Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 12 of 770
Found at i:3172144 original size:17 final size:17
Alignment explanation
Indices: 3172122--3172154 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3172112 TGTTATGTTC
3172122 ATCTTGATTCAACATCT
1 ATCTTGATTCAACATCT
3172139 ATCTTGATTCAACATC
1 ATCTTGATTCAACATC
3172155 ATAGATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (17 bp):
ATCTTGATTCAACATCT
Found at i:3175084 original size:14 final size:15
Alignment explanation
Indices: 3175065--3175093 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3175055 TGATATTTAA
3175065 ATTTTTA-TTAAAAT
1 ATTTTTATTTAAAAT
3175079 ATTTTTATTTAAAAT
1 ATTTTTATTTAAAAT
3175094 TAAATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTTATTTAAAAT
Found at i:3175723 original size:24 final size:23
Alignment explanation
Indices: 3175682--3175730 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
3175672 TTTGGTATTC
* *
3175682 AATTTATTTGAATTCGAAAATTA
1 AATTTATTCGAACTCGAAAATTA
*
3175705 AATTTGATTCGAACTCGAAATTTA
1 AATTT-ATTCGAACTCGAAAATTA
3175729 AA
1 AA
3175731 AAAAATTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (23 bp):
AATTTATTCGAACTCGAAAATTA
Found at i:3176331 original size:23 final size:25
Alignment explanation
Indices: 3176289--3176334 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
3176279 GTGTTATAAA
*
3176289 ATTTTGTATTTTTCATAAATTTAAG
1 ATTTTGTATTTTTCAGAAATTTAAG
3176314 ATTTT-TATTTTT-AGAAATTTA
1 ATTTTGTATTTTTCAGAAATTTA
3176335 TTTTTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 7 0.35
25 5 0.25
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (25 bp):
ATTTTGTATTTTTCAGAAATTTAAG
Found at i:3176344 original size:13 final size:14
Alignment explanation
Indices: 3176317--3176346 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3176307 ATTTAAGATT
3176317 TTTATTTTTAGAAA
1 TTTATTTTTAGAAA
3176331 TTTATTTTTA-AAA
1 TTTATTTTTAGAAA
3176344 TTT
1 TTT
3176347 TAAAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTATTTTTAGAAA
Found at i:3176359 original size:28 final size:30
Alignment explanation
Indices: 3176323--3176382 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 30
3176313 GATTTTTATT
** *
3176323 TTTAGAAATTTATTTTTAAAATT-TTAAAA
1 TTTAGAAATAAATTGTTAAAATTATTAAAA
*
3176352 TTTA-AAATAAATTGTTAACATTATTAAAA
1 TTTAGAAATAAATTGTTAAAATTATTAAAA
3176381 TT
1 TT
3176383 ATTTGATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (30 bp):
TTTAGAAATAAATTGTTAAAATTATTAAAA
Found at i:3179606 original size:24 final size:25
Alignment explanation
Indices: 3179562--3179613 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
3179552 TACTTGTAAA
**
3179562 AAATTATTATTTTAAGTAAAATATT
1 AAATTATTATTTTAACAAAAATATT
3179587 AAATTATTA-TTTAACAAAAATATT
1 AAATTATTATTTTAACAAAAATATT
3179611 AAA
1 AAA
3179614 AAAAATCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
AAATTATTATTTTAACAAAAATATT
Found at i:3179694 original size:12 final size:12
Alignment explanation
Indices: 3179679--3179703 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3179669 AAGAATAACT
3179679 TTTTTAATATTA
1 TTTTTAATATTA
3179691 TTTTTAATATTA
1 TTTTTAATATTA
3179703 T
1 T
3179704 AAAAATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTAATATTA
Found at i:3183307 original size:19 final size:19
Alignment explanation
Indices: 3183279--3183317 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3183269 TGTTTTCTTG
*
3183279 TTTTTATTTTGTGCTTTTT
1 TTTTTATTTTGTCCTTTTT
* *
3183298 TTTTTCTTTTTTCCTTTTT
1 TTTTTATTTTGTCCTTTTT
3183317 T
1 T
3183318 CTTATCTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.10, G:0.05, T:0.82
Consensus pattern (19 bp):
TTTTTATTTTGTCCTTTTT
Found at i:3183820 original size:12 final size:11
Alignment explanation
Indices: 3183803--3183850 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
3183793 GGATGCAAAG
3183803 GAAGAAGATGCA
1 GAAGAAGATG-A
*
3183815 GAAGAAGAAGTA
1 GAAGAAGATG-A
*
3183827 GAAGAAGACGA
1 GAAGAAGATGA
3183838 CGAAGAAGATGA
1 -GAAGAAGATGA
3183850 G
1 G
3183851 TACGAGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
11 2 0.06
12 29 0.94
ACGTcount: A:0.52, C:0.06, G:0.35, T:0.06
Consensus pattern (11 bp):
GAAGAAGATGA
Found at i:3184332 original size:3 final size:3
Alignment explanation
Indices: 3184321--3184354 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
3184311 TTTTCATTAT
* *
3184321 TAC TGC TAC TAC TAC TAC TAC TAC TAC CAC TAC T
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC T
3184355 TTGGTCTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.35, G:0.03, T:0.32
Consensus pattern (3 bp):
TAC
Found at i:3184738 original size:8 final size:8
Alignment explanation
Indices: 3184727--3184759 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
3184717 AATAAAAAAA
3184727 TTATGAAT
1 TTATGAAT
3184735 TTATGAAT
1 TTATGAAT
*
3184743 TTAT-AAA
1 TTATGAAT
3184750 TTATGAAT
1 TTATGAAT
3184758 TT
1 TT
3184760 TCAAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (8 bp):
TTATGAAT
Found at i:3185466 original size:18 final size:19
Alignment explanation
Indices: 3185431--3185466 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3185421 TTCCTTTTAA
3185431 TAATAAAAAAATTATTTTC
1 TAATAAAAAAATTATTTTC
*
3185450 TAATAAGAAAA-TATTTT
1 TAATAAAAAAATTATTTT
3185467 GTACTAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (19 bp):
TAATAAAAAAATTATTTTC
Found at i:3186100 original size:24 final size:24
Alignment explanation
Indices: 3186073--3186140 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 24
3186063 AATAAATATT
**
3186073 TATTATTAAATTATTAATATTGAA
1 TATTATTAAATTATTAATAAAGAA
* * *
3186097 TATTTTTCAA-TAATATATAAAGAA
1 TATTATTAAATTATTA-ATAAAGAA
3186121 TATTATTTAAAATTATTAAT
1 TATTA-TT-AAATTATTAAT
3186141 TTTTAAAATT
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
23 4 0.12
24 18 0.56
25 2 0.06
26 4 0.12
27 4 0.12
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (24 bp):
TATTATTAAATTATTAATAAAGAA
Found at i:3186292 original size:12 final size:12
Alignment explanation
Indices: 3186254--3186297 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
3186244 ATGTATGTTT
3186254 AATAATATTGAA
1 AATAATATTGAA
* * *
3186266 AATTATTTTAAAA
1 AATAATATT-GAA
3186279 AATAATATTGAA
1 AATAATATTGAA
3186291 AATAATA
1 AATAATA
3186298 ATATTTTATA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (12 bp):
AATAATATTGAA
Found at i:3186297 original size:15 final size:15
Alignment explanation
Indices: 3186253--3186302 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
3186243 TATGTATGTT
3186253 TAATAATATTGAAAA
1 TAATAATATTGAAAA
*
3186268 T--T-AT-TTTAAAA
1 TAATAATATTGAAAA
3186279 -AATAATATTGAAAA
1 TAATAATATTGAAAA
3186293 TAATAATATT
1 TAATAATATT
3186303 TTATATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
11 6 0.21
12 3 0.11
13 3 0.11
14 6 0.21
15 10 0.36
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (15 bp):
TAATAATATTGAAAA
Found at i:3187962 original size:22 final size:22
Alignment explanation
Indices: 3187934--3187981 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
3187924 GTACAAATGA
3187934 ATGAAAGAGTTAATTAGATTTG
1 ATGAAAGAGTTAATTAGATTTG
3187956 ATGAAAGAGTTAATTAGATTTG
1 ATGAAAGAGTTAATTAGATTTG
3187978 ATGA
1 ATGA
3187982 TTATTCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (22 bp):
ATGAAAGAGTTAATTAGATTTG
Found at i:3189044 original size:20 final size:20
Alignment explanation
Indices: 3189005--3189044 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3188995 ATTTAGTAAA
***
3189005 TAAAAATAAAAATCTTAAAC
1 TAAAAATAAAAATAAAAAAC
3189025 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
3189045 ATATAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:3189092 original size:9 final size:9
Alignment explanation
Indices: 3189062--3189129 Score: 84
Period size: 9 Copynumber: 7.6 Consensus size: 9
3189052 TTTATACAAA
3189062 TAATTCGGT
1 TAATTCGGT
**
3189071 TAATTTAGT
1 TAATTCGGT
3189080 TAATTCAGG-
1 TAATTC-GGT
3189089 TAATTCGGT
1 TAATTCGGT
*
3189098 TAATTCGAT
1 TAATTCGGT
*
3189107 TAATTAGGT
1 TAATTCGGT
3189116 TAATTCGGT
1 TAATTCGGT
3189125 TAATT
1 TAATT
3189130 TTTTTGAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 2 0.04
9 46 0.94
10 1 0.02
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:3189100 original size:27 final size:28
Alignment explanation
Indices: 3189062--3189130 Score: 99
Period size: 27 Copynumber: 2.5 Consensus size: 28
3189052 TTTATACAAA
3189062 TAATTCGGTTAATTTAG-TTAATTCAGG-
1 TAATTCGGTTAATTTAGATTAATT-AGGT
*
3189089 TAATTCGGTTAA-TTCGATTAATTAGGT
1 TAATTCGGTTAATTTAGATTAATTAGGT
3189116 TAATTCGGTTAATTT
1 TAATTCGGTTAATTT
3189131 TTTTGAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
26 6 0.16
27 30 0.79
28 2 0.05
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.46
Consensus pattern (28 bp):
TAATTCGGTTAATTTAGATTAATTAGGT
Found at i:3199717 original size:24 final size:25
Alignment explanation
Indices: 3199685--3199736 Score: 97
Period size: 24 Copynumber: 2.1 Consensus size: 25
3199675 TGAATTTTTT
3199685 CAGAATGAAGCTAGCAGA-AAAATA
1 CAGAATGAAGCTAGCAGAGAAAATA
3199709 CAGAATGAAGCTAGCAGAGAAAATA
1 CAGAATGAAGCTAGCAGAGAAAATA
3199734 CAG
1 CAG
3199737 CTTCTGTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 18 0.67
25 9 0.33
ACGTcount: A:0.52, C:0.13, G:0.23, T:0.12
Consensus pattern (25 bp):
CAGAATGAAGCTAGCAGAGAAAATA
Found at i:3202920 original size:174 final size:175
Alignment explanation
Indices: 3202620--3202967 Score: 459
Period size: 174 Copynumber: 2.0 Consensus size: 175
3202610 CTTCAAGCAA
* * * * * *
3202620 GGAACAAAATAAAAGCATAAAGTGACCATACAGAATGTTTCCATTTAAAACGACCATCATAGCAA
1 GGAACAAAATAAAAGCATAAAGTGAACATACAGAATGTTTCCATCTAAAACAAACATCACAGAAA
* * * * * *
3202685 ACCGCAGTAACATCATCAGAAAGGCTGAATATTTCAAGGCCCATAACCCCAAACAGTGTGATGCT
66 ACCGCAGTAACATCATAAGAAAGACTAAATATTTCAAGGCCAAAAACCCCAAACAGTGTGATACT
* *
3202750 TACTATATTTTCAACATTGTGGGAGA-CCTAAATCCTCACCACAAT
131 TACTACAATTTCAACATTGTGGGA-ACCCTAAATCCTCACCACAAT
* *
3202795 GGAACGAAATAAAAGCATGAATGTGAACATACAGAATGTTTCC-TCTAAAA-AAACATCACAGAA
1 GGAACAAAATAAAAGCAT-AAAGTGAACATACAGAATGTTTCCATCTAAAACAAACATCACAGAA
* * ** *
3202858 AACTGCAGTGACATCATAAGAAAGACTAAATATTTCAAGGCCAAAAATTCCAAACTGTGTGATAC
65 AACCGCAGTAACATCATAAGAAAGACTAAATATTTCAAGGCCAAAAACCCCAAACAGTGTGATAC
*
3202923 TTACTACAATTTCAACATTGTGGGAACCCTAGATCCTCACCACAA
130 TTACTACAATTTCAACATTGTGGGAACCCTAAATCCTCACCACAA
3202968 CGGACATGCA
Statistics
Matches: 149, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
173 1 0.01
174 103 0.69
175 23 0.15
176 22 0.15
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.23
Consensus pattern (175 bp):
GGAACAAAATAAAAGCATAAAGTGAACATACAGAATGTTTCCATCTAAAACAAACATCACAGAAA
ACCGCAGTAACATCATAAGAAAGACTAAATATTTCAAGGCCAAAAACCCCAAACAGTGTGATACT
TACTACAATTTCAACATTGTGGGAACCCTAAATCCTCACCACAAT
Found at i:3208618 original size:46 final size:46
Alignment explanation
Indices: 3208565--3208656 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
3208555 AATTTAAGAT
*
3208565 TGAATTCCATGGGGGTTTCAGCTGGTTTACACCCCAACATCCCAAC
1 TGAATTCCATGGGAGTTTCAGCTGGTTTACACCCCAACATCCCAAC
*
3208611 TGAATTCCATGGGAGTTTTAGCTGGTTTACACCCCAACATCCCAAC
1 TGAATTCCATGGGAGTTTCAGCTGGTTTACACCCCAACATCCCAAC
3208657 CTCAAATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
TGAATTCCATGGGAGTTTCAGCTGGTTTACACCCCAACATCCCAAC
Found at i:3221064 original size:20 final size:20
Alignment explanation
Indices: 3221024--3221067 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
3221014 ACACAATGTA
*
3221024 TAAATATTAACGCTAACAAT
1 TAAATATTAACACTAACAAT
* *
3221044 TAAATATTAACATTAATAAT
1 TAAATATTAACACTAACAAT
3221064 TAAA
1 TAAA
3221068 AGCAATGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAATATTAACACTAACAAT
Found at i:3222617 original size:13 final size:13
Alignment explanation
Indices: 3222601--3222625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3222591 ATCAAAAGGC
3222601 GAAAAAAAGAAAA
1 GAAAAAAAGAAAA
3222614 GAAAAAAAGAAA
1 GAAAAAAAGAAA
3222626 TCAAATCAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
GAAAAAAAGAAAA
Found at i:3222793 original size:17 final size:18
Alignment explanation
Indices: 3222771--3222817 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
3222761 GTTTTTGCTC
3222771 TTTGTTTTCTGCTTCTT-
1 TTTGTTTTCTGCTTCTTG
* *
3222788 TTTGTTTTTTGCTTGTTG
1 TTTGTTTTCTGCTTCTTG
3222806 TTTGTTTGTCTG
1 TTTGTTT-TCTG
3222818 TTGCTTGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.60
18 7 0.28
19 3 0.12
ACGTcount: A:0.00, C:0.11, G:0.19, T:0.70
Consensus pattern (18 bp):
TTTGTTTTCTGCTTCTTG
Found at i:3224148 original size:65 final size:65
Alignment explanation
Indices: 3224034--3224198 Score: 208
Period size: 65 Copynumber: 2.6 Consensus size: 65
3224024 TGCTATGGTC
* * * ** * *
3224034 GAATCAAATGCTCCTAACTAGA--TGTGATGAATGTGTCAAATAATTAGGATGGTATGATCGAAA
1 GAATCAAATGCTCCTAATTAAACGTGTTATGAATG-AACAAATAACTAGGATGCTATGATCGAAA
3224097 T
65 T
* *
3224098 GAATCAAATGCTCTTAATTAAACGTGTTATGAATGAACAAATAACTAGGATGCTATGATTGAAAT
1 GAATCAAATGCTCCTAATTAAACGTGTTATGAATGAACAAATAACTAGGATGCTATGATCGAAAT
* *
3224163 GAATCAAATGCTCCTAATTAGATGTGTTATGAATGA
1 GAATCAAATGCTCCTAATTAAACGTGTTATGAATGA
3224199 TGTATGAATG
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 19 0.22
65 58 0.67
66 10 0.11
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (65 bp):
GAATCAAATGCTCCTAATTAAACGTGTTATGAATGAACAAATAACTAGGATGCTATGATCGAAAT
Found at i:3224928 original size:10 final size:10
Alignment explanation
Indices: 3224913--3224941 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
3224903 GGCCTCTCCG
3224913 TTTTGTTTTT
1 TTTTGTTTTT
3224923 TTTTGTTTTT
1 TTTTGTTTTT
3224933 TTTT-TTTTT
1 TTTTGTTTTT
3224942 AGGTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:3224941 original size:15 final size:15
Alignment explanation
Indices: 3224912--3224940 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3224902 TGGCCTCTCC
3224912 GTTTTGTTTTTTTTT
1 GTTTTGTTTTTTTTT
3224927 GTTTT-TTTTTTTTT
1 GTTTTGTTTTTTTTT
3224941 TAGGTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
GTTTTGTTTTTTTTT
Found at i:3232165 original size:19 final size:20
Alignment explanation
Indices: 3232137--3232178 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
3232127 GTCTTTTCAC
* *
3232137 GAAATTTAATGCACATG-AT
1 GAAATGTAATGCAAATGAAT
3232156 GAAATGTAATGCAAATGAAT
1 GAAATGTAATGCAAATGAAT
3232176 GAA
1 GAA
3232179 TGCAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (20 bp):
GAAATGTAATGCAAATGAAT
Found at i:3235858 original size:20 final size:20
Alignment explanation
Indices: 3235818--3235861 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
3235808 ACACAATGTA
*
3235818 TAAATATTAACGCTAACAAT
1 TAAATATTAACACTAACAAT
* *
3235838 TAAATATTAACATTAATAAT
1 TAAATATTAACACTAACAAT
3235858 TAAA
1 TAAA
3235862 AGCAATGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAATATTAACACTAACAAT
Found at i:3237583 original size:17 final size:18
Alignment explanation
Indices: 3237561--3237607 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
3237551 GTTTTTGCTC
3237561 TTTGTTTTCTGCTTCTT-
1 TTTGTTTTCTGCTTCTTG
* *
3237578 TTTGTTTTTTGCTTGTTG
1 TTTGTTTTCTGCTTCTTG
3237596 TTTGTTTGTCTG
1 TTTGTTT-TCTG
3237608 TTGCTTGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.60
18 7 0.28
19 3 0.12
ACGTcount: A:0.00, C:0.11, G:0.19, T:0.70
Consensus pattern (18 bp):
TTTGTTTTCTGCTTCTTG
Found at i:3239136 original size:16 final size:16
Alignment explanation
Indices: 3239102--3239155 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
3239092 AAGTGAAAAG
* * *
3239102 AAAATTAAAAATATGA
1 AAAAATAAAAAGATAA
* * *
3239118 AAAATTAAAGAGGTAA
1 AAAAATAAAAAGATAA
3239134 AAAAATAAAAAGATAA
1 AAAAATAAAAAGATAA
3239150 AAAAAT
1 AAAAAT
3239156 TTATATATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (16 bp):
AAAAATAAAAAGATAA
Found at i:3245996 original size:35 final size:35
Alignment explanation
Indices: 3245950--3246021 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
3245940 CGGAAGCTCG
3245950 ATAGGGTTGGAAGCTTGTCAGAGTTATATCACACT
1 ATAGGGTTGGAAGCTTGTCAGAGTTATATCACACT
*
3245985 ATAGGGTTGGAAGCTTGTCAGAGTTCTATCACACT
1 ATAGGGTTGGAAGCTTGTCAGAGTTATATCACACT
3246020 AT
1 AT
3246022 CCATTGGTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (35 bp):
ATAGGGTTGGAAGCTTGTCAGAGTTATATCACACT
Found at i:3246666 original size:43 final size:43
Alignment explanation
Indices: 3246599--3246712 Score: 176
Period size: 43 Copynumber: 2.7 Consensus size: 43
3246589 TATTTTCGTC
* **
3246599 CACATGGTCA-GAGACACGGGCGTGTGTCTTAGTCGTGTGTGA
1 CACATGGTCAGGTGACACGACCGTGTGTCTTAGTCGTGTGTGA
*
3246641 CGCATGGTCAGGTGACACGACCGTGTGTCTTAGTCGTGTGTGA
1 CACATGGTCAGGTGACACGACCGTGTGTCTTAGTCGTGTGTGA
*
3246684 CACACGGTCAGGTGACACGACCGTGTGTC
1 CACATGGTCAGGTGACACGACCGTGTGTC
3246713 CTCTGTGGCT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
42 9 0.14
43 56 0.86
ACGTcount: A:0.18, C:0.23, G:0.34, T:0.25
Consensus pattern (43 bp):
CACATGGTCAGGTGACACGACCGTGTGTCTTAGTCGTGTGTGA
Found at i:3251270 original size:21 final size:21
Alignment explanation
Indices: 3251170--3251234 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
3251160 TTATTTTAAA
* * *
3251170 AAAAATTGAAATATATATTTG
1 AAAAATTTAAATATATTTTTT
* *
3251191 AAATATTT-TATAATATTTTTT
1 AAAAATTTAAAT-ATATTTTTT
3251212 AAAAATTTTAAATATATATTTTT
1 AAAAA-TTTAAATATAT-TTTTT
3251235 GAAATTATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 2 0.06
21 17 0.52
22 7 0.21
23 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
AAAAATTTAAATATATTTTTT
Found at i:3251279 original size:21 final size:21
Alignment explanation
Indices: 3251236--3251285 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
3251226 TATATTTTTG
*
3251236 AAAT-TATTTTTTAAAAATTT
1 AAATATATTTTTTAAAAATAT
*
3251256 AAATATATTTTTTAATAATAT
1 AAATATATTTTTTAAAAATAT
3251277 AAA-ATATTT
1 AAATATATTT
3251286 AAATATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AAATATATTTTTTAAAAATAT
Found at i:3251378 original size:20 final size:18
Alignment explanation
Indices: 3251355--3251400 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 18
3251345 ATATTTTAAA
3251355 TTTTAAATATTTTTAATTT
1 TTTTAAAT-TTTTTAATTT
3251374 GTTTTATAATTTTTTAATTT
1 -TTTTA-AATTTTTTAATTT
3251394 TTTTAAA
1 TTTTAAA
3251401 ATGTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.08
19 5 0.20
20 15 0.60
21 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTAAATTTTTTAATTT
Found at i:3251482 original size:10 final size:10
Alignment explanation
Indices: 3251444--3251549 Score: 53
Period size: 10 Copynumber: 10.4 Consensus size: 10
3251434 TTATTATTTG
3251444 TTTTATAATA-
1 TTTTA-AATAT
3251454 TTTTAAATGTAT
1 TTTTAAA--TAT
3251466 ATTTTAAATAT
1 -TTTTAAATAT
3251477 TTTTAAA-AT
1 TTTTAAATAT
*
3251486 TTTAAAAATAAT
1 TTT-TAAAT-AT
3251498 TTTTATAA-AT
1 TTTTA-AATAT
*
3251508 TATT--A-AT
1 TTTTAAATAT
*
3251515 TTTTAAATTAA
1 TTTTAAA-TAT
3251526 TTTTAAATAT
1 TTTTAAATAT
* *
3251536 ATTCAAATAT
1 TTTTAAATAT
3251546 TTTT
1 TTTT
3251550 TAAAATTAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
7 6 0.08
9 8 0.11
10 32 0.43
11 14 0.19
12 7 0.09
13 7 0.09
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (10 bp):
TTTTAAATAT
Found at i:3251513 original size:23 final size:20
Alignment explanation
Indices: 3251471--3251513 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
3251461 TGTATATTTT
3251471 AAATATTTTTAAAATTTTAA
1 AAATATTTTTAAAATTTTAA
3251491 AAATAATTTTTATAAATTATTAA
1 AAAT-ATTTTTA-AAATT-TTAA
3251514 TTTTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 7 0.35
22 5 0.25
23 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATATTTTTAAAATTTTAA
Found at i:3254644 original size:17 final size:18
Alignment explanation
Indices: 3254611--3254644 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3254601 ATGTGGCCTG
*
3254611 CCCGTGTGGGCCTACATA
1 CCCGTGTGGGCCCACATA
3254629 CCCGTGT-GGCCCACAT
1 CCCGTGTGGGCCCACAT
3254645 GGCCCAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (18 bp):
CCCGTGTGGGCCCACATA
Found at i:3257804 original size:30 final size:30
Alignment explanation
Indices: 3257763--3257864 Score: 150
Period size: 30 Copynumber: 3.4 Consensus size: 30
3257753 GTTTCTCTAG
*
3257763 GTGAAATGAACTCGAACCGCCTATGTTCGA
1 GTGATATGAACTCGAACCGCCTATGTTCGA
3257793 GTGATATGAACTCGAACCGCCTATGTTCGA
1 GTGATATGAACTCGAACCGCCTATGTTCGA
* * * * *
3257823 GTGATATGAACTCGAACTGACAATATTCGG
1 GTGATATGAACTCGAACCGCCTATGTTCGA
3257853 GTGATATGAACT
1 GTGATATGAACT
3257865 GTTCTTCAAC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (30 bp):
GTGATATGAACTCGAACCGCCTATGTTCGA
Found at i:3260565 original size:22 final size:20
Alignment explanation
Indices: 3260537--3260583 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
3260527 TATATATTTT
3260537 AAATAAAGTCATATTTTTTAAA
1 AAATAAA-TCAT-TTTTTTAAA
* *
3260559 AAATAAATCCTTTTTTTAAT
1 AAATAAATCATTTTTTTAAA
3260579 AAATA
1 AAATA
3260584 TTTTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
21 3 0.13
22 7 0.30
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (20 bp):
AAATAAATCATTTTTTTAAA
Found at i:3260626 original size:20 final size:20
Alignment explanation
Indices: 3260610--3260648 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3260600 AAATTAATTC
*
3260610 AAATTTTACTTTTTTAAATA
1 AAATATTACTTTTTTAAATA
*
3260630 AAATATTATTTTTTTAAAT
1 AAATATTACTTTTTTAAAT
3260649 TTTAAATGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
AAATATTACTTTTTTAAATA
Found at i:3273193 original size:21 final size:20
Alignment explanation
Indices: 3273115--3273184 Score: 106
Period size: 21 Copynumber: 3.5 Consensus size: 20
3273105 TGTTTTATAA
*
3273115 TATTTTT-AATTTTAAATAT
1 TATTTTTAAAATTTAAATAT
3273134 ATATTTTTAAAATTTAAATAT
1 -TATTTTTAAAATTTAAATAT
3273155 TATTTTTAAAATTTTAAATAT
1 TATTTTTAAAA-TTTAAATAT
3273176 TATTTTTAA
1 TATTTTTAA
3273185 TAATATAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
20 18 0.38
21 29 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTTTAAAATTTAAATAT
Found at i:3273395 original size:25 final size:24
Alignment explanation
Indices: 3273348--3273395 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3273338 TTTTTAAAGA
* **
3273348 TATTTAAATTTTTTTAAAAAATAC
1 TATTTAAAATTTTAAAAAAAATAC
3273372 TATTTAAAATTTTAAAAAATAATA
1 TATTTAAAATTTTAAAAAA-AATA
3273396 TTTTATTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
TATTTAAAATTTTAAAAAAAATAC
Found at i:3280731 original size:19 final size:19
Alignment explanation
Indices: 3280689--3280725 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
3280679 ATAATATTAA
*
3280689 AAAAATTATATTTAAGATT
1 AAAAATTATATTTAAAATT
3280708 AAAAA-TATATTTAAAATT
1 AAAAATTATATTTAAAATT
3280726 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
AAAAATTATATTTAAAATT
Found at i:3280796 original size:9 final size:9
Alignment explanation
Indices: 3280784--3280851 Score: 52
Period size: 9 Copynumber: 7.2 Consensus size: 9
3280774 TAAAACCAAT
3280784 AATAAATAA
1 AATAAATAA
3280793 AATAAATAA
1 AATAAATAA
3280802 AATAAAATAA
1 AAT-AAATAA
*
3280812 AGGACAAATAA
1 A--ATAAATAA
3280823 AA-AACATAAA
1 AATAA-AT-AA
3280833 AATTAAAT-A
1 AA-TAAATAA
3280842 AATAAA-AA
1 AATAAATAA
3280850 AA
1 AA
3280852 CTTAAAAAGT
Statistics
Matches: 50, Mismatches: 1, Indels: 17
0.74 0.01 0.25
Matches are distributed among these distances:
8 9 0.18
9 18 0.36
10 11 0.22
11 9 0.18
12 3 0.06
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (9 bp):
AATAAATAA
Found at i:3280848 original size:24 final size:25
Alignment explanation
Indices: 3280817--3280864 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
3280807 AATAAAGGAC
*
3280817 AAAT-AAAAAACATAAAAATTAAAT
1 AAATAAAAAAACATAAAAAGTAAAT
*
3280841 AAATAAAAAAACTTAAAAAGTAAA
1 AAATAAAAAAACATAAAAAGTAAA
3280865 AAAAATTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (25 bp):
AAATAAAAAAACATAAAAAGTAAAT
Found at i:3280864 original size:17 final size:17
Alignment explanation
Indices: 3280784--3280868 Score: 59
Period size: 17 Copynumber: 4.8 Consensus size: 17
3280774 TAAAACCAAT
*
3280784 AATAAATAAAATAAATAA
1 AATAAATAAAA-AAATTA
3280802 AATAAAATAAAGGACAAA-TA
1 AAT-AAATAAA--A-AAATTA
* *
3280822 AA-AAACATAAAAATTA
1 AATAAATAAAAAAATTA
3280838 AATAAATAAAAAAACTTA
1 AATAAATAAAAAAA-TTA
*
3280856 AA-AAGTAAAAAAA
1 AATAAATAAAAAAA
3280869 ATTACAAAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
15 3 0.06
16 5 0.09
17 19 0.35
18 13 0.24
19 7 0.13
20 3 0.06
21 4 0.07
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (17 bp):
AATAAATAAAAAAATTA
Found at i:3280877 original size:17 final size:17
Alignment explanation
Indices: 3280830--3280877 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
3280820 TAAAAAACAT
*
3280830 AAAAATTAAATAAATAAA
1 AAAAATTAAA-AAGTAAA
*
3280848 AAAACTTAAAAAGTAAA
1 AAAAATTAAAAAGTAAA
*
3280865 AAAAATTACAAAG
1 AAAAATTAAAAAG
3280878 AACCAGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (17 bp):
AAAAATTAAAAAGTAAA
Found at i:3281516 original size:23 final size:22
Alignment explanation
Indices: 3281502--3281553 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
3281492 ACTCAACAGT
*
3281502 GAAAAAAAAAAACACTGAAAAC
1 GAAAAAAAAAAACACTCAAAAC
* *
3281524 G-AAAAAAAAAA-GCTAAAAAC
1 GAAAAAAAAAAACACTCAAAAC
3281544 GAAAAAAAAA
1 GAAAAAAAAA
3281554 TAAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 8 0.30
21 18 0.67
22 1 0.04
ACGTcount: A:0.77, C:0.10, G:0.10, T:0.04
Consensus pattern (22 bp):
GAAAAAAAAAAACACTCAAAAC
Found at i:3281530 original size:20 final size:20
Alignment explanation
Indices: 3281504--3281553 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
3281494 TCAACAGTGA
* *
3281504 AAAAAAAAAACACTGAAAACG
1 AAAAAAAAAA-GCTAAAAACG
3281525 AAAAAAAAAAGCTAAAAACG
1 AAAAAAAAAAGCTAAAAACG
3281545 AAAAAAAAA
1 AAAAAAAAA
3281554 TAAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.78, C:0.10, G:0.08, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAGCTAAAAACG
Found at i:3281561 original size:20 final size:20
Alignment explanation
Indices: 3281519--3281562 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
3281509 AAAAACACTG
**
3281519 AAAACGAAAAAAAAAAGCTA
1 AAAACGAAAAAAAAAAGAAA
3281539 AAAACGAAAAAAAAATA-AAA
1 AAAACGAAAAAAAAA-AGAAA
3281559 AAAA
1 AAAA
3281563 TAGATGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.82, C:0.07, G:0.07, T:0.05
Consensus pattern (20 bp):
AAAACGAAAAAAAAAAGAAA
Found at i:3281702 original size:3 final size:3
Alignment explanation
Indices: 3281687--3281755 Score: 54
Period size: 3 Copynumber: 23.7 Consensus size: 3
3281677 TTCGAGAACA
* * * *
3281687 AAG AAG GAG AAG AAG AAA AAG AA- AAG AAG GAG AAG AAG GA- AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
3281733 -AG CAG AAG AAG AAAG AAA AAG AA
1 AAG AAG AAG AAG -AAG AAG AAG AA
3281756 AGGGAAGAGG
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
2 5 0.10
3 43 0.84
4 3 0.06
ACGTcount: A:0.67, C:0.01, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:3281712 original size:23 final size:23
Alignment explanation
Indices: 3281686--3281756 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
3281676 TTTCGAGAAC
3281686 AAAGAAGGAGAAGAAGAAAAAGA
1 AAAGAAGGAGAAGAAGAAAAAGA
*
3281709 AAAGAAGGAGAAGAAG-GAAAGA
1 AAAGAAGGAGAAGAAGAAAAAGA
* * *
3281731 AGAGCAGAAGAAGAAAGAAAAAGA
1 AAAGAAGGAGAAG-AAGAAAAAGA
3281755 AA
1 AA
3281757 GGGAAGAGGA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 15 0.38
23 19 0.47
24 6 0.15
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.00
Consensus pattern (23 bp):
AAAGAAGGAGAAGAAGAAAAAGA
Found at i:3282430 original size:151 final size:150
Alignment explanation
Indices: 3282316--3283871 Score: 2259
Period size: 150 Copynumber: 10.4 Consensus size: 150
3282306 GAGTTTTTTG
* * *
3282316 CTAAAATAATATAAA-AAATAAAATATGAAAATAGTATATTTT-AAAAA-AA-ATCCGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAT-A
* * * * *
3282377 AAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAAAACTTAAATA
65 AAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATAAATATAAAAAACACTTAAATA
* *
3282442 ATACATTTGAAACATTTTTTG
130 ATACATTTGAAACATTTTGTA
* *
3282463 CTAAAATAATATAAA-AAATAAAATACAAAAATAATATATTTT-AAAAATAATATACGAAAAT-A
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
*
3282525 AAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAA-AAATATAAAAAACACTTAAATAA
66 AAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATAAATATAAAAAACACTTAAATAA
*
3282589 TACATTTGAAACATTATGTA
131 TACATTTGAAACATTTTGTA
* *
3282609 TTAAAATAATATAAAGACATAAAATACGAAAATAATATATTTTAAAAAATAAGATACG--AA-AA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* * * *
3282671 AAAATACGAAGAAAGTGCCAAAATCAGAGTTATTTATTAAATTAATATAAAAAAACACTTAAGTA
66 AAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATAAATAT-AAAAAACACTTAAATA
* *
3282736 ATACATTTGAAACATTTTTTG
130 ATACATTTGAAACATTTTGTA
* * * *
3282757 CTAAAATAATATAAAAAAATAAAATACGAAAATAAAATATTTTAAAAAATAATATATGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
*
3282822 AAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAGA-AAATATAAAAAACACTTAAATA
66 AAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAA-ATAAATATAAAAAACACTTAAATA
* *
3282886 ATACATTTGAAATATTATGTA
130 ATACATTTGAAACATTTTGTA
*
3282907 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATATGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
** * * *
3282972 AAAATAATAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGTAA
66 AAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATAAATATAAAAAACACTTAAATAA
*
3283037 TACATTTGAAACATTTTTTA
131 TACATTTGAAACATTTTGTA
*
3283057 CTAAAATAATATAAA-AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAT-A
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* * *
3283120 AAAATATGAATAAAGTGCTAAAATCAGGATTATTTATTAAGA-AAATATAAAAAAACACTTAAAT
66 AAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAA-ATAAATAT-AAAAAACACTTAAAT
*
3283184 AATACATTTGAAACATTATGTA
129 AATACATTTGAAACATTTTGTA
3283206 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* * *
3283271 AAAATAAGAATAAAGTGCTAAAATCAGGATTATTTATTAAGA-AAATATAAAAAAACACTTAAAT
66 AAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAA-ATAAATAT-AAAAAACACTTAAAT
*
3283335 AATACATTTGAAACATTATGTA
129 AATACATTTGAAACATTTTGTA
* * *
3283357 CTAAAATAATGTAAAGAAATAAAATAGGAAAATAATATATTTTAAAAAATAAGATACAAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAT-A
* * * * * * *
3283422 AAAAATACGAAGAAAATGTCAAAATCAGGATTATTTATTAAATTAATATAAAAAATACTTACATA
65 AAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATAAATATAAAAAACACTTAAATA
* *
3283487 ATACATTTGAAACATTTTTTG
130 ATACATTTGAAACATTTTGTA
*
3283508 CTAAAATAATATAAA-AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* *
3283572 AAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAA-AAAAATATAAAAA-ACTTAAATA
66 AAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATAAATATA-AAAAACACTTAAATA
*
3283635 ATACATTTGAAACATTATGTA
130 ATACATTTGAAACATTTTGTA
*
3283656 CTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAT-A
* * *
3283721 AAAAATACGAAAAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACAT
65 AAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATAAATAT-AAAAAACACTTAAAT
* *
3283786 AATACATTTGAAACATTTTTTG
129 AATACATTTGAAACATTTTGTA
* *
3283808 CTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATA
3283872 TTTTACTTAT
Statistics
Matches: 1278, Mismatches: 107, Indels: 44
0.89 0.07 0.03
Matches are distributed among these distances:
146 93 0.07
147 112 0.09
148 187 0.15
149 193 0.15
150 316 0.25
151 247 0.19
152 130 0.10
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.29
Consensus pattern (150 bp):
CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
AAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATAAATATAAAAAACACTTAAATAA
TACATTTGAAACATTTTGTA
Found at i:3282480 original size:12 final size:13
Alignment explanation
Indices: 3282465--3282525 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
3282455 ATTTTTTGCT
3282465 AAAATAATATA-A
1 AAAATAATATACA
*
3282477 AAAATAAAATACA
1 AAAATAATATACA
*
3282490 AAAATAATATATTTTA
1 AAAATAATATA---CA
*
3282506 AAAATAATATACG
1 AAAATAATATACA
3282519 AAAATAA
1 AAAATAA
3282526 AAATACGAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
12 10 0.25
13 18 0.45
16 12 0.30
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (13 bp):
AAAATAATATACA
Found at i:3283221 original size:299 final size:298
Alignment explanation
Indices: 3282316--3283871 Score: 2305
Period size: 299 Copynumber: 5.2 Consensus size: 298
3282306 GAGTTTTTTG
* * *
3282316 CTAAAATAATATAAA-AAATAAAATATGAAAATAGTATATTTT-AAAAA-AA-ATCCGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAT-A
* * * *
3282377 AAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAAAACTTAAATA
65 AAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATA
* *
3282442 ATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAATAAAATACAAAAATAATATATTTT-A
130 ATACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAA
3282506 AAAATAATATACGAAAAT-AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAT
195 AAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAT
3282570 ATAAAAAACACTTAAATAATACATTTGAAACATTATGTA
260 ATAAAAAACACTTAAATAATACATTTGAAACATTATGTA
* *
3282609 TTAAAATAATATAAAGACATAAAATACGAAAATAATATATTTTAAAAAATAAGATACG--AA-AA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* *
3282671 AAAATACGAAGAAAGTGCCAAAATCAGAGTTATTTATTAAATTAATATAAAAAAACACTTAAGTA
66 AAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATAT-AAAAAACACTTAAATA
* *
3282736 ATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAAAATATTTTA
130 ATACATTTGAAACATTTTTTACTAAAATAATAT-AAAAAATAAAATACGAAAATAATATATTTTA
*
3282801 AAAAATAATATATGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAGAAA
194 AAAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAA-AAA
*
3282866 ATATAAAAAACACTTAAATAATACATTTGAAATATTATGTA
258 ATATAAAAAACACTTAAATAATACATTTGAAACATTATGTA
*
3282907 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATATGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
** *
3282972 AAAATAATAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGTAA
66 AAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAA
3283037 TACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAA
131 TACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAA
* *
3283102 AAATAATATACGAAAAT-AAAAATATGAATAAAGTGCTAAAATCAGGATTATTTATTAAGAAAAT
196 AAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAA-AAAAT
3283166 ATAAAAAAACACTTAAATAATACATTTGAAACATTATGTA
260 AT-AAAAAACACTTAAATAATACATTTGAAACATTATGTA
3283206 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* * * * *
3283271 AAAATAAGAATAAAGTGCTAAAATCAGGATTATTTATTAAGA-AAATATAAAAAAACACTTAAAT
66 AAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAA-ATTAATAT-AAAAAACACTTAAAT
* * * *
3283335 AATACATTTGAAACATTATGTACTAAAATAATGTAAAGAAATAAAATAGGAAAATAATATATTTT
129 AATACATTTGAAACATTTTTTACTAAAATAATATAAA-AAATAAAATACGAAAATAATATATTTT
* * * * *
3283400 AAAAAATAAGATACAAAAATAAAAAAATACGAAGAAAATG-TCAAAATCAGGATTATTTATTAAA
193 AAAAAATAATATACGAAAAT-AAAAAATACGAATAAAGTGCT-AAAATCAGGGTTATTTATTAAA
* * * * * *
3283464 TTAATATAAAAAATACTTACATAATACATTTGAAACATTTTTTG
256 -AAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTA
*
3283508 CTAAAATAATATAAA-AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* * * *
3283572 AAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAA-AAAAATATAAAAA-ACTTAAATA
66 AAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATA-AAAAACACTTAAATA
* * *
3283635 ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
130 ATACATTTGAAACATTTTTTACTAAAATAATATAAA-AAATAAAATACGAAAATAATATATTTTA
* * * *
3283700 AAAAATAAGATACGAAAATAAAAAAATACGAAAAAAGTGCCAAAATCAGGGTTATTTATTAAATT
194 AAAAATAATATACGAAAAT-AAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAA-A
* * * *
3283765 AATATAAAAAAACACTTACATAATACATTTGAAACATTTTTTG
257 AATAT-AAAAAACACTTAAATAATACATTTGAAACATTATGTA
* *
3283808 CTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATA
3283872 TTTTACTTAT
Statistics
Matches: 1177, Mismatches: 62, Indels: 40
0.92 0.05 0.03
Matches are distributed among these distances:
293 60 0.05
294 71 0.06
295 35 0.03
296 20 0.02
297 45 0.04
298 145 0.12
299 325 0.28
300 161 0.14
301 225 0.19
302 49 0.04
303 41 0.03
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.29
Consensus pattern (298 bp):
CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
AAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAA
TACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAA
AAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAATA
TAAAAAACACTTAAATAATACATTTGAAACATTATGTA
Found at i:3283797 original size:451 final size:448
Alignment explanation
Indices: 3282316--3283871 Score: 2336
Period size: 451 Copynumber: 3.5 Consensus size: 448
3282306 GAGTTTTTTG
* * *
3282316 CTAAAATAATATAAA-AAATAAAATATGAAAATAGTATATTTT-AAAAA-AA-ATCCGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAT-A
* * * *
3282377 AAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAA-ATTAATATAAAAAAA-ACTTAAA
65 AAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAGA-AAATATAAAAAAACACTTAAA
* * * *
3282440 TAATACATTTGAAACATTTTTTGCTAAAATAATATAAA-AAATAAAATACAAAAATAATATATTT
129 TAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTT
* *
3282504 T-AAAAATAATATACGAAAAT-AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAA-
194 TAAAAAATAAGATACGAAAATAAAAAATACGAAGAAAGTGC-AAAATCAGGGTTATTTATTAAAT
* * * * *
3282566 AAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTATTAAAATAATATAAAGACATAA
258 TAATATAAAAAACACTT-AATAATACATTTGAAACATTTTTTACTAAAATAATATAAA-AAATAA
* * *
3282631 AATACGAAAATAATATATTTTAAAAAATAAGATACG--AA-AAAAAATACGAAGAAAGTGCCAAA
321 AATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAA
* * * * * *
3282693 ATCAGAGTTATTTATTAAATTAATATAAAAAAACACTTAAGTAATACATTTGAAACATTTTTTG
386 ATCAGGGTTATTTATTAAA-AAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTA
* * * *
3282757 CTAAAATAATATAAAAAAATAAAATACGAAAATAAAATATTTTAAAAAATAATATATGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
*
3282822 AAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAGAAAATAT-AAAAAACACTTAAATA
66 AAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAGAAAATATAAAAAAACACTTAAATA
*
3282886 ATACATTTGAAATATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTA
131 ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTA
* **
3282951 AAAAATAAGATATGAAAATAAAAAATAATAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTA
196 AAAAATAAGATACGAAAATAAAAAATACGAAGAAAGTG-CAAAATCAGGGTTATTTATTAAATTA
3283016 ATATAAAAAACACTTAAGTAATACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAAT
260 ATATAAAAAACACTTAA-TAATACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAAT
*
3283081 ACGAAAATAATATATTTTAAAAAATAATATACGAAAAT-AAAAATATGAATAAAGTGCTAAAATC
324 ACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATC
*
3283145 AGGATTATTTATTAAGAAAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTA
389 AGGGTTATTTATTAA-AAAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTA
3283206 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* * *
3283271 AAAATAAGAATAAAGTGCTAAAATCAGGATTATTTATTAAGAAAATATAAAAAAACACTTAAATA
66 AAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAGAAAATATAAAAAAACACTTAAATA
* *
3283336 ATACATTTGAAACATTATGTACTAAAATAATGTAAAGAAATAAAATAGGAAAATAATATATTTTA
131 ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTA
* * *
3283401 AAAAATAAGATACAAAAATAAAAAAATACGAAGAAAATGTCAAAATCAGGATTATTTATTAAATT
196 AAAAATAAGATACGAAAAT-AAAAAATACGAAGAAAGTG-CAAAATCAGGGTTATTTATTAAATT
* *
3283466 AATATAAAAAATACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAATAAAA
259 AATATAAAAAACACTTA-ATAATACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAA
3283531 TACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAAT
323 TACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAAT
* *
3283596 CAGGGTTATTTATTAAAAAAAATATAAAAA-ACTTAAATAATACATTTGAAACATTATGTA
388 CAGGGTTATTTATTAAAAAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTA
*
3283656 CTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAT-A
* * *
3283721 AAAAATACGAAAAAAGTGCCAAAATCAGGGTTATTTATTAA-ATTAATATAAAAAAACACTTACA
65 AAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAGA-AAATATAAAAAAACACTTAAA
* * * *
3283785 TAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTT
129 TAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTT
*
3283850 TAAAAAATAATATACGAAAATA
194 TAAAAAATAAGATACGAAAATA
3283872 TTTTACTTAT
Statistics
Matches: 1020, Mismatches: 73, Indels: 35
0.90 0.06 0.03
Matches are distributed among these distances:
441 15 0.01
442 24 0.02
443 11 0.01
444 86 0.08
445 35 0.03
446 17 0.02
447 79 0.08
448 52 0.05
449 184 0.18
450 190 0.19
451 287 0.28
452 40 0.04
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.29
Consensus pattern (448 bp):
CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
AAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAGAAAATATAAAAAAACACTTAAATA
ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTA
AAAAATAAGATACGAAAATAAAAAATACGAAGAAAGTGCAAAATCAGGGTTATTTATTAAATTAA
TATAAAAAACACTTAATAATACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAATAC
GAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAG
GGTTATTTATTAAAAAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTA
Found at i:3286436 original size:17 final size:17
Alignment explanation
Indices: 3286416--3286454 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
3286406 AATACATTAC
3286416 AACATTAATCT-AATTGG
1 AACATTAAT-TAAATTGG
3286433 AACATTAATTAAATTGG
1 AACATTAATTAAATTGG
3286450 AACAT
1 AACAT
3286455 ACTATTACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (17 bp):
AACATTAATTAAATTGG
Found at i:3291233 original size:23 final size:23
Alignment explanation
Indices: 3291203--3291261 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 23
3291193 AATAATAATA
*
3291203 ACTAACAATAATTAGGGTTTTTT
1 ACTAACAATAATAAGGGTTTTTT
3291226 ACTAACAATATTAATAAGGGTTTTTT
1 ACTAAC-A-A-TAATAAGGGTTTTTT
3291252 ACTAACAATA
1 ACTAACAATA
3291262 TTAATAACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 8 0.25
24 2 0.06
25 2 0.06
26 20 0.62
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (23 bp):
ACTAACAATAATAAGGGTTTTTT
Found at i:3291247 original size:26 final size:26
Alignment explanation
Indices: 3291211--3291268 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
3291201 TAACTAACAA
*
3291211 TAATTAGGGTTTTTTACTAACAATAT
1 TAATAAGGGTTTTTTACTAACAATAT
3291237 TAATAAGGGTTTTTTACTAACAATAT
1 TAATAAGGGTTTTTTACTAACAATAT
3291263 TAATAA
1 TAATAA
3291269 CTAACAACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (26 bp):
TAATAAGGGTTTTTTACTAACAATAT
Found at i:3291410 original size:27 final size:26
Alignment explanation
Indices: 3291369--3291431 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
3291359 TTTCTTTTTT
3291369 CTTTTCTT-TCTTTCTTCCTTCTCCTTC
1 CTTTTCTTCTCTTTC-TCCTT-TCCTTC
* *
3291396 TTTTTCTTCTC-TTCTCCTTTCTTTC
1 CTTTTCTTCTCTTTCTCCTTTCCTTC
*
3291421 CCTTTCTTCTC
1 CTTTTCTTCTC
3291432 CTTGCTACTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 14 0.45
26 5 0.16
27 10 0.32
28 2 0.06
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (26 bp):
CTTTTCTTCTCTTTCTCCTTTCCTTC
Found at i:3291432 original size:20 final size:18
Alignment explanation
Indices: 3291358--3291434 Score: 77
Period size: 20 Copynumber: 4.2 Consensus size: 18
3291348 AAAGATTATA
*
3291358 CTTTCTTT-TTTCTT-TT
1 CTTTCTTTCTTTCTTCTC
*
3291374 CTTTCTTTCTTCCTTCTC
1 CTTTCTTTCTTTCTTCTC
*
3291392 CTTCTTTTTCTTCTCTTCTC
1 CTT-TCTTTCTT-TCTTCTC
3291412 CTTTCTTTCCCTTTCTTCTC
1 CTTTCTTT--CTTTCTTCTC
3291432 CTT
1 CTT
3291435 GCTACTGATT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
16 8 0.16
17 5 0.10
18 4 0.08
19 11 0.22
20 19 0.38
21 3 0.06
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
CTTTCTTTCTTTCTTCTC
Found at i:3291588 original size:19 final size:19
Alignment explanation
Indices: 3291563--3291608 Score: 85
Period size: 18 Copynumber: 2.5 Consensus size: 19
3291553 CTATTTTTTT
3291563 ATTTTTTTTCGTTTTCAGC
1 ATTTTTTTTCGTTTTCAGC
3291582 -TTTTTTTTCGTTTTCAGC
1 ATTTTTTTTCGTTTTCAGC
3291600 ATTTTTTTT
1 ATTTTTTTT
3291609 GTCACTGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.09, C:0.13, G:0.09, T:0.70
Consensus pattern (19 bp):
ATTTTTTTTCGTTTTCAGC
Found at i:3294509 original size:27 final size:28
Alignment explanation
Indices: 3294451--3294510 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
3294441 AAAAAATCAT
*
3294451 TTAAAAACTAATCTGTAAACATGTAAAA
1 TTAAAAACTAATCTATAAACATGTAAAA
* * *
3294479 -TAAAACCTAATC-ATAAACTTTTAAAA
1 TTAAAAACTAATCTATAAACATGTAAAA
3294505 TTAAAA
1 TTAAAA
3294511 GATATAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (28 bp):
TTAAAAACTAATCTATAAACATGTAAAA
Found at i:3301449 original size:24 final size:25
Alignment explanation
Indices: 3301422--3301470 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
3301412 CTTTTTTTAT
*
3301422 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
3301446 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
3301471 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:3301463 original size:25 final size:23
Alignment explanation
Indices: 3301434--3301498 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
3301424 AATAAAAAAC
*
3301434 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
3301459 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
3301480 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
3301499 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:3301497 original size:19 final size:20
Alignment explanation
Indices: 3301460--3301498 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
3301450 TCAAATACAT
3301460 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
3301480 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
3301499 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:3302576 original size:46 final size:49
Alignment explanation
Indices: 3302470--3302591 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
3302460 TGTCTTCGAC
** * * *
3302470 ATGGACTTACATGAATTATTCATGTCTCCAATGCCATATATATATCCAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAT-CAAT
* *
3302520 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATAT-T-T-GAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATCAAT
*
3302566 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
3302592 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 26 0.41
48 1 0.02
49 1 0.02
50 35 0.56
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATCAAT
Found at i:3304719 original size:31 final size:31
Alignment explanation
Indices: 3304681--3304745 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
3304671 TCCTGTACAG
3304681 AAATCCAATGACTATGCCATTTGTTTCAATT
1 AAATCCAATGACTATGCCATTTGTTTCAATT
3304712 AAATCCAATGACTATGCCATTTGTTTCAATT
1 AAATCCAATGACTATGCCATTTGTTTCAATT
3304743 AAA
1 AAA
3304746 AATAGACTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.37
Consensus pattern (31 bp):
AAATCCAATGACTATGCCATTTGTTTCAATT
Found at i:3305643 original size:47 final size:47
Alignment explanation
Indices: 3305534--3305644 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
3305524 CCGGGATAAG
* * *
3305534 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * * *
3305581 CACAAAGTACTTCATCGGAACAAATCTGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
3305628 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
3305645 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:3317102 original size:37 final size:36
Alignment explanation
Indices: 3317052--3317138 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
3317042 TGCGAAGTCT
3317052 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
3317088 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
3317125 TCACCCGGAACATA
1 T-ACCCGG-ACATA
3317139 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:3317311 original size:49 final size:49
Alignment explanation
Indices: 3317207--3317424 Score: 355
Period size: 49 Copynumber: 4.4 Consensus size: 49
3317197 TTTGCCACAT
*
3317207 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
3317256 ATATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 --ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
3317307 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
3317356 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
3317405 ACATATACACACTATCACAT
1 ATATATATACACTTTCACAT
3317425 ATATACACCC
Statistics
Matches: 159, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
49 112 0.70
51 47 0.30
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:3317391 original size:98 final size:98
Alignment explanation
Indices: 3317207--3317627 Score: 356
Period size: 98 Copynumber: 4.1 Consensus size: 98
3317197 TTTGCCACAT
* * * *
3317207 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATATACATTT
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC--ATATATACACACTT
3317272 TCACATTCATCACATCGGCCATTAGGCCTTATCAC
64 TCACATTCATCACATCGGCCATTAGGCCTTATCAC
3317307 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACACTTTC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACACTTTC
3317372 ACATTCATCACATCGGCCATTAGGCCTTATCAC
66 ACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * * *
3317405 ACATATACACACTATCACATAT-AT-ACA-C--CCTTTCA--CATTCATCACATCGGCCATTAGG
1 ATATATATACACTTTCACAT-TCATCACATCGGCCATT-AGGC-CTCATCACAT-----A-TA--
* ** **
3317463 CCTTATCACACATATACACACTT--TCACATTCATCACATCGGCCATTAGGCCTTATCAC
55 ---TA-CACAC-T-TTCACA-TTCATCACA-TCGGC-CAT---TA----GGCCTTATCAC
* * * *
3317521 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACACTTTC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACACTTTC
3317586 ACATTCATCACATCGGCCATTAGGCCTTATCAC
66 ACATTCATCACATCGGCCATTAGGCCTTATCAC
3317619 ATATATATA
1 ATATATATA
3317628 TCTCATACAT
Statistics
Matches: 259, Mismatches: 26, Indels: 74
0.72 0.07 0.21
Matches are distributed among these distances:
93 1 0.00
94 13 0.05
95 1 0.00
96 1 0.00
97 3 0.01
98 84 0.32
99 2 0.01
100 49 0.19
105 7 0.03
106 13 0.05
107 12 0.05
108 13 0.05
109 7 0.03
114 2 0.01
115 2 0.01
116 32 0.12
117 3 0.01
118 1 0.00
119 1 0.00
120 11 0.04
121 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (98 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:3317426 original size:67 final size:67
Alignment explanation
Indices: 3317351--3317491 Score: 264
Period size: 67 Copynumber: 2.1 Consensus size: 67
3317341 ATTAGGCCTC
3317351 ATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACA
1 ATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACA
3317416 CT
66 CT
*
3317418 ATCACATATATACACCCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACA
1 ATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACA
3317483 CT
66 CT
*
3317485 TTCACAT
1 ATCACAT
3317492 TCATCACATC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 72 1.00
ACGTcount: A:0.33, C:0.32, G:0.06, T:0.29
Consensus pattern (67 bp):
ATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACA
CT
Found at i:3317438 original size:116 final size:116
Alignment explanation
Indices: 3317301--3317540 Score: 435
Period size: 116 Copynumber: 2.1 Consensus size: 116
3317291 CATTAGGCCT
* *
3317301 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACAC
1 TATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACACATATACAC
3317366 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACAC
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACAC
* *
3317417 TATCACATATATACACCCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
1 TATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACACATATACAC
3317482 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACAC
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACAC
*
3317533 TTTCACAT
1 TATCACAT
3317541 TCATCACATC
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 119 1.00
ACGTcount: A:0.32, C:0.32, G:0.07, T:0.30
Consensus pattern (116 bp):
TATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACACATATACAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACAC
Found at i:3317440 original size:18 final size:18
Alignment explanation
Indices: 3317396--3317442 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
3317386 GGCCATTAGG
*
3317396 CCTTATCACACATATACAC
1 CCTT-TCACATATATACAC
* *
3317415 ACTATCACATATATACAC
1 CCTTTCACATATATACAC
3317433 CCTTTCACAT
1 CCTTTCACAT
3317443 TCATCACATC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.36, C:0.34, G:0.00, T:0.30
Consensus pattern (18 bp):
CCTTTCACATATATACAC
Found at i:3317447 original size:165 final size:165
Alignment explanation
Indices: 3317270--3317589 Score: 577
Period size: 165 Copynumber: 1.9 Consensus size: 165
3317260 ATATATACAT
* *
3317270 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACACTTTCACATTCATCACA
*
3317335 TCGGCCATTAGGCCTCATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTT
66 TCGGCCATTAGGCCTCATCACACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTT
3317400 ATCACACATATACACACTATCACATATATACACCC
131 ATCACACATATACACACTATCACATATATACACCC
3317435 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACACTTTCACATTCATCACA
*
3317500 TCGGCCATTAGGCCTTATCACACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTT
66 TCGGCCATTAGGCCTCATCACACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* * *
3317565 ATTACATATATACACACTTTCACAT
131 ATCACACATATACACACTATCACAT
3317590 TCATCACATC
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
165 148 1.00
ACGTcount: A:0.31, C:0.31, G:0.07, T:0.30
Consensus pattern (165 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACACTTTCACATTCATCACA
TCGGCCATTAGGCCTCATCACACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTT
ATCACACATATACACACTATCACATATATACACCC
Found at i:3317470 original size:49 final size:49
Alignment explanation
Indices: 3317417--3317625 Score: 382
Period size: 49 Copynumber: 4.3 Consensus size: 49
3317407 ATATACACAC
*
3317417 TATCACATATATACACCCTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
3317466 TATCACACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
3317515 TATCACACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
3317564 TATTACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCT
3317613 TATCACATATATA
1 TATCACATATATA
3317626 TATCTCATAC
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 155 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
TATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCT
Found at i:3320953 original size:40 final size:40
Alignment explanation
Indices: 3320890--3321161 Score: 463
Period size: 40 Copynumber: 6.8 Consensus size: 40
3320880 CCAGCATGAT
* * *
3320890 TGCTCTTCGGGACCTAGCCCGGATACATCCCTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
3320930 TGCTTTTCGGAACTTAGCTCGGATACATCACTAGCAAGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
3320970 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
3321010 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
3321050 TGCTCTTCGAAACTCAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
3321090 TGCTCTTCGGAACTCAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
3321130 TGCTCTTCGGAACTTAGCCCGGATACATCACT
1 TGCTCTTCGGAACTTAGCCCGGATACATCACT
3321162 CTCAATTCTC
Statistics
Matches: 219, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 219 1.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:3329684 original size:60 final size:60
Alignment explanation
Indices: 3329592--3329706 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
3329582 TATCTTTTAA
* * * *
3329592 TTTTTTAGAGATAGGACTAAATTGATAGATTTTGTAAATATTAAGGG-TCAAATTTATTAT
1 TTTTTTAGAGATAGAACTAAAATGACAAATTTTGTAAATATTAAGGGCT-AAATTTATTAT
3329652 TTTTTTAGA-ATTAGAACTAAAATGACAAATTTTGTAAATATTAAGGGCTAAATTT
1 TTTTTTAGAGA-TAGAACTAAAATGACAAATTTTGTAAATATTAAGGGCTAAATTT
3329707 GTTGAAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 1 0.02
60 47 0.96
61 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (60 bp):
TTTTTTAGAGATAGAACTAAAATGACAAATTTTGTAAATATTAAGGGCTAAATTTATTAT
Found at i:3330948 original size:30 final size:30
Alignment explanation
Indices: 3330914--3330974 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
3330904 TTTGGGCAAG
3330914 AGAACCCACGAGGGGTTCCCATGGGTGGTT
1 AGAACCCACGAGGGGTTCCCATGGGTGGTT
3330944 AGAACCCACGAGGGGTTCCCATGGGTGGTT
1 AGAACCCACGAGGGGTTCCCATGGGTGGTT
3330974 A
1 A
3330975 TACCCCTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.21, C:0.23, G:0.36, T:0.20
Consensus pattern (30 bp):
AGAACCCACGAGGGGTTCCCATGGGTGGTT
Found at i:3331590 original size:58 final size:58
Alignment explanation
Indices: 3331465--3331590 Score: 144
Period size: 58 Copynumber: 2.2 Consensus size: 58
3331455 AGATGAGGCA
* ** * * ** *
3331465 TCCATGAACCTTTTGGGCTCTCGATCAAGGTGAGGTATATCTTCAACACTCGGGTCCC
1 TCCATGAACCATTCAGGCTCTCAATCAAAGTGAGACATATCTTCAACACTCGGGCCCC
** * *
3331523 TCCGCGAACCATTCAGGCTCTCAATGAAAGTGAGACATATCTTCAACATTCGGGCCCC
1 TCCATGAACCATTCAGGCTCTCAATCAAAGTGAGACATATCTTCAACACTCGGGCCCC
3331581 TCCATGAACC
1 TCCATGAACC
3331591 GTTCTAGCTC
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (58 bp):
TCCATGAACCATTCAGGCTCTCAATCAAAGTGAGACATATCTTCAACACTCGGGCCCC
Found at i:3331620 original size:58 final size:58
Alignment explanation
Indices: 3331480--3331621 Score: 153
Period size: 58 Copynumber: 2.4 Consensus size: 58
3331470 GAACCTTTTG
* * *
3331480 GGCTCTCGATC-AAGGTGAGGTATATCTTCAACACTCGGGTCCCTCCGCGAACCATTCA
1 GGCTCTCGA-CGAAGGTGAGGCATATCTTCAACACTCGGGCCCCTCCACGAACCATTCA
* * * * * * *
3331538 GGCTCTCAATGAAAGTGAGACATATCTTCAACATTCGGGCCCCTCCATGAACCGTTCTA
1 GGCTCTCGACGAAGGTGAGGCATATCTTCAACACTCGGGCCCCTCCACGAACCATTC-A
*
3331597 -GCTCTCGACGAAGGTAAGGCATATC
1 GGCTCTCGACGAAGGTGAGGCATATC
3331622 ATCTTCATAA
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
58 66 0.99
59 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (58 bp):
GGCTCTCGACGAAGGTGAGGCATATCTTCAACACTCGGGCCCCTCCACGAACCATTCA
Found at i:3334766 original size:44 final size:44
Alignment explanation
Indices: 3334718--3334813 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
3334708 GTAGGTCAAA
** * * *
3334718 TAATATTAAAATAATTTACTCTAA-TTAGAGTTTAAGTGGGTAAC
1 TAATATTAAAATAACCTACACTAATTTA-AGTTTAAGTGAGAAAC
3334762 TAATATTAAAATAACCTACACTAATTTAAGTTTAAGTGAGAAAC
1 TAATATTAAAATAACCTACACTAATTTAAGTTTAAGTGAGAAAC
*
3334806 TAAAATTA
1 TAATATTA
3334814 GAGTTTAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 42 0.93
45 3 0.07
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.35
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATTTAAGTTTAAGTGAGAAAC
Found at i:3335335 original size:40 final size:40
Alignment explanation
Indices: 3335280--3335399 Score: 204
Period size: 40 Copynumber: 3.0 Consensus size: 40
3335270 TTTGCCTCTA
* * *
3335280 ATGTTAGGTCATTTAACACGTTATCAAAATATCAAAATTT
1 ATGTTACGTCATTTAACATGTTATCAAAATGTCAAAATTT
3335320 ATGTTACGTCATTTAACATGTTATCAAAATGTCAAAATTT
1 ATGTTACGTCATTTAACATGTTATCAAAATGTCAAAATTT
*
3335360 ATGTTACATCATTTAACATGTTATCAAAATGTCAAAATTT
1 ATGTTACGTCATTTAACATGTTATCAAAATGTCAAAATTT
3335400 TATCATGTTC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (40 bp):
ATGTTACGTCATTTAACATGTTATCAAAATGTCAAAATTT
Found at i:3335643 original size:13 final size:13
Alignment explanation
Indices: 3335598--3335644 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
3335588 CATTATGTGG
3335598 ATAAAAAAATTAT
1 ATAAAAAAATTAT
*
3335611 GTAATAAGTAAATT-T
1 ATAA-AA--AAATTAT
3335626 ATAAAAAAATTAT
1 ATAAAAAAATTAT
3335639 ATAAAA
1 ATAAAA
3335645 TCCAAATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 5 0.18
13 10 0.36
14 4 0.14
15 4 0.14
16 5 0.18
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATAAAAAAATTAT
Found at i:3335971 original size:2 final size:2
Alignment explanation
Indices: 3335958--3336002 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
3335948 CAAAGATTTA
*
3335958 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3336000 AT A
1 AT A
3336003 CACACACAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3342964 original size:46 final size:46
Alignment explanation
Indices: 3342913--3343136 Score: 240
Period size: 46 Copynumber: 4.8 Consensus size: 46
3342903 GATATTTGGG
*
3342913 CATCCGACCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
* *
3342959 CATCCGAACTCGTTGAGTTGAGTCTTG-GTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTC-CGAGTTCACTTATGGATGCAAA
* ** * * * *
3343005 CGTCTAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A
*
3343050 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 --CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
** * *
3343098 CGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
3343137 GCGGGTTACA
Statistics
Matches: 145, Mismatches: 24, Indels: 18
0.78 0.13 0.10
Matches are distributed among these distances:
43 4 0.03
45 4 0.03
46 101 0.70
47 29 0.20
48 3 0.02
50 4 0.03
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
Found at i:3343083 original size:93 final size:93
Alignment explanation
Indices: 3342959--3343129 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
3342949 TGGATGCAAA
* * *
3342959 CATCCGAACTCGTTGAGTTGAGTCTTGGTTCACTTATGGATGCGAACGTCTAAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCTCGGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGTT
3343024 GAGTCCGAGTTCGTGAAATGTAACTAGG
66 GAGTCCGAGTTCGTGAAATGTAACTAGG
* *
3343052 CATCCGAACTCGTTGAGTTGAGTC-CGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCTCG-GTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
3343116 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
3343130 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCTCGGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGTT
GAGTCCGAGTTCGTGAAATGTAACTAGG
Found at i:3348785 original size:26 final size:26
Alignment explanation
Indices: 3348749--3348884 Score: 245
Period size: 26 Copynumber: 5.2 Consensus size: 26
3348739 TGATTCAAAT
3348749 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
3348775 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
3348801 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
3348827 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
3348853 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
3348879 TGATAA
1 TGATAA
3348885 GAATTTCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:3350543 original size:27 final size:27
Alignment explanation
Indices: 3350502--3350641 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
3350492 GAGGAAGCGT
*
3350502 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
3350529 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
3350556 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
3350583 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
3350611 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
3350637 TCTGG
1 TCTGG
3350642 CAACCATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:3350587 original size:54 final size:55
Alignment explanation
Indices: 3350502--3350641 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
3350492 GAGGAAGCGT
* * *
3350502 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
3350556 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
3350611 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
3350642 CAACCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:3352569 original size:30 final size:30
Alignment explanation
Indices: 3352530--3352586 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
3352520 TTTTATAAGT
3352530 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
3352560 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
3352587 AATAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:3352813 original size:13 final size:13
Alignment explanation
Indices: 3352761--3352811 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
3352751 TTTAAATTAA
3352761 ACTTTTTAAAAAC
1 ACTTTTTAAAAAC
* *
3352774 ACTTTTTTATAAC
1 ACTTTTTAAAAAC
* *
3352787 ATTTTTTAAAAAT
1 ACTTTTTAAAAAC
3352800 ACTTTTTAAAAA
1 ACTTTTTAAAAA
3352812 TATTACTAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (13 bp):
ACTTTTTAAAAAC
Found at i:3355359 original size:24 final size:25
Alignment explanation
Indices: 3355305--3355389 Score: 72
Period size: 24 Copynumber: 3.6 Consensus size: 25
3355295 ATATTAAAAG
* *
3355305 ATATAT-ATATGTATATAT-ATAT-
1 ATATATAAAATGTATACATGATATA
3355327 ATATATAAAATGTATACATGATATA
1 ATATATAAAATGTATACATGATATA
* * *
3355352 ATAT-TAAAATATTTACATGGTAT-
1 ATATATAAAATGTATACATGATATA
*
3355375 ATACATAATAATGTA
1 ATATATAA-AATGTA
3355390 AAAAATAAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
22 6 0.12
23 13 0.26
24 23 0.46
25 8 0.16
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (25 bp):
ATATATAAAATGTATACATGATATA
Found at i:3355969 original size:39 final size:39
Alignment explanation
Indices: 3355878--3356027 Score: 203
Period size: 39 Copynumber: 3.9 Consensus size: 39
3355868 ATTTCACTCC
* * * *
3355878 CCCCATGCTACTTTGTTTTATTATTAATCAAAACCAC-T
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTACTT
* *
3355916 CCCCATGCTATTTTGTTTTATTGTTAATTAAAACTACTT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTACTT
*
3355955 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTACTT
* * *
3355994 CCTCATACCATTTTATTTTATTATTAATTAAAAC
1 CCCCATACTATTTTGTTTTATTATTAATTAAAAC
3356028 CATACTTTAT
Statistics
Matches: 102, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 33 0.32
39 69 0.68
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.46
Consensus pattern (39 bp):
CCCCATACTATTTTGTTTTATTATTAATTAAAACTACTT
Found at i:3355976 original size:77 final size:78
Alignment explanation
Indices: 3355878--3356027 Score: 203
Period size: 77 Copynumber: 1.9 Consensus size: 78
3355868 ATTTCACTCC
* * * * *
3355878 CCCCATGCTACTTTGTTTTATTATTAATCAAAACCAC-TCCCCATGCTATTTTGTTTTATTGTTA
1 CCCCATACTACTTTGTTTTATTATTAATCAAAACCACTTCCCCATACCATTTTATTTTATTATTA
3355942 ATTAAAACTACTT
66 ATTAAAACTACTT
* * * * *
3355955 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTTCCTCATACCATTTTATTTTATTATTA
1 CCCCATACTACTTTGTTTTATTATTAATCAAAACCACTTCCCCATACCATTTTATTTTATTATTA
3356020 ATTAAAAC
66 ATTAAAAC
3356028 CATACTTTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
77 32 0.52
78 30 0.48
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.46
Consensus pattern (78 bp):
CCCCATACTACTTTGTTTTATTATTAATCAAAACCACTTCCCCATACCATTTTATTTTATTATTA
ATTAAAACTACTT
Found at i:3358413 original size:28 final size:28
Alignment explanation
Indices: 3358381--3358435 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
3358371 TTTTGTATTC
3358381 ATTTATATGGTTAAATCACATGTAATAT
1 ATTTATATGGTTAAATCACATGTAATAT
3358409 ATTTATATGGTTAAATCACATGTAATA
1 ATTTATATGGTTAAATCACATGTAATA
3358436 GCAAACCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (28 bp):
ATTTATATGGTTAAATCACATGTAATAT
Found at i:3362418 original size:13 final size:13
Alignment explanation
Indices: 3362378--3362425 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
3362368 GTCTGACTCA
*
3362378 TTTTTTAAATAAT
1 TTTTTTAAATTAT
3362391 TTATTTTAAATTTAT
1 TT-TTTTAAA-TTAT
*
3362406 TTTTTTATATTAT
1 TTTTTTAAATTAT
*
3362419 ATTTTTA
1 TTTTTTA
3362426 TCAAAACTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 12 0.40
14 13 0.43
15 5 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTTAAATTAT
Found at i:3377550 original size:21 final size:22
Alignment explanation
Indices: 3377526--3377566 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3377516 ATAACAAGAA
3377526 AATAG-AAAAAAAAAAAGCAAG
1 AATAGTAAAAAAAAAAAGCAAG
*
3377547 AATAGTAAAAAAAAACAGCA
1 AATAGTAAAAAAAAAAAGCA
3377567 GTTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.73, C:0.07, G:0.12, T:0.07
Consensus pattern (22 bp):
AATAGTAAAAAAAAAAAGCAAG
Found at i:3378789 original size:6 final size:6
Alignment explanation
Indices: 3378778--3378802 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3378768 TAAATAATAA
3378778 AAATTT AAATTT AAATTT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT A
3378803 TTAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:3385443 original size:21 final size:23
Alignment explanation
Indices: 3385403--3385444 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
3385393 AAACAGTAGC
*
3385403 TATTCATTTATTTAGTTATTTCA
1 TATTCATTTATATAGTTATTTCA
3385426 TATT-ATTTATAT-GTTATTT
1 TATTCATTTATATAGTTATTT
3385445 TATTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (23 bp):
TATTCATTTATATAGTTATTTCA
Found at i:3400862 original size:19 final size:21
Alignment explanation
Indices: 3400812--3400862 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 21
3400802 TTTAAGTCTA
3400812 AAAAAAT-TAAAATATATGTAT
1 AAAAAATAT-AAATATATGTAT
* *
3400833 AAAACACATAAATAT-T-TAT
1 AAAAAATATAAATATATGTAT
3400852 AAAAAATATAA
1 AAAAAATATAA
3400863 TAATAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 12 0.48
20 1 0.04
21 11 0.44
22 1 0.04
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAAATATAAATATATGTAT
Found at i:3405125 original size:11 final size:11
Alignment explanation
Indices: 3405111--3405150 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
3405101 TGTTTTCTCC
3405111 CTATTTTACTA
1 CTATTTTACTA
3405122 CTATTTTACTA
1 CTATTTTACTA
* * *
3405133 TTATGTTGCTA
1 CTATTTTACTA
3405144 CTATTTT
1 CTATTTT
3405151 GTTGTTATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:3405299 original size:12 final size:12
Alignment explanation
Indices: 3405269--3405301 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
3405259 TATATATTTT
3405269 AAAATT-ATATA
1 AAAATTAATATA
3405280 AAAA-TAATATA
1 AAAATTAATATA
3405291 AAAATTAATAT
1 AAAATTAATAT
3405302 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:3405784 original size:21 final size:21
Alignment explanation
Indices: 3405760--3405809 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
3405750 ATTGGGTGGA
3405760 TCAGCTTTTACGAGCTTCTGT
1 TCAGCTTTTACGAGCTTCTGT
* *
3405781 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTTTTACGAGCTTCTGT
3405802 TCAGCTTT
1 TCAGCTTT
3405810 CAAGCTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (21 bp):
TCAGCTTTTACGAGCTTCTGT
Found at i:3413507 original size:15 final size:15
Alignment explanation
Indices: 3413483--3413512 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3413473 TAATTCATGC
*
3413483 ATTTTGTTTAAATTT
1 ATTTTCTTTAAATTT
3413498 ATTTTCTTTAAATTT
1 ATTTTCTTTAAATTT
3413513 TTATATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (15 bp):
ATTTTCTTTAAATTT
Found at i:3418025 original size:20 final size:19
Alignment explanation
Indices: 3417976--3418027 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
3417966 AAAATTATTA
3417976 AAAATTATTAAATTTTTTTT
1 AAAA-TATTAAATTTTTTTT
* *
3417996 AATATTTTAAATTTTTTTT
1 AAAATATTAAATTTTTTTT
3418015 AAAATAATTAAAT
1 AAAAT-ATTAAAT
3418028 ATTGATGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AAAATATTAAATTTTTTTT
Found at i:3421132 original size:26 final size:26
Alignment explanation
Indices: 3421056--3421139 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
3421046 CATGAAATTC
* *
3421056 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
*
3421082 TTATTATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
3421108 TTATCATGGAACATTTACCTAACCTT
1 TTATCATGGAACATTTACCTAACCTA
3421134 TTATCA
1 TTATCA
3421140 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.37
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:3425030 original size:28 final size:28
Alignment explanation
Indices: 3424975--3425030 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
3424965 AACCTGAAAT
* **
3424975 ATAGACCTAAAATTTTACTCAAGTCATG
1 ATAGACCTAAAATTTTACCCAAACCATG
*
3425003 ATAGACCTAAAATTTTGCCCAAACCATG
1 ATAGACCTAAAATTTTACCCAAACCATG
3425031 TCATATTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (28 bp):
ATAGACCTAAAATTTTACCCAAACCATG
Found at i:3429773 original size:45 final size:44
Alignment explanation
Indices: 3429585--3430295 Score: 363
Period size: 44 Copynumber: 15.8 Consensus size: 44
3429575 ACTTTAACCC
* * * * * *
3429585 GCTCCATTGCAACTTCAGGGAGATAGGATTAGAAGCTTCAATCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTTGTATCTTCAATCT
** * **
3429629 ATTCCACTGCAACTTCAGGGAGATAAGATCGGTATCTTCAATCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTTGTATCTTCAATCT
* * * *
3429673 ACCCCACTGCAACTTTAGGGAGATAAGACTTGTAAT-TTCAACCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTTGT-ATCTTCAATCT
** * * *
3429717 GCTTTACTGCAACTTTAGAGAGATAAGGTTTGCTATCTTCAATAT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTTG-TATCTTCAATCT
** *
3429762 GCTCCACTGCAACTTTAGGGAGATAAGATTTGTAATTTGTAGCTTTGATTT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTTGT-A----T--CTTCAATCT
* * ** * * *
3429813 GTTCCACTGCAACTTCAGAAAAATAAGATTCAT-TGTCTTTAGA-CT
1 GCTCCACTGCAACTTTAGGGAGATAAGATT--TGTATCTTCA-ATCT
* * * * * *
3429858 ACTCCACTGCAACTTTAGGGAAATAAGACTCGTAACTTCAACCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTTGTATCTTCAATCT
* * * * * * * ** *
3429902 ACTCTACTACAACTTCAGAGAGATAAGGTTTATGGCTTTAATCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTTGTATCTTCAATCT
* * * * *
3429946 GCTCTACTGCAACTTCAGAGAGATAATATTTGCTATCTTTAATCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTTG-TATCTTCAATCT
* * * ** *
3429991 ACTCCACTACAACTTTAGGGAGATAAGATCTGTGGCTTTAATCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTTGTATCTTCAATCT
* *
3430035 GCTCCACTACAACTTTAGGGAGATAAGATTTGTAATTTGTAGCTTTAATCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTTGT-A----T--CTTCAATCT
* * * * * * *
3430086 GTTCCATTGCAACTTCAGGAAAATAAGATTCGCTATCTTCAGTCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTTG-TATCTTCAATCT
* * *
3430131 GCTCCACTGTAACTTTAGTGAGATAAGACTTGTCAT-TTCAA-CTT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTTGT-ATCTTCAATC-T
* * * * * * * *
3430175 GCTTCACTTCAACTTCAGAGAGATAAGATTTATGGT-TTTAGTCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTTGT-ATCTTCAATCT
* * * * * ** * * *
3430219 GCTCCACTGCATCTTCAGGAAGATAAGGTTTATGGCTTTAGTTT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTTGTATCTTCAATCT
**
3430263 GCTCCACTGCAACTTCCGGGAGATAAGATTTGT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTTGT
3430296 CATGGTAGAT
Statistics
Matches: 514, Mismatches: 125, Indels: 56
0.74 0.18 0.08
Matches are distributed among these distances:
43 3 0.01
44 303 0.59
45 135 0.26
46 1 0.00
47 2 0.00
49 1 0.00
51 66 0.13
52 2 0.00
53 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (44 bp):
GCTCCACTGCAACTTTAGGGAGATAAGATTTGTATCTTCAATCT
Found at i:3429915 original size:140 final size:140
Alignment explanation
Indices: 3429722--3430205 Score: 457
Period size: 140 Copynumber: 3.5 Consensus size: 140
3429712 AACCTGCTTT
* ** * * ** * * * *
3429722 ACTGCAACTTTAGAGAGATAAGGTTTGCTATCTTCAATATGCTCCACTGCAACTTTAGGGAGATA
1 ACTGCAACTTTAGGGAGATAAGACTCG-TAACTTCAACCTGCTCTACTACAACTTCAGAGAGATA
* * ** *
3429787 AGATTTGTAATTTGTAGCTTTGATTTGTTCCACTGCAACTTCAGAAAAATAAGATTCATTGTCTT
65 AGATTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAAAAATAAGATTCGCTATCTT
3429852 TAGACTACTCC
130 TAGACTACTCC
* *
3429863 ACTGCAACTTTAGGGAAATAAGACTCGTAACTTCAACCTACTCTACTACAACTTCAGAGAGATAA
1 ACTGCAACTTTAGGGAGATAAGACTCGTAACTTCAACCTGCTCTACTACAACTTCAGAGAGATAA
* * * * * * *
3429928 G-GTT-T-A--TG--GCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAATATTTGCTATCTTT
66 GATTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAAAAATAAGATTCGCTATCTTT
3429986 A-ATCTACTCC
131 AGA-CTACTCC
* ** * * * * *
3429996 ACTACAACTTTAGGGAGATAAGA-TCTGTGGCTTTAATCTGCTCCACTACAACTTTAGGGAGATA
1 ACTGCAACTTTAGGGAGATAAGACTC-GTAACTTCAACCTGCTCTACTACAACTTCAGAGAGATA
* *
3430060 AGATTTGTAATTTGTAGCTTTAATCTGTTCCATTGCAACTTCAGGAAAATAAGATTCGCTATCTT
65 AGATTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAAAAATAAGATTCGCTATCTT
* * *
3430125 CAGTCTGCTCC
130 TAGACTACTCC
* * * * * * *
3430136 ACTGTAACTTTAGTGAGATAAGACTTGTCATTTCAACTTGCT-TCACTTCAACTTCAGAGAGATA
1 ACTGCAACTTTAGGGAGATAAGACTCGTAACTTCAACCTGCTCT-ACTACAACTTCAGAGAGATA
3430200 AGATTT
65 AGATTT
3430206 ATGGTTTTAG
Statistics
Matches: 270, Mismatches: 61, Indels: 25
0.76 0.17 0.07
Matches are distributed among these distances:
132 3 0.01
133 100 0.37
134 2 0.01
135 3 0.01
136 1 0.00
137 1 0.00
138 3 0.01
139 2 0.01
140 132 0.49
141 23 0.09
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (140 bp):
ACTGCAACTTTAGGGAGATAAGACTCGTAACTTCAACCTGCTCTACTACAACTTCAGAGAGATAA
GATTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAAAAATAAGATTCGCTATCTTT
AGACTACTCC
Found at i:3429957 original size:273 final size:273
Alignment explanation
Indices: 3429620--3430245 Score: 706
Period size: 273 Copynumber: 2.3 Consensus size: 273
3429610 GGATTAGAAG
* * * * * * *
3429620 CTTCAATCTA-TTCCACTGCAACTTCAGGGAGATAAGATCGGTAT--CTTCAATCTACCCCACTG
1 CTTCAACCTACTT-CACTACAACTTCAGAGAGATAAGAT--TTATGGCTTTAATCTGCTCCACTG
* * ** * *
3429682 CAACTTTAGGGAGATAAGACTTG-TAAT-TTCAACCTGCTTTACTGCAACTTTAGAGAGATAAGG
63 CAACTTCAGGGAGATAAGACTTGCT-ATCTTCAACCTACTCCACTACAACTTTAGAGAGATAAGA
* * * *
3429745 TTTGCTATCTTCAATATGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAATTTGTAGCTTTGA
127 TCTG-TAGCTTCAATATGCTCCACTACAACTTTAGGGAGATAAGATTTGTAATTTGTAGCTTTAA
* * * *
3429810 TTTGTTCCACTGCAACTTCAGAAAAATAAGATTCATTGTCTTTAGACTACTCCACTGCAACTTTA
191 TCTGTTCCACTGCAACTTCAGAAAAATAAGATTCACTATCTTCAGACTACTCCACTGCAACTTTA
3429875 GGGAAATAAGACTCGTAA
256 GGGAAATAAGACTCGTAA
* *
3429893 CTTCAACCTAC-TCTACTACAACTTCAGAGAGATAAGGTTTATGGCTTTAATCTGCTCTACTGCA
1 CTTCAACCTACTTC-ACTACAACTTCAGAGAGATAAGATTTATGGCTTTAATCTGCTCCACTGCA
* * * * * *
3429957 ACTTCAGAGAGATAATATTTGCTATCTTTAATCTACTCCACTACAACTTTAGGGAGATAAGATCT
65 ACTTCAGGGAGATAAGACTTGCTATCTTCAACCTACTCCACTACAACTTTAGAGAGATAAGATCT
* * *
3430022 GTGGCTTTAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTG
130 GTAGCTTCAATATGCTCCACTACAACTTTAGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTG
* * * * * * *
3430087 TTCCATTGCAACTTCAGGAAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGTAACTTTAGTGA
195 TTCCACTGCAACTTCAGAAAAATAAGATTCACTATCTTCAGACTACTCCACTGCAACTTTAGGGA
* * *
3430152 GATAAGACTTGTCA
260 AATAAGACTCGTAA
* * * * * * *
3430166 TTTCAACTTGCTTCACTTCAACTTCAGAGAGATAAGATTTATGGTTTTAGTCTGCTCCACTGCAT
1 CTTCAACCTACTTCACTACAACTTCAGAGAGATAAGATTTATGGCTTTAATCTGCTCCACTGCAA
*
3430231 CTTCAGGAAGATAAG
66 CTTCAGGGAGATAAG
3430246 GTTTATGGCT
Statistics
Matches: 292, Mismatches: 54, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
271 3 0.01
272 1 0.00
273 254 0.87
274 34 0.12
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (273 bp):
CTTCAACCTACTTCACTACAACTTCAGAGAGATAAGATTTATGGCTTTAATCTGCTCCACTGCAA
CTTCAGGGAGATAAGACTTGCTATCTTCAACCTACTCCACTACAACTTTAGAGAGATAAGATCTG
TAGCTTCAATATGCTCCACTACAACTTTAGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTGT
TCCACTGCAACTTCAGAAAAATAAGATTCACTATCTTCAGACTACTCCACTGCAACTTTAGGGAA
ATAAGACTCGTAA
Found at i:3429985 original size:133 final size:133
Alignment explanation
Indices: 3429815--3430245 Score: 420
Period size: 133 Copynumber: 3.2 Consensus size: 133
3429805 TTTGATTTGT
* * ** * *
3429815 TCCACTGCAACTTCAGAAAAATAAGATTCATTGTCTTTAGACTACTCCACTGCAACTTTAGGGAA
1 TCCACTGCAACTTCAGGAAGATAAGATTCGCTATCTTTAGACTACTCCACTGCAACTTTAGGGAG
* *
3429880 ATAAGACTCGTAACTTCAACCTACTCTACTACAACTTCAGAGAGATAAGGTTTATGGCTTTAATC
66 ATAAGACTCGTAACTTCAACCTGCTCTACTACAACTTCAGAGAGATAAGATTTATGGCTTTAATC
3429945 TGC
131 TGC
* * * *
3429948 TCTACTGCAACTTCA-GAGAGATAATATTTGCTATCTTTA-ATCTACTCCACTACAACTTTAGGG
1 TCCACTGCAACTTCAGGA-AGATAAGATTCGCTATCTTTAGA-CTACTCCACTGCAACTTTAGGG
** * * * * *
3430011 AGATAAGA-TCTGTGGCTTTAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTAATTTGT
64 AGATAAGACTC-GTAACTTCAACCTGCTCTACTACAACTTCAGAGAGATAAGA-TT-T-A--TG-
*
3430075 AGCTTTAATCTGT
122 -GCTTTAATCTGC
* * * * * * *
3430088 TCCATTGCAACTTCAGGAAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGTAACTTTAGTGAG
1 TCCACTGCAACTTCAGGAAGATAAGATTCGCTATCTTTAGACTACTCCACTGCAACTTTAGGGAG
* * * * * * *
3430153 ATAAGACTTGTCATTTCAACTTGCT-TCACTTCAACTTCAGAGAGATAAGATTTATGGTTTTAGT
66 ATAAGACTCGTAACTTCAACCTGCTCT-ACTACAACTTCAGAGAGATAAGATTTATGGCTTTAAT
3430217 CTGC
130 CTGC
*
3430221 TCCACTGCATCTTCAGGAAGATAAG
1 TCCACTGCAACTTCAGGAAGATAAG
3430246 GTTTATGGCT
Statistics
Matches: 236, Mismatches: 48, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
132 4 0.02
133 120 0.51
134 2 0.01
135 3 0.01
136 1 0.00
137 1 0.00
138 3 0.01
139 2 0.01
140 97 0.41
141 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (133 bp):
TCCACTGCAACTTCAGGAAGATAAGATTCGCTATCTTTAGACTACTCCACTGCAACTTTAGGGAG
ATAAGACTCGTAACTTCAACCTGCTCTACTACAACTTCAGAGAGATAAGATTTATGGCTTTAATC
TGC
Found at i:3430156 original size:229 final size:224
Alignment explanation
Indices: 3429618--3430295 Score: 604
Period size: 229 Copynumber: 3.0 Consensus size: 224
3429608 TAGGATTAGA
* * *
3429618 AGCTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGATCGGTATCTTCAATCTACCCCACTGC
1 AGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATC-GTATCTTCAATCTACTCCACTGC
* * * * *
3429683 AACTTTAGGGAGATAA-GACTTGTAATTTCAACCTGCTTTACTGCAACTTTAGAGAGATAAGGTT
65 AACTTTAGAGAGATAAGGATTTG-ACTTTCAA-CTGC-TTACTGCAACTTCAGAGAGATAAGATT
* * *
3429747 TGCTATCTTCAATATGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAATTTGTAGCTTTGATT
127 TGCTATCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG-----TG--GCTTTAATT
* ** * *
3429812 TGTTCCACTGCAACTTCAGAAAAATAAGA--T-TCATTGT
185 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTGT
* * * * * *
3429849 --CTTTAGA-CTACTCCACTGCAACTTTAGGGAAATAAGACTCGTAACTTCAACCTACTCTACTA
1 AGCTTTA-ATCTATTCCACTGCAACTTCAGGGAAATAAGA-TCGTATCTTCAATCTACTCCACTG
* * * *
3429911 CAACTTCAGAGAGATAAGGTTTATGGCTTT-AATCTGCTCTACTGCAACTTCAGAGAGATAATAT
64 CAACTTTAGAGAGATAAGGATT-TGACTTTCAA-CTGCT-TACTGCAACTTCAGAGAGATAAGAT
* * * *
3429975 TTGCTATCTTTAATCTACTCCACTACAACTTTAGGGAGATAAGATCTGTGGCTTTAATCTGCTCC
126 TTGCTATCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTGGCTTTAATTTGCTCC
* *
3430040 ACTACAACTTTAGGGAGATAAGATTTGTAATTTGT
191 ACTGCAACTTCAGGGAGATAAGATTTGTAA-TTGT
* * * * *
3430075 AGCTTTAATCTGTTCCATTGCAACTTCAGGAAAATAAGATTCGCTATCTTCAGTCTGCTCCACTG
1 AGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGA-TCG-TATCTTCAATCTACTCCACTG
* * * * *
3430140 TAACTTTAGTGAGATAA-GACTTGTCATTTCAACTTGCTTCACTTCAACTTCAGAGAGATAAGAT
64 CAACTTTAGAGAGATAAGGATTTGAC-TTTCAAC-TGCTT-ACTGCAACTTCAGAGAGATAAGAT
* * * * * * * * *
3430204 TT-ATGGT-TTTAGTCTGCTCCACTGCATCTTCAGGAAGATAAGGTTTATGGCTTTAGTTTGCTC
126 TTGCT-ATCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTGGCTTTAATTTGCTC
*
3430267 CACTGCAACTTCCGGGAGATAAGATTTGT
190 CACTGCAACTTCAGGGAGATAAGATTTGT
3430296 CATGGTAGAT
Statistics
Matches: 360, Mismatches: 69, Indels: 39
0.77 0.15 0.08
Matches are distributed among these distances:
222 30 0.08
224 3 0.01
225 2 0.01
226 4 0.01
227 4 0.01
228 113 0.31
229 194 0.54
230 8 0.02
231 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (224 bp):
AGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATCGTATCTTCAATCTACTCCACTGCA
ACTTTAGAGAGATAAGGATTTGACTTTCAACTGCTTACTGCAACTTCAGAGAGATAAGATTTGCT
ATCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTGGCTTTAATTTGCTCCACTGC
AACTTCAGGGAGATAAGATTTGTAATTGT
Found at i:3441718 original size:30 final size:30
Alignment explanation
Indices: 3441682--3441746 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
3441672 AAGAATTGCA
3441682 TCTCGTAAGTTAGGACACAATGCTTCAAAT
1 TCTCGTAAGTTAGGACACAATGCTTCAAAT
3441712 TCTCGTAAGTTAGGACACAATGCTTCAAAT
1 TCTCGTAAGTTAGGACACAATGCTTCAAAT
3441742 TCTCG
1 TCTCG
3441747 AAACGAGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (30 bp):
TCTCGTAAGTTAGGACACAATGCTTCAAAT
Found at i:3442415 original size:20 final size:20
Alignment explanation
Indices: 3442392--3442439 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
3442382 TTAAAATATG
* * *
3442392 ATAATTAATAAAACAATAAA
1 ATAAATAATAAAAAAAGAAA
*
3442412 ATAAATGATAAAAAAAGAAA
1 ATAAATAATAAAAAAAGAAA
3442432 ATAAATAA
1 ATAAATAA
3442440 GTGAAAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (20 bp):
ATAAATAATAAAAAAAGAAA
Done.