Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 269 of 310
Found at i:88842332 original size:16 final size:17
Alignment explanation
Indices: 88842300--88842332 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
88842290 CATCAAGAAG
88842300 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
88842318 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
88842333 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:88846787 original size:26 final size:26
Alignment explanation
Indices: 88846758--88846807 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
88846748 GGTACATGAG
**
88846758 AATGTGTATTGATTATCGTCAGTTAA
1 AATGTGTATCAATTATCGTCAGTTAA
88846784 AATGTGTATCAATTATCGTCAGTT
1 AATGTGTATCAATTATCGTCAGTT
88846808 GAATAAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (26 bp):
AATGTGTATCAATTATCGTCAGTTAA
Found at i:88849628 original size:27 final size:26
Alignment explanation
Indices: 88849597--88849774 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
88849587 TAAATTGTAC
88849597 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
88849624 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
88849650 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
88849678 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
88849706 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
88849733 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
88849760 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
88849775 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:88849713 original size:82 final size:81
Alignment explanation
Indices: 88849598--88849753 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
88849588 AAATTGTACA
* *
88849598 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
88849662 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
88849679 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
88849744 TGCGAGTTGA
65 TGCGAATTGA
88849754 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:88849765 original size:82 final size:81
Alignment explanation
Indices: 88849594--88849774 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
88849584 GATTAAATTG
* *
88849594 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
88849659 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
88849675 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
88849739 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
88849757 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
88849775 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:88849785 original size:27 final size:27
Alignment explanation
Indices: 88849679--88849785 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
88849669 TGACCATGCG
* * * *
88849679 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
88849707 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
88849734 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
88849761 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
88849786 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:88857691 original size:27 final size:27
Alignment explanation
Indices: 88857660--88857837 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
88857650 TAAATTGTAC
88857660 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
88857687 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88857713 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
88857741 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
88857769 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88857796 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
88857823 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
88857838 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:88857774 original size:82 final size:81
Alignment explanation
Indices: 88857661--88857816 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
88857651 AAATTGTACA
* *
88857661 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
88857725 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
88857742 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
88857807 TGCGAGTTGA
65 TGCGAATTGA
88857817 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:88857828 original size:82 final size:81
Alignment explanation
Indices: 88857657--88857837 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
88857647 GATTAAATTG
* *
88857657 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
88857722 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
88857738 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
88857802 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
88857820 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
88857838 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:88867255 original size:21 final size:20
Alignment explanation
Indices: 88867217--88867256 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
88867207 CACTTGAAGC
*
88867217 AGGGCACACGCCCGTGTGGA
1 AGGGCACACGCCCATGTGGA
*
88867237 AGGGCAACACGCCTATGTGG
1 AGGGC-ACACGCCCATGTGG
88867257 CCATTCTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (20 bp):
AGGGCACACGCCCATGTGGA
Found at i:88868564 original size:49 final size:49
Alignment explanation
Indices: 88868511--88868673 Score: 142
Period size: 44 Copynumber: 3.4 Consensus size: 49
88868501 TTCGATGACG
* *
88868511 TGTCCCAGATAGCTCTTACACTAACTTTCATATATCAAGGCCGATGCCA
1 TGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGCCGATGCCA
* * * **
88868560 TGTCCCAGACAGGTCTTACACTGAC--ACACA-A-CAA-GCTAATGCCA
1 TGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGCCGATGCCA
** * * * *
88868604 TGTCTGAGATAGGTCTTACACTAGCTTGT-ATATCTCGAGGCCGATG-CA
1 TGTCCCAGACAGGTCTTACACTAACTT-TCATATATCAAGGCCGATGCCA
*
88868652 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACAGGTCTTACACT
88868674 GGCTCACATA
Statistics
Matches: 86, Mismatches: 22, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
44 28 0.33
45 3 0.03
46 3 0.03
47 3 0.03
48 22 0.26
49 27 0.31
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGCCGATGCCA
Found at i:88873802 original size:46 final size:46
Alignment explanation
Indices: 88873735--88873906 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
88873725 AACCCGGCCC
* * *
88873735 TAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTTGCATCTA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCTA
* *
88873781 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-T-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATCTA
* * * * * * *
88873829 TCA-CGAACTTGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCTA
* *
88873874 TAAGTGAACTCAGACTCAACTGAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
88873907 ATGCTCAACC
Statistics
Matches: 99, Mismatches: 20, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 2 0.02
46 55 0.56
47 26 0.26
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCTA
Found at i:88881410 original size:93 final size:93
Alignment explanation
Indices: 88881284--88881454 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
88881274 GCCCCTAAGT
* *
88881284 GAACTCAGACTCAACTCAACGAGCTTGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCAA
88881349 CAAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
* *
88881377 GAACTCGGAGTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTT-GGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
**
88881441 ATGAGTTCGGATGC
65 ACAAGTTCGGATGC
88881455 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:88881448 original size:46 final size:46
Alignment explanation
Indices: 88881279--88881451 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
88881269 AACCCGCCCC
* *
88881279 TAAGTGAACTCAGACTCAACTCAACGAGCTT-GGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCA
* * *
88881325 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
88881373 TCA-CGAACTCGGAGTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
88881418 TAAGTGAACTCGGAATCAACTCAATGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
88881452 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 55 0.54
47 27 0.26
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:88881907 original size:30 final size:30
Alignment explanation
Indices: 88881873--88881932 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
88881863 ATTTAATACG
*
88881873 AACTTTGGAAAAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
88881903 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
88881933 GGCTCGGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:88883809 original size:46 final size:48
Alignment explanation
Indices: 88883693--88883816 Score: 135
Period size: 46 Copynumber: 2.6 Consensus size: 48
88883683 GACACAACAA
* * * * *
88883693 GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAG
1 GCTGATG-CATGTCCTAGACATGTCTTACACTAGCTTCTACATCTCAAG
* ** * *
88883742 GCCGATGCATGTTGTAGACATGTCTTACACTAGC-TCT-CGTCTCAAT
1 GCTGATGCATGTCCTAGACATGTCTTACACTAGCTTCTACATCTCAAG
88883788 GCTGATGCATGTCCTAGACATGTCTTACA
1 GCTGATGCATGTCCTAGACATGTCTTACA
88883817 TTGGATTTTA
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
46 31 0.50
47 2 0.03
48 23 0.37
49 6 0.10
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (48 bp):
GCTGATGCATGTCCTAGACATGTCTTACACTAGCTTCTACATCTCAAG
Found at i:88884403 original size:42 final size:43
Alignment explanation
Indices: 88884322--88884471 Score: 125
Period size: 42 Copynumber: 3.6 Consensus size: 43
88884312 TTTCAGATGT
* *
88884322 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGATAG
1 GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGATAG
* *
88884365 GGTCTTACACGAAATCAAATA-CGATGCTGA-TGTCCCAGA-AA
1 GGTCTTACACGAAATCAAATATCGATGC-CACTGTCCCAGATAG
* * * *
88884406 TGTCTTACAC-ATAATCGAAGT-T-GATGCCAAC-ATCCCAGATAT
1 GGTCTTACACGA-AATC-AAATATCGATGCC-ACTGTCCCAGATAG
* *
88884448 GGTCTTACACGAAAACACATATCG
1 GGTCTTACACGAAATCAAATATCG
88884472 GATCCTTTGT
Statistics
Matches: 84, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
40 1 0.01
41 29 0.35
42 32 0.38
43 22 0.26
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGATAG
Found at i:88905504 original size:40 final size:39
Alignment explanation
Indices: 88905447--88905637 Score: 233
Period size: 40 Copynumber: 4.8 Consensus size: 39
88905437 CGGATGATAA
* *
88905447 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAATT
*
88905487 CCGGGCTAAGTCTCGAAGGCATTGTTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTG-TGCGAGTTACTAATT
*
88905527 TCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAT-T
**
88905566 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAT-T
** *
88905606 CCGGGCTAAGTCCTAAAGGCATTCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGT
88905638 GGCTATATCC
Statistics
Matches: 134, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 37 0.28
40 95 0.71
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAATT
Found at i:88905583 original size:79 final size:79
Alignment explanation
Indices: 88905447--88905649 Score: 250
Period size: 79 Copynumber: 2.5 Consensus size: 79
88905437 CGGATGATAA
* *
88905447 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCTCGAAGGCA-TT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTGACTATA-TCCGGGCTAAGTCCCGAAGGCATTT
**
88905510 GTTGCGAGTTACTA-ATT
64 G-TGCGAACTACTATA-T
* *
88905527 TCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
88905592 GCGAACTACTATAT
66 GCGAACTACTATAT
** * *
88905606 CCGGGCTAAGTCCTAAAGGCATTCGAGCGAGTGGCTATATCCGG
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTGACTATATCCGG
88905650 TTAAATCCTG
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
79 65 0.61
80 42 0.39
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAACTACTATAT
Found at i:88913390 original size:40 final size:40
Alignment explanation
Indices: 88913335--88913537 Score: 252
Period size: 40 Copynumber: 5.1 Consensus size: 40
88913325 CGGATGATAA
* *
88913335 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
88913375 CCGGGCTAAGTCCCGAAGGCA-TTGTTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATA-T
*
88913415 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATCT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * **
88913454 CAGGGCTAAGTCCCGAAGGCATTTGTACGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * **
88913494 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
88913534 CCGG
1 CCGG
88913538 TTAAATCCCG
Statistics
Matches: 144, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
39 36 0.25
40 108 0.75
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:88913472 original size:79 final size:79
Alignment explanation
Indices: 88913335--88913526 Score: 255
Period size: 79 Copynumber: 2.4 Consensus size: 79
88913325 CGGATGATAA
* *
88913335 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCA-TTG
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTGACTAATTCAGGGCTAAGTCCCGAAGGCATTTG
* **
88913399 TTGCGAGTTACTA-ATT
65 -TACGAACTACTATA-T
*
88913415 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACT-ATCTCAGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTAAT-TCAGGGCTAAGTCCCGAAGGCATTTG
88913479 TACGAACTACTATAT
65 TACGAACTACTATAT
*
88913494 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTG
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTG
88913527 GCTATATCCG
Statistics
Matches: 100, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
78 2 0.02
79 66 0.66
80 32 0.32
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTAATTCAGGGCTAAGTCCCGAAGGCATTTGT
ACGAACTACTATAT
Found at i:88913547 original size:79 final size:78
Alignment explanation
Indices: 88913335--88913548 Score: 245
Period size: 79 Copynumber: 2.7 Consensus size: 78
88913325 CGGATGATAA
*
88913335 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTGACTATA-TCC-GGCTAAGTCCCGAAGGCATTG
* **
88913399 TTGCGAGTTACTAATT
63 TTACGAACTACTAATT
* * *
88913415 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATCTCAGGGCTAAGTCCCGAAGGCATT-TG
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTATATC-CGGCTAAGTCCCGAAGGCATTGT-
88913479 TACGAACTACT-ATAT
64 TACGAACTACTAAT-T
* * * *
88913494 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTGGCTATATCCGGTTAAATCCCGA
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTGACTATATCCGGCTAAGTCCCGA
88913549 GGGTACTTGG
Statistics
Matches: 115, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 78 0.68
80 34 0.30
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTATATCCGGCTAAGTCCCGAAGGCATTGTTA
CGAACTACTAATT
Found at i:88923464 original size:43 final size:42
Alignment explanation
Indices: 88923417--88923538 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 42
88923407 AGACGAAGTT
88923417 TTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTC
1 TTACATGTAATCAAATATCGATGCCA-TGTCCCAGACAGGGTC
* * *
88923460 TTACACG-ACATCAAATA-CGATGACGATGTCCCAGACATGGTC
1 TTACATGTA-ATCAAATATCGATG-CCATGTCCCAGACAGGGTC
* *
88923502 TTACATGTAAACATAA-CTCGATGCCAATGTCCCAGAC
1 TTACATGTAATCA-AATATCGATGCC-ATGTCCCAGAC
88923539 GTATTCTTAC
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
TTACATGTAATCAAATATCGATGCCATGTCCCAGACAGGGTC
Found at i:88923493 original size:42 final size:43
Alignment explanation
Indices: 88923426--88923506 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 43
88923416 TTTACATGTA
88923426 ATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACGAC
1 ATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACGAC
* *
88923469 ATCAAATA-CGATGACGA-TGTCCCAGACATGGTCTTACA
1 ATCAAATATCGATG-CCACTGTCCCAGACAGGGTCTTACA
88923507 TGTAAACATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
42 25 0.71
43 10 0.29
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (43 bp):
ATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACGAC
Found at i:88923557 original size:43 final size:41
Alignment explanation
Indices: 88923433--88923557 Score: 117
Period size: 43 Copynumber: 3.0 Consensus size: 41
88923423 GTAATCAAAT
* * *
88923433 ATCGATGCCACTGTCCCAGACAG-GGTCTTACACGACATCAA
1 ATCGATGCCAATGTCCCAGAC-GTGGTCTTACACGAAAACAA
* * * * *
88923474 ATACGATGACGATGTCCCAGACATGGTCTTACATGTAAACATA
1 AT-CGATGCCAATGTCCCAGACGTGGTCTTACACGAAAACA-A
**
88923517 ACTCGATGCCAATGTCCCAGACGTATTCTTACACGAAAACA
1 A-TCGATGCCAATGTCCCAGACGTGGTCTTACACGAAAACA
88923558 CGTATCGGAT
Statistics
Matches: 65, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
41 2 0.03
42 29 0.45
43 33 0.51
44 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (41 bp):
ATCGATGCCAATGTCCCAGACGTGGTCTTACACGAAAACAA
Found at i:88934174 original size:925 final size:925
Alignment explanation
Indices: 88932384--88934230 Score: 3694
Period size: 925 Copynumber: 2.0 Consensus size: 925
88932374 AGGGATGAAG
88932384 CCTCCTCTCGCACGTTAATGGCATAGGCTCTGGCAGGTGCACAAGCCTCAAATCTGGCTGTTGTA
1 CCTCCTCTCGCACGTTAATGGCATAGGCTCTGGCAGGTGCACAAGCCTCAAATCTGGCTGTTGTA
88932449 TCTTTATTTCCTTTATGACTCCCGCTCGCATTACCCGTATTTCTTGGTAGTCTACCTCGAGTTGT
66 TCTTTATTTCCTTTATGACTCCCGCTCGCATTACCCGTATTTCTTGGTAGTCTACCTCGAGTTGT
88932514 AGTATTACCCGATCTCGTGTTTTACAGTGGATTGTTTTCAGCTAACCCTAGGCAATCTTGAATAT
131 AGTATTACCCGATCTCGTGTTTTACAGTGGATTGTTTTCAGCTAACCCTAGGCAATCTTGAATAT
88932579 AGTGATCTATCGATCCACATTTAAAACAGGCTCGATCATGCAATCTGCAACTACCGAGATGTCAT
196 AGTGATCTATCGATCCACATTTAAAACAGGCTCGATCATGCAATCTGCAACTACCGAGATGTCAT
88932644 TTACCATAGTGTTTACACTCAGGTTGATTTGATCTGACATTACCCACACTAGCTACTGAGGTAGC
261 TTACCATAGTGTTTACACTCAGGTTGATTTGATCTGACATTACCCACACTAGCTACTGAGGTAGC
88932709 TCTCGAACTCACTGGTGGTCTGCTCTGGTCTTGTCGAGAATAACCCGAAGTGGCTTTTGAACGAC
326 TCTCGAACTCACTGGTGGTCTGCTCTGGTCTTGTCGAGAATAACCCGAAGTGGCTTTTGAACGAC
88932774 TAAAATCATCACTGAATTTCTTTGGTACCGACTGGACTGACCTACTGAAGGATCTCTTAAGCGAG
391 TAAAATCATCACTGAATTTCTTTGGTACCGACTGGACTGACCTACTGAAGGATCTCTTAAGCGAG
88932839 TCTCTAGTTTCAAAATCAACTTTCTTTTTCTCTTTCCCGAGCTCTTCAGCTTTACAAGCTCGCTC
456 TCTCTAGTTTCAAAATCAACTTTCTTTTTCTCTTTCCCGAGCTCTTCAGCTTTACAAGCTCGCTC
88932904 ACAAGTATGCCAACTAACAATTTAATGTCTTCGTTCAGTCCATTTTCAAATCTTTTACACATTAT
521 ACAAGTATGCCAACTAACAATTTAATGTCTTCGTTCAGTCCATTTTCAAATCTTTTACACATTAT
88932969 GGCTTTAGTAGAAACACACTCTCGGGCATACTGACTGAGTCTTACGAATTTCCACTCAAACCTTG
586 GGCTTTAGTAGAAACACACTCTCGGGCATACTGACTGAGTCTTACGAATTTCCACTCAAACCTTG
88933034 TTACAGTCATCCGACCCTGTTTCAGCTCCAGAAATTCTTTACGCTTCTGATCAACAAATCTCTAG
651 TTACAGTCATCCGACCCTGTTTCAGCTCCAGAAATTCTTTACGCTTCTGATCAACAAATCTCTAG
88933099 CTAATATATTTCTTACGAAACTCAGTCTGAATGAATTCCCAAGTCACCCGCTCTCTCGGAACCAC
716 CTAATATATTTCTTACGAAACTCAGTCTGAATGAATTCCCAAGTCACCCGCTCTCTCGGAACCAC
88933164 TGATAGTAGGGTATTCCACCAGTGATATGCTGTGTCTCGAAGCAAAGATATGGCACACTTCAAAT
781 TGATAGTAGGGTATTCCACCAGTGATATGCTGTGTCTCGAAGCAAAGATATGGCACACTTCAAAT
88933229 ATTCATCTGGGGTACAGGACAACTCATAAAATACACGGACAGTATTATCAAGCTAGAACTCAGCC
846 ATTCATCTGGGGTACAGGACAACTCATAAAATACACGGACAGTATTATCAAGCTAGAACTCAGCC
88933294 CGCCTAGCATCAAAC
911 CGCCTAGCATCAAAC
88933309 CCTCCTCTCGCACGTTAATGGCATAGGCTCTGGCAGGTGCACAAGCCTCAAATCTGGCTGTTGTA
1 CCTCCTCTCGCACGTTAATGGCATAGGCTCTGGCAGGTGCACAAGCCTCAAATCTGGCTGTTGTA
88933374 TCTTTATTTCCTTTATGACTCCCGCTCGCATTACCCGTATTTCTTGGTAGTCTACCTCGAGTTGT
66 TCTTTATTTCCTTTATGACTCCCGCTCGCATTACCCGTATTTCTTGGTAGTCTACCTCGAGTTGT
88933439 AGTATTACCCGATCTCGTGTTTTACAGTGGATTGTTTTCAGCTAACCCTAGGCAATCTTGAATAT
131 AGTATTACCCGATCTCGTGTTTTACAGTGGATTGTTTTCAGCTAACCCTAGGCAATCTTGAATAT
88933504 AGTGATCTATCGATCCACATTTAAAACAGGCTCGATCATGCAATCTGCAACTACCGAGATGTCAT
196 AGTGATCTATCGATCCACATTTAAAACAGGCTCGATCATGCAATCTGCAACTACCGAGATGTCAT
88933569 TTACCATAGTGTTTACACTCAGGTTGATTTGATCTGACATTACCCACACTAGCTACTGAGGTAGC
261 TTACCATAGTGTTTACACTCAGGTTGATTTGATCTGACATTACCCACACTAGCTACTGAGGTAGC
88933634 TCTCGAACTCACTGGTGGTCTGCTCTGGTCTTGTCGAGAATAACCCGAAGTGGCTTTTGAACGAC
326 TCTCGAACTCACTGGTGGTCTGCTCTGGTCTTGTCGAGAATAACCCGAAGTGGCTTTTGAACGAC
88933699 TAAAATCATCACTGAATTTCTTTGGTACCGACTGGACTGACCTACTGAAGGATCTCTTAAGCGAG
391 TAAAATCATCACTGAATTTCTTTGGTACCGACTGGACTGACCTACTGAAGGATCTCTTAAGCGAG
88933764 TCTCTAGTTTCAAAATCAACTTTCTTTTTCTCTTTCCCGAGCTCTTCAGCTTTACAAGCTCGCTC
456 TCTCTAGTTTCAAAATCAACTTTCTTTTTCTCTTTCCCGAGCTCTTCAGCTTTACAAGCTCGCTC
88933829 ACAAGTATGCCAACTAACAATTTAATGTCTTCGTTCAGTCCATTTTCAAATCTTTTACACATTAT
521 ACAAGTATGCCAACTAACAATTTAATGTCTTCGTTCAGTCCATTTTCAAATCTTTTACACATTAT
88933894 GGCTTTAGTAGAAACACACTCTCGGGCATACTGACTGAGTCTTACGAATTTCCACTCAAACCTTG
586 GGCTTTAGTAGAAACACACTCTCGGGCATACTGACTGAGTCTTACGAATTTCCACTCAAACCTTG
88933959 TTACAGTCATCCGACCCTGTTTCAGCTCCAGAAATTCTTTACGCTTCTGATCAACAAATCTCTAG
651 TTACAGTCATCCGACCCTGTTTCAGCTCCAGAAATTCTTTACGCTTCTGATCAACAAATCTCTAG
88934024 CTAATATATTTCTTACGAAACTCAGTCTGAATGAATTCCCAAGTCACCCGCTCTCTCGGAACCAC
716 CTAATATATTTCTTACGAAACTCAGTCTGAATGAATTCCCAAGTCACCCGCTCTCTCGGAACCAC
88934089 TGATAGTAGGGTATTCCACCAGTGATATGCTGTGTCTCGAAGCAAAGATATGGCACACTTCAAAT
781 TGATAGTAGGGTATTCCACCAGTGATATGCTGTGTCTCGAAGCAAAGATATGGCACACTTCAAAT
88934154 ATTCATCTGGGGTACAGGACAACTCATAAAATACACGGACAGTATTATCAAGCTAGAACTCAGCC
846 ATTCATCTGGGGTACAGGACAACTCATAAAATACACGGACAGTATTATCAAGCTAGAACTCAGCC
88934219 CGCCTAGCATCA
911 CGCCTAGCATCA
88934231 TCATCATCTG
Statistics
Matches: 922, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
925 922 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (925 bp):
CCTCCTCTCGCACGTTAATGGCATAGGCTCTGGCAGGTGCACAAGCCTCAAATCTGGCTGTTGTA
TCTTTATTTCCTTTATGACTCCCGCTCGCATTACCCGTATTTCTTGGTAGTCTACCTCGAGTTGT
AGTATTACCCGATCTCGTGTTTTACAGTGGATTGTTTTCAGCTAACCCTAGGCAATCTTGAATAT
AGTGATCTATCGATCCACATTTAAAACAGGCTCGATCATGCAATCTGCAACTACCGAGATGTCAT
TTACCATAGTGTTTACACTCAGGTTGATTTGATCTGACATTACCCACACTAGCTACTGAGGTAGC
TCTCGAACTCACTGGTGGTCTGCTCTGGTCTTGTCGAGAATAACCCGAAGTGGCTTTTGAACGAC
TAAAATCATCACTGAATTTCTTTGGTACCGACTGGACTGACCTACTGAAGGATCTCTTAAGCGAG
TCTCTAGTTTCAAAATCAACTTTCTTTTTCTCTTTCCCGAGCTCTTCAGCTTTACAAGCTCGCTC
ACAAGTATGCCAACTAACAATTTAATGTCTTCGTTCAGTCCATTTTCAAATCTTTTACACATTAT
GGCTTTAGTAGAAACACACTCTCGGGCATACTGACTGAGTCTTACGAATTTCCACTCAAACCTTG
TTACAGTCATCCGACCCTGTTTCAGCTCCAGAAATTCTTTACGCTTCTGATCAACAAATCTCTAG
CTAATATATTTCTTACGAAACTCAGTCTGAATGAATTCCCAAGTCACCCGCTCTCTCGGAACCAC
TGATAGTAGGGTATTCCACCAGTGATATGCTGTGTCTCGAAGCAAAGATATGGCACACTTCAAAT
ATTCATCTGGGGTACAGGACAACTCATAAAATACACGGACAGTATTATCAAGCTAGAACTCAGCC
CGCCTAGCATCAAAC
Found at i:88937494 original size:41 final size:41
Alignment explanation
Indices: 88937437--88937521 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
88937427 CTCCAATACA
*
88937437 AAATATGTTAATCTAATACGTATCTTTCATATTTCATCACC
1 AAATATGTTAATCTAATACATATCTTTCATATTTCATCACC
88937478 AAATATGTTAATCTAATACATATCTTTCATATTTCATCACC
1 AAATATGTTAATCTAATACATATCTTTCATATTTCATCACC
88937519 AAA
1 AAA
88937522 CAACAAAAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.40
Consensus pattern (41 bp):
AAATATGTTAATCTAATACATATCTTTCATATTTCATCACC
Found at i:88939560 original size:29 final size:28
Alignment explanation
Indices: 88939518--88939589 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
88939508 GTTGATTTCG
*
88939518 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTCAA-TTATATA
* *
88939547 GCACTAAGTGTGCGAGTTCGATTATATA
1 GCACTAAGTGTGCGGGTTCAATTATATA
*
88939575 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
88939590 ACTTACTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
28 19 0.50
29 19 0.50
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGGGTTCAATTATATA
Found at i:88945535 original size:39 final size:40
Alignment explanation
Indices: 88945490--88945698 Score: 134
Period size: 41 Copynumber: 5.2 Consensus size: 40
88945480 CGGGGTTTAG
* * *
88945490 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
88945529 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
88945569 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
88945609 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
** * * *
88945650 CCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
88945691 CCGGATAT
1 CCGGATAT
88945699 CATTCGAGTA
Statistics
Matches: 149, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 18 0.12
40 61 0.41
41 67 0.45
42 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:88945640 original size:41 final size:41
Alignment explanation
Indices: 88945513--88945698 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 41
88945503 CTCGCACAAG
* * * * * *
88945513 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
88945553 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
88945593 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
88945634 GCCTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
88945675 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
88945699 CATTCGAGTA
Statistics
Matches: 132, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 59 0.45
41 67 0.51
42 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:88945647 original size:81 final size:82
Alignment explanation
Indices: 88945513--88945696 Score: 248
Period size: 81 Copynumber: 2.3 Consensus size: 82
88945503 CTCGCACAAG
* * * * * * *
88945513 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
* *
88945577 AGTCGC-TAGCACAAAT
66 AGTCACTTAGCACAAAA
*
88945593 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
1 GCCTTCGGGA-CTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
88945657 TAGTCACTTAGCACAAAA
65 TAGTCACTTAGCACAAAA
88945675 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
88945697 ATCATTCGAG
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 2 0.02
80 21 0.24
81 37 0.42
82 26 0.29
83 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (82 bp):
GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
AGTCACTTAGCACAAAA
Found at i:88952032 original size:26 final size:26
Alignment explanation
Indices: 88951988--88952037 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
88951978 ACTTATTTTC
88951988 TCAAAATTTAACTAGGGGTAAAATCG
1 TCAAAATTTAACTAGGGGTAAAATCG
*
88952014 TCAAAATTTTAC-AGTGGGTAAAAT
1 TCAAAATTTAACTAG-GGGTAAAAT
88952038 ATAGATGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (26 bp):
TCAAAATTTAACTAGGGGTAAAATCG
Found at i:88956165 original size:43 final size:42
Alignment explanation
Indices: 88956112--88956278 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 42
88956102 AACTTATACA
* * *
88956112 ATGCCATATCCCGGATAGGGTCTTACATGTTATCACATATCG
1 ATGCCATATCCCAGACAGGGTCTTACATGTTATCACATAACG
* * * *
88956154 ATGCCACTATCCTAGACAGGGTCTTACACGATATCATATAACG
1 ATGCCA-TATCCCAGACAGGGTCTTACATGTTATCACATAACG
* * * * *
88956197 ATGCTAATGTCCCAGACATGGTCTTACATGTAATCACA-ATACA
1 ATGC-CATATCCCAGACAGGGTCTTACATGTTATCACATA-ACG
* * * * *
88956240 ATTCCAATGTCCCAAACATGGTCTTACATGTAATCACAT
1 ATGCC-ATATCCCAGACAGGGTCTTACATGTTATCACAT
88956279 CTCGGTAATC
Statistics
Matches: 101, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 7 0.07
43 93 0.92
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGACAGGGTCTTACATGTTATCACATAACG
Found at i:88958276 original size:40 final size:40
Alignment explanation
Indices: 88958244--88958545 Score: 453
Period size: 40 Copynumber: 7.5 Consensus size: 40
88958234 CCAGCATGAT
* * * *
88958244 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
88958284 TGCTTTTCAGGG-TTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTC-GGGACTTAGCCCGGATACATCACTAGCACGAA
* *
88958324 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
88958364 TGCTCTTCGGGACTTAACCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
88958404 TGCTCTTCGGGACTTAGCCCGGTTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
88958444 TGCTCTTCAGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
88958484 TGCTCTTCGGGACTTAACCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
88958524 TGCTCTTCGGGACTTAGCCCGG
1 TGCTCTTCGGGACTTAGCCCGG
88958546 CTATACAACT
Statistics
Matches: 239, Mismatches: 21, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 234 0.98
41 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:88959466 original size:197 final size:197
Alignment explanation
Indices: 88959131--88959524 Score: 743
Period size: 197 Copynumber: 2.0 Consensus size: 197
88959121 AAATTTCCAG
88959131 ACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTTGAGTTCCAAAACTCCAAAAC
1 ACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTTGAGTTCCAAAACTCCAAAAC
* *
88959196 CAGTTTCGTAAATTTTTCCTGAAACTAGACTCATATATCCATCTACAAAATTTTTTCTAGAATCT
66 CAGTTTCGTAAATTTTTCCTGAAACTAGACACATATATCCATCTACAAAATGTTTTCTAGAATCT
*
88959261 TTGGTCGAGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCCTGATTCAGGGTTTGACTACTCT
131 TTGGTCGAGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCCTGATTCAGGGTTCGACTACTCT
88959326 GA
196 GA
*
88959328 ACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTTGAGTTCCGAAACTCCAAAAC
1 ACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTTGAGTTCCAAAACTCCAAAAC
88959393 CAGTTTCGTAAATTTTTCCTGAAACTAGACACATATATCCATCTACAAAATGTTTTCTAGAATCT
66 CAGTTTCGTAAATTTTTCCTGAAACTAGACACATATATCCATCTACAAAATGTTTTCTAGAATCT
*
88959458 TTGGTCGAGGCAATTAGTACAGTTTATTAGTTAAAGTCTCCCCTGATTCAGGGTTCGACTACTCT
131 TTGGTCGAGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCCTGATTCAGGGTTCGACTACTCT
88959523 GA
196 GA
88959525 CCTTCATACA
Statistics
Matches: 192, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
197 192 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (197 bp):
ACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTTGAGTTCCAAAACTCCAAAAC
CAGTTTCGTAAATTTTTCCTGAAACTAGACACATATATCCATCTACAAAATGTTTTCTAGAATCT
TTGGTCGAGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCCTGATTCAGGGTTCGACTACTCT
GA
Found at i:88970448 original size:27 final size:27
Alignment explanation
Indices: 88970418--88970494 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
88970408 TAATTTTTTT
*
88970418 AAATGACTGTTATACCCCTATGAGGTA
1 AAATGACTATTATACCCCTATGAGGTA
*
88970445 AAATGACTATTATAACCCTATGAGGTA
1 AAATGACTATTATACCCCTATGAGGTA
*
88970472 AAATGACTAATATACCCCTATGA
1 AAATGACTATTATACCCCTATGA
88970495 TATGTATGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (27 bp):
AAATGACTATTATACCCCTATGAGGTA
Found at i:88971670 original size:15 final size:15
Alignment explanation
Indices: 88971652--88971682 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
88971642 ACTGTACTGA
88971652 AATACTCTGTTTATT
1 AATACTCTGTTTATT
*
88971667 AATACTTTGTTTATT
1 AATACTCTGTTTATT
88971682 A
1 A
88971683 CTGATACTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.55
Consensus pattern (15 bp):
AATACTCTGTTTATT
Found at i:88975698 original size:40 final size:40
Alignment explanation
Indices: 88975624--88975845 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
88975614 AACCCAAGTA
* * *
88975624 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
88975663 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
88975703 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88975743 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
88975783 CCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
88975823 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
88975846 CATTCGAATA
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 152 0.91
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:88983667 original size:256 final size:256
Alignment explanation
Indices: 88983206--88983716 Score: 1004
Period size: 256 Copynumber: 2.0 Consensus size: 256
88983196 AACATTTCCA
88983206 CACCACTTAATAACCATATCACAAGACCATAATGTTATACTTCGAAATATACGAGCCATTTTCGC
1 CACCACTTAATAACCATATCACAAGACCATAATGTTATACTTCGAAATATACGAGCCATTTTCGC
88983271 ATGGCTATACGAATACACATTACCAAAGGGTACTTAATTAACAGCAAGGGTCAGCCCTATACATG
66 ATGGCTATACGAATACACATTACCAAAGGGTACTTAATTAACAGCAAGGGTCAGCCCTATACATG
88983336 CCATTTTCAAAATTGAACTAAAAGAGTACCAAAAAGTGGCTTAGATAGTGTGGATGACTTCGACT
131 CCATTTTCAAAATTGAACTAAAAGAGTACCAAAAAGTGGCTTAGATAGTGTGGATGACTTCGACT
88983401 TTGACACTCCCGAGTTCGATAGCTGACGAACAAAATCTATAAAACAGAGAAACAGAGAAAT
196 TTGACACTCCCGAGTTCGATAGCTGACGAACAAAATCTATAAAACAGAGAAACAGAGAAAT
*
88983462 CACCATTTAATAACCATATCACAAGACCATAATGTTATACTTCGAAATATACGAGCCATTTTCGC
1 CACCACTTAATAACCATATCACAAGACCATAATGTTATACTTCGAAATATACGAGCCATTTTCGC
88983527 ATGGCTATACGAATACACATTACCAAAGGGTACTTAATTAACAGCAAGGGTCAGCCCTATACATG
66 ATGGCTATACGAATACACATTACCAAAGGGTACTTAATTAACAGCAAGGGTCAGCCCTATACATG
88983592 CCATTTTCAAAATTGAACTAAAAGAGTACCAAAAAGTGGCTTAGATAGTGTGGATGACTTCGACT
131 CCATTTTCAAAATTGAACTAAAAGAGTACCAAAAAGTGGCTTAGATAGTGTGGATGACTTCGACT
*
88983657 TTGACACTCCCGAGTTCGATAGCTGACGAACAAAATCTATAAAACAGAGAATCAGAGAAA
196 TTGACACTCCCGAGTTCGATAGCTGACGAACAAAATCTATAAAACAGAGAAACAGAGAAA
88983717 CAGAGTAAGC
Statistics
Matches: 253, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
256 253 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (256 bp):
CACCACTTAATAACCATATCACAAGACCATAATGTTATACTTCGAAATATACGAGCCATTTTCGC
ATGGCTATACGAATACACATTACCAAAGGGTACTTAATTAACAGCAAGGGTCAGCCCTATACATG
CCATTTTCAAAATTGAACTAAAAGAGTACCAAAAAGTGGCTTAGATAGTGTGGATGACTTCGACT
TTGACACTCCCGAGTTCGATAGCTGACGAACAAAATCTATAAAACAGAGAAACAGAGAAAT
Found at i:88984091 original size:39 final size:41
Alignment explanation
Indices: 88984037--88984176 Score: 189
Period size: 40 Copynumber: 3.5 Consensus size: 41
88984027 AACCCAAGTA
* *
88984037 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* * * *
88984076 CCTTCAGGTCTTAGCCCGGATAAAGTCAA-TAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
88984116 CCTTCGGGACTTAGCCCGGGTATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
88984156 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
88984177 GTCATTCGAA
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 12 0.14
40 71 0.83
41 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:88991908 original size:40 final size:40
Alignment explanation
Indices: 88991834--88992813 Score: 1802
Period size: 40 Copynumber: 24.5 Consensus size: 40
88991824 AACCCAAGTA
* * *
88991834 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
88991873 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
88991913 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
88991953 CCTTTGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
88991993 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992033 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992073 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992113 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992153 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992193 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992233 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992273 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992313 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992353 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992393 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992433 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992473 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992513 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992553 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992593 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992633 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992673 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
88992713 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
88992753 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
88992793 CCTTCGAGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
88992814 GTCATTCGAA
Statistics
Matches: 921, Mismatches: 18, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
39 12 0.01
40 906 0.98
41 3 0.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:88995717 original size:46 final size:46
Alignment explanation
Indices: 88995657--88995830 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
88995647 ACATCTCATA
*
88995657 GCCGATGCATGTCCCAGACATGTCTTACA-TTG-ACTTACGT-TTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC-T-CGTCTT-GAG
* * * *
88995703 GCTGATGCATGTCCCAAACATGTTTTACACTAGCACTCGTCTTGAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTGAG
* * * ** *
88995749 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTTGAG
*
88995797 GCCGATGCATGTCCCAGACTTGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
88995831 TCAAAATAAC
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
46 49 0.46
47 31 0.29
48 26 0.25
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTGAG
Found at i:88995806 original size:94 final size:91
Alignment explanation
Indices: 88995570--88995830 Score: 244
Period size: 94 Copynumber: 2.8 Consensus size: 91
88995560 TGCTGATATA
** * *
88995570 ATGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTGTGCAGATGTCGTGTCCCAAACATGG
1 ATGTCCCAGACATGGTCTTACACTGGCTCTA-CATATGTG-GCAGATG-CATGTCCCAAACAT-G
*
88995635 TGTTACACT-GACACATCTCATAGCCGATGC
62 TCTTACACTAG-CACATCTCATAGCCGATGC
* * * * * * *
88995665 ATGTCCCAGACAT-GTCTTACATTGACT-TACGTTTCGAGGCTGATGCATGTCCCAAACATGTTT
1 ATGTCCCAGACATGGTCTTACACTGGCTCTACATAT-GTGGCAGATGCATGTCCCAAACATGTCT
*
88995728 TACACTAGCAC-TCGTCTTGATGCCGATGCC
65 TACACTAGCACATC-TCAT-A-GCCGATG-C
* * *
88995758 ATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCCAGACTTGTCT
1 ATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATGTGGCAGATGCATGTCCCAAACATGTCT
88995822 TACACTAGC
65 TACACTAGC
88995831 TCAAAATAAC
Statistics
Matches: 136, Mismatches: 21, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
89 2 0.01
90 15 0.11
91 15 0.11
92 16 0.12
93 17 0.12
94 56 0.41
95 15 0.11
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (91 bp):
ATGTCCCAGACATGGTCTTACACTGGCTCTACATATGTGGCAGATGCATGTCCCAAACATGTCTT
ACACTAGCACATCTCATAGCCGATGC
Found at i:89002020 original size:21 final size:22
Alignment explanation
Indices: 89001996--89002036 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
89001986 TAGTAGATAT
*
89001996 AGGGGC-ACATGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
89002017 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
89002037 ACCAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:89003239 original size:46 final size:46
Alignment explanation
Indices: 89003189--89003313 Score: 164
Period size: 46 Copynumber: 2.7 Consensus size: 46
89003179 ACATCTCATA
* * *
89003189 GCCGATGCATGTCCCAGACATATCTTACA-TTG-ACTTACGTTTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTT--GTCTCGAG
*
89003235 GCCGATGCATGTCCCATACATGTCTTACACTAGCACTTGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTTGTCTCGAG
89003281 GCCGATGCCATGTCCCAGACATGGTCTTACACT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
89003314 GGCTCTCATA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
46 41 0.59
47 15 0.21
48 14 0.20
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTTGTCTCGAG
Found at i:89022459 original size:20 final size:20
Alignment explanation
Indices: 89022434--89022472 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
89022424 AAAATTGGCC
89022434 TAAGGCCCA-TAATGCGGGCT
1 TAAGG-CCAGTAATGCGGGCT
89022454 TAAGGCCAGTAATGCGGGC
1 TAAGGCCAGTAATGCGGGC
89022473 CCATGTGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.26, C:0.23, G:0.33, T:0.18
Consensus pattern (20 bp):
TAAGGCCAGTAATGCGGGCT
Found at i:89025207 original size:38 final size:38
Alignment explanation
Indices: 89025156--89025232 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
89025146 TTAGTAGGCG
89025156 TTAGGGGCAGCCCACTCACGAAGTCCATAGTCACTCTT
1 TTAGGGGCAGCCCACTCACGAAGTCCATAGTCACTCTT
*
89025194 TTAGGGGCAGCCCACTCACGAAGTCCATAGTCCCTCTT
1 TTAGGGGCAGCCCACTCACGAAGTCCATAGTCACTCTT
89025232 T
1 T
89025233 CCCACTTCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (38 bp):
TTAGGGGCAGCCCACTCACGAAGTCCATAGTCACTCTT
Found at i:89033140 original size:17 final size:18
Alignment explanation
Indices: 89033108--89033141 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89033098 TGATCATGGT
*
89033108 ATGTTTGGTGAATGTGAA
1 ATGTTTGGTAAATGTGAA
89033126 ATGTTTGG-AAATGTGA
1 ATGTTTGGTAAATGTGA
89033142 TTTATGGCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.38
Consensus pattern (18 bp):
ATGTTTGGTAAATGTGAA
Found at i:89035017 original size:71 final size:66
Alignment explanation
Indices: 89034882--89035039 Score: 167
Period size: 71 Copynumber: 2.3 Consensus size: 66
89034872 CTAGCCAATT
* *
89034882 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGGATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTT--GATCACACATGCGACCTAGCTACA
89034947 TTTATC
64 --TA-C
* * *
89034953 TCTCTCGTAGCTCTCTTGTCTACATGG-GATACATCCCTT-ATCACACATGTGACCTAGCTACTA
1 TATCTCGTAGCTCTCTTGTCTACATGGTG-TACATCACTTGATCACACATGCGACCTAG---CTA
*
89035016 CATAG
62 CATAC
89035021 TATCTCGTAGCTCTCTTGT
1 TATCTCGTAGCTCTCTTGT
89035040 ACACATGATG
Statistics
Matches: 76, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
68 35 0.46
69 2 0.03
70 1 0.01
71 38 0.50
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.35
Consensus pattern (66 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGATCACACATGCGACCTAGCTACATA
C
Found at i:89035032 original size:68 final size:69
Alignment explanation
Indices: 89034882--89035039 Score: 187
Period size: 68 Copynumber: 2.3 Consensus size: 69
89034872 CTAGCCAATT
* *
89034882 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGGATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTT--GATCACACATGCGACCTAGCTACA
**
89034947 TTTATC
64 CATATC
* * *
89034953 TCTCTCGTAGCTCTCTTGTCTACATGG-GATACATCCCTT-ATCACACATGTGACCTAGCTACTA
1 TATCTCGTAGCTCTCTTGTCTACATGGTG-TACATCACTTGATCACACATGCGACCTAGCTAC-A
*
89035016 CATA-G
64 CATATC
89035021 TATCTCGTAGCTCTCTTGT
1 TATCTCGTAGCTCTCTTGT
89035040 ACACATGATG
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
68 39 0.51
69 3 0.04
70 1 0.01
71 33 0.43
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.35
Consensus pattern (69 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGATCACACATGCGACCTAGCTACACA
TATC
Found at i:89050675 original size:13 final size:13
Alignment explanation
Indices: 89050657--89050682 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89050647 GTGTTTTTGA
89050657 GCACGGCCGTGTC
1 GCACGGCCGTGTC
89050670 GCACGGCCGTGTC
1 GCACGGCCGTGTC
89050683 TAGCATTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.38, G:0.38, T:0.15
Consensus pattern (13 bp):
GCACGGCCGTGTC
Found at i:89051200 original size:42 final size:41
Alignment explanation
Indices: 89051140--89051223 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 41
89051130 AGTTTATACT
89051140 CCTCATTCCTGCTATCATTCTCATCAAAATAAGGTTTTAGA
1 CCTCATTCCTGCTATCATTCTCATCAAAATAAGGTTTTAGA
89051181 CNCTCATTCCTGCTATCATTCTCATCAAAATAAGGTTTTAGA
1 C-CTCATTCCTGCTATCATTCTCATCAAAATAAGGTTTTAGA
89051223 C
1 C
89051224 GGGTGTTGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 1 0.02
42 41 0.98
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (41 bp):
CCTCATTCCTGCTATCATTCTCATCAAAATAAGGTTTTAGA
Found at i:89071720 original size:27 final size:27
Alignment explanation
Indices: 89071690--89071749 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
89071680 GGCATAATCA
89071690 TCATTCTACCA-TACAAGGGTATTACGG
1 TCATT-TACCACTACAAGGGTATTACGG
** *
89071717 TCATTTTGCACTACAAGGGTATTTCGG
1 TCATTTACCACTACAAGGGTATTACGG
*
89071744 TGATTT
1 TCATTT
89071750 TACAAACTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
TCATTTACCACTACAAGGGTATTACGG
Found at i:89073807 original size:43 final size:43
Alignment explanation
Indices: 89073751--89073953 Score: 226
Period size: 43 Copynumber: 4.5 Consensus size: 43
89073741 CATTATAGCA
* * *
89073751 TGCTAGGCTCAAAGGCCCGAATACGCATCATCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAAGCC
* * * *
89073794 TGCTAGGCACAAAGGCCCGAAGGCCTGAATACACATCAACGGTACGAATCC
1 TGCTAGG--C--A----CGAAGGCCCGAATACACATCATCGGCACGAAGCC
*
89073845 TGCTAGGCACGAAGGCCCAAATACACATCATCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAAGCC
* * * *
89073888 TGCTAGGCATGAAGGCCCGAATACACATCACCGGCACAAAGCA
1 TGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAAGCC
89073931 TGCTAGGCACGAAGGCCCGAATA
1 TGCTAGGCACGAAGGCCCGAATA
89073954 TATTACTAGC
Statistics
Matches: 134, Mismatches: 18, Indels: 16
0.80 0.11 0.10
Matches are distributed among these distances:
43 96 0.72
45 1 0.01
47 1 0.01
49 1 0.01
51 35 0.26
ACGTcount: A:0.32, C:0.31, G:0.25, T:0.13
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAAGCC
Found at i:89080521 original size:27 final size:27
Alignment explanation
Indices: 89080482--89080686 Score: 227
Period size: 27 Copynumber: 7.7 Consensus size: 27
89080472 CCCTAATTGA
*
89080482 TAAAATGATTGTTTTGCCTTTATGTGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
89080509 TAAAATGACTGTTTTGTCC-TTATGTGG
1 TAAAATGACTGTTTTG-CCTTTATGTGG
* * * *
89080536 TAAAATGGCTATTTTGCCTCTATATGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
* *
89080563 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
* **
89080590 TAAAATGATTGTTTTTTCTTTATGTGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
* **
89080617 TAAAATGATTGTTTTTTCTTTATGTGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
* * * *
89080644 TAGAATGATTG-TTTGCCCTTA-ATGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
89080669 TAAAATGACTGTTTTGCC
1 TAAAATGACTGTTTTGCC
89080687 CCTATGTGAG
Statistics
Matches: 154, Mismatches: 21, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
25 12 0.08
26 15 0.10
27 125 0.81
28 2 0.01
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCTTTATGTGG
Found at i:89082529 original size:27 final size:27
Alignment explanation
Indices: 89082499--89082675 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
89082489 TATTGAGTCT
* * * *
89082499 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAAATC
* *
89082526 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
89082553 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAAA-TC
** * *
89082581 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAGTCAAATC
* **
89082608 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAGTCAAATC
*
89082635 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
89082662 GCACACTTAGTGCT
1 GCACACTTAGTGCT
89082676 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAAATC
Found at i:89082637 original size:82 final size:81
Alignment explanation
Indices: 89082519--89082674 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
89082509 TGCTATATAA
* *
89082519 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
89082584 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
89082601 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
89082665 CACTTAGTGC
65 CACTTAGTGC
89082675 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:89087125 original size:19 final size:19
Alignment explanation
Indices: 89087098--89087136 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
89087088 AATAAATTAC
*
89087098 TCATATTAGTTAATTGAGT
1 TCATATTAGTTAATTAAGT
*
89087117 TCATCTTAGTTAATTAAGT
1 TCATATTAGTTAATTAAGT
89087136 T
1 T
89087137 GCTAGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.49
Consensus pattern (19 bp):
TCATATTAGTTAATTAAGT
Found at i:89087145 original size:54 final size:54
Alignment explanation
Indices: 89087072--89087200 Score: 170
Period size: 54 Copynumber: 2.4 Consensus size: 54
89087062 CTTAGTTTAA
* * *
89087072 TTAAGTAAGTTGCTGGAATAAATTACTCAT-ATTAGTTAATTGAGTTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAATTACTCATGA-TAGTTAATTAAGTTCATCATAG
* * * *
89087126 TTAATTAAGTTGCTAGAATAAATTATTCATGATGGTTAATTAAGTTTATCATAG
1 TTAATTAAGTTGCTGGAATAAATTACTCATGATAGTTAATTAAGTTCATCATAG
*
89087180 TTAATTTAGTTGCTGGAATAA
1 TTAATTAAGTTGCTGGAATAA
89087201 TTTAATGATG
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
54 64 0.98
55 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (54 bp):
TTAATTAAGTTGCTGGAATAAATTACTCATGATAGTTAATTAAGTTCATCATAG
Found at i:89087372 original size:20 final size:20
Alignment explanation
Indices: 89087349--89087402 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
89087339 AGTTTTTCCC
*
89087349 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
89087369 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
89087389 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
89087403 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:89087384 original size:30 final size:30
Alignment explanation
Indices: 89087349--89087418 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
89087339 AGTTTTTCCC
89087349 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
89087379 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
89087409 AGCTCGTTTG
1 AGCTCGTTTG
89087419 GCTTGGCTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 4 0.11
30 32 0.89
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:89087412 original size:20 final size:20
Alignment explanation
Indices: 89087349--89087413 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
89087339 AGTTTTTCCC
* * * *
89087349 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
89087369 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
89087388 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
89087409 AGCTC
1 AGCTC
89087414 GTTTGGCTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:89087448 original size:37 final size:38
Alignment explanation
Indices: 89087407--89087480 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
89087397 TTAGCTTACT
* *
89087407 TTAGCTCGTTTG-GCTTGGCTTGAGTTTATTTCAACTG
1 TTAGCTCATTTGAGCTTGGCTTAAGTTTATTTCAACTG
89087444 TTAGCTCATTTGAGCTTGGCTTAAGTTTATTTCAACT
1 TTAGCTCATTTGAGCTTGGCTTAAGTTTATTTCAACT
89087481 CATTTATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 11 0.32
38 23 0.68
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.46
Consensus pattern (38 bp):
TTAGCTCATTTGAGCTTGGCTTAAGTTTATTTCAACTG
Found at i:89087524 original size:59 final size:59
Alignment explanation
Indices: 89087457--89087574 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
89087447 GCTCATTTGA
89087457 GCTTGGCTTAAGTTTATTTCAACTCATTTATTTTAATGTCTGAATAAATTAAGTAATTT
1 GCTTGGCTTAAGTTTATTTCAACTCATTTATTTTAATGTCTGAATAAATTAAGTAATTT
*
89087516 GCTTGGCTTGAGTTTATTTCAACTCATTTATTTTAATGTCTGAATAAATTAAGTAATTT
1 GCTTGGCTTAAGTTTATTTCAACTCATTTATTTTAATGTCTGAATAAATTAAGTAATTT
89087575 ATTAATTTAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (59 bp):
GCTTGGCTTAAGTTTATTTCAACTCATTTATTTTAATGTCTGAATAAATTAAGTAATTT
Found at i:89088484 original size:369 final size:369
Alignment explanation
Indices: 89087805--89088542 Score: 1404
Period size: 369 Copynumber: 2.0 Consensus size: 369
89087795 TGGAGAGTAA
89087805 TTAAACAAGGTTCATGCATGATAGGTTCAATGTATGGGACGGTGCATGTAAGGCCACTTTCAATG
1 TTAAACAAGGTTCATGCATGATAGGTTCAATGTATGGGACGGTGCATGTAAGGCCACTTTCAATG
*
89087870 AATGGTGGCTGATCCATTTGGCTCCCCAAGGCACCTATTTGGCCAAAAGCTGCCCAGCAACTTAA
66 AATGGTGGCTGATCCATTTGGCTCCCCAAGGAACCTATTTGGCCAAAAGCTGCCCAGCAACTTAA
89087935 AGCACAAGCTTGGCCGATCGTATTCCCAAGGCAGCATCTAAGCCATTCACACCTCAATTTGACCA
131 AGCACAAGCTTGGCCGATCGTATTCCCAAGGCAGCATCTAAGCCATTCACACCTCAATTTGACCA
*
89088000 ATCAGCTCCTATACATGTATGGGTGGATTCATGAACGTCCAAAGGGAGGGAATATTACCTTAATT
196 ATCAGCTCCTATACATGTATGGGTGGATGCATGAACGTCCAAAGGGAGGGAATATTACCTTAATT
*
89088065 CATCACATTGAATGTATAATGTGCATGTACAAAGGGGAGAACGGATTTACAAGGTACATGCTTCC
261 CATCACATTGAATGTATAATGTGCATGTACAAAGGGGAGAACGAATTTACAAGGTACATGCTTCC
89088130 ATTCATGAACCAGCCCATCATTAAAGTTTTAATTAAGAGAGATG
326 ATTCATGAACCAGCCCATCATTAAAGTTTTAATTAAGAGAGATG
*
89088174 TTAAACAAGGTTCATGCATGATAGGTTCAATGTATGGGACGGTGCATGTAAGGCCTCTTTCAATG
1 TTAAACAAGGTTCATGCATGATAGGTTCAATGTATGGGACGGTGCATGTAAGGCCACTTTCAATG
* * *
89088239 AATGGTGGCTGATCCATTTGGCTCCCCAAGGAACCTGTTTGGCCAAAAGGTGTCCAGCAACTTAA
66 AATGGTGGCTGATCCATTTGGCTCCCCAAGGAACCTATTTGGCCAAAAGCTGCCCAGCAACTTAA
*
89088304 AGCACAAGCTTGGCCGATCGTATTCCCAAGGCAGGATCTAAGCCATTCACACCTCAATTTGACCA
131 AGCACAAGCTTGGCCGATCGTATTCCCAAGGCAGCATCTAAGCCATTCACACCTCAATTTGACCA
89088369 ATCAGCTCCTATACATGTATGGGTGGATGCATGAACGTCCAAAGGGAGGGAATATTACCTTAATT
196 ATCAGCTCCTATACATGTATGGGTGGATGCATGAACGTCCAAAGGGAGGGAATATTACCTTAATT
89088434 CATCACATTGAATGTATAATGTGCATGTACAAAGGGGAGAACGAATTTACAAGGTACATGCTTCC
261 CATCACATTGAATGTATAATGTGCATGTACAAAGGGGAGAACGAATTTACAAGGTACATGCTTCC
89088499 ATTCATGAACCAGCCCATCATTAAAGTTTTAATTAAGAGAGATG
326 ATTCATGAACCAGCCCATCATTAAAGTTTTAATTAAGAGAGATG
89088543 CATGACCCAT
Statistics
Matches: 361, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
369 361 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (369 bp):
TTAAACAAGGTTCATGCATGATAGGTTCAATGTATGGGACGGTGCATGTAAGGCCACTTTCAATG
AATGGTGGCTGATCCATTTGGCTCCCCAAGGAACCTATTTGGCCAAAAGCTGCCCAGCAACTTAA
AGCACAAGCTTGGCCGATCGTATTCCCAAGGCAGCATCTAAGCCATTCACACCTCAATTTGACCA
ATCAGCTCCTATACATGTATGGGTGGATGCATGAACGTCCAAAGGGAGGGAATATTACCTTAATT
CATCACATTGAATGTATAATGTGCATGTACAAAGGGGAGAACGAATTTACAAGGTACATGCTTCC
ATTCATGAACCAGCCCATCATTAAAGTTTTAATTAAGAGAGATG
Found at i:89089390 original size:10 final size:9
Alignment explanation
Indices: 89089357--89089397 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
89089347 TTTATTTAAG
89089357 TTAA-GTGT
1 TTAATGTGT
89089365 TTAATGTGT
1 TTAATGTGT
*
89089374 TTTATGTGT
1 TTAATGTGT
89089383 TTAAATGTGT
1 TT-AATGTGT
89089393 TTAAT
1 TTAAT
89089398 ATGTCTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 4 0.14
9 17 0.59
10 8 0.28
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (9 bp):
TTAATGTGT
Found at i:89089407 original size:23 final size:20
Alignment explanation
Indices: 89089361--89089420 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 20
89089351 TTTAAGTTAA
89089361 GTGTTTAATGTGTTT--TAT
1 GTGTTTAATGTGTTTAATAT
89089379 GTGTTTAAATGTGTTTAATAT
1 GTGTTT-AATGTGTTTAATAT
*
89089400 GTCTGTTTTAATATGTTTAAT
1 G--TG-TTTAATGTGTTTAAT
89089421 TTCAGGTGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
18 6 0.17
19 9 0.26
21 4 0.11
23 13 0.37
24 3 0.09
ACGTcount: A:0.23, C:0.02, G:0.18, T:0.57
Consensus pattern (20 bp):
GTGTTTAATGTGTTTAATAT
Found at i:89089565 original size:23 final size:23
Alignment explanation
Indices: 89089530--89089581 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
89089520 CATTATTCTT
*
89089530 CATTAAAAAGAGCTGTTAT-CATC
1 CATTAAAAAGAGC-ATTATACATC
**
89089553 CATTAAAGGGAGCATTATACATC
1 CATTAAAAAGAGCATTATACATC
89089576 C-TTAAA
1 CATTAAA
89089582 TTCGGCTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (23 bp):
CATTAAAAAGAGCATTATACATC
Found at i:89093781 original size:19 final size:19
Alignment explanation
Indices: 89093757--89093801 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
89093747 TGAGCTGATT
89093757 TGAGCTGAACGAAGCTCGG
1 TGAGCTGAACGAAGCTCGG
89093776 TGAGCTGAACGAAGCTCGG
1 TGAGCTGAACGAAGCTCGG
*
89093795 AGAGCTG
1 TGAGCTG
89093802 GAGATGAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.38, T:0.16
Consensus pattern (19 bp):
TGAGCTGAACGAAGCTCGG
Found at i:89094254 original size:12 final size:12
Alignment explanation
Indices: 89094246--89094270 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89094236 TTTGAAAAGC
89094246 AAAAAGAAAATG
1 AAAAAGAAAATG
89094258 AAAAAGAAAATG
1 AAAAAGAAAATG
89094270 A
1 A
89094271 GATTGAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:89094267 original size:18 final size:18
Alignment explanation
Indices: 89094240--89094296 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
89094230 AAAGCCTTTG
*
89094240 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAATGAAAATGA
* *
89094259 AAAAGAAAATGAGATTGA
1 AAAAGAAAATGAAAATGA
* *
89094277 AAAAGAGAATGAAAAGGA
1 AAAAGAAAATGAAAATGA
89094295 AA
1 AA
89094297 TCGAGAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.68, C:0.02, G:0.21, T:0.09
Consensus pattern (18 bp):
AAAAGAAAATGAAAATGA
Found at i:89098702 original size:20 final size:20
Alignment explanation
Indices: 89098679--89098725 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
89098669 GGGTTAAGAT
* *
89098679 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAA
* *
89098699 TGAGTTGACTTGAGCTCGAA
1 TGAGCTGAATTGAGCTCGAA
89098719 TGAGCTG
1 TGAGCTG
89098726 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:89101947 original size:30 final size:30
Alignment explanation
Indices: 89101913--89102009 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
89101903 TAAACTAAAA
89101913 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * *
89101943 TGAGCTGAGGC-TAAACTCCTAAGCTAAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
89101973 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
89102003 TGAGCTA
1 TGAGCTA
89102010 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 2 0.04
30 43 0.83
31 7 0.13
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:89102635 original size:18 final size:19
Alignment explanation
Indices: 89102614--89102676 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 19
89102604 ATACTCACTC
89102614 TCTTTTTCAATTTTC-TTT
1 TCTTTTTCAATTTTCTTTT
**
89102632 TCTTGATCAA-TTTCTTTT
1 TCTTTTTCAATTTTCTTTT
89102650 TCTTTTTCAA-TTTCATTTT
1 TCTTTTTCAATTTTC-TTTT
*
89102669 TATTTTTC
1 TCTTTTTC
89102677 TCACTTTCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
17 4 0.11
18 23 0.61
19 11 0.29
ACGTcount: A:0.14, C:0.16, G:0.02, T:0.68
Consensus pattern (19 bp):
TCTTTTTCAATTTTCTTTT
Found at i:89105046 original size:18 final size:17
Alignment explanation
Indices: 89105021--89105066 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
89105011 TCATCTTGTA
89105021 AAGAAAAAGAGAT-TGAG
1 AAGAAAAAGA-ATGTGAG
*
89105038 AGTGAAAAAGAATGTGAG
1 A-AGAAAAAGAATGTGAG
89105056 AAGAAAAAGAA
1 AAGAAAAAGAA
89105067 AATTGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.61, C:0.00, G:0.28, T:0.11
Consensus pattern (17 bp):
AAGAAAAAGAATGTGAG
Found at i:89106908 original size:19 final size:19
Alignment explanation
Indices: 89106884--89106920 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
89106874 TTTTTCAGCT
89106884 ATTTAAGTTGTCTTAGTTC
1 ATTTAAGTTGTCTTAGTTC
*
89106903 ATTTAATTTGTCTTAGTT
1 ATTTAAGTTGTCTTAGTT
89106921 TAATGCATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.57
Consensus pattern (19 bp):
ATTTAAGTTGTCTTAGTTC
Found at i:89109689 original size:27 final size:26
Alignment explanation
Indices: 89109645--89109696 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
89109635 CTCGCTGCAA
89109645 TCTGGTGACCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
89109672 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
89109697 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:89109766 original size:26 final size:27
Alignment explanation
Indices: 89109737--89109796 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
89109727 ACACATATAT
*
89109737 ATATCTGT-TCTAGTGGCCTAGTCACA
1 ATATCTGTATCTAGTGACCTAGTCACA
* * *
89109763 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGTATCTAGTGACCTAGTCACA
89109790 ATATCTG
1 ATATCTG
89109797 GCAACCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (27 bp):
ATATCTGTATCTAGTGACCTAGTCACA
Found at i:89116876 original size:30 final size:30
Alignment explanation
Indices: 89116842--89116902 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
89116832 TCCTTAACTC
89116842 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
89116872 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
89116902 A
1 A
89116903 GGCTCGGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:89124858 original size:50 final size:50
Alignment explanation
Indices: 89124783--89124882 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
89124773 CCCAAAATTC
89124783 GGGGCGTTATAATGAACATAATTTCCAAAATAAGCTAAATATATGACTGA
1 GGGGCGTTATAATGAACATAATTTCCAAAATAAGCTAAATATATGACTGA
89124833 GGGGCGTTATAATGAACATAATTTCCAAAATAAGCTAAATATATGACTGA
1 GGGGCGTTATAATGAACATAATTTCCAAAATAAGCTAAATATATGACTGA
89124883 TTATACATCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (50 bp):
GGGGCGTTATAATGAACATAATTTCCAAAATAAGCTAAATATATGACTGA
Found at i:89130983 original size:12 final size:14
Alignment explanation
Indices: 89130968--89130999 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
89130958 GTGAGAACAC
89130968 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
89130980 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
89130994 ATGTGT
1 ATGTGT
89131000 TTAAGACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:89131082 original size:50 final size:50
Alignment explanation
Indices: 89130965--89131397 Score: 390
Period size: 50 Copynumber: 8.6 Consensus size: 50
89130955 ATTGTGAGAA
* * * * * *
89130965 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGACAGTT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG--A-TTGATAGGT
* * * * * *
89131017 CACGTGTGTAATACTAAGTGCAGGCTACTACATGTACCATATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGATAGGT
** * * * * * * * *
89131067 TGCATGTGTAGTACTAAGTGCAGGCT-CGTATGCGTACCTGATAGTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTAC-TACGTGTATCAGATTGATAGGT
* * * *
89131117 CACTTGTGTAGTACTAAGTGCAAGCTACTA-GTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGATAGGT
* *
89131166 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGAATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTG-ATAGGT
** * * * *
89131216 CATGTGTGTAGTACTAAGTGGTAGGCTACTATGTGTAGCAAATTGATAGGT
1 CACATGTGTAGTACTAAGT-GCAGGCTACTACGTGTATCAGATTGATAGGT
*
89131267 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGAATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTG-ATAGGT
** * * * *
89131317 CATGTGTGTAGTACTAAGTGGTAGGCTACTATGTGTAGCAAATTGATAGGT
1 CACATGTGTAGTACTAAGT-GCAGGCTACTACGTGTATCAGATTGATAGGT
89131368 CACATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
89131398 TGCATACCAG
Statistics
Matches: 311, Mismatches: 60, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
49 47 0.15
50 149 0.48
51 81 0.26
52 34 0.11
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGATAGGT
Found at i:89131294 original size:101 final size:100
Alignment explanation
Indices: 89130965--89131397 Score: 478
Period size: 101 Copynumber: 4.3 Consensus size: 100
89130955 ATTGTGAGAA
* * * * * * ** * * *
89130965 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTGTAATA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TG-AATAAGTCATGTGTGTAGTA
** * * *
89131030 CTAAGTGCAGGCTACTACATGTACCATATTGTTAGGT
64 CTAAGTGCAGGCTACTATGTGTAGCAAATTGATAGGT
** * * * * * **
89131067 TGCATGTGTAGTACTAAGTGCAGGCT-CGTATGCGTACCTGAT-AGTTCGATCACT-TGTGTAGT
1 CACATGTGTAGTACTAAGTGCAGGCTAC-TACGTGTATCAGATGAATAAG-TCA-TGTGTGTAGT
* * * * *
89131129 ACTAAGTGCAAGCTACTA-GTGTATCAGATGGTTAGGT
63 ACTAAGTGCAGGCTACTATGTGTAGCAAATTGATAGGT
*
89131166 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGAATAAGTCATGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGAATAAGTCATGTGTGTAGTACT
*
89131231 AAGTGGTAGGCTACTATGTGTAGCAAATTGATAGGT
66 AAGT-GCAGGCTACTATGTGTAGCAAATTGATAGGT
89131267 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGAATAAGTCATGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGAATAAGTCATGTGTGTAGTACT
*
89131332 AAGTGGTAGGCTACTATGTGTAGCAAATTGATAGGT
66 AAGT-GCAGGCTACTATGTGTAGCAAATTGATAGGT
89131368 CACATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
89131398 TGCATACCAG
Statistics
Matches: 285, Mismatches: 38, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
98 1 0.00
99 68 0.24
100 40 0.14
101 146 0.51
102 30 0.11
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (100 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGAATAAGTCATGTGTGTAGTACT
AAGTGCAGGCTACTATGTGTAGCAAATTGATAGGT
Found at i:89131327 original size:200 final size:201
Alignment explanation
Indices: 89130965--89131397 Score: 480
Period size: 200 Copynumber: 2.1 Consensus size: 201
89130955 ATTGTGAGAA
* * * * * * ** *
89130965 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTGTAATA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TG-AATAAGTCACGTGTGTAATA
* * **
89131030 CTAAGTGCAGGCTACTACATGTACCATATTGTTAGGTTGCATGTGTAGTACTAAGTGCAGGCTCG
64 CTAAGTGCAGGCTACTACATGTACCAAATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTCG
* * * ** * *
89131095 TATGCGTACCTGATAGTTCGATCACTTGTGTAGTACTAAGT-GCAAGCTACTA-GTGTATCAGAT
129 TACGCGTACCAGATAATAAGATCACTTGTGTAGTACTAAGTGGCAAGCTACTATGTGTAGCAAAT
*
89131158 GGTTAGGT
194 GGATAGGT
* * *
89131166 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGAATAAGTCATGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGAATAAGTCACGTGTGTAATACT
* ** *
89131231 AAGTGGTAGGCTACTATGTGTAGCAAATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTAC-
66 AAGT-GCAGGCTACTACATGTACCAAATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCT-CG
* * * *
89131295 TACGTGTATCAGATGAATAAG-TCA-TGTGTGTAGTACTAAGTGGTAGGCTACTATGTGTAGCAA
129 TACGCGTACCAGAT-AATAAGATCACT-TGTGTAGTACTAAGTGGCAAGCTACTATGTGTAGCAA
*
89131358 ATTGATAGGT
192 ATGGATAGGT
89131368 CACATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
89131398 TGCATACCAG
Statistics
Matches: 192, Mismatches: 34, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
199 22 0.11
200 78 0.41
201 48 0.25
202 44 0.23
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (201 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGAATAAGTCACGTGTGTAATACT
AAGTGCAGGCTACTACATGTACCAAATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTCGTA
CGCGTACCAGATAATAAGATCACTTGTGTAGTACTAAGTGGCAAGCTACTATGTGTAGCAAATGG
ATAGGT
Found at i:89132269 original size:179 final size:179
Alignment explanation
Indices: 89131966--89132317 Score: 519
Period size: 179 Copynumber: 2.0 Consensus size: 179
89131956 TCCAATATCT
*
89131966 GTACCATGAGATAAATAATTTTTAGTGAAGAAAGATCAGAACTGTTGGACAGTGAAACAGGGGTA
1 GTACCATGAGATAAATAATTTTTAGTGAAGAAAGATCAGAACTGTTGGACAGTGAAACAAGGGTA
** * *
89132031 TCTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTTTGAAAAGTTAATGGTAAGAATA
66 AATTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTGAAAAGTTAATGGTAAGAATA
* *
89132096 TATATGAGTTTAGTTTCT-GGAAAAATTAGC-GATTCTTAATTTGAAGTCC
131 TATATGAGTCTAGTTTCTAGG-AAAATTAACAGA-TCTTAATTTGAAGTCC
* * * * *
89132145 GTACCATGAGATAAATATTTTTTAGTGAAGAGAGGTCGGAACTGTTGGATAGTGAAACAAGGGTA
1 GTACCATGAGATAAATAATTTTTAGTGAAGAAAGATCAGAACTGTTGGACAGTGAAACAAGGGTA
* * *
89132210 AATTTAATGAATAAATTGTACTAATTGGATAAACCAAAAATTCTGAAAATTTTATGGTAAGAATA
66 AATTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTGAAAAGTTAATGGTAAGAATA
* *
89132275 TATGTGGGTCTAGTTTCTAGGAAAATTAACAGATCTTAATTTG
131 TATATGAGTCTAGTTTCTAGGAAAATTAACAGATCTTAATTTG
89132318 GAGTTTTTTA
Statistics
Matches: 154, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
179 150 0.97
180 4 0.03
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (179 bp):
GTACCATGAGATAAATAATTTTTAGTGAAGAAAGATCAGAACTGTTGGACAGTGAAACAAGGGTA
AATTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTGAAAAGTTAATGGTAAGAATA
TATATGAGTCTAGTTTCTAGGAAAATTAACAGATCTTAATTTGAAGTCC
Found at i:89135549 original size:34 final size:34
Alignment explanation
Indices: 89135511--89135576 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
89135501 CCATTTTCAT
89135511 AATTCAAATATATGCCAGTTTCTATCTCATTATA
1 AATTCAAATATATGCCAGTTTCTATCTCATTATA
89135545 AATTCAAATATATGCCAGTTTCTATCTCATTA
1 AATTCAAATATATGCCAGTTTCTATCTCATTA
89135577 ATCGTATATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (34 bp):
AATTCAAATATATGCCAGTTTCTATCTCATTATA
Found at i:89137328 original size:55 final size:56
Alignment explanation
Indices: 89137263--89137377 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
89137253 AGCATGGCTG
* *
89137263 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
89137319 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
89137374 CCAG
1 CCAG
89137378 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:89137340 original size:27 final size:27
Alignment explanation
Indices: 89137288--89137377 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
89137278 GTGACAGAGT
89137288 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
89137317 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
89137344 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
89137372 CACCAG
1 CACCAG
89137378 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:89137530 original size:28 final size:28
Alignment explanation
Indices: 89137483--89137547 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
89137473 AAATTAACCC
*
89137483 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
89137511 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
89137539 TAGGGGTAT
1 TAGGGGTAT
89137548 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:89140148 original size:303 final size:302
Alignment explanation
Indices: 89139599--89140203 Score: 1066
Period size: 303 Copynumber: 2.0 Consensus size: 302
89139589 CTAACTCTGA
* * *
89139599 AGGCAATTCCAACTGATAAGCCACTGGGCCCACTCGCTTCAAAATCTGATAAGGCTCAATGAACC
1 AGGCAATTCCAACTGATAAGCCACTGGGCCCACTCGCTTCAAAACCCGATAAGGCCCAATGAACC
89139664 GCGGACTCAACTTTCCCTTCTTACCAAACCTTAGTATCTTCTTCCAAGGTGAAACCTTCAAGAAG
66 GCGGACTCAACTTTCCCTTCTTACCAAACCTTAGTATCTTCTTCCAAGGTGAAACCTTCAAGAAG
**
89139729 ACCATATCGCCCACTGAGTATTCAATCTTCTTACGCTTCAGATCTACATACAACTTTTACCTATC
131 ACCATATCGCCCACTGAGTATTCAATCAACTTACGCTTCAGATCTACATACAACTTTTACCTATC
* *
89139794 AGACGCTTCCTTCAACCGATCTCTAATTAACTTGACCTTATCCTTAGTATCTGCCACCAACTCAG
196 AGACGCTTCCTTCAACCGATCTCTAATTAACCTGACCTTATCCTCAGTATCTGCCACCAACTCAG
*
89139859 GTCCAAGAACTTATCGCTCCCCCAGTTTAGTCCAACAACTAG
261 GTCCAAGAACTTATCGCTCCCCCAGTTCAGTCCAACAACTAG
*
89139901 NAGGCAATTCCAACTGATAAGCCACTGGGCCTACTCGCTTCAAAACCCGATAAGGCCCAATGAAC
1 -AGGCAATTCCAACTGATAAGCCACTGGGCCCACTCGCTTCAAAACCCGATAAGGCCCAATGAAC
89139966 CGCGGACTCAACTTTCCCTTCTTACCAAACCTTAGTATCTTCTTCCAAGGTGAAACCTTCAAGAA
65 CGCGGACTCAACTTTCCCTTCTTACCAAACCTTAGTATCTTCTTCCAAGGTGAAACCTTCAAGAA
* * * *
89140031 GACCATATCGCCCACTGAGTATTCAATCAACTTACGCTTTAGATCTGCATACGACTTTTGCCTAT
130 GACCATATCGCCCACTGAGTATTCAATCAACTTACGCTTCAGATCTACATACAACTTTTACCTAT
*
89140096 CAGACGCTTCCTTTAACCGATCTCTAATTAACCTGACCTTATCCTCAGTATCTGCCACCAACTCA
195 CAGACGCTTCCTTCAACCGATCTCTAATTAACCTGACCTTATCCTCAGTATCTGCCACCAACTCA
*
89140161 GGTCCAAGAACTTGTCGCTCCCCCAGTTCAGTCCAACAACTAG
260 GGTCCAAGAACTTATCGCTCCCCCAGTTCAGTCCAACAACTAG
89140204 GTGTTCGACA
Statistics
Matches: 287, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
303 287 1.00
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (302 bp):
AGGCAATTCCAACTGATAAGCCACTGGGCCCACTCGCTTCAAAACCCGATAAGGCCCAATGAACC
GCGGACTCAACTTTCCCTTCTTACCAAACCTTAGTATCTTCTTCCAAGGTGAAACCTTCAAGAAG
ACCATATCGCCCACTGAGTATTCAATCAACTTACGCTTCAGATCTACATACAACTTTTACCTATC
AGACGCTTCCTTCAACCGATCTCTAATTAACCTGACCTTATCCTCAGTATCTGCCACCAACTCAG
GTCCAAGAACTTATCGCTCCCCCAGTTCAGTCCAACAACTAG
Found at i:89152899 original size:19 final size:19
Alignment explanation
Indices: 89152863--89152901 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
89152853 TTTTCATCAT
* *
89152863 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
89152882 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
89152901 A
1 A
89152902 ATAATTAAAA
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:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:89153405 original size:55 final size:56
Alignment explanation
Indices: 89153340--89153454 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
89153330 AGCATGGCTG
* *
89153340 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
89153396 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
89153451 CCAG
1 CCAG
89153455 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:89153417 original size:27 final size:27
Alignment explanation
Indices: 89153365--89153454 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
89153355 GTGACAGAGT
89153365 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
89153394 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
89153421 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
89153449 CACCAG
1 CACCAG
89153455 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:89153607 original size:28 final size:28
Alignment explanation
Indices: 89153560--89153624 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
89153550 AAATTAACCC
*
89153560 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
89153588 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
89153616 TAGGGGTAT
1 TAGGGGTAT
89153625 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:89153889 original size:8 final size:8
Alignment explanation
Indices: 89153873--89153904 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
89153863 CCCAAAATAC
89153873 CGGCTTTT
1 CGGCTTTT
*
89153881 CGGCATTT
1 CGGCTTTT
89153889 CGGCTTTT
1 CGGCTTTT
89153897 CGGCTTTT
1 CGGCTTTT
89153905 ACCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:89158346 original size:26 final size:26
Alignment explanation
Indices: 89158317--89158376 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
89158307 GCCCTTTGAA
* * *
89158317 TCATTCGATATTTCGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAATG
*
89158343 TCATTCTCAATATCTCGCACGCTAAATG
1 TCA-T-TCAATATCTCGCACACTAAATG
89158371 TCATTC
1 TCATTC
89158377 TCAATATTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAATG
Found at i:89158360 original size:28 final size:28
Alignment explanation
Indices: 89158324--89158383 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
89158314 GAATCATTCG
* *
89158324 ATATTTCGCACACTAAGTGTCATTCTCA
1 ATATCTCGCACACTAAATGTCATTCTCA
*
89158352 ATATCTCGCACGCTAAATGTCATTCTCA
1 ATATCTCGCACACTAAATGTCATTCTCA
89158380 ATAT
1 ATAT
89158384 TCCGTACACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATCTCGCACACTAAATGTCATTCTCA
Found at i:89171750 original size:56 final size:55
Alignment explanation
Indices: 89171690--89171794 Score: 129
Period size: 56 Copynumber: 1.9 Consensus size: 55
89171680 ACGGTTGCTT
* ** *
89171690 GGCACGGGTGTGTCGCATGCCCGTGTTAATTTTGACAGGTTTGGCCACGGTTTCAA
1 GGCACGGGCGTGTCGCACACCCGTGTT-ATTTTGACAGGTTTGCCCACGGTTTCAA
* * **
89171746 GGCACGGGCGTGTCTCACACCCGTGTTGTTTTGGTAGGTTTGCCCACGG
1 GGCACGGGCGTGTCGCACACCCGTGTTATTTTGACAGGTTTGCCCACGG
89171795 CCATGTCGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
55 18 0.44
56 23 0.56
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.30
Consensus pattern (55 bp):
GGCACGGGCGTGTCGCACACCCGTGTTATTTTGACAGGTTTGCCCACGGTTTCAA
Found at i:89174347 original size:28 final size:28
Alignment explanation
Indices: 89174279--89174357 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
89174269 GAATCATTTG
*
89174279 ATATTTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
89174307 ATATCTT-GCACACTAAGTGCCATTCTCA
1 ATAT-TTCGCACACTAAGTGCCATTCTCA
* **
89174335 ATATTTCGTACACCGAGTGCCAT
1 ATATTTCGCACACTAAGTGCCAT
89174358 ATTTGATTGC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
27 2 0.04
28 41 0.91
29 2 0.04
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.33
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:89180018 original size:27 final size:27
Alignment explanation
Indices: 89179988--89180102 Score: 72
Period size: 27 Copynumber: 4.3 Consensus size: 27
89179978 CGACTTGTAA
89179988 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAGTAC-CCTCGATTTACAG
****
89180015 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
****
89180042 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCAAAGTACCCTCGA-TTTACAG
* *** * *
89180069 AATTACTATTTTACCCTCAATTTATAG
1 AATTACCAAAGTACCCTCGATTTACAG
89180096 AATTACC
1 AATTACC
89180103 GTTTTACCCT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
26 3 0.04
27 73 0.95
28 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCGATTTACAG
Found at i:89180107 original size:27 final size:27
Alignment explanation
Indices: 89180005--89180225 Score: 259
Period size: 27 Copynumber: 8.2 Consensus size: 27
89179995 AAAGTACTCC
89180005 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
89180032 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
89180059 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
89180086 CAATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
89180113 CGATTTGTAAAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
89180140 TGATTTACAGAATTACTAG-GTTACCC-
1 CGATTTACAGAATTAC-CGTTTTACCCT
* * *
89180166 CCAGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
89180194 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
89180221 TGATT
1 CGATT
89180226 GTGAAATTAC
Statistics
Matches: 162, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.02
27 155 0.96
28 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:89180224 original size:81 final size:81
Alignment explanation
Indices: 89180007--89180225 Score: 314
Period size: 81 Copynumber: 2.7 Consensus size: 81
89179997 AGTACTCCCG
*
89180007 ATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCC-TCAGTTTACAGAA
1 ATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGA-TTTACAGAA
** *
89180071 TTACTATTTTACCCTCA
65 TTACTAGGTTACCCCCA
* ** * *
89180088 ATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCTTTGATTTACAGAAT
1 ATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAAT
89180153 TACTAGGTTACCCCCA
66 TACTAGGTTACCCCCA
* * *
89180169 GTTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATT
1 ATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATT
89180226 GTGAAATTAC
Statistics
Matches: 120, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
81 118 0.98
82 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (81 bp):
ATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAAT
TACTAGGTTACCCCCA
Found at i:89180260 original size:27 final size:27
Alignment explanation
Indices: 89180230--89180425 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
89180220 TTGATTGTGA
*
89180230 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
89180257 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
89180284 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
89180311 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
89180338 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
89180365 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
89180392 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
89180419 AATTACC
1 AATTACC
89180426 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:89180662 original size:27 final size:26
Alignment explanation
Indices: 89180624--89180706 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
89180614 CGGAGGAAGC
*
89180624 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
89180651 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
89180677 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
89180704 GTT
1 GTT
89180707 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:89180826 original size:22 final size:22
Alignment explanation
Indices: 89180794--89180852 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
89180784 CCCGTTATTA
*
89180794 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
89180816 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
89180838 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
89180853 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:89181039 original size:27 final size:27
Alignment explanation
Indices: 89181017--89181090 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
89181007 TAGGTGGGTT
*
89181017 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
89181044 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
89181071 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
89181091 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:89181217 original size:6 final size:6
Alignment explanation
Indices: 89181208--89181394 Score: 172
Period size: 6 Copynumber: 30.8 Consensus size: 6
89181198 TTGCATTCAC
* * *
89181208 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
89181257 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * *
89181305 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
89181354 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
89181395 CATTTTGGTT
Statistics
Matches: 149, Mismatches: 16, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
5 11 0.07
6 125 0.84
7 10 0.07
8 3 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:89181348 original size:85 final size:85
Alignment explanation
Indices: 89181208--89181394 Score: 347
Period size: 85 Copynumber: 2.2 Consensus size: 85
89181198 TTGCATTCAC
*
89181208 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
89181273 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
* *
89181293 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
89181358 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
89181378 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
89181395 CATTTTGGTT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 99 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:89181412 original size:30 final size:30
Alignment explanation
Indices: 89181208--89181415 Score: 225
Period size: 30 Copynumber: 7.1 Consensus size: 30
89181198 TTGCATTCAC
* *
89181208 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-CAATTCTG
* * *
89181239 ATTCTAATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
89181269 ATTCTGATTCTGATTCTGTT----A--CTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
*
89181293 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACC-AATTCTG
*
89181324 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACCAAT-TCTG
**
89181354 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* *
89181384 ATTCTGATTCTCATTTTGGTT-CCAATTCTG
1 ATTCTGATTCTGATTCT-GTTACCAATTCTG
89181414 AT
1 AT
89181416 AATGTTTCTT
Statistics
Matches: 155, Mismatches: 12, Indels: 21
0.82 0.06 0.11
Matches are distributed among these distances:
24 22 0.14
26 1 0.01
29 2 0.01
30 82 0.53
31 48 0.31
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACCAATTCTG
Found at i:89182022 original size:27 final size:27
Alignment explanation
Indices: 89181984--89182038 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
89181974 TAATGGAAAC
89181984 ATGGTTTTCGAAAAACACTTCAATGTG
1 ATGGTTTTCGAAAAACACTTCAATGTG
89182011 ATGGTTTTCGAAAAACACTTCAATGTG
1 ATGGTTTTCGAAAAACACTTCAATGTG
89182038 A
1 A
89182039 CACGCCAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (27 bp):
ATGGTTTTCGAAAAACACTTCAATGTG
Found at i:89189737 original size:6 final size:6
Alignment explanation
Indices: 89189707--89189863 Score: 67
Period size: 6 Copynumber: 25.3 Consensus size: 6
89189697 AAGAAACATT
* * * *
89189707 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
89189756 ATCAGA ATTAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATTAGT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
89189805 ATCAGGTA A-CAGA ATCA-A TATCAGA ATCA-A TATCAGGTA AT-AGA
1 ATCA-G-A ATCAGA ATCAGA -ATCAGA ATCAGA -ATCA-G-A ATCAGA
*
89189849 ATCAAAA ATCAGA AT
1 ATC-AGA ATCAGA AT
89189864 GTGAATGCAA
Statistics
Matches: 113, Mismatches: 19, Indels: 38
0.66 0.11 0.22
Matches are distributed among these distances:
5 11 0.10
6 79 0.70
7 17 0.15
8 5 0.04
9 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:89189757 original size:37 final size:36
Alignment explanation
Indices: 89189716--89189809 Score: 108
Period size: 31 Copynumber: 2.7 Consensus size: 36
89189706 TATCAGAACT
*
89189716 AGAATCAAAATGAGAATTAGAATCAGAATCAGGTGAC
1 AGAATCAAAAT-AGAATTAGAATCAGAATCAGGTAAC
*
89189753 AGAATC-----AGAATTAGAATCAGTATCAGGTAAC
1 AGAATCAAAATAGAATTAGAATCAGAATCAGGTAAC
*
89189784 AGAATCAAAATCAGAATTAGTATCAG
1 AGAATCAAAAT-AGAATTAGAATCAG
89189810 GTAACAGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
31 29 0.60
37 19 0.40
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (36 bp):
AGAATCAAAATAGAATTAGAATCAGAATCAGGTAAC
Found at i:89189765 original size:31 final size:31
Alignment explanation
Indices: 89189728--89189863 Score: 150
Period size: 31 Copynumber: 4.4 Consensus size: 31
89189718 AATCAAAATG
* *
89189728 AGAATTAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* *
89189759 AGAATTAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* * *
89189790 AAAATCAGAATTAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
89189821 A-ATATCAGAATCA-ATATCAGGTAATAGAATC
1 AGA-ATCAGAATCAGA-ATCAGGTAACAGAATC
*
89189852 AAAAATCAGAAT
1 -AGAATCAGAAT
89189864 GTGAATGCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
30 1 0.01
31 82 0.88
32 9 0.10
33 1 0.01
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:89189817 original size:62 final size:63
Alignment explanation
Indices: 89189734--89189863 Score: 183
Period size: 62 Copynumber: 2.1 Consensus size: 63
89189724 AATGAGAATT
* * *
89189734 AGAATCAGAATCAGGTGACAGAATCAGA-ATTAGAATCAGTATCAGGTAACAGAATC-AAAATC
1 AGAATCAGAATCAGGTAACAGAATCA-ATATCAGAATCAATATCAGGTAACAGAATCAAAAATC
* * *
89189796 AGAATTAGTATCAGGTAACAGAATCAATATCAGAATCAATATCAGGTAATAGAATCAAAAATC
1 AGAATCAGAATCAGGTAACAGAATCAATATCAGAATCAATATCAGGTAACAGAATCAAAAATC
89189859 AGAAT
1 AGAAT
89189864 GTGAATGCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 1 0.02
62 48 0.80
63 11 0.18
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (63 bp):
AGAATCAGAATCAGGTAACAGAATCAATATCAGAATCAATATCAGGTAACAGAATCAAAAATC
Found at i:89189826 original size:19 final size:19
Alignment explanation
Indices: 89189765--89189828 Score: 52
Period size: 19 Copynumber: 3.7 Consensus size: 19
89189755 AATCAGAATT
*
89189765 AGAATCAGTATCAGGTAAC
1 AGAATCAATATCAGGTAAC
89189784 AGAATCAA-A--A--T--C
1 AGAATCAATATCAGGTAAC
* *
89189796 AGAATTAGTATCAGGTAAC
1 AGAATCAATATCAGGTAAC
89189815 AGAATCAATATCAG
1 AGAATCAATATCAG
89189829 AATCAATATC
Statistics
Matches: 33, Mismatches: 5, Indels: 14
0.63 0.10 0.27
Matches are distributed among these distances:
12 7 0.21
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 20 0.61
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.22
Consensus pattern (19 bp):
AGAATCAATATCAGGTAAC
Found at i:89190035 original size:27 final size:27
Alignment explanation
Indices: 89189993--89190101 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
89189983 CATTGCTGCT
* * *
89189993 CAGATATCAAATATTGTGACAGAGTCAC
1 CAGATA-CAGATATTGTGGCAGAGCCAC
89190021 CAGATACAGATATTGTGGCAGAGCCAC
1 CAGATACAGATATTGTGGCAGAGCCAC
*
89190048 CAGA-ACAGATATTTGTGGCATAGCCAC
1 CAGATACAGATA-TTGTGGCAGAGCCAC
* * * *
89190075 CAGAAATAGATAATGTGGCAAAGCCAC
1 CAGATACAGATATTGTGGCAGAGCCAC
89190102 TTAACATAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 7 0.10
27 53 0.74
28 12 0.17
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (27 bp):
CAGATACAGATATTGTGGCAGAGCCAC
Found at i:89190854 original size:27 final size:27
Alignment explanation
Indices: 89190506--89190853 Score: 353
Period size: 27 Copynumber: 13.0 Consensus size: 27
89190496 GGGGTAAAAT
* * * *
89190506 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTATAGGGGTATTTC
* * * *
89190533 GGTAATTCTACCTTACAGGAGTATTTT
1 GGTAATTCTACCCTATAGGGGTATTTC
* *
89190560 AGTAATTCTA-CCTACA-GGGTATTTC
1 GGTAATTCTACCCTATAGGGGTATTTC
*
89190585 GGTAATTCTACCCTATAGGGGTATTGC
1 GGTAATTCTACCCTATAGGGGTATTTC
*
89190612 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTATAGGGGTATTTC
* *
89190639 GATAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTATAGGGGTATTTC
* *
89190666 GGTAATTCTACCCTAAAGGGGTATTGC
1 GGTAATTCTACCCTATAGGGGTATTTC
* * * *
89190693 GATAATTCTATCCTACAGGGGTATTCC
1 GGTAATTCTACCCTATAGGGGTATTTC
* * * *
89190720 TGTAATTCTACCCTACAGAGGTATTCC
1 GGTAATTCTACCCTATAGGGGTATTTC
*
89190747 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTATAGGGGTATTTC
* ** *
89190774 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTA-TAGGGGTATTTC
* ** *
89190801 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTA-TAGGGGTATTTC
89190828 GGTAATTCTACCCTATAGGGGTATTT
1 GGTAATTCTACCCTATAGGGGTATTT
89190854 TAGTAATTTC
Statistics
Matches: 276, Mismatches: 41, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
25 16 0.06
26 12 0.04
27 246 0.89
28 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTATAGGGGTATTTC
Found at i:89190899 original size:27 final size:27
Alignment explanation
Indices: 89190866--89191003 Score: 159
Period size: 27 Copynumber: 5.1 Consensus size: 27
89190856 GTAATTTCAT
* * *
89190866 AATCGAGTGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
89190893 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
89190920 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
89190947 AATCAAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
89190974 AATCGAGGGTAAAATGGTCATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
89191001 AAT
1 AAT
89191004 TGAAGGCATT
Statistics
Matches: 93, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:89190939 original size:54 final size:54
Alignment explanation
Indices: 89190866--89190991 Score: 198
Period size: 54 Copynumber: 2.3 Consensus size: 54
89190856 GTAATTTCAT
* * * * *
89190866 AATCGAGTGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATA
*
89190920 AATCGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATA
89190974 AATCGAGGGTAAAATGGT
1 AATCGAGGGTAAAATGGT
89190992 CATTCTACAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATA
Found at i:89191049 original size:27 final size:26
Alignment explanation
Indices: 89191006--89191097 Score: 87
Period size: 27 Copynumber: 3.3 Consensus size: 26
89190996 CTACAAATTG
* * *
89191006 AAGGCATTTCAGTAATTTTGTAAACC
1 AAGGTATTTCAATAATTTTGTAAATC
89191032 AATGGTATTTCAATAATTTT-TAGAAAGTC
1 AA-GGTATTTCAATAATTTTGT--AAA-TC
*
89191061 AAGGATATTTCTATAATTTTGTAAATC
1 AAGG-TATTTCAATAATTTTGTAAATC
89191088 AAGGGTATTT
1 AA-GGTATTT
89191098 TGGTAGTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
26 3 0.05
27 24 0.44
28 10 0.18
29 17 0.31
30 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (26 bp):
AAGGTATTTCAATAATTTTGTAAATC
Done.