGCGGCGTTTGTGAGAAAAGCGCTGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
* **
22225562 TTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
* *
22225605 CTTAGCGGCGTTTGT-AAAAAAGCACCGCTATAA-GTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTA-AAGGTCATGGTC
* *
22225647 TTTAGCAGCGTTTGT-AAAAAAGCGCCGCTAAAAGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
22225689 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
22225702 TTTAAATAAA
Statistics
Matches: 126, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
41 2 0.02
42 69 0.55
43 55 0.44
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:22228464 original size:19 final size:21
Alignment explanation
Indices: 22228427--22228467 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
22228417 CTGGTGAGAA
22228427 TTCAGTTTTGTCAATTTAAAT
1 TTCAGTTTTGTCAATTTAAAT
22228448 TTCAGTTTT-TC-ATTTAAAT
1 TTCAGTTTTGTCAATTTAAAT
22228467 T
1 T
22228468 GGAGATATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 9 0.45
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (21 bp):
TTCAGTTTTGTCAATTTAAAT
Found at i:22230182 original size:1 final size:1
Alignment explanation
Indices: 22230176--22230214 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
22230166 CAACTGTTGC
* * *
22230176 AAAAAAAAAAAAAAGAAAAAAAGAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
22230215 GAAACTACGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:22230202 original size:17 final size:16
Alignment explanation
Indices: 22230176--22230218 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
22230166 CAACTGTTGC
*
22230176 AAAAAAA-AAAAAAAG
1 AAAAAAAGAAAAAAAA
22230191 AAAAAAAGAAAAAAAA
1 AAAAAAAGAAAAAAAA
22230207 AAGAAAAAGAAA
1 AA-AAAAAGAAA
22230219 CTACGAGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 7 0.28
16 9 0.36
17 9 0.36
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAAAAA
Found at i:22230204 original size:19 final size:18
Alignment explanation
Indices: 22230176--22230214 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
22230166 CAACTGTTGC
22230176 AAAAAAAAAAAAAAGAAA
1 AAAAAAAAAAAAAAGAAA
22230194 AAAAGAAAAAAAAAAGAAA
1 AAAA-AAAAAAAAAAGAAA
22230213 AA
1 AA
22230215 GAAACTACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAAGAAA
Found at i:22230256 original size:20 final size:20
Alignment explanation
Indices: 22230227--22230266 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22230217 AACTACGAGC
*
22230227 TTGAACTCAAATACATATAA
1 TTGAACTCAAATAAATATAA
*
22230247 TTGAATTCAAATAAATATAA
1 TTGAACTCAAATAAATATAA
22230267 GAAAGTTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.33
Consensus pattern (20 bp):
TTGAACTCAAATAAATATAA
Found at i:22235342 original size:15 final size:16
Alignment explanation
Indices: 22235322--22235352 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
22235312 TTTTTTTAGA
22235322 ATAAATAT-TAAATTT
1 ATAAATATATAAATTT
22235337 ATAAATATATAAATTT
1 ATAAATATATAAATTT
22235353 TGGTTTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAAATATATAAATTT
Found at i:22238133 original size:36 final size:36
Alignment explanation
Indices: 22238092--22238164 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
22238082 GTAGCAATTT
22238092 AACTACTGGTTGCCAAGTATCGATACTAGACATTCA
1 AACTACTGGTTGCCAAGTATCGATACTAGACATTCA
22238128 AACTACTGGTTGCCAAGTATCGATACTAGACATTCA
1 AACTACTGGTTGCCAAGTATCGATACTAGACATTCA
22238164 A
1 A
22238165 GTATCGATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (36 bp):
AACTACTGGTTGCCAAGTATCGATACTAGACATTCA
Found at i:22241008 original size:46 final size:48
Alignment explanation
Indices: 22240857--22241166 Score: 214
Period size: 46 Copynumber: 6.6 Consensus size: 48
22240847 CATTTGTGCT
* * * *
22240857 CTAGTGTACGA-CATGTCTGGGACTTGCATCGGCCAC-ATTATG-AGAG
1 CTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGA-GATGTAGAG
* * * * * * * *
22240903 CCAGTGTAAGACCATGTCTAGGACATGGTATCGACATTGAAAT-AAGAG
1 CTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGAG
22240951 CTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGATGTA-AG
1 CTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAGAG
* *
22240997 CTAGTGTAAGA-CATGTCTGGGACATGCATC-GACTACGAGATGT-G-T
1 CTAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGTAGAG
* * * * *
22241042 C-AGTGTAAGACCATGTCAGGAACATGGCATCAGCATGGAGATGTGAGAG
1 CTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGT-AGAG
* * * * ** *
22241091 CCAGTGTAAGACCATGCCTGGGACATGGCGTCAGCCTCGATTTCG-ATAG
1 CTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGAT-GTAGAG
*
22241140 -TCAGTGTAATACCATGTCTGGGACATG
1 CT-AGTGTAAGACCATGTCTGGGACATG
22241167 GTATCGACTT
Statistics
Matches: 210, Mismatches: 38, Indels: 30
0.76 0.14 0.11
Matches are distributed among these distances:
44 9 0.04
45 16 0.08
46 72 0.34
47 28 0.13
48 24 0.11
49 27 0.13
50 33 0.16
51 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAGAG
Found at i:22244678 original size:42 final size:42
Alignment explanation
Indices: 22244576--22244668 Score: 177
Period size: 42 Copynumber: 2.2 Consensus size: 42
22244566 CCCCAAAATG
*
22244576 TCACACGGCCAATGCACATGCTCATGTGCTAGGCCGTGTCTA
1 TCACACGGCCAATGCACATGCTCATGTGCTAGGCCATGTCTA
22244618 TCACACGGCCAATGCACATGCTCATGTGCTAGGCCATGTCTA
1 TCACACGGCCAATGCACATGCTCATGTGCTAGGCCATGTCTA
22244660 TCACACGGC
1 TCACACGGC
22244669 TGAGACACAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.23
Consensus pattern (42 bp):
TCACACGGCCAATGCACATGCTCATGTGCTAGGCCATGTCTA
Found at i:22251640 original size:46 final size:50
Alignment explanation
Indices: 22251538--22251856 Score: 293
Period size: 46 Copynumber: 6.7 Consensus size: 50
22251528 CCACATTATC
* * * *
22251538 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGA-A-GTG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTG
22251586 AGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGATGT-
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTG
*
22251633 A-AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGATGT-
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-TGAGATGTG
* * *
22251679 -G-TC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-GGAGATGTG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTTGAGATGTG
* * * * * *
22251726 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCTCGA-TTTTG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTG
* * *
22251775 ATAG-TCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTT--GAT-AG
1 AGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTG
*
22251821 ATGATCTAGTGTAAGACCATGTCT-GGACATGGCATC
1 A-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
22251857 AGCATTTTAC
Statistics
Matches: 229, Mismatches: 25, Indels: 36
0.79 0.09 0.12
Matches are distributed among these distances:
44 9 0.04
45 17 0.07
46 79 0.34
47 34 0.15
48 22 0.10
49 36 0.16
50 32 0.14
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (50 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTG
Found at i:22251787 original size:99 final size:97
Alignment explanation
Indices: 22251538--22251856 Score: 315
Period size: 99 Copynumber: 3.4 Consensus size: 97
22251528 CCACATTATC
* * * * * *
22251538 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAAGTGAGAG-CTAGTGTAAGA-
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAATGATAGTC-AGTGTAAGAC
* *
22251601 CATGTCTGGGACAT-GCATCGGCCTTGAGATGT
65 CATGTCTGGGACATGGCATCAGCCTGGAGATGT
* *
22251633 A-AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGATG-T-GTCAGTGTAAGAC
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAAATGATAGTCAGTGTAAGAC
22251692 CATGTCTGGGACATGGCATCAGCAC-GGAGATGT
65 CATGTCTGGGACATGGCATCAGC-CTGGAGATGT
* * **
22251725 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCTCGATTTTGATAGTCAGTGTAAGA
1 -AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-AATGATAGTCAGTGTAAGA
* * *
22251790 CCATGTCTGGGACATGGCATC-GACTTGATA-G-
64 CCATGTCTGGGACATGGCATCAGCCTGGAGATGT
* *
22251821 ATGATCTAGTGTAAGACCATGTCT-GGACATGGCATC
1 A-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
22251857 AGCATTTTAC
Statistics
Matches: 187, Mismatches: 22, Indels: 30
0.78 0.09 0.13
Matches are distributed among these distances:
90 10 0.05
91 16 0.09
92 24 0.13
93 15 0.08
94 24 0.13
95 26 0.14
96 28 0.15
97 6 0.03
98 5 0.03
99 33 0.18
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (97 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAATGATAGTCAGTGTAAGACC
ATGTCTGGGACATGGCATCAGCCTGGAGATGT
Found at i:22264986 original size:47 final size:47
Alignment explanation
Indices: 22264931--22265053 Score: 210
Period size: 47 Copynumber: 2.6 Consensus size: 47
22264921 CATGCCTTGG
* *
22264931 CATGGTCTTATATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
22264978 CATGGTCTTACATGGTATCCTTGTCTTACCAAATTCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
22265025 CATGGTCTTACATGGTATCCTTATCTTAC
1 CATGGTCTTACATGGTATCCTTATCTTAC
22265054 TGCCAATGCC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:22265258 original size:44 final size:44
Alignment explanation
Indices: 22265191--22265275 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
22265181 ATCCTTAACT
* *
22265191 GTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCC
1 GTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCC
* * *
22265235 GTCAATTCTTCCTTAATTTCCATGGTACAACCATGGACTTT
1 GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
22265276 GAGATATCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.38
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCC
Found at i:22270457 original size:44 final size:42
Alignment explanation
Indices: 22270313--22270471 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
22270303 AGCTCGTACA
* * * *
22270313 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC-AA-ATCG
* * * *
22270356 ATGCCACTGTCCTAGAAAGGGTCTTACACG-AAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAAT-CG
*
22270398 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCA-AA-TCG
* **
22270442 ATGCCAATGTTCCAGATGTGGTCTTACACG
1 ATGCCAATGTCCCAGACATGGTCTTACACG
22270472 AAAACACAGA
Statistics
Matches: 94, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 28 0.30
43 33 0.35
44 30 0.32
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATCG
Found at i:22277324 original size:33 final size:33
Alignment explanation
Indices: 22277282--22277357 Score: 152
Period size: 33 Copynumber: 2.3 Consensus size: 33
22277272 ACATATGATT
22277282 CATAATCTTAATTTAATTCATTCAATCACATGC
1 CATAATCTTAATTTAATTCATTCAATCACATGC
22277315 CATAATCTTAATTTAATTCATTCAATCACATGC
1 CATAATCTTAATTTAATTCATTCAATCACATGC
22277348 CATAATCTTA
1 CATAATCTTA
22277358 CCAATTTCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.39
Consensus pattern (33 bp):
CATAATCTTAATTTAATTCATTCAATCACATGC
Found at i:22278157 original size:44 final size:42
Alignment explanation
Indices: 22278043--22278157 Score: 106
Period size: 44 Copynumber: 2.6 Consensus size: 42
22278033 AGCTCGTACA
* * * *
22278043 ATGCCAACGTCCCAGACGGGGTCTTAAATGCAATCAAATATCG
1 ATGCCAATGTCCCAGA-AGGGTCTTACATGAAATCAAATATCG
* * *
22278086 ATGCCACTGTCCCAGAAAGGGTTTTACATGTAAATCATAA-GTCG
1 ATGCCAATGTCCCAG-AAGGGTCTTACATG-AAATCA-AATATCG
*
22278130 ATGCCAATGTCCCAGATGTGGTCTTACA
1 ATGCCAATGTCCCAGAAG-GGTCTTACA
22278158 CTAAAACACA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
43 25 0.43
44 31 0.53
45 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGAAGGGTCTTACATGAAATCAAATATCG
Found at i:22283067 original size:16 final size:19
Alignment explanation
Indices: 22283032--22283078 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 19
22283022 ACTTATTTAA
22283032 TATAATTATTACTTTGATG
1 TATAATTATTACTTTGATG
*
22283051 TTTAATTA-TA-TTT-ATG
1 TATAATTATTACTTTGATG
22283067 TATAATTGATTA
1 TATAATT-ATTA
22283079 GTATTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 9 0.38
17 4 0.17
18 4 0.17
19 7 0.29
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (19 bp):
TATAATTATTACTTTGATG
Found at i:22283385 original size:35 final size:34
Alignment explanation
Indices: 22283346--22283453 Score: 94
Period size: 35 Copynumber: 3.1 Consensus size: 34
22283336 TTACCTCACC
* *
22283346 AGTGCTGGGCATACCTATTGTCAGTTTATGTGACT
1 AGTGCTGGGCAAACCTATTTTCAGTTTAT-TGACT
*
22283381 AGTGCTAGGCGCAAAAC-ATTTTCAGTTTACTTGACT
1 AGTGCT-GG-GCAAACCTATTTTCAGTTTA-TTGACT
* * *
22283417 AGTGCTAGGTACACCTATTTTC-GATTTATTTGACT
1 AGTGCTGGGCAAACCTATTTTCAG-TTTA-TTGACT
22283452 AG
1 AG
22283454 CGTTGGGTGC
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
34 5 0.08
35 25 0.42
36 24 0.40
37 6 0.10
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (34 bp):
AGTGCTGGGCAAACCTATTTTCAGTTTATTGACT
Found at i:22283466 original size:71 final size:71
Alignment explanation
Indices: 22283292--22283468 Score: 176
Period size: 71 Copynumber: 2.5 Consensus size: 71
22283282 ACATTTGAGT
* * * * *
22283292 TTGTTGATTTATCCGACTAGCGCTGGGCACAAAACATTATCTGTTTACCTCACCAGTGCTGGGCA
1 TTGTCGATTTATCTGACTAGCGCTGGGCGCAAAACATTATCAGTTTACCTCACCAGTGCTAGGCA
*
22283357 TACCTA
66 CACCTA
* * * * * * * *
22283363 TTGTC-AGTTTATGTGACTAGTGCTAGGCGCAAAACATTTTCAGTTTACTTGACTAGTGCTAGGT
1 TTGTCGA-TTTATCTGACTAGCGCTGGGCGCAAAACATTATCAGTTTACCTCACCAGTGCTAGGC
22283427 ACACCTA
65 ACACCTA
* * * *
22283434 TTTTCGATTTATTTGACTAGCGTTGGGTGCAAAAC
1 TTGTCGATTTATCTGACTAGCGCTGGGCGCAAAAC
22283469 TTTGTTACGG
Statistics
Matches: 84, Mismatches: 20, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
70 1 0.01
71 82 0.98
72 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (71 bp):
TTGTCGATTTATCTGACTAGCGCTGGGCGCAAAACATTATCAGTTTACCTCACCAGTGCTAGGCA
CACCTA
Found at i:22294271 original size:15 final size:15
Alignment explanation
Indices: 22294251--22294283 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
22294241 TAAATCACGA
22294251 AAATTT-CACAAATAT
1 AAATTTACACAAA-AT
22294266 AAATTTACACAAAAT
1 AAATTTACACAAAAT
22294281 AAA
1 AAA
22294284 CATAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATTTACACAAAAT
Found at i:22295456 original size:41 final size:40
Alignment explanation
Indices: 22295367--22295444 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
22295357 CTCGGCCCAT
**
22295367 AAACAGAATTTTCTTATAACATACACAAATGTAAATACCA
1 AAACAGAATTTTCTTATAACATACACAAATACAAATACCA
** *
22295407 AAACAGAATTTTACTTATAATGTACACATATACAAATA
1 AAACAGAATTTT-CTTATAACATACACAAATACAAATA
22295445 TCATATCAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 12 0.38
41 20 0.62
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.29
Consensus pattern (40 bp):
AAACAGAATTTTCTTATAACATACACAAATACAAATACCA
Found at i:22296121 original size:18 final size:19
Alignment explanation
Indices: 22296098--22296133 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
22296088 ACCTGACCTA
22296098 CCCGTGTGAT-CACACATG
1 CCCGTGTGATCCACACATG
22296116 CCCGTGTGATCCACACAT
1 CCCGTGTGATCCACACAT
22296134 CCTACCACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.22
Consensus pattern (19 bp):
CCCGTGTGATCCACACATG
Found at i:22299289 original size:4 final size:4
Alignment explanation
Indices: 22299273--22299303 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
22299263 CTCATTTATA
22299273 AAAT AAA- AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
22299304 GTTTTCCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:22300160 original size:63 final size:63
Alignment explanation
Indices: 22300061--22300251 Score: 285
Period size: 63 Copynumber: 3.0 Consensus size: 63
22300051 GAAAGGTCAA
*
22300061 TCTGTTATGTATGTGTATTATGTATGTTATGTATATTACCT-TTTATGTATGTATGTTAGTATG
1 TCTGTTATGTATGTATATTATGTATGTTATGTATATTA-CTGTTTATGTATGTATGTTAGTATG
* * * * * *
22300124 TCTGTTATGTATGTATATTATGCATGTTACGTATATTATTGTTTATGGATGTCTATTAGTATG
1 TCTGTTATGTATGTATATTATGTATGTTATGTATATTACTGTTTATGTATGTATGTTAGTATG
*
22300187 TCTGTTATGTATGTATATTATGTATGTTATGTATATTACTGTTTATGTATGTATGTATTGTATG
1 TCTGTTATGTATGTATATTATGTATGTTATGTATATTACTGTTTATGTATGTATGT-TAGTATG
22300251 T
1 T
22300252 TTATTACTGT
Statistics
Matches: 112, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
62 1 0.01
63 104 0.93
64 7 0.06
ACGTcount: A:0.23, C:0.05, G:0.19, T:0.53
Consensus pattern (63 bp):
TCTGTTATGTATGTATATTATGTATGTTATGTATATTACTGTTTATGTATGTATGTTAGTATG
Found at i:22300233 original size:38 final size:35
Alignment explanation
Indices: 22300191--22300312 Score: 113
Period size: 38 Copynumber: 3.3 Consensus size: 35
22300181 AGTATGTCTG
22300191 TTATGTATGTATATTATGTATGTTATGTATATTACTGT
1 TTATGTATGTAT-TTAT-TATG-TATGTATATTACTGT
* *
22300229 TTATGTATGTATGTA-T-TGTATGTTTATTACTGT
1 TTATGTATGTATTTATTATGTATGTATATTACTGT
* * *
22300262 TTATTATATGTATGTATATCATGTATGTATATTACAGT
1 TTA-TGTATGTAT-T-TATTATGTATGTATATTACTGT
*
22300300 TTATATTATGTAT
1 TTAT-GTATGTAT
22300313 GTGTAGTGTT
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
33 17 0.24
34 10 0.14
35 1 0.01
36 2 0.03
37 3 0.04
38 37 0.53
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (35 bp):
TTATGTATGTATTTATTATGTATGTATATTACTGT
Found at i:22300307 original size:126 final size:126
Alignment explanation
Indices: 22300061--22300314 Score: 281
Period size: 126 Copynumber: 2.0 Consensus size: 126
22300051 GAAAGGTCAA
*
22300061 TCTGTTATGTATGTGTATTATGTATGTTATGTATATTACCTTTTATGTATGTATGTTAGTATGTC
1 TCTGTTATGTATGTATATTATGTATGTTATGTATATTACCTTTTATGTATGTATGTTAGTATGTC
* * ** *
22300126 TGTTATGTATGTATATTATGCATGTTACGTATATTATTGTTTATGGATGTCTATTA-GTATG
66 TATTATGTATGTATATTATGCATGTTAC-TATATTATTATTTACAGATGTATATTATGTATG
*
22300187 TCTGTTATGTATGTATATTATGTATGTTATGTATATTA-CTGTTTATGTATGTATGTATTGTATG
1 TCTGTTATGTATGTATATTATGTATGTTATGTATATTACCT-TTTATGTATGTATGT-TAGTATG
* * *
22300251 TTTATTACTGT-T-TAT-TATATGTATG-TA-TATCATGTATGTATATTACAG-TTTATATTATG
64 TCTATTA-TGTATGTATAT-TATGCATGTTACTAT-AT-TAT-TAT-TTACAGATGTATATTATG
22300310 TATG
123 TATG
22300314 T
1 T
22300315 GTAGTGTTTT
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
123 3 0.03
124 2 0.02
125 8 0.07
126 71 0.65
127 22 0.20
128 3 0.03
ACGTcount: A:0.24, C:0.05, G:0.17, T:0.54
Consensus pattern (126 bp):
TCTGTTATGTATGTATATTATGTATGTTATGTATATTACCTTTTATGTATGTATGTTAGTATGTC
TATTATGTATGTATATTATGCATGTTACTATATTATTATTTACAGATGTATATTATGTATG
Found at i:22300313 original size:38 final size:34
Alignment explanation
Indices: 22300214--22300314 Score: 123
Period size: 38 Copynumber: 2.9 Consensus size: 34
22300204 TTATGTATGT
*
22300214 TATGTATATTACTGTTTATGTATGTATG-TATTG
1 TATGTATATTACTGTTTATTTATGTATGTTATTG
*
22300247 TATGTTTATTACTGTTTATTATATGTATGTATATCATG
1 TATGTATATTACTGTTTATT-TATGTATGT-TAT--TG
*
22300285 TATGTATATTACAGTTTATATTATGTATGT
1 TATGTATATTACTGTTTAT-TTATGTATGT
22300315 GTAGTGTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
33 18 0.31
34 8 0.14
36 3 0.05
38 28 0.48
39 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.54
Consensus pattern (34 bp):
TATGTATATTACTGTTTATTTATGTATGTTATTG
Found at i:22310685 original size:27 final size:27
Alignment explanation
Indices: 22310647--22310698 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
22310637 CTCTCAGGCA
* *
22310647 TGGTGATGCATGTGCTGAGAATGGGAG
1 TGGTGATACATGCGCTGAGAATGGGAG
*
22310674 TGGTGATACATGCGCTGAGAGTGGG
1 TGGTGATACATGCGCTGAGAATGGG
22310699 TAAAGTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.21, C:0.10, G:0.44, T:0.25
Consensus pattern (27 bp):
TGGTGATACATGCGCTGAGAATGGGAG
Found at i:22311856 original size:23 final size:23
Alignment explanation
Indices: 22311826--22311871 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
22311816 GTATTAATGA
22311826 GTTAATTTTGCTGTTATAGACCC
1 GTTAATTTTGCTGTTATAGACCC
22311849 GTTAATTTTGCTGTTATAGACCC
1 GTTAATTTTGCTGTTATAGACCC
22311872 CAAGAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (23 bp):
GTTAATTTTGCTGTTATAGACCC
Found at i:22314112 original size:21 final size:20
Alignment explanation
Indices: 22314086--22314159 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 20
22314076 AACAGGGGTC
*
22314086 ACACGCTCGTGCAGATATGGG
1 ACACGCCCGTG-AGATATGGG
* * *
22314107 ACACGCTCGTGTGGGTATGGG
1 ACACGCCCGTG-AGATATGGG
*
22314128 ACACGCCCGTGTGAGTATGGG
1 ACACGCCCGTGAGA-TATGGG
22314149 ACACGCCCGTG
1 ACACGCCCGTG
22314160 TGGGCAGGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 1 0.02
21 45 0.98
ACGTcount: A:0.19, C:0.26, G:0.36, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGAGATATGGG
Found at i:22314160 original size:21 final size:21
Alignment explanation
Indices: 22314101--22314161 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
22314091 CTCGTGCAGA
* *
22314101 TATGGGACACGCTCGTGTGGG
1 TATGGGACACGCCCGTGTGAG
22314122 TATGGGACACGCCCGTGTGAG
1 TATGGGACACGCCCGTGTGAG
22314143 TATGGGACACGCCCGTGTG
1 TATGGGACACGCCCGTGTG
22314162 GGCAGGCCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.16, C:0.23, G:0.39, T:0.21
Consensus pattern (21 bp):
TATGGGACACGCCCGTGTGAG
Found at i:22315742 original size:30 final size:30
Alignment explanation
Indices: 22315706--22315770 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
22315696 CTATAATGAC
22315706 AAATTTAACTTATTTAATACACATATTGTT
1 AAATTTAACTTATTTAATACACATATTGTT
22315736 AAATTTAACTTATTTAATACACATATTGTT
1 AAATTTAACTTATTTAATACACATATTGTT
*
22315766 CAATT
1 AAATT
22315771 CAGTCCAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (30 bp):
AAATTTAACTTATTTAATACACATATTGTT
Found at i:22319464 original size:18 final size:17
Alignment explanation
Indices: 22319431--22319469 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
22319421 TTGTATAAAT
22319431 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
22319449 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
22319466 TGTG
1 TGTG
22319470 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:22319601 original size:8 final size:8
Alignment explanation
Indices: 22319588--22319616 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
22319578 CACTAGAGAC
22319588 CAGTGTTA
1 CAGTGTTA
22319596 CAGTGTTA
1 CAGTGTTA
22319604 CAGTGTTA
1 CAGTGTTA
22319612 CAGTG
1 CAGTG
22319617 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:22319730 original size:23 final size:23
Alignment explanation
Indices: 22319703--22319800 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
22319693 AGTGTTATTG
22319703 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
22319726 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
22319749 -TCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
22319771 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
22319794 ATCAGTG
1 ATCAGTG
22319801 TGGCACTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:22319768 original size:45 final size:46
Alignment explanation
Indices: 22319703--22319800 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 46
22319693 AGTGTTATTG
* *
22319703 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
22319749 -TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
22319794 ATCAGTG
1 ATCAGTG
22319801 TGGCACTTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 43 0.88
46 6 0.12
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
Found at i:22326833 original size:18 final size:17
Alignment explanation
Indices: 22326800--22326838 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
22326790 TTGTATAAAT
22326800 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
22326818 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
22326835 TGTG
1 TGTG
22326839 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:22326970 original size:8 final size:8
Alignment explanation
Indices: 22326957--22326985 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
22326947 CACTAGAGAC
22326957 CAGTGTTA
1 CAGTGTTA
22326965 CAGTGTTA
1 CAGTGTTA
22326973 CAGTGTTA
1 CAGTGTTA
22326981 CAGTG
1 CAGTG
22326986 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:22327099 original size:23 final size:23
Alignment explanation
Indices: 22327072--22327168 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
22327062 AGTGTTATTG
22327072 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
22327095 TTCAGTGGTAGCTTTGGCTAC--
1 ATCAGTGGTAGCTTCGGCTACAT
22327116 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
22327139 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
22327162 ATCAGTG
1 ATCAGTG
22327169 TGGCACTTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
21 19 0.28
23 49 0.72
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:22327135 original size:44 final size:44
Alignment explanation
Indices: 22327072--22327161 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
22327062 AGTGTTATTG
* *
22327072 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTAC
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
22327116 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
22327160 AT
1 AT
22327162 ATCAGTGTGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (44 bp):
ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
Found at i:22330399 original size:11 final size:11
Alignment explanation
Indices: 22330383--22330420 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
22330373 CAAAGGAAAA
22330383 AAAATTAAACT
1 AAAATTAAACT
22330394 AAAATTCAAA--
1 AAAATT-AAACT
22330404 AAAATTAAACT
1 AAAATTAAACT
22330415 AAAATT
1 AAAATT
22330421 CTTTTTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 3 0.12
10 6 0.25
11 12 0.50
12 3 0.12
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAATTAAACT
Found at i:22330404 original size:21 final size:21
Alignment explanation
Indices: 22330380--22330421 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22330370 TAGCAAAGGA
22330380 AAAAAAATTAAACTAAAATTC
1 AAAAAAATTAAACTAAAATTC
22330401 AAAAAAATTAAACTAAAATTC
1 AAAAAAATTAAACTAAAATTC
22330422 TTTTTGTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAAATTAAACTAAAATTC
Found at i:22333046 original size:21 final size:21
Alignment explanation
Indices: 22333020--22333062 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
22333010 TTCAAGTCTG
22333020 ACTCAGGTTAATAGGGAACTA
1 ACTCAGGTTAATAGGGAACTA
22333041 ACTCAGGTTAATAGGGAACTA
1 ACTCAGGTTAATAGGGAACTA
22333062 A
1 A
22333063 AATGAAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (21 bp):
ACTCAGGTTAATAGGGAACTA
Found at i:22339812 original size:28 final size:28
Alignment explanation
Indices: 22339772--22339825 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
22339762 TCTATATCAG
* **
22339772 TCAATATCTTTCAATGTCAATCAATTTA
1 TCAATATCGTTCAATAACAATCAATTTA
22339800 TCAATATCGTTCAATAACAATCAATT
1 TCAATATCGTTCAATAACAATCAATT
22339826 ATTCTTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39
Consensus pattern (28 bp):
TCAATATCGTTCAATAACAATCAATTTA
Found at i:22340009 original size:18 final size:18
Alignment explanation
Indices: 22339994--22340135 Score: 131
Period size: 18 Copynumber: 7.9 Consensus size: 18
22339984 CATCAGTATT
*
22339994 AATCAGTTATTCAGTAAT
1 AATCAGTTATTCAGTAAC
*
22340012 AATCATTTATTCAGTAAC
1 AATCAGTTATTCAGTAAC
* * * *
22340030 AGTCATTTATTTAGTCAC
1 AATCAGTTATTCAGTAAC
* * *
22340048 AGTCAATTATTCAGTAAT
1 AATCAGTTATTCAGTAAC
22340066 AATCAGTTATTCAGTAAC
1 AATCAGTTATTCAGTAAC
** * * *
22340084 AGCCATTTATTCAGTCAT
1 AATCAGTTATTCAGTAAC
* *
22340102 AATCAATTATTCAGTAGC
1 AATCAGTTATTCAGTAAC
*
22340120 AGTCAGTTATTCAGTA
1 AATCAGTTATTCAGTA
22340136 TCTTTATTTT
Statistics
Matches: 99, Mismatches: 25, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 99 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.38
Consensus pattern (18 bp):
AATCAGTTATTCAGTAAC
Found at i:22340026 original size:36 final size:36
Alignment explanation
Indices: 22339986--22340135 Score: 174
Period size: 36 Copynumber: 4.2 Consensus size: 36
22339976 CGGTCAGTCA
* * *
22339986 TCAGTATTAATCAGTTATTCAGTAATAATCATTTAT
1 TCAGTAATAATCAGTTATTCAGTAACAGTCATTTAT
* * * * * *
22340022 TCAGTAACAGTCATTTATTTAGTCACAGTCAATTAT
1 TCAGTAATAATCAGTTATTCAGTAACAGTCATTTAT
*
22340058 TCAGTAATAATCAGTTATTCAGTAACAGCCATTTAT
1 TCAGTAATAATCAGTTATTCAGTAACAGTCATTTAT
* * * *
22340094 TCAGTCATAATCAATTATTCAGTAGCAGTCAGTTAT
1 TCAGTAATAATCAGTTATTCAGTAACAGTCATTTAT
22340130 TCAGTA
1 TCAGTA
22340136 TCTTTATTTT
Statistics
Matches: 92, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 92 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (36 bp):
TCAGTAATAATCAGTTATTCAGTAACAGTCATTTAT
Found at i:22340062 original size:54 final size:54
Alignment explanation
Indices: 22339994--22340135 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 54
22339984 CATCAGTATT
* * * *
22339994 AATCAGTTATTCAGTAATAATCATTTATTCAGTAACAGTCATTTATTTAGTCAC
1 AATCAATTATTCAGTAATAATCAGTTATTCAGTAACAGCCATTTATTCAGTCAC
* *
22340048 AGTCAATTATTCAGTAATAATCAGTTATTCAGTAACAGCCATTTATTCAGTCAT
1 AATCAATTATTCAGTAATAATCAGTTATTCAGTAACAGCCATTTATTCAGTCAC
** *
22340102 AATCAATTATTCAGTAGCAGTCAGTTATTCAGTA
1 AATCAATTATTCAGTAATAATCAGTTATTCAGTA
22340136 TCTTTATTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.38
Consensus pattern (54 bp):
AATCAATTATTCAGTAATAATCAGTTATTCAGTAACAGCCATTTATTCAGTCAC
Found at i:22340557 original size:17 final size:18
Alignment explanation
Indices: 22340523--22340557 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22340513 TCAACTAATC
*
22340523 ATATATATTTTCAGTTCA
1 ATATATATTTTCAATTCA
22340541 ATATATA-TTTCAATTCA
1 ATATATATTTTCAATTCA
22340558 CTTTACATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (18 bp):
ATATATATTTTCAATTCA
Found at i:22341386 original size:19 final size:20
Alignment explanation
Indices: 22341357--22341397 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
22341347 AATCCCTATT
*
22341357 TTTCTTTTTTCGTTCTTTCC
1 TTTCTTTTTTCCTTCTTTCC
22341377 TTTC-TTTTTCCTTCTTTCC
1 TTTCTTTTTTCCTTCTTTCC
22341396 TT
1 TT
22341398 CCCCTGTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTCTTTTTTCCTTCTTTCC
Found at i:22341506 original size:15 final size:16
Alignment explanation
Indices: 22341481--22341522 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
22341471 CAATAAAGAT
22341481 ATCTA-TTAATAA-AA
1 ATCTATTTAATAACAA
22341495 ATCTATTTAATAACAA
1 ATCTATTTAATAACAA
22341511 ATACTTATTTAA
1 AT-C-TATTTAA
22341523 CACTTGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.21
15 7 0.29
16 4 0.17
17 1 0.04
18 7 0.29
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (16 bp):
ATCTATTTAATAACAA
Found at i:22343746 original size:18 final size:18
Alignment explanation
Indices: 22343632--22343739 Score: 110
Period size: 18 Copynumber: 5.9 Consensus size: 18
22343622 AGCAATTAAT
*
22343632 CAATCAGTAATATTCATTAA
1 CAATCAGT--TATTCAGTAA
* *
22343652 CAATCAGTCAATCAG-AA
1 CAATCAGTTATTCAGTAA
* *
22343669 CAATTACTTATTCAGTAA
1 CAATCAGTTATTCAGTAA
*
22343687 CAGTCAGTTATTCAGTAA
1 CAATCAGTTATTCAGTAA
* *
22343705 CAATCAATTATTCAATAA
1 CAATCAGTTATTCAGTAA
*
22343723 TAATCAGTTATTCAGTA
1 CAATCAGTTATTCAGTA
22343740 TCGATCAATT
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
17 13 0.18
18 50 0.70
20 8 0.11
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (18 bp):
CAATCAGTTATTCAGTAA
Found at i:22343821 original size:19 final size:19
Alignment explanation
Indices: 22343772--22343823 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
22343762 AGTAACAGTC
*
22343772 AATTATTCAGTAAAAATTA
1 AATTATTCAGTAACAATTA
* * *
22343791 GA-CATACAGTAACAATTA
1 AATTATTCAGTAACAATTA
22343809 AATTATTCAGTAACA
1 AATTATTCAGTAACA
22343824 GTCGATCTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.31
Consensus pattern (19 bp):
AATTATTCAGTAACAATTA
Found at i:22344060 original size:53 final size:53
Alignment explanation
Indices: 22343950--22344065 Score: 151
Period size: 53 Copynumber: 2.2 Consensus size: 53
22343940 ACAGTAATAG
* * * *** *
22343950 TAACAGTAGCAGTACGGTACATAGAGTACCTCATTAGAACAAATCTGGAACAG
1 TAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCAAAACAA
* *
22344003 TAACATTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCAAAACAA
1 TAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCAAAACAA
22344056 TAACAGTAAC
1 TAACAGTAAC
22344066 GGTAACAGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (53 bp):
TAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCAAAACAA
Found at i:22347089 original size:19 final size:19
Alignment explanation
Indices: 22347067--22347105 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
22347057 TAAAGATTTT
22347067 TTTATTTTTTATTTTTAAA
1 TTTATTTTTTATTTTTAAA
22347086 TTTATTTTTTATTTTTAAA
1 TTTATTTTTTATTTTTAAA
22347105 T
1 T
22347106 GATGCTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATTTTTTATTTTTAAA
Found at i:22349413 original size:17 final size:17
Alignment explanation
Indices: 22349373--22349423 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
22349363 TGAAATATAA
*
22349373 ATTT-TAAATATTAATA
1 ATTTATAAATATTAATT
* *
22349389 AGTAATAAATATTAATT
1 ATTTATAAATATTAATT
22349406 ATTTATAAA-ATTTAATT
1 ATTTATAAATA-TTAATT
22349423 A
1 A
22349424 GAATATATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 3 0.11
17 25 0.89
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
ATTTATAAATATTAATT
Found at i:22353817 original size:18 final size:18
Alignment explanation
Indices: 22353794--22353829 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22353784 AAAGTAAGCC
22353794 ATGTTCCAAAAAATCATT
1 ATGTTCCAAAAAATCATT
22353812 ATGTTCCAAAAAATCATT
1 ATGTTCCAAAAAATCATT
22353830 TTTCAGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (18 bp):
ATGTTCCAAAAAATCATT
Found at i:22357773 original size:48 final size:47
Alignment explanation
Indices: 22357681--22357773 Score: 141
Period size: 48 Copynumber: 2.0 Consensus size: 47
22357671 GACATTTCAG
* * *
22357681 ATATATATATGGCACTTATGTGTGATTCGAGATAGCTTCGGCTATAT
1 ATATATATATGGCACTTATGTGCGATTCGAAATAGCTTCAGCTATAT
*
22357728 ATATATATATGGCACTTAGTGTGCGGTTCGAAATAGCTTCAGCTAT
1 ATATATATATGGCACTTA-TGTGCGATTCGAAATAGCTTCAGCTAT
22357774 TTGTGGCACT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 18 0.44
48 23 0.56
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (47 bp):
ATATATATATGGCACTTATGTGCGATTCGAAATAGCTTCAGCTATAT
Found at i:22357823 original size:41 final size:41
Alignment explanation
Indices: 22357778--22357874 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
22357768 AGCTATTTGT
* ***
22357778 GGCACTTAGTGTGTGAGACTGGGATAGCTTCGGCTATGAAA
1 GGCACTTAGTGTGCGAGACTAAAATAGCTTCGGCTATGAAA
* ***
22357819 GGCACTTAGTGTGCGAGATTAAAATAGCTTCGGCTATGTTTT
1 GGCACTTAGTGTGCGAGACTAAAATAGCTTCGGCTATG-AAA
22357861 GGCACTTAGTGTGC
1 GGCACTTAGTGTGC
22357875 AAGAATTTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 33 0.70
42 14 0.30
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (41 bp):
GGCACTTAGTGTGCGAGACTAAAATAGCTTCGGCTATGAAA
Found at i:22367558 original size:43 final size:43
Alignment explanation
Indices: 22367471--22367573 Score: 100
Period size: 43 Copynumber: 2.4 Consensus size: 43
22367461 AGCTCGTACA
* * * * ** * *
22367471 ATGCC-ATATCCTAGATATGGTCTTACATGTTATCACTTATCG
1 ATGCCAATGTCCTAGACAGGGTCTTACAAGAAATCAATTAACG
* *
22367513 ATGCTACTGTCCTAGACAGGGTCTTACAAGAAATCAATTAACG
1 ATGCCAATGTCCTAGACAGGGTCTTACAAGAAATCAATTAACG
*
22367556 ATGCCAATGTCCCAGACA
1 ATGCCAATGTCCTAGACA
22367574 TGATCTGACA
Statistics
Matches: 47, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
42 4 0.09
43 43 0.91
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACAGGGTCTTACAAGAAATCAATTAACG
Found at i:22371939 original size:39 final size:39
Alignment explanation
Indices: 22371885--22371959 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
22371875 GTAAGTTTTG
22371885 GTATGAACTTAGTTATAAGTTGGTTGAGTTTTGGCTAAA
1 GTATGAACTTAGTTATAAGTTGGTTGAGTTTTGGCTAAA
22371924 GTATGAACTTAGTTATAAGTTGGTTGAGTTTTGGCT
1 GTATGAACTTAGTTATAAGTTGGTTGAGTTTTGGCT
22371960 CAACTATGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.25, C:0.05, G:0.27, T:0.43
Consensus pattern (39 bp):
GTATGAACTTAGTTATAAGTTGGTTGAGTTTTGGCTAAA
Found at i:22377123 original size:19 final size:19
Alignment explanation
Indices: 22377096--22377139 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
22377086 TTTTAATTAA
*
22377096 GAAATAAGAACAATCAAAT
1 GAAACAAGAACAATCAAAT
22377115 GAAACAAGAACAATCAAAT
1 GAAACAAGAACAATCAAAT
22377134 GAAACA
1 GAAACA
22377140 GTAAAGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.64, C:0.14, G:0.11, T:0.11
Consensus pattern (19 bp):
GAAACAAGAACAATCAAAT
Found at i:22380707 original size:11 final size:11
Alignment explanation
Indices: 22380691--22380718 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
22380681 TGGTCTAATT
22380691 ACCAATAGAAC
1 ACCAATAGAAC
22380702 ACCAATAGAAC
1 ACCAATAGAAC
22380713 ACCAAT
1 ACCAAT
22380719 TTTATGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.29, G:0.07, T:0.11
Consensus pattern (11 bp):
ACCAATAGAAC
Found at i:22384569 original size:28 final size:28
Alignment explanation
Indices: 22384526--22384581 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
22384516 GAAATGTATG
*
22384526 ATTGTTTAAGTGATAAGTCCAGTAATGC
1 ATTGTTTAAGTCATAAGTCCAGTAATGC
*
22384554 ATTGTTTAAGTCATAAGTCCGGTAATGC
1 ATTGTTTAAGTCATAAGTCCAGTAATGC
22384582 TCCGTAACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.36
Consensus pattern (28 bp):
ATTGTTTAAGTCATAAGTCCAGTAATGC
Found at i:22389578 original size:8 final size:8
Alignment explanation
Indices: 22389565--22389589 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
22389555 GATATGTATT
22389565 ATTTTAAA
1 ATTTTAAA
22389573 ATTTTAAA
1 ATTTTAAA
22389581 ATTTTAAA
1 ATTTTAAA
22389589 A
1 A
22389590 AATATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:22393543 original size:24 final size:22
Alignment explanation
Indices: 22393516--22393559 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
22393506 AATAATTACC
22393516 TAAACAATTATAAAATTATAATAA
1 TAAACAATTAT--AATTATAATAA
*
22393540 TAAATAATTATAATTATAAT
1 TAAACAATTATAATTATAAT
22393560 TTTTAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
24 10 0.53
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAACAATTATAATTATAATAA
Found at i:22395602 original size:220 final size:220
Alignment explanation
Indices: 22395178--22395614 Score: 682
Period size: 222 Copynumber: 2.0 Consensus size: 220
22395168 TGAATCGCAC
* * * * * *
22395178 TCATAGTTCATAGTTGTCTCTCATAACAATGTTGTCTCTAAAATTTGAACTTAAATTCTTTCCTA
1 TCATAGTTCATAGTTATATCTCACAACAATGTCGTCTCTAAAATTTAAACTTAAATTCTCTCCTA
* *
22395243 AAAAGTACAATATGTTTTATTATATATTGATTAATTGTAATATATATATATAATTTAGATCAGTT
66 AAAAGTACAATATGTCTTATTATATATTGATTAATTGTAAAATATATATATAATTTAGATCAGTT
* *
22395308 CAAAATCGACATTGCTATATGTAAAAAGAAGACCCTAAGCCTTCCTTTTATGACAAGTGTCATGG
131 CAAAATCGACACTGCTATACGTAAAAAGAAGACCCTAAGCCTTCCTTTTATGACAAGTGTCATGG
22395373 CATTTTTTTTCTTTTTCTTTTTGCAT
196 CATTTTTTTTC-TTTTCTTTTTGCAT
*
22395399 TCATGGTTCATAGTTATATCTCACAACAAT-TCGTCTCTAAAATTTAAACTTAAATTCTCTCCTA
1 TCATAGTTCATAGTTATATCTCACAACAATGTCGTCTCTAAAATTTAAACTTAAATTCTCTCCTA
* * *
22395463 AAGAGTACGATATGTCTTATTATATATTGATTAATTGTAACAAATATATATATCATTTAGATCAG
66 AAAAGTACAATATGTCTTATTATATATTGATTAATTGT-A-AAATATATATATAATTTAGATCAG
*
22395528 TTTAAAATCGACACTGCTATACGTAAAAAGAA-AGCCCTAAGCCTTCCTTTTATGACAAGTGTCA
129 TTCAAAATCGACACTGCTATACGTAAAAAGAAGA-CCCTAAGCCTTCCTTTTATGACAAGTGTCA
22395592 TGGC-TTTTTTTTCTTTTCTTTTT
193 TGGCATTTTTTTTCTTTTCTTTTT
22395615 CTTTTTGACA
Statistics
Matches: 198, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
220 76 0.38
221 37 0.19
222 85 0.43
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (220 bp):
TCATAGTTCATAGTTATATCTCACAACAATGTCGTCTCTAAAATTTAAACTTAAATTCTCTCCTA
AAAAGTACAATATGTCTTATTATATATTGATTAATTGTAAAATATATATATAATTTAGATCAGTT
CAAAATCGACACTGCTATACGTAAAAAGAAGACCCTAAGCCTTCCTTTTATGACAAGTGTCATGG
CATTTTTTTTCTTTTCTTTTTGCAT
Found at i:22400953 original size:18 final size:18
Alignment explanation
Indices: 22400912--22400953 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
22400902 TAAACATATA
*
22400912 AAAAAATATATAAATTCT
1 AAAAAATAAATAAATTCT
*
22400930 ATAAAATAAATCAAATT-T
1 AAAAAATAAAT-AAATTCT
22400948 AAAAAA
1 AAAAAA
22400954 CTTTAGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAAATAAATAAATTCT
Found at i:22403419 original size:46 final size:46
Alignment explanation
Indices: 22403255--22403425 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
22403245 GGTTGAGCAT
* *
22403255 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * *
22403301 CC-AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC
* *
22403345 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
*
22403393 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
22403426 GGGCGGGTTA
Statistics
Matches: 105, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
42 6 0.06
44 4 0.04
45 25 0.24
46 35 0.33
47 25 0.24
48 5 0.05
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:22403686 original size:19 final size:20
Alignment explanation
Indices: 22403649--22403686 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
22403639 ATAAGGTGGT
22403649 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
22403669 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
22403687 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:22411173 original size:19 final size:20
Alignment explanation
Indices: 22411136--22411173 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
22411126 ATAAGGTGGT
22411136 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
22411156 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
22411174 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:22412319 original size:42 final size:42
Alignment explanation
Indices: 22412273--22412363 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
22412263 GACTACGTTG
*
22412273 AAGACTAGATCTAGGATATGGCATTAATATGAGACTACATGT
1 AAGACTAGATCTAGGATATGGCATCAATATGAGACTACATGT
* * * * * *
22412315 AAGACCATATCTGGGATATGGCATCGATATGAGACTTCGTGT
1 AAGACTAGATCTAGGATATGGCATCAATATGAGACTACATGT
22412357 AAGACTA
1 AAGACTA
22412364 TAGCTGGGCT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (42 bp):
AAGACTAGATCTAGGATATGGCATCAATATGAGACTACATGT
Found at i:22412371 original size:42 final size:42
Alignment explanation
Indices: 22412286--22412423 Score: 132
Period size: 42 Copynumber: 3.3 Consensus size: 42
22412276 ACTAGATCTA
* *
22412286 GGATATGGCATTAATATGAGACTACATGTAAGACCATATCTG
1 GGATATGGCATCAATATGAGACTACATGTAAGACCATAGCTG
* * * *
22412328 GGATATGGCATCGATATGAGACTTCGTGTAAGACTATAGCTG
1 GGATATGGCATCAATATGAGACTACATGTAAGACCATAGCTG
* ** * * * * * *
22412370 GGCTATTGGCATTGACACGAGATTACATATAAGATCATATCTG
1 GGATA-TGGCATCAATATGAGACTACATGTAAGACCATAGCTG
22412413 GGATATGGCAT
1 GGATATGGCAT
22412424 TGGTACGATA
Statistics
Matches: 77, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 46 0.60
43 31 0.40
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (42 bp):
GGATATGGCATCAATATGAGACTACATGTAAGACCATAGCTG
Found at i:22412621 original size:15 final size:16
Alignment explanation
Indices: 22412595--22412624 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22412585 ATGAGCCCTC
22412595 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
22412611 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
22412625 TTAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:22420739 original size:19 final size:19
Alignment explanation
Indices: 22420710--22420759 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
22420700 GTATATGTTT
22420710 TAAATTTATTTAGG-TAGA
1 TAAATTTATTTAGGATAGA
22420728 TAAATCTTATTT-GGATAGA
1 TAAAT-TTATTTAGGATAGA
*
22420747 TAAGTTTTATTTA
1 TAA-ATTTATTTA
22420760 CCTAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 7 0.26
19 19 0.70
20 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (19 bp):
TAAATTTATTTAGGATAGA
Found at i:22428586 original size:46 final size:48
Alignment explanation
Indices: 22428437--22428700 Score: 228
Period size: 46 Copynumber: 5.6 Consensus size: 48
22428427 GGGCTATTGT
* * ***
22428437 GAGCTAGTGTAAGA-CATTTCTGGGACATGCATCAGCCACCTTATG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCTACGAGATGTA
* *
22428483 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATC-GAC-ATTGAGATG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCAG-CTA-CGAGATGTA
* *
22428531 GTGCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCTTCGAGATGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCTACGAGATGTA
* * * *
22428578 -AGCCAGTGTAAGA-CATGTTTGGGACATGCATTAGCTACAAGATGT-
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCTACGAGATGTA
* * *
22428623 G-GC-AGTGTAAGACCCTGTCTGGGACATGGCATCGGC-ACAGATATGATA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCAGCTAC-GAGATG-TA
* *
22428671 GAGCTTGTGTAAGAGCATGTCTGGGACATG
1 GAGCTAGTGTAAGACCATGTCTGGGACATG
22428701 GCATTGACAC
Statistics
Matches: 178, Mismatches: 25, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 75 0.42
47 30 0.17
48 24 0.13
49 3 0.02
50 21 0.12
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCTACGAGATGTA
Found at i:22433586 original size:42 final size:42
Alignment explanation
Indices: 22433539--22433700 Score: 180
Period size: 42 Copynumber: 3.8 Consensus size: 42
22433529 AGGGTTACTA
* * *
22433539 AGACTATATGTAAGACCATATTTGGGATATGGCATCAATATG
1 AGACTACATGTAAGAACATATCTGGGATATGGCATCAATATG
* * *
22433581 AGACTACGTGTAAGACCATATCTAGGATATGGCATCAATATG
1 AGACTACATGTAAGAACATATCTGGGATATGGCATCAATATG
* * * * ** *
22433623 AGACTTCGTGTAAGAACATAGCTGGGCTATTGGCATGGACATG
1 AGACTACATGTAAGAACATATCTGGGATA-TGGCATCAATATG
* *
22433666 AGATTACATGTACGAACATATCTGGGATATGGCAT
1 AGACTACATGTAAGAACATATCTGGGATATGGCAT
22433701 TGGTACGATA
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 68 0.67
43 33 0.33
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (42 bp):
AGACTACATGTAAGAACATATCTGGGATATGGCATCAATATG
Found at i:22437177 original size:10 final size:10
Alignment explanation
Indices: 22437152--22437181 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
22437142 TAATTGAGGT
22437152 ATGATTTTTG
1 ATGATTTTTG
22437162 ATTGATTTTTG
1 A-TGATTTTTG
22437173 ATGATTTTT
1 ATGATTTTT
22437182 ACGTTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.63
Consensus pattern (10 bp):
ATGATTTTTG
Found at i:22440213 original size:13 final size:13
Alignment explanation
Indices: 22440176--22440213 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
22440166 TTTTTGTCAA
22440176 TTTTTAGATTTTT
1 TTTTTAGATTTTT
* *
22440189 TGTTAAGATTTTT
1 TTTTTAGATTTTT
22440202 TTTTTAG-TTTTT
1 TTTTTAGATTTTT
22440214 AGCCATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.74
Consensus pattern (13 bp):
TTTTTAGATTTTT
Found at i:22451115 original size:52 final size:51
Alignment explanation
Indices: 22450992--22451171 Score: 249
Period size: 52 Copynumber: 3.5 Consensus size: 51
22450982 CGGATACTCG
* * * *
22450992 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCAATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTC--TTCACAAA
*
22451045 GTGGTCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAA
*
22451097 GTGGCCTTCACATAGTACCACACTTGTGACC-AAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
22451146 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
22451172 AGTCGTTACT
Statistics
Matches: 118, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
49 35 0.30
51 8 0.07
52 38 0.32
53 33 0.28
54 4 0.03
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
Found at i:22475094 original size:12 final size:12
Alignment explanation
Indices: 22475063--22475100 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
22475053 TTAGGTTAGG
22475063 TTTTCTTTTC--
1 TTTTCTTTTCAT
*
22475073 TTTTCCTTTCAT
1 TTTTCTTTTCAT
22475085 TTTTCTTTTCAT
1 TTTTCTTTTCAT
22475097 TTTT
1 TTTT
22475101 AGTTTAGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTTTCAT
Found at i:22479793 original size:16 final size:15
Alignment explanation
Indices: 22479767--22479801 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
22479757 TGATGTGAAT
22479767 AATATAAAATATTAA
1 AATATAAAATATTAA
*
22479782 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
22479798 AATA
1 AATA
22479802 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:22480070 original size:25 final size:25
Alignment explanation
Indices: 22479952--22480163 Score: 99
Period size: 23 Copynumber: 8.9 Consensus size: 25
22479942 TACGTGATAA
*
22479952 TATTAAA-ATATGTACATAATATAG
1 TATTAAAGATATATACATAATATAG
* * * *
22479976 TGTAAAAAATACATACAT-A-ATAG
1 TATTAAAGATATATACATAATATAG
* * * *
22479999 AATTAAA-ATATATAAATAAGATAA
1 TATTAAAGATATATACATAATATAG
* * *
22480023 CATGTAAATATATATATAAATAATATAG
1 TAT-T-AA-AGATATATACATAATATAG
*
22480051 TATTAAAGATATATACATAAAATAG
1 TATTAAAGATATATACATAATATAG
* * *
22480076 TA-T-AATATAAATACGTAATATAG
1 TATTAAAGATATATACATAATATAG
* * *
22480099 AATT-TAGA-ATATACCTAATATA-
1 TATTAAAGATATATACATAATATAG
* * *
22480121 T-TAAAAGA-ATATATATAATATAA
1 TATTAAAGATATATACATAATATAG
*
22480144 TATT-AAGAAATATA-ATAATA
1 TATTAAAGATATATACATAATA
22480164 ACAAAAAAGA
Statistics
Matches: 144, Mismatches: 32, Indels: 25
0.72 0.16 0.12
Matches are distributed among these distances:
21 1 0.01
22 23 0.16
23 49 0.34
24 21 0.15
25 27 0.19
26 4 0.03
27 2 0.01
28 17 0.12
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (25 bp):
TATTAAAGATATATACATAATATAG
Found at i:22480161 original size:23 final size:25
Alignment explanation
Indices: 22480118--22480163 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22480108 TATACCTAAT
22480118 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
22480143 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
22480164 ACAAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:22480680 original size:30 final size:30
Alignment explanation
Indices: 22480641--22480737 Score: 176
Period size: 30 Copynumber: 3.2 Consensus size: 30
22480631 GGTACAAGTA
*
22480641 GTGGTGGAGCAAGTGTGGCTAGTGGAGTAG
1 GTGGTGGAGCAAGTGTGGCTAGTGGAGTTG
*
22480671 GTAGTGGAGCAAGTGTGGCTAGTGGAGTTG
1 GTGGTGGAGCAAGTGTGGCTAGTGGAGTTG
22480701 GTGGTGGAGCAAGTGTGGCTAGTGGAGTTG
1 GTGGTGGAGCAAGTGTGGCTAGTGGAGTTG
22480731 GTGGTGG
1 GTGGTGG
22480738 CAAAGGCTAG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.26
Consensus pattern (30 bp):
GTGGTGGAGCAAGTGTGGCTAGTGGAGTTG
Found at i:22481669 original size:88 final size:88
Alignment explanation
Indices: 22481391--22481691 Score: 332
Period size: 88 Copynumber: 3.4 Consensus size: 88
22481381 GTGATCCTGA
* *
22481391 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAC-TAGACATT-AAAAACAGA--AAT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAACATA-A-ATTGAAAAA-AGATTAAT
* *
22481452 TGAAAATAACTCAGCACGTGAGCCAAG
63 TGAAAATACCTCAG-ACGTGACCCAAG
* * *
22481479 GCTCAACTCACTTCTCGCAATATGAGTTGATT-TTTCAAACA-AAATTTGTAAAACAGATT--TT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAACATAAA-TTG-AAAAAAGATTAATT
* * *
22481540 GAAAATACCTCTGTATGTGACCCGAG
64 GAAAATACCTCAG-ACGTGACCCAAG
* * *
22481566 GCTCAACTCATTTCTCGTAATATGAGTTGATTCTTGAAAAGCATAAATTGAAAAAAAATTAATTG
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAA-CATAAATTGAAAAAAGATTAATTG
*
22481631 AAAATACCTCAG-CGTGCCCCAAG
65 AAAATACCTCAGACGTGACCCAAG
*
22481654 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTAA
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAA
22481692 TGAACAGAAA
Statistics
Matches: 178, Mismatches: 24, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 63 0.35
88 89 0.50
89 5 0.03
90 17 0.10
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (88 bp):
GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAACATAAATTGAAAAAAGATTAATTGA
AAATACCTCAGACGTGACCCAAG
Found at i:22481835 original size:77 final size:74
Alignment explanation
Indices: 22481626--22482166 Score: 506
Period size: 71 Copynumber: 7.1 Consensus size: 74
22481616 AAAAAAAATT
* * * **
22481626 AATTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT-
1 AATTGAAAACACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
*
22481690 AATGAACAGA
66 AA-AAACAGA
* * * *
22481700 AATT-AAAACTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAACATGACTTGATTTTTT
1 AATTGAAAAC-ACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
22481764 TGAAAAACAGA
64 TGAAAAACAGA
* *
22481775 AGTTGAAAACACCTCAGCGTGTGACCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAACACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
*
22481840 TTGACAAACAGA
63 TTGAAAAACAGA
* * *
22481852 AATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AATTG-AAAACACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
22481917 TTGAAAAACAGA
63 TTGAAAAACAGA
*
22481929 AATTGAAAACACCTCAGCATGT---GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG
1 AATTGAAAACACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
22481990 AAAAACATAGATTGAGCAGA
66 ----A-A-A-A---A-CAGA
* * * *** *
22482010 AATTGAAAATACCTCAACGGGTTTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTG
1 AATTGAAAACACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
** *
22482075 ---ATGATA
66 AAAAACAGA
* ** * ** *
22482081 AATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
1 AATTGAAAACACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
22482146 AATTAAAACAGA
66 -A--AAAACAGA
22482158 AATTGAAAA
1 AATTGAAAA
22482167 TAGAAATGGA
Statistics
Matches: 395, Mismatches: 44, Indels: 53
0.80 0.09 0.11
Matches are distributed among these distances:
70 6 0.02
71 93 0.24
73 4 0.01
74 45 0.11
75 28 0.07
76 23 0.06
77 85 0.22
78 50 0.13
80 1 0.00
81 22 0.06
84 32 0.08
85 6 0.02
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (74 bp):
AATTGAAAACACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
AAAAACAGA
Found at i:22481917 original size:155 final size:149
Alignment explanation
Indices: 22481626--22482166 Score: 525
Period size: 155 Copynumber: 3.6 Consensus size: 149
22481616 AAAAAAAATT
* * * **
22481626 AATTGAAAATACCTCAGC--GTGCCCCAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
** * *
22481689 TAATGAACAGAAATT-AAAACTACCTCAACGTGT-CCTGAGGCTCAACTCACCTCTCGCAACATG
66 TAACAAACAGAAATTGAAAAATACCTCAACGTGTGCC--AGGCTCAACTCACCTCTCGCAATATG
*
22481752 ACTTGATTTTTTTGAAAAACAG
129 AGTTGA-TTTTTTGAAAAACAG
* *
22481774 AAGTTGAAAACACCTCAGCGTGTGACCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTT
1 AA-TTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
* *
22481839 TTTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAAT
64 TTTAACAAACAGAAATTGAAAAATACCTCAACGTGT--GCC-AGGCTCAACTCACCTCTCGCAAT
22481904 ATGAGTTGATTTTTTGAAAAACAG
126 ATGAGTTGATTTTTTGAAAAACAG
22481928 AAATTGAAAACACCTCAGCATGT-----GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 -AATTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * ***
22481988 TGAAAAACATAGATTGAGCAGAAATTG-AAAATACCTCAACGGGTTTTGAGGCTCAACTCACCTC
65 T---TAAC--A-A---A-CAGAAATTGAAAAATACCTCAACGTG-TGCCAGGCTCAACTCACCTC
* ** *
22482052 TTGCAATATGAGTTGATTTTTTG-ATGATA-
119 TCGCAATATGAGTTGATTTTTTGAAAAACAG
* ** *
22482081 AATTGAAAATACCTCA--ATGTGACTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
22482144 TGAATTAAAACAGAAATTGAAAA
66 T-AA--CAAACAGAAATTGAAAA
22482167 TAGAAATGGA
Statistics
Matches: 333, Mismatches: 31, Indels: 57
0.79 0.07 0.14
Matches are distributed among these distances:
148 16 0.05
149 51 0.15
150 4 0.01
151 37 0.11
152 33 0.10
153 20 0.06
154 38 0.11
155 107 0.32
156 2 0.01
157 15 0.05
158 10 0.03
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (149 bp):
AATTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TAACAAACAGAAATTGAAAAATACCTCAACGTGTGCCAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGAAAAACAG
Found at i:22482268 original size:88 final size:87
Alignment explanation
Indices: 22482103--22482269 Score: 221
Period size: 88 Copynumber: 1.9 Consensus size: 87
22482093 CTCAATGTGA
* * *
22482103 CTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAAAAT
1 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAA-TAAAACAGAAATTAAAAAA
*
22482168 AGAAATGGAAAACACATCAGCGT
65 AGAAATGAAAAACACATCAGCGT
* *
22482191 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG-A-AACACATAAATTAAAAAA
1 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTGAATAAAACAGAAATT-AAAAA
*
22482254 AAGGAAATTAAAAACA
64 AA-GAAATGAAAAACA
22482270 GAATTTGAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
86 10 0.14
87 5 0.07
88 47 0.68
89 7 0.10
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (87 bp):
CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAATAAAACAGAAATTAAAAAAA
GAAATGAAAAACACATCAGCGT
Found at i:22482393 original size:75 final size:74
Alignment explanation
Indices: 22482264--22482579 Score: 345
Period size: 77 Copynumber: 4.2 Consensus size: 74
22482254 AAGGAAATTA
* ** * * *
22482264 AAAACAGAATTTGAAAGGACCTCGATGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTC-A-GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
22482329 TGAATTTTTTG
64 TGAATTTTTTG
22482340 AAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
22482405 GATTTTTTTG
65 GAATTTTTTG
* * * *
22482415 ATAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 ---AAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
22482480 TTG-A-TTTTTG
63 TTGAATTTTTTG
* * * ** *
22482490 ACAAACAAAAATTGAAATTACCTTAGC--GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
22482553 GATTTTTTTTG
65 GA-ATTTTTTG
* *
22482564 -AAACATAAATTAAAAA
1 AAAACAGAAATTGAAAA
22482580 ATGAAAATTG
Statistics
Matches: 208, Mismatches: 24, Indels: 20
0.83 0.10 0.08
Matches are distributed among these distances:
71 35 0.17
72 14 0.07
73 19 0.09
74 6 0.03
75 52 0.25
76 5 0.02
77 73 0.35
78 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (74 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
AATTTTTTG
Found at i:22482466 original size:77 final size:76
Alignment explanation
Indices: 22482303--22482645 Score: 383
Period size: 77 Copynumber: 4.4 Consensus size: 76
22482293 TGGCCCGAGA
* **
22482303 CTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGA-AAAGCAGAAATTGAAAATACCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAAAGAAATTGAAAATACCTCAGC
*
22482367 GTGTCCCGAGG
66 GTGTCCTGAGG
* *
22482378 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAATAGAATTTGAAAATATCTCAG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAA-AGAAATTGAAAATACCTCAG
22482443 CGTGTCCTGAGG
65 CGTGTCCTGAGG
* * * *
22482455 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAA-AAATTGAAATTACCTTAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAAAGAAATTGAAAATACCTCAGC
*
22482517 --GTCTTGAGG
66 GTGTCCTGAGG
* * * *
22482526 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAAATGAAAATTGA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGATA-A-AAA--AGAAATTG---A----
*
22482591 AAATACCTCAGCGTGTTCTGAGG
54 AAATACCTCAGCGTGTCCTGAGG
22482614 CTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTT
22482646 GAAAAGCAGA
Statistics
Matches: 227, Mismatches: 22, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
71 36 0.16
73 15 0.07
74 9 0.04
75 49 0.22
76 5 0.02
77 58 0.26
78 1 0.00
79 5 0.02
82 1 0.00
86 10 0.04
87 3 0.01
88 35 0.15
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (76 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAAAGAAATTGAAAATACCTCAGC
GTGTCCTGAGG
Found at i:22482621 original size:416 final size:408
Alignment explanation
Indices: 22481840--22482764 Score: 1031
Period size: 416 Copynumber: 2.2 Consensus size: 408
22481830 GTTGATTTTT
* * * * *
22481840 TTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCC-AAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTG-AAAAGACCTCAGCGTG---CCCTGAGACTCAACTCACCTCTCGCAAT
22481904 ATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCT
62 ATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCT
**
22481969 CGCAATATGAGTTGATTTTTGAAAAACATAGATTGAGCAGAAATTGAAAATACCTCAACGGGTTT
127 CGCAATATGAGTTGATTTTTGAAAAACATAGATT--G-AGAAATTGAAAATACCTCAACGGGTCC
* ** *
22482034 TGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGATGATAAATTGAAAATACCTCAAT
189 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACAAAAATTGAAAATACCTCAAT
* * *
22482099 GTGACTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGA
254 GCGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT--ATTAAAACAGAAATTAA
*
22482164 AAATAGAAATGGAAAACACATCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
317 AAATAGAAATGGAAAACACATCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA--
*
22482229 TTTTTGAAACA-CATAAATT-AAAAAAAAGGAAA
380 --TTTGAAA-AGCAGAAATTGAAAAAAAA--AAA
* * *
22482261 TT-AAAAACAGAATTTGAAAGGACCTCGATGTGTGGCCC-GAGACTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAAGACCTC-A-GCGT-GCCCTGAGACTCAACTCACCTCTCGCAATA
* * *
22482324 TGAGTTGAATTTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACC
63 TGAGTTG-ATTTTTTGAAAAACAGAAATTGAAAACACCTCAGCATGT---GAGGCTCAACTCACC
* * * * *
22482389 TCTCGCAATATGAGTTGATTTTTTTG-ATAA-A-A-A-T-AGAATTTGAAAATATCTCAGCGTGT
124 TCTCGCAATATGAGTTGA--TTTTTGAAAAACATAGATTGAGAAATTGAAAATACCTCAACGGGT
*
22482448 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTGAAATTACC
187 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG---AACAAAAATTGAAAATACC
* * * * *
22482512 T-TA-GCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT-TTGAAACATAAAT
249 TCAATGCGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTATTAAAACAGAAAT
* * * *
22482574 TAAAAA-ATGAAAATTGAAAATACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGA
314 TAAAAATA-G-AAATGGAAAACACATCAGCGT-CT-TGAGGCTCAACTCACCTCTCGCAATATGA
* * * ***
22482638 GTTGATTTGAAAAGCAGAATTTGTAAGGCAAAAA
375 GCTGATTTGAAAAGCAGAAATTGAAAAAAAAAAA
* *
22482672 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCGTGCCCTGAGACTCAACTCACCTCTCGCAATATGA
22482737 GTTGA-TTTTTGAAAAACAGAAATT-AAAA
66 GTTGATTTTTTGAAAAACAGAAATTGAAAA
22482765 GCAGAAATTG
Statistics
Matches: 435, Mismatches: 49, Indels: 54
0.81 0.09 0.10
Matches are distributed among these distances:
407 4 0.01
408 18 0.04
409 5 0.01
410 34 0.08
411 7 0.02
412 35 0.08
413 21 0.05
414 18 0.04
415 7 0.02
416 128 0.29
417 1 0.00
418 16 0.04
419 40 0.09
420 50 0.11
421 6 0.01
422 2 0.00
423 34 0.08
424 3 0.01
425 6 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (408 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCGTGCCCTGAGACTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTGAAAAACATAGATTGAGAAATTGAAAATACCTCAACGGGTCCTGAGGCT
CAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACAAAAATTGAAAATACCTCAATGCGACTT
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTATTAAAACAGAAATTAAAAATAGAAA
TGGAAAACACATCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTGAAAAGCA
GAAATTGAAAAAAAAAAA
Found at i:22482783 original size:14 final size:13
Alignment explanation
Indices: 22482748--22482792 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
22482738 TTGATTTTTG
22482748 AAAAACAGAAATT
1 AAAAACAGAAATT
*
22482761 AAAAGCAGAAATT
1 AAAAACAGAAATT
22482774 GAAAAACAGAAATT
1 -AAAAACAGAAATT
22482788 AAAAA
1 AAAAA
22482793 TACCTTGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:22482813 original size:100 final size:101
Alignment explanation
Indices: 22482584--22482864 Score: 406
Period size: 100 Copynumber: 2.8 Consensus size: 101
22482574 TAAAAAATGA
* ** *
22482584 AAATTGAAAATACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTG
1 AAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * *
22482647 AAAAGCAGAATTTGTAAGGCAAAAATTGAAAAACAG
66 AAAAGCAGAAATTGAAAAGCAAAAATTGAAAAACAG
* *
22482683 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* *
22482748 AAAAACAGAAATT-AAAAGCAGAAATTGAAAAACAG
66 AAAAGCAGAAATTGAAAAGCAAAAATTGAAAAACAG
** *
22482783 AAATTAAAAATACCTTGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
22482848 AAAAGCATAAATTGAAA
66 AAAAGCAGAAATTGAAA
22482865 TTACCTCAGC
Statistics
Matches: 165, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
99 57 0.35
100 90 0.55
101 18 0.11
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (101 bp):
AAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAGCAGAAATTGAAAAGCAAAAATTGAAAAACAG
Found at i:22482895 original size:73 final size:73
Alignment explanation
Indices: 22482772--22482938 Score: 237
Period size: 73 Copynumber: 2.3 Consensus size: 73
22482762 AAAGCAGAAA
* * * ** *
22482772 TTGAAAAACAGAAATTAAAAATACCTTGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCG-AATATGA
22482837 GTTGA-TTT
65 GTTGATTTT
* * *
22482845 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGAATATGAG
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGAATATGAG
22482910 TTGATTTT
66 TTGATTTT
22482918 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
22482939 AATGGAAATT
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
72 12 0.14
73 71 0.86
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (73 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGAATATGAG
TTGATTTT
Found at i:22483029 original size:90 final size:88
Alignment explanation
Indices: 22482856--22483024 Score: 259
Period size: 88 Copynumber: 1.9 Consensus size: 88
22482846 TGAAAAGCAT
* *
22482856 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGAATATGAGTTGATTTTTTG
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGAATATGAGTTGATTTTTTG
*
22482921 AAAAGCATAAATTGAAAAAATGG
66 AAAAGCAGAAATTGAAAAAATGG
22482944 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGT--CCTGAGGCCCAACTCACCTCTCG-AATATGAGTTGA-TTT
22483009 TTTG-AAAGACAGAAAT
62 TTTGAAAAG-CAGAAAT
22483025 AAAAACATCA
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
88 22 0.30
90 22 0.30
91 16 0.22
92 13 0.18
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (88 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGAATATGAGTTGATTTTTTG
AAAAGCAGAAATTGAAAAAATGG
Found at i:22483876 original size:44 final size:44
Alignment explanation
Indices: 22483810--22483918 Score: 184
Period size: 44 Copynumber: 2.5 Consensus size: 44
22483800 TAGAACACCC
*
22483810 TTTCGGGTTTTCATCC-TAATCTTTTGTGTTAATCAAGACGCCCT
1 TTTCGGGTTTTCA-CCTTGATCTTTTGTGTTAATCAAGACGCCCT
*
22483854 TTTCGGGTTTTCACCTTGATCTTTTTTGTTAATCAAGACGCCCT
1 TTTCGGGTTTTCACCTTGATCTTTTGTGTTAATCAAGACGCCCT
22483898 TTTCGGGTTTTCACCTTGATC
1 TTTCGGGTTTTCACCTTGATC
22483919 ACCTTTTTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
43 2 0.03
44 60 0.97
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.45
Consensus pattern (44 bp):
TTTCGGGTTTTCACCTTGATCTTTTGTGTTAATCAAGACGCCCT
Found at i:22489968 original size:16 final size:15
Alignment explanation
Indices: 22489942--22489976 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
22489932 TGATGTGAAT
22489942 AATATAAAATATTAA
1 AATATAAAATATTAA
*
22489957 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
22489973 AATA
1 AATA
22489977 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:22490145 original size:20 final size:20
Alignment explanation
Indices: 22490088--22490147 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
22490078 AATACTACAT
22490088 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
22490107 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
22490130 AAATATGTACATAATATA
1 AAATATGTACATAATATA
22490148 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:22490186 original size:22 final size:23
Alignment explanation
Indices: 22490125--22490211 Score: 86
Period size: 25 Copynumber: 3.6 Consensus size: 23
22490115 ACGTGATAAT
*
22490125 ATTAAAAATATGTACATAATATA
1 ATTAAAAATATATACATAATATA
* *
22490148 GTGTAAAAAATACATACATAATATA
1 AT-T-AAAAATATATACATAATATA
*
22490173 ATT-AAAATATATACATAAGATAA
1 ATTAAAAATATATACATAATAT-A
22490196 CATGTAAAAATATATA
1 -AT-TAAAAATATATA
22490212 TATATAAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
22 16 0.31
23 2 0.04
24 4 0.08
25 20 0.38
26 10 0.19
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (23 bp):
ATTAAAAATATATACATAATATA
Found at i:22490234 original size:15 final size:14
Alignment explanation
Indices: 22490203--22490263 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
22490193 TAACATGTAA
22490203 AAATATATATATAT
1 AAATATATATATAT
22490217 AAATA-ATATAGTATT
1 AAATATATATA-TA-T
* *
22490232 AAAGATATATACAT
1 AAATATATATATAT
22490246 AAAATAGTATAATATAT
1 -AAATA-TAT-ATATAT
22490263 A
1 A
22490264 TACGTAGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
13 5 0.14
14 8 0.22
15 10 0.27
16 9 0.24
17 5 0.14
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:22490247 original size:25 final size:24
Alignment explanation
Indices: 22490211--22490340 Score: 99
Period size: 23 Copynumber: 5.6 Consensus size: 24
22490201 AAAAATATAT
*
22490211 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATT-AAG
* *
22490236 ATATATACATAAAATAGTA-TAAT
1 ATATATACATAATATAGTATTAAG
* * * *
22490259 ATATATACGTAGTATAGAATTTAG
1 ATATATACATAATATAGTATTAAG
* * *
22490283 A-ATATACCTAATATATTA-AAAG
1 ATATATACATAATATAGTATTAAG
* *
22490305 A-ATATATATAATATAATATTAAG
1 ATATATACATAATATAGTATTAAG
*
22490328 AAATATA-ATAATA
1 ATATATACATAATA
22490341 ACAAAAAAAG
Statistics
Matches: 83, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
22 17 0.20
23 40 0.48
24 9 0.11
25 17 0.20
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (24 bp):
ATATATACATAATATAGTATTAAG
Found at i:22490338 original size:23 final size:25
Alignment explanation
Indices: 22490295--22490340 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22490285 TATACCTAAT
22490295 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
22490320 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
22490341 ACAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:22490857 original size:30 final size:30
Alignment explanation
Indices: 22490816--22490914 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
22490806 TAGGTACAAG
22490816 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * *
22490846 AGGTAGTGGAGCAAGTGTGGCTAGTGAAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
22490876 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
22490906 TGGTGGTGG
1 TGGTGGTGG
22490915 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.18, C:0.06, G:0.49, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Done.