Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold700
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: 259550
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 2
Found at i:1060 original size:16 final size:17
Alignment explanation
Indices: 1034--1065 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1024 AGGTTGTATT
1034 TATACATTTAAAATATA
1 TATACATTTAAAATATA
1051 TATA-ATTTAAAATAT
1 TATACATTTAAAATAT
1066 TTAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TATACATTTAAAATATA
Found at i:1312 original size:2 final size:2
Alignment explanation
Indices: 1305--1339 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1295 TTGAAATTTA
1305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1340 ATAGAAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1591 original size:22 final size:22
Alignment explanation
Indices: 1541--1584 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1531 TTGAAGAATG
* * *
1541 TATTTAATAAAAATATATAATA
1 TATTTATTAAAAATAAAAAATA
1563 TATTTATTAAAAATAAAAAATA
1 TATTTATTAAAAATAAAAAATA
1585 AGTTTATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TATTTATTAAAAATAAAAAATA
Found at i:3691 original size:13 final size:13
Alignment explanation
Indices: 3673--3699 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3663 CGTTGGGCAT
3673 AATGTATCGATAC
1 AATGTATCGATAC
3686 AATGTATCGATAC
1 AATGTATCGATAC
3699 A
1 A
3700 TTGTCCAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:3710 original size:20 final size:20
Alignment explanation
Indices: 3685--3741 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
3675 TGTATCGATA
3685 CAATGTATCGATACATTGTC
1 CAATGTATCGATACATTGTC
*
3705 CAATGTACCGATACATTGTC
1 CAATGTATCGATACATTGTC
*
3725 CCATGTATCGATACATT
1 CAATGTATCGATACATT
3742 TCACTTTGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (20 bp):
CAATGTATCGATACATTGTC
Found at i:3813 original size:19 final size:19
Alignment explanation
Indices: 3768--3823 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
3758 CTACTACTTT
*
3768 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAA
* *
3788 TATGTATCAATACAATGAA
1 CATGTATCGATACAATGAA
3807 CATGTATCGATACAATG
1 CATGTATCGATACAATG
3824 TATCAATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:12591 original size:19 final size:19
Alignment explanation
Indices: 12566--12620 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
12556 CTGCCACTCT
* *
12566 CATGTATCGATACATTGAG
1 CATGTATCGATACAATGAA
*
12585 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
12604 CATGTATCGATACAATG
1 CATGTATCGATACAATG
12621 TATTGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:13849 original size:4 final size:4
Alignment explanation
Indices: 13840--13886 Score: 85
Period size: 4 Copynumber: 11.8 Consensus size: 4
13830 CTCTAGCAAA
*
13840 AAAT AAAT AAAT AAAT AAAT AAGT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
13887 AATAAAGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:16732 original size:79 final size:78
Alignment explanation
Indices: 16601--16904 Score: 328
Period size: 79 Copynumber: 3.9 Consensus size: 78
16591 TTGGGATAAC
* * *
16601 AACAGGGCTGGAGTATCCCCGATTATGGAAAATTGGTGTTTT-GAAAATAAAATCGGGGTTGGAG
1 AACAGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTAG-AAATAAAATCGGGGTTGGAG
16665 TATCCCCTCGAAAAT
65 TATCCCCT-GAAAAT
* * *
16680 AACAGGGTTGAAGTATCCCTGATTATAGAAAATCGATGTTTT-GAAAATAAAATCGGGGTTGGAG
1 AACAGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTAG-AAATAAAATCGGGGTTGGAG
16744 TATCCCCTTGAAAAT
65 TATCCCC-TGAAAAT
* * * * * ** *
16759 AACGGGGTTGGAGTATTCCCAATTGTGGAAAATCGATGCTTTAGAAAT-AAGGCAGAGGTTGGAG
1 AACAGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTAGAAATAAAATC-GGGGTTGGAG
16823 TATCCCCATGAAAAT
65 TATCCCC-TGAAAAT
* * * * ** *
16838 AACCGGGTTGGAGTATCCCCGATTGT-GAGAAATCAATATTTTAGAAATAAAGCCGGGGTTTGAG
1 AACAGGGTTGGAGTATCCCCGATTATGGA-AAATCGATGTTTTAGAAATAAAATCGGGGTTGGAG
16902 TAT
65 TAT
16905 TCCCAATTGT
Statistics
Matches: 193, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
78 5 0.03
79 182 0.94
80 6 0.03
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (78 bp):
AACAGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTAGAAATAAAATCGGGGTTGGAGT
ATCCCCTGAAAAT
Found at i:16914 original size:130 final size:130
Alignment explanation
Indices: 16761--17034 Score: 530
Period size: 130 Copynumber: 2.1 Consensus size: 130
16751 TTGAAAATAA
16761 CGGGGTTGGAGTATTCCCAATTGTGGAAAATCGATGCTTTAGAAATAAGGCAGAGGTTGGAGTAT
1 CGGGGTTGGAGTATTCCCAATTGTGGAAAATCGATGCTTTAGAAATAAGGCAGAGGTTGGAGTAT
16826 CCCCATGAAAATAACCGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGC
66 CCCCATGAAAATAACCGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGC
* *
16891 CGGGGTTTGAGTATTCCCAATTGTGGAAAATCGATGCTTTAGAAATACGGCAGAGGTTGGAGTAT
1 CGGGGTTGGAGTATTCCCAATTGTGGAAAATCGATGCTTTAGAAATAAGGCAGAGGTTGGAGTAT
16956 CCCCATGAAAATAACCGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGC
66 CCCCATGAAAATAACCGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGC
17021 CGGGGTTGGAGTAT
1 CGGGGTTGGAGTAT
17035 CCTCTCGAAA
Statistics
Matches: 141, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 141 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (130 bp):
CGGGGTTGGAGTATTCCCAATTGTGGAAAATCGATGCTTTAGAAATAAGGCAGAGGTTGGAGTAT
CCCCATGAAAATAACCGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGC
Found at i:16954 original size:51 final size:51
Alignment explanation
Indices: 16843--16960 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 51
16833 AAAATAACCG
* * * *
16843 GGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGG
1 GGTTGGAGTATCCCCAATTGTGAGAAATCAATACTTTAGAAATAAAGCAGA
* * * * **
16894 GGTTTGAGTATTCCCAATTGTG-GAAAATCGATGCTTTAGAAATACGGCAGA
1 GGTTGGAGTATCCCCAATTGTGAG-AAATCAATACTTTAGAAATAAAGCAGA
16945 GGTTGGAGTATCCCCA
1 GGTTGGAGTATCCCCA
16961 TGAAAATAAC
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
50 1 0.02
51 53 0.98
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (51 bp):
GGTTGGAGTATCCCCAATTGTGAGAAATCAATACTTTAGAAATAAAGCAGA
Found at i:17055 original size:28 final size:27
Alignment explanation
Indices: 17021--17093 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 27
17011 GAAATAAAGC
17021 CGGGGTTGGAGTATCCTCTCGA-AAATAA
1 CGGGGTTGGAGTATCC-C-CGAGAAATAA
*
17049 CGGGGTTAGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGA-GAAATAA
*
17077 CAGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
17094 TGATTGTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 3 0.08
27 1 0.03
28 36 0.90
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGAGAAATAA
Found at i:17067 original size:79 final size:79
Alignment explanation
Indices: 16891--17069 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 79
16881 GAAATAAAGC
* * * * * **
16891 CGGGGTTTGAGTATTCCCAATTGTGGAAAATCGATGCTTTAGAAATACGGCAGAGGTTGGAGTAT
1 CGGGGTTAGAGTATCCCCGATTGTGGAAAATCAATACTTTAGAAATAAAGCAGAGGTTGGAGTAT
16956 CCCCATGAAAATAA
66 CCCCATGAAAATAA
* * * * *
16970 CCGGGTTGGAGTATCCCCGATTGT-GAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTA
1 CGGGGTTAGAGTATCCCCGATTGTGGA-AAATCAATACTTTAGAAATAAAGCAGAGGTTGGAGTA
*
17034 TCCTC-TCGAAAATAA
65 TCCCCAT-GAAAATAA
17049 CGGGGTTAGAGTATCCCCGAT
1 CGGGGTTAGAGTATCCCCGAT
17070 GAAATAACAG
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 3 0.04
79 81 0.96
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (79 bp):
CGGGGTTAGAGTATCCCCGATTGTGGAAAATCAATACTTTAGAAATAAAGCAGAGGTTGGAGTAT
CCCCATGAAAATAA
Found at i:17077 original size:237 final size:237
Alignment explanation
Indices: 16815--17273 Score: 539
Period size: 237 Copynumber: 1.9 Consensus size: 237
16805 ATAAGGCAGA
* * * *
16815 GGTTGGAGTATCCCCATGAAAATAACCGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTT
1 GGTTAGAGTATCCCCATGAAAATAACAGGGTTGGAGTATCCCCGATTGTAAAAAATCAATATTTT
* * * ***
16880 -AGAAATAAAGCCGGGGTTTGAGTATTCCC-AATTGTGGAAAATCGATGCTTTAGAAATACGGCA
66 GA-AAATAAAACCGGAGTTAGAGTA-TCCCTAATTGTGGAAAATCGATGCTTTAGAAATAAAACA
* ** * * *
16943 GAGGTTGGAGTATCCCCAT-GAAAATAACCGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
129 GAGGTTGGAGTATCCCC-TCAAAAATAACAAGATTGGAGTATCCCCGATTATGAAAAATCAATAT
* *
17007 TTTAGAAATAAAGCCGGGGTTGGAGTATCCTCTCGAAAATAACGG
193 TTTAGAAATAAAACCGAGGTTGGAGTATCCTCTCGAAAATAACGG
* *** *
17052 GGTTAGAGTATCCCCGATG-AAATAACAGGGTTGGAGTATCCCTGATTGTAAAAAATTGGTGTTT
1 GGTTAGAGTATCCCC-ATGAAAATAACAGGGTTGGAGTATCCCCGATTGTAAAAAATCAATATTT
* * * * *
17116 TGAAAATAAAATCGGAGTTAGAGTATCCCTAATTGTGGAAAATTGTTGTTTTAGAAATAAAACCG
65 TGAAAATAAAACCGGAGTTAGAGTATCCCTAATTGTGGAAAATCGATGCTTTAGAAATAAAACAG
** ** *
17181 TTGTTGGAGTATCCCCTCAAAAATAACAAGATTGGAGTATCCCCGATTATGAAAAATTGATGTTT
130 AGGTTGGAGTATCCCCTCAAAAATAACAAGATTGGAGTATCCCCGATTATGAAAAATCAATATTT
* *
17246 TGGAAATAAAACTGAGGTTGGAGTATCC
195 TAGAAATAAAACCGAGGTTGGAGTATCC
17274 CCGAGATGAA
Statistics
Matches: 183, Mismatches: 35, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
236 5 0.03
237 174 0.95
238 4 0.02
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (237 bp):
GGTTAGAGTATCCCCATGAAAATAACAGGGTTGGAGTATCCCCGATTGTAAAAAATCAATATTTT
GAAAATAAAACCGGAGTTAGAGTATCCCTAATTGTGGAAAATCGATGCTTTAGAAATAAAACAGA
GGTTGGAGTATCCCCTCAAAAATAACAAGATTGGAGTATCCCCGATTATGAAAAATCAATATTTT
AGAAATAAAACCGAGGTTGGAGTATCCTCTCGAAAATAACGG
Found at i:17140 original size:107 final size:107
Alignment explanation
Indices: 16945--17143 Score: 249
Period size: 107 Copynumber: 1.9 Consensus size: 107
16935 ATACGGCAGA
* * * *
16945 GGTTGGAGTATCCCCATGAAAATAACCGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTT
1 GGTTAGAGTATCCCCATGAAAATAACAGGGTTGGAGTATCCCCGATTGTAAAAAATCAATATTTT
* * *
17010 AGAAATAAAGCCGGGGTTGGAGTATCCTCTCGAAAATAACGG
66 AGAAATAAAACCGGAGTTAGAGTATCCTCTCGAAAATAACGG
* *** *
17052 GGTTAGAGTATCCCCGATG-AAATAACAGGGTTGGAGTATCCCTGATTGTAAAAAATTGGTGTTT
1 GGTTAGAGTATCCCC-ATGAAAATAACAGGGTTGGAGTATCCCCGATTGTAAAAAATCAATATTT
*
17116 T-GAAAATAAAATCGGAGTTAGAGTATCC
65 TAG-AAATAAAACCGGAGTTAGAGTATCC
17144 CTAATTGTGG
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
106 1 0.01
107 73 0.95
108 3 0.04
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (107 bp):
GGTTAGAGTATCCCCATGAAAATAACAGGGTTGGAGTATCCCCGATTGTAAAAAATCAATATTTT
AGAAATAAAACCGGAGTTAGAGTATCCTCTCGAAAATAACGG
Found at i:17151 original size:51 final size:51
Alignment explanation
Indices: 17085--17195 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 51
17075 AACAGGGTTG
* *
17085 GAGTATCCCTGATTGTAAAAAATTGGTGTTTT-GAAAATAAAATCGGAGTTA
1 GAGTATCCCTAATTGTAAAAAATTGGTGTTTTAG-AAATAAAACCGGAGTTA
** * ** *
17136 GAGTATCCCTAATTGTGGAAAATTGTTGTTTTAGAAATAAAACCGTTGTTG
1 GAGTATCCCTAATTGTAAAAAATTGGTGTTTTAGAAATAAAACCGGAGTTA
17187 GAGTATCCC
1 GAGTATCCC
17196 CTCAAAAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (51 bp):
GAGTATCCCTAATTGTAAAAAATTGGTGTTTTAGAAATAAAACCGGAGTTA
Found at i:19628 original size:13 final size:13
Alignment explanation
Indices: 19610--19634 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19600 ACCCAGAATG
19610 TATCGATACAATA
1 TATCGATACAATA
19623 TATCGATACAAT
1 TATCGATACAAT
19635 GAACAATGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:19647 original size:20 final size:20
Alignment explanation
Indices: 19624--19673 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
19614 GATACAATAT
19624 ATCGATACAATGAACAATGC
1 ATCGATACAATGAACAATGC
*
19644 ATCGATACAATGAACAATGT
1 ATCGATACAATGAACAATGC
19664 ATCGATACAA
1 ATCGATACAA
19674 ATTGTGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.22
Consensus pattern (20 bp):
ATCGATACAATGAACAATGC
Found at i:23273 original size:79 final size:80
Alignment explanation
Indices: 23099--23275 Score: 205
Period size: 80 Copynumber: 2.2 Consensus size: 80
23089 TCTCTGTCTA
** * * * * *
23099 TAGGGCTTAACCTCTTTACTAGGTGCCAACAACACTGGTTTTCTATTTAACAAACCTAATTGGGC
1 TAGGGCTTAACCTCCCTACCAAGTGCCAACAACACTGGTTTTCTACTTAACAAACCAAATTAGGC
23164 TTTTCTCCATCTTAC
66 TTTTCTCCATCTTAC
* * * * * *
23179 TAGGACTTAAACTCCCTACCAAGTGCCAACAACATTGGTTTTTTACTTAGC-TACCAAATTAGGC
1 TAGGGCTTAACCTCCCTACCAAGTGCCAACAACACTGGTTTTCTACTTAACAAACCAAATTAGGC
*
23243 TTCTT-TCTATCTTAC
66 TT-TTCTCCATCTTAC
23258 TAGGGCTTAACCTCCCTA
1 TAGGGCTTAACCTCCCTA
23276 AAAGATGCCA
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 37 0.46
80 43 0.54
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (80 bp):
TAGGGCTTAACCTCCCTACCAAGTGCCAACAACACTGGTTTTCTACTTAACAAACCAAATTAGGC
TTTTCTCCATCTTAC
Found at i:23285 original size:79 final size:79
Alignment explanation
Indices: 23022--23287 Score: 202
Period size: 77 Copynumber: 3.4 Consensus size: 79
23012 TCTCTCTTTA
* * *** * * *
23022 TAGGGCTTAACCTCCTTACATGGTGCCAACTTTATTGGTTTTCTACATAATC-AACTAAATT-GG
1 TAGGGCTTAACCTCCCTACA-AGTGCCAACAACACTGGTTTTCTACTTAA-CAAACCAAATTAGG
** **
23085 AATTTCTCTGTC-TA-
64 CTTTTCTCCATCTTAC
** * * * *
23099 TAGGGCTTAACCTCTTTACTAGGTGCCAACAACACTGGTTTTCTATTTAACAAACCTAATTGGGC
1 TAGGGCTTAACCTCCCTAC-AAGTGCCAACAACACTGGTTTTCTACTTAACAAACCAAATTAGGC
23164 TTTTCTCCATCTTAC
65 TTTTCTCCATCTTAC
* * * * * *
23179 TAGGACTTAAACTCCCTACCAAGTGCCAACAACATTGGTTTTTTACTTAGC-TACCAAATTAGGC
1 TAGGGCTTAACCTCCCTA-CAAGTGCCAACAACACTGGTTTTCTACTTAACAAACCAAATTAGGC
*
23243 TTCTT-TCTATCTTAC
65 TT-TTCTCCATCTTAC
*
23258 TAGGGCTTAACCTCCCTAAAAGATGCCAAC
1 TAGGGCTTAACCTCCCTACAAG-TGCCAAC
23288 TTGTTGGTTT
Statistics
Matches: 152, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
76 1 0.01
77 48 0.32
78 14 0.09
79 46 0.30
80 42 0.28
81 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (79 bp):
TAGGGCTTAACCTCCCTACAAGTGCCAACAACACTGGTTTTCTACTTAACAAACCAAATTAGGCT
TTTCTCCATCTTAC
Found at i:23318 original size:79 final size:80
Alignment explanation
Indices: 23121--23328 Score: 217
Period size: 79 Copynumber: 2.6 Consensus size: 80
23111 TCTTTACTAG
* * * *
23121 GTGCCAACAACACTGGTTTTCTATTTAACAAACCTAATTGGGCTTTTCTCCATCTTACTAGGACT
1 GTGCCAACAACATTGGTTTTCTACTTAACTAACCTAATTAGGCTTTTCTCCATCTTACTAGGACT
*
23186 TAAACTCCCTACCAA
66 TAAACTCCCTACAAA
* * * * *
23201 GTGCCAACAACATTGGTTTTTTACTTAGCT-ACCAAATTAGGCTTCTT-TCTATCTTACTAGGGC
1 GTGCCAACAACATTGGTTTTCTACTTAACTAACCTAATTAGGCTT-TTCTCCATCTTACTAGGAC
*
23264 TTAACCTCCCTA-AAA
65 TTAAACTCCCTACAAA
*** * * *
23279 GATGCCAAC-TTGTTGGTTTTCAACTTAACTAATCTAATTAGACTTTTCTC
1 G-TGCCAACAACATTGGTTTTCTACTTAACTAACCTAATTAGGCTTTTCTC
23329 TTTCTGAGCC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 20 0.19
79 57 0.55
80 27 0.26
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (80 bp):
GTGCCAACAACATTGGTTTTCTACTTAACTAACCTAATTAGGCTTTTCTCCATCTTACTAGGACT
TAAACTCCCTACAAA
Found at i:27952 original size:20 final size:19
Alignment explanation
Indices: 27884--27962 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 19
27874 AAAAACTCAG
* *
27884 AATGTATCGATACAATGAGA
1 AATGTATCGATACATTTA-A
27904 AATGTATCGATACAATTGTAA
1 AATGTATCGATAC-ATT-TAA
*
27925 GCATGTATCGATACATTTAA
1 -AATGTATCGATACATTTAA
*
27945 TAATGTATCAATACATTT
1 -AATGTATCGATACATTT
27963 CCTTGGCAGT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
20 31 0.62
21 6 0.12
22 13 0.26
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (19 bp):
AATGTATCGATACATTTAA
Found at i:29652 original size:20 final size:20
Alignment explanation
Indices: 29595--29660 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
29585 CAGATATATT
* *
29595 GATACATTTTTCAACGTATT
1 GATACATTTTTCAATGTATC
29615 GATACATTTTTCAATGTATC
1 GATACATTTTTCAATGTATC
*
29635 GATACATTTTTCAGTGTATC
1 GATACATTTTTCAATGTATC
29655 GATACA
1 GATACA
29661 CCTAGTTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (20 bp):
GATACATTTTTCAATGTATC
Found at i:32293 original size:13 final size:13
Alignment explanation
Indices: 32275--32300 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32265 TACAGCAAGT
32275 ATGTATCGATACA
1 ATGTATCGATACA
32288 ATGTATCGATACA
1 ATGTATCGATACA
32301 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:34552 original size:21 final size:21
Alignment explanation
Indices: 34519--34563 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
34509 TTGCAAGTTG
*
34519 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
34541 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
34561 AAA
1 AAA
34564 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:36387 original size:15 final size:15
Alignment explanation
Indices: 36367--36397 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36357 TAAAAATGTC
*
36367 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
36382 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
36397 C
1 C
36398 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:38492 original size:20 final size:20
Alignment explanation
Indices: 38413--38492 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
38403 AATGTCCAAA
*
38413 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
38433 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
38458 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
38478 TTGTATCGATACATT
1 ATGTATCGATACATT
38493 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:38496 original size:13 final size:13
Alignment explanation
Indices: 38478--38516 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
38468 ACATTTTTCT
38478 TTGTATCGATACA
1 TTGTATCGATACA
38491 TTGTATCGATACA
1 TTGTATCGATACA
*
38504 CTGTATCGATACA
1 TTGTATCGATACA
38517 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:38661 original size:21 final size:21
Alignment explanation
Indices: 38637--38683 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
38627 AAATCTTTTG
38637 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
38658 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
38678 CAAAAT
1 CAAAAT
38684 CAGCATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:38680 original size:20 final size:19
Alignment explanation
Indices: 38639--38681 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
38629 ATCTTTTGCA
38639 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
38659 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
38679 AAA
1 AAA
38682 ATCAGCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:41067 original size:13 final size:13
Alignment explanation
Indices: 41049--41074 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41039 TACAGCAAGT
41049 ATGTATCGATACA
1 ATGTATCGATACA
41062 ATGTATCGATACA
1 ATGTATCGATACA
41075 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:46113 original size:23 final size:23
Alignment explanation
Indices: 46081--46124 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
46071 GCATTCAACC
*
46081 TTGGGTTATAATCTCTT-AAGAAT
1 TTGGGGTATAAT-TCTTGAAGAAT
46104 TTGGGGTATAATTCTTGAAGA
1 TTGGGGTATAATTCTTGAAGA
46125 GATTGTGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.41
Consensus pattern (23 bp):
TTGGGGTATAATTCTTGAAGAAT
Found at i:54431 original size:33 final size:32
Alignment explanation
Indices: 54389--54450 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
54379 CATCCAGATG
* *
54389 TATCGATACATTATGCTTTGTATCGATACAATA
1 TATCGATACATGAT-CATTGTATCGATACAATA
*
54422 TATCGATACATGCTCATTGTATCGATACA
1 TATCGATACATGATCATTGTATCGATACA
54451 TACTCAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (32 bp):
TATCGATACATGATCATTGTATCGATACAATA
Found at i:54446 original size:19 final size:20
Alignment explanation
Indices: 54422--54472 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
54412 CGATACAATA
54422 TATCGATACATGCTC-ATTG
1 TATCGATACATGCTCAATTG
*
54441 TATCGATACATACTCAATTG
1 TATCGATACATGCTCAATTG
54461 TATCGATACATG
1 TATCGATACATG
54473 AAATTGGCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
TATCGATACATGCTCAATTG
Found at i:54526 original size:20 final size:20
Alignment explanation
Indices: 54501--54554 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
54491 CTATCACTGT
*
54501 TTGTATCGATACATGGGATA
1 TTGTATCGATACATGGGACA
54521 TTGTATCGATACATGGGACA
1 TTGTATCGATACATGGGACA
54541 TTGTATCGATACAT
1 TTGTATCGATACAT
54555 AGTGTGTAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGGGACA
Found at i:60175 original size:22 final size:21
Alignment explanation
Indices: 60129--60184 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
60119 AATTTGCCTA
* *
60129 CATGTATCGATA-TATTGAAT
1 CATGTATCGATACAATTGAAG
*
60149 AATGTATCGATACAATTTGAAG
1 CATGTATCGATACAA-TTGAAG
*
60171 CATGTATGGATACA
1 CATGTATCGATACA
60185 TTTATTAATG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 11 0.38
21 1 0.03
22 17 0.59
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (21 bp):
CATGTATCGATACAATTGAAG
Found at i:60203 original size:20 final size:20
Alignment explanation
Indices: 60130--60207 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
60120 ATTTGCCTAC
* *
60130 ATGTATCGATATATTGAATA
1 ATGTATCGATACATTTAATA
**
60150 ATGTATCGATACAATTTGAAGC
1 ATGTATCGATAC-ATTT-AATA
* *
60172 ATGTATGGATACATTTATTA
1 ATGTATCGATACATTTAATA
60192 ATGTATCGATACATTT
1 ATGTATCGATACATTT
60208 CCTTGGCAGT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 27 0.57
21 7 0.15
22 13 0.28
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTAATA
Found at i:61024 original size:61 final size:61
Alignment explanation
Indices: 60929--61125 Score: 252
Period size: 61 Copynumber: 3.2 Consensus size: 61
60919 TTAAAGATGA
* * * * **
60929 TAAAGATGAGAA-AATTGATAGAGGTGCCAATATGCTAATTCACGGTCAGCAATATTGGGCT
1 TAAAGATGAGAAGAA-TGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTAAGCT
* *
60990 TAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAAGTT
1 TAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTAAGCT
*** * *
61051 TAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAATGATATTAGGTT
1 TAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTAAGCT
61112 TAAAGATGACGAAG
1 TAAAGATGA-GAAG
61126 GTGCCAATAT
Statistics
Matches: 123, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
61 117 0.95
62 6 0.05
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (61 bp):
TAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTAAGCT
Found at i:61243 original size:49 final size:49
Alignment explanation
Indices: 61071--61369 Score: 253
Period size: 49 Copynumber: 5.9 Consensus size: 49
61061 AAGAATGATA
* * **
61071 AAGGTGCCAATATGCTGATTCAAGGCCAATGATATTAGGTTTAAAGATGACG
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGACATTAGACTTAAAGAT---G
* * *
61123 AAGGTGCCAATATGCTGATTCAAGGCC-A-GAACATTGGGC-TAAGGAATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAACG-ACATTAGACTTAAAG-ATG
* * *
61171 TTAAAGATGCCAATATGTTGATTCAAGGCCAACGACATCAGACTTAAAGATG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAACGACATTAGACTTAAAGATG
* * * *
61223 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACTTTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGACATTAGACTTAAAGATG
* * * * *
61272 AAGGTGCCAGTGTGCTGATTCAAGGCTAGCGCGACATTGGACTTAAAGATGG
1 AAGGTGCCAATATGCTGATTCAAGGCCA--ACGACATTAGACTTAAAGAT-G
* ** *
61324 TAAAGGTGCCAATATGCTAATTCAAGGCCAGTGATATTAGACTTAA
1 --AAGGTGCCAATATGCTGATTCAAGGCCAACGACATTAGACTTAA
61370 GAAAAAAAAG
Statistics
Matches: 207, Mismatches: 27, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
48 1 0.00
49 68 0.33
50 5 0.02
51 53 0.26
52 51 0.25
53 5 0.02
54 24 0.12
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAACGACATTAGACTTAAAGATG
Found at i:61347 original size:152 final size:151
Alignment explanation
Indices: 61070--61424 Score: 360
Period size: 152 Copynumber: 2.3 Consensus size: 151
61060 GAAGAATGAT
* * *
61070 AAAGGTGCCAATATGCTGATTCAAGGCCAATGA-TATTAGGTTTAAAGATGACGAAGGTGCCAAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACT-TT-GGCTTAAAGAT-A-GAAGGTGCCAAT
* * * * *
61134 ATGCTGATTCAAGGCCAGAACATTGGGCTAAGGAATGTTAAAGATGCCAATATGTTGATTCAAGG
62 ATGCTGATTCAAGGCCAGAACATTGGACTAAAGAATGGTAAAGATGCCAATATGCTAATTCAAGG
* *
61199 CCAACGACATCAGACTT-A-AAGAT
127 CCAACGACATCAGACTTAAGAAAAA
* * * *
61222 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACTTTGGACTTAAAGAT-GAAGGTGCCAGTGTG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACTTTGG-CTTAAAGATAGAAGGTGCCAATATG
* * *
61286 CTGATTCAAGGCTAGCGCGACATTGGACTTAAAG-ATGGTAAAGGTGCCAATATGCTAATTCAAG
65 CTGATTCAAGGCCA--G-AACATTGGAC-TAAAGAATGGTAAAGATGCCAATATGCTAATTCAAG
** * *
61350 GCCAGTGATATTAGACTTAAGAAAAA
126 GCCAACGACATCAGACTTAAGAAAAA
* * *
61376 AAAGGTGTCAATGTGTTGATTCAAGGCCAGTGACATTGGGCTTAGAAGA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGTGAC-TTTGGCTTA-AAGA
61425 GTTGCCACCG
Statistics
Matches: 167, Mismatches: 26, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
149 26 0.16
151 3 0.02
152 87 0.52
153 6 0.04
154 37 0.22
155 8 0.05
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (151 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACTTTGGCTTAAAGATAGAAGGTGCCAATATGC
TGATTCAAGGCCAGAACATTGGACTAAAGAATGGTAAAGATGCCAATATGCTAATTCAAGGCCAA
CGACATCAGACTTAAGAAAAA
Found at i:61411 original size:103 final size:100
Alignment explanation
Indices: 61061--61424 Score: 317
Period size: 103 Copynumber: 3.6 Consensus size: 100
61051 TAAAGATGAG
* * *
61061 AAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAATGATATTAGG-TTTAAAGATGACGAA
1 AAGAA-GATAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATT-GGACTTAAAGATG--GAA
* * *
61125 GGTGCCAATATGCTGATTCAAGGCCAGAACATTGGGC-T
62 GGTGCCAATATGCTGATTCAAGGCCAGGATATTGGACTT
* * * **
61163 AAGGAATGTTAAAGATGCCAATATGTTGATTCAAGGCCAACGACATCAGACTTAAAGAT-GAAGG
1 AA-GAA-GATAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGGAAGG
*
61227 TGCCAATGTGCTGATTCAAGGCCAGCGACT-TTGGACTT
64 TGCCAATATGCTGATTCAAGGCCAG-GA-TATTGGACTT
* * * * *
61265 -A-AAGATGAAGGTGCCAGTGTGCTGATTCAAGGCTAGCGCGACATTGGACTTAAAGATGGTAAA
1 AAGAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA--ACGACATTGGACTTAAAGATGG--AA
* *
61328 GGTGCCAATATGCTAATTCAAGGCCAGTGATATTAGACTT
62 GGTGCCAATATGCTGATTCAAGGCCAG-GATATTGGACTT
* * * * * ** *
61368 AAGAAAAAAAAGGTGTCAATGTGTTGATTCAAGGCCAGTGACATTGGGCTTAGAAGA
1 AAGAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTA-AAGA
61425 GTTGCCACCG
Statistics
Matches: 213, Mismatches: 35, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
98 25 0.12
99 2 0.01
100 46 0.22
101 8 0.04
102 5 0.02
103 95 0.45
104 5 0.02
105 27 0.13
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.24
Consensus pattern (100 bp):
AAGAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGGAAGGTG
CCAATATGCTGATTCAAGGCCAGGATATTGGACTT
Found at i:61477 original size:32 final size:32
Alignment explanation
Indices: 61441--61549 Score: 109
Period size: 32 Copynumber: 3.4 Consensus size: 32
61431 ACCGAAAATA
61441 TGTGGGCTTTAGAGAATGGTT-CCATCGACTTG
1 TGTGGGCTTTAGAGAA-GGTTACCATCGACTTG
*
61473 TGTGGGTTTTA-AGAAGGGTTACCATCGACTTG
1 TGTGGGCTTTAGAGAA-GGTTACCATCGACTTG
* * *
61505 TATGGACTTTAGA-AGAGGTTGCCA-CTGACTTG
1 TGTGGGCTTTAGAGA-AGGTTACCATC-GACTTG
*
61537 TGTGGGTTTTAGA
1 TGTGGGCTTTAGA
61550 AAGAAAAGGT
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
31 9 0.14
32 53 0.83
33 2 0.03
ACGTcount: A:0.21, C:0.13, G:0.31, T:0.35
Consensus pattern (32 bp):
TGTGGGCTTTAGAGAAGGTTACCATCGACTTG
Found at i:61550 original size:32 final size:31
Alignment explanation
Indices: 61453--61550 Score: 110
Period size: 32 Copynumber: 3.1 Consensus size: 31
61443 TGGGCTTTAG
*
61453 AGAATGGTT-CCATCGACTTGTGTGGGTTTT
1 AGAAGGGTTACCATCGACTTGTGTGGGTTTT
* **
61483 AAGAAGGGTTACCATCGACTTGTATGGACTTT
1 -AGAAGGGTTACCATCGACTTGTGTGGGTTTT
*
61515 AGAAGAGGTTGCCA-CTGACTTGTGTGGGTTTT
1 AGAAG-GGTTACCATC-GACTTGTGTGGGTTTT
61547 AGAA
1 AGAA
61551 AGAAAAGGTG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
31 14 0.25
32 42 0.75
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.34
Consensus pattern (31 bp):
AGAAGGGTTACCATCGACTTGTGTGGGTTTT
Found at i:61590 original size:27 final size:27
Alignment explanation
Indices: 61553--61716 Score: 179
Period size: 27 Copynumber: 5.9 Consensus size: 27
61543 TTTTAGAAAG
61553 AAAA-GGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
61579 AAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
* * *
61607 AAAAAGAAAAAGGTGTCATGGAGTTGTAGACTT
1 -AAAAG-----GGTGCCACGGAGTTGTGGACTT
*
61640 AAAAGGCTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
61667 AAAAGGGTGCCATGGAGTTGTGGAC-T
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
61693 AAAGAGGGTGACACGGAGTTGTGG
1 AAA-AGGGTGCCACGGAGTTGTGG
61717 GCTTTGAAAG
Statistics
Matches: 116, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
26 8 0.07
27 78 0.67
28 2 0.02
29 5 0.04
32 5 0.04
33 2 0.02
34 16 0.14
ACGTcount: A:0.29, C:0.12, G:0.36, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:61631 original size:61 final size:59
Alignment explanation
Indices: 61537--61737 Score: 243
Period size: 61 Copynumber: 3.4 Consensus size: 59
61527 CACTGACTTG
* *
61537 TGTGGGTTTTAGAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTA-AAAGAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* * *
61597 TGTGGGCTTTAAAAAGAAAAAGGTGTCATGGAGTTGTAGACTTAAAAGGCTGCCACGGAGT
1 TGTGGGCTTT-AAAAG-AAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
61658 TGTGGAC-TTAAAAG----GGTGCCATGGAGTTGTGGAC-TAAAGAGGGTGACACGGAGT
1 TGTGGGCTTTAAAAGAAAAGGTGCCATGGAGTTGTGGACTTAAA-AGGGTGCCACGGAGT
* *
61712 TGTGGGCTTTGAAAGAAAAGATGCCA
1 TGTGGGCTTTAAAAGAAAAGGTGCCA
61738 CCAACTTATG
Statistics
Matches: 120, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
53 4 0.03
54 37 0.31
55 6 0.05
59 11 0.09
60 15 0.12
61 47 0.39
ACGTcount: A:0.30, C:0.11, G:0.35, T:0.23
Consensus pattern (59 bp):
TGTGGGCTTTAAAAGAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
Found at i:63227 original size:18 final size:17
Alignment explanation
Indices: 63187--63244 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 17
63177 ATCCGGACCC
63187 TTTTTTAATTTTTTTTTA
1 TTTTTT-ATTTTTTTTTA
*
63205 -ATTTTATTTTTTTCTTA
1 TTTTTTATTTTTTT-TTA
*
63222 TTTTTTGTTTTTTTATTA
1 TTTTTTATTTTTTT-TTA
63240 TTTTT
1 TTTTT
63245 CATACACGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 8 0.24
17 7 0.21
18 19 0.56
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.83
Consensus pattern (17 bp):
TTTTTTATTTTTTTTTA
Found at i:70348 original size:16 final size:16
Alignment explanation
Indices: 70327--70362 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
70317 ATCATCACAT
*
70327 AATACAAATTATTATG
1 AATACAAATTAATATG
*
70343 AATACAACTTAATATG
1 AATACAAATTAATATG
70359 AATA
1 AATA
70363 TCCATTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (16 bp):
AATACAAATTAATATG
Found at i:77496 original size:22 final size:23
Alignment explanation
Indices: 77466--77509 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
77456 TAAAATTTAC
*
77466 TATCAATTATTTGCT-ATTATAT
1 TATCAATTAATTGCTAATTATAT
*
77488 TATCTATTAATTGCTAATTATA
1 TATCAATTAATTGCTAATTATA
77510 AACAATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (23 bp):
TATCAATTAATTGCTAATTATAT
Found at i:80453 original size:28 final size:31
Alignment explanation
Indices: 80413--80476 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
80403 TTAATATTTA
80413 TTTTTTGGCTGTT-AAA-TTGCATTATTATT
1 TTTTTTGGCTGTTAAAATTTGCATTATTATT
*
80442 TTTTTTGG-TGTTAAAATTTTCATTATTATT
1 TTTTTTGGCTGTTAAAATTTGCATTATTATT
80472 TTTTT
1 TTTTT
80477 AACAGTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 4 0.12
29 11 0.34
30 17 0.53
ACGTcount: A:0.20, C:0.05, G:0.11, T:0.64
Consensus pattern (31 bp):
TTTTTTGGCTGTTAAAATTTGCATTATTATT
Found at i:80625 original size:14 final size:15
Alignment explanation
Indices: 80606--80639 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
80596 TGGAATTAGG
80606 GTTTA-GCGTAATTA
1 GTTTAGGCGTAATTA
*
80620 GTTTAGGGGTAATTA
1 GTTTAGGCGTAATTA
80635 GTTTA
1 GTTTA
80640 AAGCCTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.44
Consensus pattern (15 bp):
GTTTAGGCGTAATTA
Found at i:81278 original size:13 final size:13
Alignment explanation
Indices: 81257--81286 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
81247 CGATACAAGG
*
81257 TACATTGTATCGA
1 TACAATGTATCGA
81270 TACAATGTATCGA
1 TACAATGTATCGA
81283 TACA
1 TACA
81287 TAGTGAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:85448 original size:84 final size:83
Alignment explanation
Indices: 85314--85512 Score: 220
Period size: 84 Copynumber: 2.4 Consensus size: 83
85304 GATAAACTTA
**** *
85314 TCTTAATAAGACAAGGCAAATAAGGTTGTCTTAATAAGAAAATGTCTAAAGTAGACATGTACTAA
1 TCTTAATAAGACAATATGAATAAGGTTGT-TTAACAAGAAAATGTCTAAAGTAGACATGTACTAA
* *
85379 AATAAAATGGA-TAAGTTTG
65 AACAAAAT-GATTAAGCTTG
* * * * **
85398 TTTTAATAAGACAATATGGATAAGGTTGTTTAAACAAGATAATGTTTAAAGTAGACATGTGTTAA
1 TCTTAATAAGACAATATGAATAAGGTTGTTT-AACAAGAAAATGTCTAAAGTAGACATGTACTAA
*
85463 AGCAAAATGATTAAGCTTG
65 AACAAAATGATTAAGCTTG
* *
85482 TCTTAATAAGACAATATTAATAACGTTGTTT
1 TCTTAATAAGACAATATGAATAAGGTTGTTT
85513 TGATAATACA
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
83 4 0.04
84 91 0.96
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.33
Consensus pattern (83 bp):
TCTTAATAAGACAATATGAATAAGGTTGTTTAACAAGAAAATGTCTAAAGTAGACATGTACTAAA
ACAAAATGATTAAGCTTG
Found at i:85532 original size:84 final size:84
Alignment explanation
Indices: 85304--85568 Score: 212
Period size: 84 Copynumber: 3.2 Consensus size: 84
85294 AGATAATGCT
* * **** * * *
85304 GATAAACTTATCTTAATAAGACAAGGCAAATAAGGTTGTCTT-AATAAGAAAATGTCTAAAGTAG
1 GATAAGCTTGTCTTAATAAGACAATATGAATAACGTTGT-TTAAACAAGACAATGTCTAAAGTAG
*
85368 ACATGTACTAAAATAAAATG
65 ACATGTACTAAAACAAAATG
* * * * * *
85388 GATAAGTTTGTTTTAATAAGACAATATGGATAAGGTTGTTTAAACAAGATAATGTTTAAAGTAGA
1 GATAAGCTTGTCTTAATAAGACAATATGAATAACGTTGTTTAAACAAGACAATGTCTAAAGTAGA
** *
85453 CATGTGTTAAAGCAAAAT-
66 CATGTACTAAAACAAAATG
* ** * * * *
85471 GATTAAGCTTGTCTTAATAAGACAATATTAATAACGTTGTTTTGATAATACAATGCCTAAAGTTG
1 GA-TAAGCTTGTCTTAATAAGACAATATGAATAACGTTGTTTAAACAAGACAATGTCTAAAGTAG
* * * *
85536 ACATAT-GTGAAGATAAAATG
65 ACATGTACT-AAAACAAAATG
85556 GATAAGCTTGTCT
1 GATAAGCTTGTCT
85569 GAACAAGGCA
Statistics
Matches: 143, Mismatches: 34, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
83 5 0.03
84 136 0.95
85 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.32
Consensus pattern (84 bp):
GATAAGCTTGTCTTAATAAGACAATATGAATAACGTTGTTTAAACAAGACAATGTCTAAAGTAGA
CATGTACTAAAACAAAATG
Found at i:91790 original size:13 final size:13
Alignment explanation
Indices: 91772--91796 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91762 CAAAGATCAG
91772 TGTATCGATACAA
1 TGTATCGATACAA
91785 TGTATCGATACA
1 TGTATCGATACA
91797 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:91877 original size:13 final size:13
Alignment explanation
Indices: 91859--91883 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91849 CAAAAAAATA
91859 TGTATCGATACAT
1 TGTATCGATACAT
91872 TGTATCGATACA
1 TGTATCGATACA
91884 ACATTTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:91898 original size:33 final size:33
Alignment explanation
Indices: 91837--91903 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
91827 AGTAGCTTAA
*
91837 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATATATCGATAC
* ***
91870 ATTGTATCGATACAACATTTTATATATCGATAC
1 ATTGTATCGATACAAAAAAATATATATCGATAC
91903 A
1 A
91904 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATATATCGATAC
Found at i:94935 original size:164 final size:164
Alignment explanation
Indices: 94664--94989 Score: 503
Period size: 164 Copynumber: 2.0 Consensus size: 164
94654 AGAGAGATGG
* *
94664 GGAACATAGAGACATAAAATGCTTCCTGGATTTTACTTTGAAAACTGGATACTTCATGTCAAGCA
1 GGAACATAGAGACATAAAATGCTTCCTGGATTTCACTTTGAAAACTAGATACTTCATGTCAAGCA
* * * * * *
94729 CTGGAGAGATATCGATATGAAACTTTGTCTTTACGATTTTTGAAAATAAATTTTGGAAATATAGG
66 CTAGAGAGATATCAATAAGAAACATTGCCTTTACGATTTTTGAAAAGAAATTTTGGAAATATAGG
*
94794 AGCGAATAATCATAGATCATTCAATTATAAAAGA
131 AGCGAATAATCATAGATCATTCAATGATAAAAGA
* *
94828 GGAACATAGAGACATAAAATGCTTCCTGGATTTCACTTTGAAAACTAGATATTTCGTGTCAAGCA
1 GGAACATAGAGACATAAAATGCTTCCTGGATTTCACTTTGAAAACTAGATACTTCATGTCAAGCA
*
94893 TTAGAGAGATA-CTAATACAG-AACATTGCCTTTACGATTTTTGAAAAGAAATTTTGGAAATATA
66 CTAGAGAGATATC-AATA-AGAAACATTGCCTTTACGATTTTTGAAAAGAAATTTTGGAAATATA
*
94956 GGTGCGAATAATCATAGATCATTCAATGATAAAA
129 GGAGCGAATAATCATAGATCATTCAATGATAAAA
94990 AAAAGGGACA
Statistics
Matches: 147, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
163 1 0.01
164 145 0.99
165 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (164 bp):
GGAACATAGAGACATAAAATGCTTCCTGGATTTCACTTTGAAAACTAGATACTTCATGTCAAGCA
CTAGAGAGATATCAATAAGAAACATTGCCTTTACGATTTTTGAAAAGAAATTTTGGAAATATAGG
AGCGAATAATCATAGATCATTCAATGATAAAAGA
Found at i:97563 original size:19 final size:20
Alignment explanation
Indices: 97525--97563 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
97515 TCAAAACTTA
*
97525 TATATTGATACATTAATTGTT
1 TATATCGATACA-TAATTGTT
97546 TATATCGATACA-AATTGT
1 TATATCGATACATAATTGT
97564 AGAAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (20 bp):
TATATCGATACATAATTGTT
Found at i:98312 original size:52 final size:52
Alignment explanation
Indices: 98241--98543 Score: 217
Period size: 52 Copynumber: 5.8 Consensus size: 52
98231 AAATGACTAG
* * **
98241 AGGTGCCATTATGCTGATTCAAGACCCA-CGATATTGGGTTTAAAGATGACAA
1 AGGTGCCAATATGCTGATTCAAG-CCCAGCGACATTGGACTTAAAGATGACAA
* * * *
98293 AGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAGAA
1 AGGTGCCAATATGCTGATTCAAGCCCAGCGACATTGGACTTAAAGATGACAA
* * * *
98345 A--TGCACTAATATGCAGATTCAAAG-CCAGCGATATTGGA-TTTAAGAAAGA-AGA
1 AGGTGC-C-AATATGCTGATTC-AAGCCCAGCGACATTGGACTTAAAG-ATGACA-A
* * * *
98397 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAGATGGCCA
1 AGGTGCCAATATGCTGATTCAAGCCCAGCGACATTGGACTTAAAGATGACAA
** * * * * * * * *
98448 AGACGCCAATATGCTGATTTAAGGCTAGCGATATTAGAGTTAACA-AAGAAAA
1 AGGTGCCAATATGCTGATTCAAGCCCAGCGACATTGGACTTAA-AGATGACAA
* * * *
98500 AGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAA
1 AGGTGCCAATATGCTGATTCAAGCCCAGCGACATTGGACTTAAA
98544 AGTAGATGCC
Statistics
Matches: 197, Mismatches: 41, Indels: 27
0.74 0.15 0.10
Matches are distributed among these distances:
50 3 0.02
51 50 0.25
52 134 0.68
53 7 0.04
54 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (52 bp):
AGGTGCCAATATGCTGATTCAAGCCCAGCGACATTGGACTTAAAGATGACAA
Found at i:98430 original size:104 final size:101
Alignment explanation
Indices: 98245--98543 Score: 354
Period size: 103 Copynumber: 2.9 Consensus size: 101
98235 GACTAGAGGT
* * * *
98245 GCCATTATGCTGATTCAAGACCCA-CGATATTGGGTTTAAAGATGACAAAGGTGCCAATGTGCTG
1 GCCAATATGCTGATTCAA-AGCCAGCGATATTGGATTTAAA-AAGA-AAAGGTGCCAATGTGCTG
*
98309 ATTCAAGGCCAACGACATTGGACTTAAAGATGAG-AA-AT
63 ATTCAAGGCCAACGACATTGGACTTAAAGATG-GCAAGAC
*
98347 GCACTAATATGCAGATTCAAAGCCAGCGATATTGGATTTAAGAAAGAAGAAGGTGCCAATGTGCT
1 GC-C-AATATGCTGATTCAAAGCCAGCGATATTGGATTTAA-AAAGAA-AAGGTGCCAATGTGCT
*
98412 GATTCAAGGCCAGCGACATTGGACTT-AAGATGGCCAAGAC
62 GATTCAAGGCCAACGACATTGGACTTAAAGATGG-CAAGAC
* * * * *
98452 GCCAATATGCTGATTTAAGGCTAGCGATATTAGAGTTAACAAAGAAAAAGGTGCCAATGTGCTGA
1 GCCAATATGCTGATTCAAAGCCAGCGATATTGGATTTAA-AAAG-AAAAGGTGCCAATGTGCTGA
*
98517 TTCAAGGCCAACGACATTGGGCTTAAA
64 TTCAAGGCCAACGACATTGGACTTAAA
98544 AGTAGATGCC
Statistics
Matches: 171, Mismatches: 16, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
102 3 0.02
103 86 0.50
104 78 0.46
105 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (101 bp):
GCCAATATGCTGATTCAAAGCCAGCGATATTGGATTTAAAAAGAAAAGGTGCCAATGTGCTGATT
CAAGGCCAACGACATTGGACTTAAAGATGGCAAGAC
Found at i:98615 original size:31 final size:31
Alignment explanation
Indices: 98550--98759 Score: 237
Period size: 31 Copynumber: 6.7 Consensus size: 31
98540 TAAAAGTAGA
* *
98550 TGCCACCGACTTGTGTAGGCTTTTGAGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGA-AGGGT
* *
98582 TACCACCGATTTGTGTGGGCTTTAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGT
* * *
98613 TACCA-CTAATTCGTGTGGGCTTTAGAAGAGGT
1 TGCCACCGACTT-GTGTGGGCTTTAGAAG-GGT
**
98645 TGCCACTAACTTGTGTGGG-TTTAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGT
*
98675 TGCCACCGACTTGTGTGGGCTTTAGATGAGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAG-GGT
* *
98707 TGCCA-CGACTTGTGTAGGCTTTAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGT
* *
98737 TGTCACCGACTTATGTGGGCTTT
1 TGCCACCGACTTGTGTGGGCTTT
98760 TGCAAAGGTG
Statistics
Matches: 153, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
30 31 0.20
31 75 0.49
32 44 0.29
33 3 0.02
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.32
Consensus pattern (31 bp):
TGCCACCGACTTGTGTGGGCTTTAGAAGGGT
Found at i:107947 original size:154 final size:154
Alignment explanation
Indices: 107739--108081 Score: 422
Period size: 154 Copynumber: 2.2 Consensus size: 154
107729 AGTATTCGGT
*
107739 ATCCTAAAGGACATGAAAACATTATAAAAGGATGAACCTGTCCTAAACATATACCTTCGACATAA
1 ATCCTAAAGGACATGAAAACATTATAAAAGGATGAACCTATCCTAAACATATACCTTCGACATAA
* * * * * * *
107804 AAGTGACCTAGCGACTACCTAGGATTCAGTTCTAAAGAAAATTATC-AAAATACCCCT-AGAGTA
66 AAGCGACCTAGCGACCACATAGAACTCAATACTAAAGAAAATTA-CAAAAATACCCCTAAG-GTA
* * *
107867 TGCCTTTGATGTAAAAGTA-CTCAATA
129 TACCTTCGATATAAAAGTACCT-AATA
* * * * * *
107893 ATCTTAATGGACATGAAAATATTATAAAGGGATGAACCTATCCTAAACGTATACCTTCGGCATAA
1 ATCCTAAAGGACATGAAAACATTATAAAAGGATGAACCTATCCTAAACATATACCTTCGACATAA
* * * *
107958 AAGCGGCCTAGTGACCACATAGAACTCAATACTAAGGAAAATTACAAAAATATCCCTAAGGTATA
66 AAGCGACCTAGCGACCACATAGAACTCAATACTAAAGAAAATTACAAAAATACCCCTAAGGTATA
*
108023 CCTTCGATATAAAAGTACCTAGTA
131 CCTTCGATATAAAAGTACCTAATA
* *
108047 ATCCTAAAGAACATGAAAGCATTATAAAAGGATGA
1 ATCCTAAAGGACATGAAAACATTATAAAAGGATGA
108082 CTTTTACCCT
Statistics
Matches: 158, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
153 1 0.01
154 153 0.97
155 4 0.03
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (154 bp):
ATCCTAAAGGACATGAAAACATTATAAAAGGATGAACCTATCCTAAACATATACCTTCGACATAA
AAGCGACCTAGCGACCACATAGAACTCAATACTAAAGAAAATTACAAAAATACCCCTAAGGTATA
CCTTCGATATAAAAGTACCTAATA
Found at i:109213 original size:152 final size:153
Alignment explanation
Indices: 108943--109252 Score: 389
Period size: 152 Copynumber: 2.0 Consensus size: 153
108933 ACTACTTAGT
* * *
108943 CTTTTTAAAATTTACAAAAGGTCCCTAATATGTTAAAAGGCCTAAAGAATGTTTAGACATGCATG
1 CTTTTTAAAATTTACAAAAGGTCCCTAACATGTTAAAAGGCCTAAAGAATGCTTAGACATGCAAG
* * * * *
109008 AAACAGTCCACTTATGGTAGTAGGGACTCTTGGCTAAGTAAGAATACCTAAAG-AAAAAATTT-A
66 AAACAGTCCACTTATGGCACTAGAGACTCTTGGCCAAGCAAGAATACCTAAAGAAAAAAATTTAA
109071 ACTTTTACAATTTAGTCCCTAAA
131 ACTTTTACAATTTAGTCCCTAAA
* *
109094 CTTTTTAAAATTTACAAAAAGGTCCTTAACATGTTGAAAGGCCTAAA-ATATGCTTAGA-AGTGC
1 CTTTTTAAAATTTAC-AAAAGGTCCCTAACATGTTAAAAGGCCTAAAGA-ATGCTTAGACA-TGC
* * **
109157 AAGAAATAGTCCTCTTATGGCACTAGAGACT-TTCGGCCAAGCAAGGGTA-CTCAAAGAAAAAAA
63 AAGAAACAGTCCACTTATGGCACTAGAGACTCTT-GGCCAAGCAAGAATACCT-AAAGAAAAAAA
*
109220 TTTCAAACTTTTGCAATTTAGTCCCTAAA
126 TTT-AAACTTTTACAATTTAGTCCCTAAA
109249 CTTT
1 CTTT
109253 CTCAAATTAC
Statistics
Matches: 136, Mismatches: 15, Indels: 12
0.83 0.09 0.07
Matches are distributed among these distances:
151 21 0.15
152 79 0.58
153 9 0.07
155 27 0.20
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (153 bp):
CTTTTTAAAATTTACAAAAGGTCCCTAACATGTTAAAAGGCCTAAAGAATGCTTAGACATGCAAG
AAACAGTCCACTTATGGCACTAGAGACTCTTGGCCAAGCAAGAATACCTAAAGAAAAAAATTTAA
ACTTTTACAATTTAGTCCCTAAA
Found at i:109750 original size:18 final size:17
Alignment explanation
Indices: 109727--109771 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
109717 CCATTTCTAG
*
109727 ATTTTTTTCTTTTTTATT
1 ATTTTTTT-TATTTTATT
109745 ATTTTTTATTATTTTATT
1 ATTTTTT-TTATTTTATT
109763 ATTTCTTTT
1 ATTT-TTTT
109772 GGAAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (17 bp):
ATTTTTTTTATTTTATT
Found at i:112294 original size:93 final size:92
Alignment explanation
Indices: 112171--112349 Score: 227
Period size: 93 Copynumber: 1.9 Consensus size: 92
112161 TGTCCCCTTA
* * ** *
112171 GAGATGGTGGGTTGGACTATTCTCGGAGATGA-AATTTTGATATTTTTAAAAATCA-AATTTTAG
1 GAGATAGTGGGTTGGACTATCCTCAAAGATGACAA-TTTAATATTTTTAAAAAT-AGAATTTTAG
*
112234 TGCAAAAATAAGGTTGGAGTATCCTCTCG
64 TGCAAAAATAAGATTGGAGTATCCTCTCG
* *
112263 GAGATAGTGGGGTTGGAGTATCCTCAAAGATGACAATTTAATATTTTTATAAATAGAATTTTAGT
1 GAGATAGT-GGGTTGGACTATCCTCAAAGATGACAATTTAATATTTTTAAAAATAGAATTTTAGT
* *
112328 GTAAAAATGAGATTGGAGTATC
65 GCAAAAATAAGATTGGAGTATC
112350 TCTTCAAAGG
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
92 8 0.11
93 64 0.86
94 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (92 bp):
GAGATAGTGGGTTGGACTATCCTCAAAGATGACAATTTAATATTTTTAAAAATAGAATTTTAGTG
CAAAAATAAGATTGGAGTATCCTCTCG
Found at i:112364 original size:93 final size:93
Alignment explanation
Indices: 112179--112384 Score: 220
Period size: 93 Copynumber: 2.2 Consensus size: 93
112169 TAGAGATGGT
* * ** *
112179 GGGTTGGACTATTCTCGGAGATGAAATTTTGATATTTTTAAAAATCAAATTTTAGTGCAAAAATA
1 GGGTTGGAATATCCTCAAAGATGAAATTTTAATATTTTTAAAAATCAAATTTTAGTGCAAAAATA
* **
112244 AGGTTGGAGTATCCTCTCGGAGATAGTG
66 AGATTGGAGTATCCTCTCAAAGATAGTG
* * *
112272 GGGTTGGAGTATCCTCAAAGATGACAA-TTTAATATTTTTATAAAT-AGAATTTTAGTGTAAAAA
1 GGGTTGGAATATCCTCAAAGATGA-AATTTTAATATTTTTAAAAATCA-AATTTTAGTGCAAAAA
* *
112335 TGAGATTGGAGTAT-CTCTTCAAAGGTAGTG
64 TAAGATTGGAGTATCCTC-TCAAAGATAGTG
* * *
112365 GAGTTAGAATATCCCCAAAG
1 GGGTTGGAATATCCTCAAAG
112385 GTAAAATTCC
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
92 4 0.04
93 88 0.94
94 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.33
Consensus pattern (93 bp):
GGGTTGGAATATCCTCAAAGATGAAATTTTAATATTTTTAAAAATCAAATTTTAGTGCAAAAATA
AGATTGGAGTATCCTCTCAAAGATAGTG
Found at i:112482 original size:87 final size:87
Alignment explanation
Indices: 112376--112678 Score: 293
Period size: 87 Copynumber: 3.5 Consensus size: 87
112366 AGTTAGAATA
* * *
112376 TCCCCAAAGGTAAAATTCCATGAAGTAAATTTGAATTTTTGTTAAAGCATGGTTGGAGTATCCCT
1 TCCCCAAAGGTAAATTTCCATGAAGTAAATTTGAATTTTTGTTAGAGCAGGGTTGGAGTATCCCT
*
112441 TTGGAATAGTTGGGATGGAGTT
66 TCGGAATAGTTGGGATGGAGTT
* * * * *
112463 TCCCCATAGGCAAATTTCCATG-AGATAAATTTAAATTTTTGTTAGAGCGGGGTTAGAGTATCTC
1 TCCCCAAAGGTAAATTTCCATGAAG-TAAATTTGAATTTTTGTTAGAGCAGGGTTGGAGTATC-C
* *
112527 C-TCGAAATAG-T---AAGGAGTT
64 CTTCGGAATAGTTGGGATGGAGTT
*** * * *
112546 TCCTTGAAGATAGAA-TTCCATGAAATAAATTTGAATTTTTGTTAGAGTAGGGTTGGAGTAT-CC
1 TCCCCAAAGGTA-AATTTCCATGAAGTAAATTTGAATTTTTGTTAGAGCAGGGTTGGAGTATCCC
* * *
112609 TCTGGGAATAATGGGGATGGAGTT
65 T-TCGGAATAGTTGGGATGGAGTT
*
112633 TCCCCAAAGATAAAATTTCCCA--AAGTAAATTTGAATTTTTGTTAGA
1 TCCCCAAAGGT-AAATTT-CCATGAAGTAAATTTGAATTTTTGTTAGA
112679 AGTAAATTTG
Statistics
Matches: 172, Mismatches: 31, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
81 2 0.01
83 58 0.34
84 3 0.02
86 3 0.02
87 98 0.57
88 5 0.03
89 3 0.02
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (87 bp):
TCCCCAAAGGTAAATTTCCATGAAGTAAATTTGAATTTTTGTTAGAGCAGGGTTGGAGTATCCCT
TCGGAATAGTTGGGATGGAGTT
Found at i:112682 original size:23 final size:23
Alignment explanation
Indices: 112655--112702 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
112645 AAATTTCCCA
*
112655 AAGTAAATTTGAATTTTTGTTAG
1 AAGTAAATTTGAATTTTTATTAG
112678 AAGTAAATTTGAATTTTTATTAG
1 AAGTAAATTTGAATTTTTATTAG
112701 AA
1 AA
112703 TAGGATTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.46
Consensus pattern (23 bp):
AAGTAAATTTGAATTTTTATTAG
Found at i:114759 original size:20 final size:19
Alignment explanation
Indices: 114716--114768 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
114706 ACATTATGCT
* **
114716 TTGTATTGATACATGTTCA
1 TTGTATCGATACATACTCA
114735 TTGTATCGATACATACTCAA
1 TTGTATCGATACATACTC-A
114755 TTGTATCGATACAT
1 TTGTATCGATACAT
114769 GAAACTGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (19 bp):
TTGTATCGATACATACTCA
Found at i:120914 original size:79 final size:79
Alignment explanation
Indices: 120817--121003 Score: 214
Period size: 79 Copynumber: 2.4 Consensus size: 79
120807 GTGTTCTCTT
* ** * * *
120817 GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAGAAAAAAAAATCGGGA
1 GAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAGAAAAAAAAACCGGGA
*
120881 TTGGAGTATCCCTTC
65 TTGGAGTATCCCCTC
* * ** * * *
120896 GAAAATAACCGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGT
1 GAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAAAAAAACCGGGAT
120961 TGGAGTATCCCCTC
66 TGGAGTATCCCCTC
* *
120975 GGAAGTAACGGGGTTGGAGTATCCCCAAT
1 GAAAATAACGGGGTTGGAGTATCCCCAAT
121004 GCAATAACGA
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
78 1 0.01
79 89 0.99
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.24
Consensus pattern (79 bp):
GAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAAAAAAACCGGGAT
TGGAGTATCCCCTC
Found at i:121104 original size:52 final size:52
Alignment explanation
Indices: 121048--121184 Score: 143
Period size: 52 Copynumber: 2.6 Consensus size: 52
121038 AAATTGGTAT
* *
121048 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG-AAAATTGGCG
1 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATT-AAGGAAAAATTAGCG
* * * ** *
121100 TTTTGAAAACAAAACCAGGA-TTGGAGTATCCCCGGTTGTGGAAAAATTAGTG
1 TTTTGGAAATAAAACC-GGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
* **
121152 TTTTAGCGATAAAACCGGAGTTGGAGTATCCCC
1 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
121185 TCAGAAATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
51 5 0.07
52 61 0.88
53 3 0.04
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (52 bp):
TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
Found at i:121211 original size:28 final size:27
Alignment explanation
Indices: 121171--121239 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
121161 TAAAACCGGA
121171 GTTGGAGTATCCCCTCA-GAAATAACGGG
1 GTTGGAGTATCCCC-CATG-AATAACGGG
* *
121199 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCCATGAATAACGGG
121226 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
121240 GATTGTGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (27 bp):
GTTGGAGTATCCCCCATGAATAACGGG
Found at i:123727 original size:13 final size:13
Alignment explanation
Indices: 123709--123734 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
123699 ACAAAGATCC
123709 ATGTATCGATACA
1 ATGTATCGATACA
123722 ATGTATCGATACA
1 ATGTATCGATACA
123735 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:123730 original size:33 final size:33
Alignment explanation
Indices: 123688--123754 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
123678 AAAATTTCCA
***
123688 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
123721 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
123754 A
1 A
123755 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:123798 original size:19 final size:18
Alignment explanation
Indices: 123774--123841 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
123764 CAGTAGCTAA
123774 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
123793 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
123808 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
123825 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
123842 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:123814 original size:13 final size:13
Alignment explanation
Indices: 123796--123820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123786 ACAATACTTA
123796 TGTATCGATACAT
1 TGTATCGATACAT
123809 TGTATCGATACA
1 TGTATCGATACA
123821 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:123818 original size:32 final size:32
Alignment explanation
Indices: 123777--123839 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
123767 TAGCTAATTA
*
123777 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
123809 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
123840 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:127899 original size:20 final size:20
Alignment explanation
Indices: 127840--127904 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
127830 ACACATCCAT
*
127840 ATACACACTCAATTGTATCG
1 ATACATACTCAATTGTATCG
* ** *
127860 ATACTTGTTC-ATTGTGTCG
1 ATACATACTCAATTGTATCG
127879 ATACATACTCAATTGTATCG
1 ATACATACTCAATTGTATCG
127899 ATACAT
1 ATACAT
127905 GAAACTAACA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 15 0.43
20 20 0.57
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
ATACATACTCAATTGTATCG
Found at i:129549 original size:149 final size:148
Alignment explanation
Indices: 129209--129550 Score: 429
Period size: 149 Copynumber: 2.3 Consensus size: 148
129199 TAATTCCAAA
* * * * * * * * *
129209 AATCGAGTCCTAATTTATTATTGGGTCACTTTTATGCTGAGGGTATGCATTAGGCATCGGTTCGC
1 AATCGAGTCCTAATTTGTCACTAGGTCGCTTCTAT-CTGAGGGTATGCATTAAGCATAGGTTCAC
* * *
129274 TTTCCCTTTTTAAGTCTTTTAGGGTTATCAAGATATTTTCATGTTGAAGGTATACCCATAGAGGC
65 TTTCCCTTTTTAAGTCTTTTAGGGCTATCAAGATATTTTCATGTTCAAGGTATACCCATAGAGAC
129339 ATTTTCATAATTTTTCTAG
130 ATTTTCATAATTTTTCTAG
* * *
129358 AATCGAGTCCTAATTTGTCACCAGGTCGCTTCTATGTCGAGGGTACT-TATTAAGCATAGGTTCA
1 AATCGAGTCCTAATTTGTCACTAGGTCGCTTCTATCT-GAGGGTA-TGCATTAAGCATAGGTTCA
* * **
129422 CTTTTCCTTTTTACGTCTTTTAGGGCTATTGAGATATTTTCATG-TCAATGGTATACCCATAGAG
64 CTTTCCCTTTTTAAGTCTTTTAGGGCTATCAAGATATTTTCATGTTCAA-GGTATACCCATAGAG
*
129486 ACGTTTTCATAATTTTTCTAG
128 ACATTTTCATAATTTTTCTAG
129507 AA-CTGAGTCCTAATTTGTCACTAGGTCGCTTCTATACTGAGGGT
1 AATC-GAGTCCTAATTTGTCACTAGGTCGCTTCTAT-CTGAGGGT
129551 GCCTATTAGG
Statistics
Matches: 166, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
148 5 0.03
149 159 0.96
150 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (148 bp):
AATCGAGTCCTAATTTGTCACTAGGTCGCTTCTATCTGAGGGTATGCATTAAGCATAGGTTCACT
TTCCCTTTTTAAGTCTTTTAGGGCTATCAAGATATTTTCATGTTCAAGGTATACCCATAGAGACA
TTTTCATAATTTTTCTAG
Found at i:129576 original size:149 final size:149
Alignment explanation
Indices: 129257--129587 Score: 436
Period size: 149 Copynumber: 2.2 Consensus size: 149
129247 GAGGGTATGC
* * *
129257 ATTAGGCA-TCGGTTCGCTTTCCCTTTTTAAGTCTTTTAGGGTTATCAAGATATTTTCATGTTGA
1 ATTAGGCATTC-GTTCGCTTTTCCTTTTTAAGTCTTTTAGGGCTATCAAGATATTTTCATGTTCA
*
129321 AGGTATACCCATAGAGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAATTTGTCACCAGGTCG
65 AGGTATACCCATAGAGACATTTTCATAATTTTTCTAGAATCGAGTCCTAATTTGTCACCAGGTCG
* *
129386 CTTCTATGTCGAGGGTACTT
130 CTTCTATCTCGAGGGTACCT
* ** * * **
129406 ATTAAGCATAGGTTCACTTTTCCTTTTTACGTCTTTTAGGGCTATTGAGATATTTTCATG-TCAA
1 ATTAGGCATTCGTTCGCTTTTCCTTTTTAAGTCTTTTAGGGCTATCAAGATATTTTCATGTTCAA
* *
129470 TGGTATACCCATAGAGACGTTTTCATAATTTTTCTAGAA-CTGAGTCCTAATTTGTCACTAGGTC
66 -GGTATACCCATAGAGACATTTTCATAATTTTTCTAGAATC-GAGTCCTAATTTGTCACCAGGTC
*
129534 GCTTCTATACT-GAGGGTGCCT
129 GCTTCTAT-CTCGAGGGTACCT
* *
129555 ATTAGGCATTCGTTCGTTTTTCCTTTCTAAGTC
1 ATTAGGCATTCGTTCGCTTTTCCTTTTTAAGTC
129588 CTCTAAGACC
Statistics
Matches: 155, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
148 4 0.03
149 150 0.97
150 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (149 bp):
ATTAGGCATTCGTTCGCTTTTCCTTTTTAAGTCTTTTAGGGCTATCAAGATATTTTCATGTTCAA
GGTATACCCATAGAGACATTTTCATAATTTTTCTAGAATCGAGTCCTAATTTGTCACCAGGTCGC
TTCTATCTCGAGGGTACCT
Found at i:133075 original size:51 final size:50
Alignment explanation
Indices: 132970--133081 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 50
132960 AAAAATAATG
* * * * *
132970 GGGTTGGAGTATCCCCAATGGTGGAAATCGATGTTTTAGAAATAAAATCG
1 GGGTTGGAGTACCCCCAATGGTGAAAATCGATATTTTAGAAATAAAACCA
* * * *
133020 GGGTTGGAGTACCCCCGATTGTGAAAAATTGATATTTTGGAAATAAAACCA
1 GGGTTGGAGTACCCCCAATGGTG-AAAATCGATATTTTAGAAATAAAACCA
133071 GGGTTGGAGTA
1 GGGTTGGAGTA
133082 TCACTTTGAA
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
50 20 0.38
51 32 0.62
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.28
Consensus pattern (50 bp):
GGGTTGGAGTACCCCCAATGGTGAAAATCGATATTTTAGAAATAAAACCA
Found at i:133108 original size:79 final size:79
Alignment explanation
Indices: 133018--133402 Score: 545
Period size: 79 Copynumber: 4.9 Consensus size: 79
133008 GAAATAAAAT
* * * *
133018 CGGGGTTGGAGTACCCCCGATTGTGAAAAATTGATATTTTGGAAATAAAACCAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTAT
*
133083 CACTTTGAAAATAA
66 CACTTCGAAAATAA
* * * * **
133097 TGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTGGAAATAAAACTAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTAT
133162 CACTTCGAAAATAA
66 CACTTCGAAAATAA
* * *
133176 TGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAGACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTAT
*
133241 CCCTTCGAAAATAA
66 CACTTCGAAAATAA
* * * *
133255 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACTGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTAT
* * *
133320 CCCCTCAAAAATAA
66 CACTTCGAAAATAA
** *
133334 CGAAGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTGTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTAT
133399 CACT
66 CACT
133403 AATTGTGAAA
Statistics
Matches: 279, Mismatches: 27, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 279 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTAT
CACTTCGAAAATAA
Found at i:133392 original size:209 final size:209
Alignment explanation
Indices: 133177--133611 Score: 622
Period size: 209 Copynumber: 2.1 Consensus size: 209
133167 CGAAAATAAT
* * * * *
133177 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAGACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGAGGTTAGAGTATC
133242 CCTTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACT
66 CCTTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACT
* *
133307 GGGGTTGGAGTATCCCCTCAAAAATAAC-GAAGTTGGAGTATCCCCGATTGTGAAAAATTGGTAT
131 AGGGTTGGAGTATCCCCTCAAAAATAACAG-AGTTGAAGTATCCCCGATTGTGAAAAATTGGTAT
133371 TGTAG-AAATAAAACC
195 T-TAGAAAATAAAACC
* * * * *
133386 GGGGTTGGAGTATCACTAATTGTGAAAAATTAGTGTTTTGGAAATAAAATCTAGGTTAGAGTATC
1 GGGGTTGGAGTATCCCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGAGGTTAGAGTATC
* ** *
133451 CCTTCGAAAATAACGGGGTTGGAGTATCTTCGATTATGAAAAATTGGTGTTTTAGAAATAAAATT
66 CCTTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACT
** * *
133516 AGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGAAGTATCCCCGATTGTGAAAAATTGGTGTT
131 AGGGTTGGAGTATCCCCTCAAAAATAACAGAGTTGAAGTATCCCCGATTGTGAAAAATTGGTATT
* *
133581 TTGAAAATAAAACT
196 TAGAAAATAAAACC
* *
133595 GAGATTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
133612 TCAGAAATAA
Statistics
Matches: 198, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
208 2 0.01
209 195 0.98
210 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (209 bp):
GGGGTTGGAGTATCCCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGAGGTTAGAGTATC
CCTTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACT
AGGGTTGGAGTATCCCCTCAAAAATAACAGAGTTGAAGTATCCCCGATTGTGAAAAATTGGTATT
TAGAAAATAAAACC
Found at i:133408 original size:51 final size:51
Alignment explanation
Indices: 133338--133434 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
133328 AAATAACGAA
* * *
133338 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTGTAGAAATAAAACCGGG
1 GTTGGAGTATCACCAATTGTGAAAAATTAGTATTGTAGAAATAAAACCGGG
* * * *
133389 GTTGGAGTATCACTAATTGTGAAAAATTAGTGTTTTGGAAATAAAA
1 GTTGGAGTATCACCAATTGTGAAAAATTAGTATTGTAGAAATAAAA
133435 TCTAGGTTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCACCAATTGTGAAAAATTAGTATTGTAGAAATAAAACCGGG
Found at i:133413 original size:130 final size:130
Alignment explanation
Indices: 133258--133529 Score: 348
Period size: 130 Copynumber: 2.1 Consensus size: 130
133248 AAAATAACGA
* * * * *
133258 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAA-CTGGGGTTGGAGTATCC
1 GGTTGGAGTATCACCAATTATGAAAAATTAGTGTTTTAGAAATAAAATCT-AGGTTAGAGTATCC
* *
133322 CCTCAAAAATAACGAAGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTGTAGAAATAAAACCG
65 CCTCAAAAATAACGAAGTTGGAGTATCCCCGATTATGAAAAATTGGTATTGTAGAAATAAAACCA
133387 G
130 G
* * *
133388 GGTTGGAGTATCACTAATTGTGAAAAATTAGTGTTTTGGAAATAAAATCTAGGTTAGAGTATCCC
1 GGTTGGAGTATCACCAATTATGAAAAATTAGTGTTTTAGAAATAAAATCTAGGTTAGAGTATCCC
* * ** ** * * **
133453 TTCGAAAATAACGGGGTTGGAGTATCTTCGATTATGAAAAATTGGTGTTTTAGAAATAAAATTAG
66 CTCAAAAATAACGAAGTTGGAGTATCCCCGATTATGAAAAATTGGTATTGTAGAAATAAAACCAG
133518 GGTTGGAGTATC
1 GGTTGGAGTATC
133530 CCCTCGGAAA
Statistics
Matches: 121, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
130 119 0.98
131 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (130 bp):
GGTTGGAGTATCACCAATTATGAAAAATTAGTGTTTTAGAAATAAAATCTAGGTTAGAGTATCCC
CTCAAAAATAACGAAGTTGGAGTATCCCCGATTATGAAAAATTGGTATTGTAGAAATAAAACCAG
Found at i:133448 original size:51 final size:51
Alignment explanation
Indices: 133353--133450 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
133343 AGTATCCCCG
* * *
133353 ATTGTGAAAAATTGGTATTGTAGAAATAAAACCGGGGTTGGAGTATCACTA
1 ATTGTGAAAAATTAGTATTGTAGAAATAAAACCGAGGTTAGAGTATCACTA
* * * * *
133404 ATTGTGAAAAATTAGTGTTTTGGAAATAAAATCTAGGTTAGAGTATC
1 ATTGTGAAAAATTAGTATTGTAGAAATAAAACCGAGGTTAGAGTATC
133451 CCTTCGAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (51 bp):
ATTGTGAAAAATTAGTATTGTAGAAATAAAACCGAGGTTAGAGTATCACTA
Found at i:133468 original size:79 final size:78
Alignment explanation
Indices: 133385--133618 Score: 283
Period size: 79 Copynumber: 2.9 Consensus size: 78
133375 GAAATAAAAC
* * *
133385 CGGGGTTGGAGTATCACTAATTGTGAAAAATTAGTGTTTTGGAAATAAAATCTAGGTTAGAGTAT
1 CGGGGTTGGAGTATC-CTGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCTAGGTTGGAGTAT
*
133450 CCCTTCGAAAATAA
65 CCCCTCGAAAATAA
* * *
133464 CGGGGTTGGAGTATCTTCGATTATGAAAAATTGGTGTTTTAGAAATAAAAT-TAGGGTTGGAGTA
1 CGGGGTTGGAGTATCCT-GATTGTGAAAAATTGGTGTTTTGGAAATAAAATCTA-GGTTGGAGTA
*
133528 TCCCCTCGGAAATAA
64 TCCCCTCGAAAATAA
* * * * *
133543 CAGGGTTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAA-CTGAGATTGGAGTA
1 CGGGGTTGGAGTAT-CCTGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCT-AGGTTGGAGTA
133607 TCCCCTCAGAAA
64 TCCCCTC-GAAA
133619 TAAAAACATG
Statistics
Matches: 132, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.02
79 124 0.94
80 5 0.04
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCTGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCTAGGTTGGAGTATC
CCCTCGAAAATAA
Found at i:133523 original size:288 final size:288
Alignment explanation
Indices: 133098--133621 Score: 786
Period size: 288 Copynumber: 1.8 Consensus size: 288
133088 TGAAAATAAT
* * * *
133098 GGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTGGAAATAAAACTAGGGTTGGAGTATC
1 GGGGTTGGAGTATCACCAATTGTGAAAAATAGATATTTTGGAAATAAAACTAGGGTTAGAGTATC
* * *
133163 ACTTCGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAGACC
66 ACTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACC
* * *
133228 GGGGTTGGAGTATCCCTTCGAAAATAAC-GAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGT
131 AGGGTTGGAGTATCCCCTCGAAAATAACAG-GGTTGAAGTATCCCCGATTATGAAAAATTGGTGT
* *
133292 TTT-AGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGAAGTTGGAGTATCCCCGATT
195 TTTGA-AAATAAAACTGAGATTGGAGTATCCCCTCAAAAATAACGAAGTTGGAGTATCCCCGATT
133356 GTGAAAAATTGGTATTGTAGAAATAAAACC
259 GTGAAAAATTGGTATTGTAGAAATAAAACC
* *
133386 GGGGTTGGAGTATCACTAATTGTGAAAAATTAG-TGTTTTGGAAATAAAATCTA-GGTTAGAGTA
1 GGGGTTGGAGTATCACCAATTGTGAAAAA-TAGATATTTTGGAAATAAAA-CTAGGGTTAGAGTA
* **
133449 TCCCTTCGAAAATAACGGGGTTGGAGTATCTTCGATTATGAAAAATTGGTGTTTTAGAAATAAAA
64 TCACTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAA
** * *
133514 TTAGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGAAGTATCCCCGATTGTGAAAAATTGGTG
129 CCAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGAAGTATCCCCGATTATGAAAAATTGGTG
*
133579 TTTTGAAAATAAAACTGAGATTGGAGTATCCCCTCAGAAATAA
194 TTTTGAAAATAAAACTGAGATTGGAGTATCCCCTCAAAAATAA
133622 AAACATGAAT
Statistics
Matches: 210, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
288 203 0.97
289 7 0.03
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (288 bp):
GGGGTTGGAGTATCACCAATTGTGAAAAATAGATATTTTGGAAATAAAACTAGGGTTAGAGTATC
ACTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACC
AGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGAAGTATCCCCGATTATGAAAAATTGGTGTT
TTGAAAATAAAACTGAGATTGGAGTATCCCCTCAAAAATAACGAAGTTGGAGTATCCCCGATTGT
GAAAAATTGGTATTGTAGAAATAAAACC
Found at i:136304 original size:33 final size:33
Alignment explanation
Indices: 136256--136337 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 33
136246 GCCGTTAGGA
* **
136256 ACAATGTATCGATACATTTCGTTATGTATCGAT
1 ACAATATATCGATACATTTCAATATGTATCGAT
*
136289 ACAATATATCAATACATTTCAATATGTATCGAT
1 ACAATATATCGATACATTTCAATATGTATCGAT
136322 ACAATATATCGATACA
1 ACAATATATCGATACA
136338 ATGTCCCATG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (33 bp):
ACAATATATCGATACATTTCAATATGTATCGAT
Found at i:136323 original size:20 final size:20
Alignment explanation
Indices: 136259--136324 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
136249 GTTAGGAACA
**
136259 ATGTATCGATACATTTCGTT
1 ATGTATCGATACATTTCAAT
136279 ATGTATCGAT--A---CAAT
1 ATGTATCGATACATTTCAAT
*
136294 A--TATCAATACATTTCAAT
1 ATGTATCGATACATTTCAAT
136312 ATGTATCGATACA
1 ATGTATCGATACA
136325 ATATATCGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
13 6 0.17
15 4 0.11
18 6 0.17
20 19 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTCAAT
Found at i:136333 original size:13 final size:13
Alignment explanation
Indices: 136315--136339 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
136305 TTTCAATATG
136315 TATCGATACAATA
1 TATCGATACAATA
136328 TATCGATACAAT
1 TATCGATACAAT
136340 GTCCCATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:140667 original size:23 final size:24
Alignment explanation
Indices: 140627--140676 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
140617 ATTAAAGCTC
140627 TTTTTTAAAACAATTTTCTCCCATT
1 TTTTTTAAAACAATTTTCTCCC-TT
* *
140652 TTTTTTTAAA-AA-TTTCTTCCTT
1 TTTTTTAAAACAATTTTCTCCCTT
140674 TTT
1 TTT
140677 GTAAAATGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.22
23 7 0.30
24 2 0.09
25 9 0.39
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTTTAAAACAATTTTCTCCCTT
Found at i:142236 original size:21 final size:21
Alignment explanation
Indices: 142212--142253 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
142202 ATGTTTGTGA
*
142212 GTGGAAAGCAACCTAATTTGG
1 GTGGAAAGAAACCTAATTTGG
142233 GTGGAAAGAAACCTAATTTGG
1 GTGGAAAGAAACCTAATTTGG
142254 ATTAAAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.24
Consensus pattern (21 bp):
GTGGAAAGAAACCTAATTTGG
Found at i:142261 original size:21 final size:21
Alignment explanation
Indices: 142216--142261 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
142206 TTGTGAGTGG
* * *
142216 AAAGCAACCTAATTTGGGTGG
1 AAAGAAACCTAATTTGGATGA
*
142237 AAAGAAACCTAATTTGGATTA
1 AAAGAAACCTAATTTGGATGA
142258 AAAG
1 AAAG
142262 CATGTTTAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (21 bp):
AAAGAAACCTAATTTGGATGA
Found at i:142414 original size:21 final size:20
Alignment explanation
Indices: 142369--142416 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
142359 TTTTATGAAG
142369 ATTTTGATGAAAAACAGATA
1 ATTTTGATGAAAAACAGATA
* *
142389 GTTTTGATGTGAAAA-AGATGA
1 ATTTTGATG-AAAAACAGAT-A
142410 ATTTTGA
1 ATTTTGA
142417 AAAGGATTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (20 bp):
ATTTTGATGAAAAACAGATA
Found at i:149691 original size:13 final size:13
Alignment explanation
Indices: 149673--149711 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
149663 ATAATCACCC
149673 TGTATCGATACAA
1 TGTATCGATACAA
149686 TGTATCGATACAA
1 TGTATCGATACAA
*
149699 TGTATTGATACAA
1 TGTATCGATACAA
149712 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:151902 original size:15 final size:15
Alignment explanation
Indices: 151882--151912 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
151872 TAAAAATGTC
*
151882 CAAAATGACGAAGCT
1 CAAAATGAAGAAGCT
151897 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
151912 C
1 C
151913 TAAACGAAAT
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:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:155407 original size:52 final size:52
Alignment explanation
Indices: 155259--155387 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
155249 CGAAATATGA
*
155259 AAATTCGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
155311 AAATTTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
155363 AAATTTGCCTGCTTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
155388 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:155414 original size:13 final size:13
Alignment explanation
Indices: 155396--155420 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
155386 CAAAGATCAG
155396 TGTATCGATACAA
1 TGTATCGATACAA
155409 TGTATCGATACA
1 TGTATCGATACA
155421 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:155513 original size:32 final size:32
Alignment explanation
Indices: 155461--155525 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
155451 AGTAGCTTAT
*
155461 ATTGTATCGATAGAAAACTTATGTATCAATAC
1 ATTGTATCGATACAAAACTTATGTATCAATAC
* *
155493 ATTGTATTGATACAACACTTATGTATCAATAC
1 ATTGTATCGATACAAAACTTATGTATCAATAC
155525 A
1 A
155526 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAAAACTTATGTATCAATAC
Found at i:159092 original size:20 final size:22
Alignment explanation
Indices: 159053--159092 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
159043 AGCCTTTGAT
*
159053 CATGCATTTTTTTACGATGTTC
1 CATGCATTTTTTAACGATGTTC
159075 CATGCA-TTTTTAAC-ATGT
1 CATGCATTTTTTAACGATGT
159093 CTAGCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.47
Consensus pattern (22 bp):
CATGCATTTTTTAACGATGTTC
Found at i:163729 original size:2 final size:2
Alignment explanation
Indices: 163722--163753 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
163712 ACATACATGA
163722 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
163754 GCATTCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:165843 original size:113 final size:112
Alignment explanation
Indices: 165641--165922 Score: 363
Period size: 113 Copynumber: 2.5 Consensus size: 112
165631 AACTTGGAAA
* * * *
165641 AACATCAAATTTGTCTAATTTTCAAAGAAATTCATATTTTGTACATTTTGATCCATTCGTGCTTA
1 AACATCAAATTTGTCTAATTTTCAAA-AAATTCATATTTTATACATTTCGATCCATTCATGCCTA
****
165706 GGAAAATGGGGTGTGTATCCTATGAGTTTTGAAATTTTTAAGCCCAAC
65 GGAAAATGGGACACGTATCCTATGAGTTTTGAAATTTTTAAGCCCAAC
* * *
165754 AACTTCAAATTAT-TCTTATTTTCAAATAAATTCATATTTTATACATTTCGATCCGTTCATGCCT
1 AACATCAAATT-TGTCTAATTTTCAAA-AAATTCATATTTTATACATTTCGATCCATTCATGCCT
*
165818 AGGAAAATGGGACACGTATTCTATGAGTTTTGAAATTTTTAAGCCCAAC
64 AGGAAAATGGGACACGTATCCTATGAGTTTTGAAATTTTTAAGCCCAAC
* * *
165867 AACATCAAATTTGTCTCATTTT-ATAAAAATTCATATTTAATATGATTT-GATCCATT
1 AACATCAAATTTGTCTAATTTTCA-AAAAATTCATATTTTATA-CATTTCGATCCATT
165923 TGTGATTAGG
Statistics
Matches: 147, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
112 24 0.16
113 122 0.83
114 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (112 bp):
AACATCAAATTTGTCTAATTTTCAAAAAATTCATATTTTATACATTTCGATCCATTCATGCCTAG
GAAAATGGGACACGTATCCTATGAGTTTTGAAATTTTTAAGCCCAAC
Found at i:166460 original size:81 final size:81
Alignment explanation
Indices: 166217--166479 Score: 268
Period size: 81 Copynumber: 3.3 Consensus size: 81
166207 GTTTTTCATG
* * * * *
166217 TGCATTTATTATTTTACTGATG-TTTGCATTTACATCGCCTCATGCACATTTGCATGACATTGGT
1 TGCATTTGTTATTTTACTGATGCTTT-CATTTACATTGTCTCATGCATATTTGCATGACATTGGC
* * *
166281 ATTTACATTA-TTCATA
65 ATTTGCATAATTTTATA
** * * * * *
166297 TGCATTTGCCATTTTACTGATACTTACATCTACATTGT-T--TGCAT-TTTACATGACATTGTCA
1 TGCATTTGTTATTTTACTGATGCTTTCATTTACATTGTCTCATGCATATTTGCATGACATTGGCA
**
166358 TTTGCATCGTTTTATA
66 TTTGCATAATTTTATA
* *
166374 TGCATTTGTTATTTTACTCATGCTTTCATTTACATTGTCTCATGCATATTTGCATGGCATTGGCA
1 TGCATTTGTTATTTTACTGATGCTTTCATTTACATTGTCTCATGCATATTTGCATGACATTGGCA
166439 TTTGCATAATTTTATA
66 TTTGCATAATTTTATA
* ** *
166455 GGCATTTGCCACTTTACTGATGCTT
1 TGCATTTGTTATTTTACTGATGCTT
166480 GCATACGCAT
Statistics
Matches: 145, Mismatches: 32, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
76 20 0.14
77 41 0.28
78 1 0.01
79 1 0.01
80 32 0.22
81 50 0.34
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (81 bp):
TGCATTTGTTATTTTACTGATGCTTTCATTTACATTGTCTCATGCATATTTGCATGACATTGGCA
TTTGCATAATTTTATA
Found at i:167275 original size:170 final size:170
Alignment explanation
Indices: 166979--167301 Score: 420
Period size: 170 Copynumber: 1.9 Consensus size: 170
166969 GGATGCATGA
* * * *
166979 CACATATTCCTAATCATATCTCTTTCATCCAACCACTAAACGGTATTGATGCATCACAAAGCAAG
1 CACACATTCCTAATCATATCCCCTTCATCCAACCACTAAACGATATTGATGCATCACAAAGCAAG
**
167044 ATTTCCTTGGGGTAAGGACATCCTGACCACACATTCTCAATCATATCCCTTTCTCTTAGCCACTA
66 ATTTCCTTGGGCAAAGGACATCCTGACCACACATTCTCAATCATATCCCTTTCTCTTAGCCACTA
* *
167109 GATGGTATTGATACATTGCATGACCACGAAGGGTGTAGCC
131 GATGGTATTAATACATTACATGACCACGAAGGGTGTAGCC
* * * **
167149 CACACATTCCTAATCATATCCCCTTCATTCAACCACTAGATGATATTGATGCATCACAAAGCCTG
1 CACACATTCCTAATCATATCCCCTTCATCCAACCACTAAACGATATTGATGCATCACAAAGCAAG
* * * *
167214 ATTTTCTTGAGGCAAAGG-TAT-CTCGACCACCCATTC-CTAATCATA-CCCTTTTCTTTTAGCC
66 ATTTCCTTG-GGCAAAGGACATCCT-GACCACACATTCTC-AATCATATCCC-TTTCTCTTAGCC
*
167275 ACTAGATGGTATTAATGCATTACATGA
127 ACTAGATGGTATTAATACATTACATGA
167302 TCACAAAAGA
Statistics
Matches: 131, Mismatches: 18, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
169 6 0.05
170 119 0.91
171 6 0.05
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (170 bp):
CACACATTCCTAATCATATCCCCTTCATCCAACCACTAAACGATATTGATGCATCACAAAGCAAG
ATTTCCTTGGGCAAAGGACATCCTGACCACACATTCTCAATCATATCCCTTTCTCTTAGCCACTA
GATGGTATTAATACATTACATGACCACGAAGGGTGTAGCC
Found at i:167758 original size:44 final size:44
Alignment explanation
Indices: 167724--168005 Score: 280
Period size: 44 Copynumber: 6.4 Consensus size: 44
167714 TTTTGCTTTG
* *
167724 GTCAAACTCCTTTCACTTTCATTTGACATGATGGTTCTACCATA
1 GTCAAACTCCTTTCACTTTCATTTGACATGATGGTTCTGCCCTA
* * * * *
167768 GTCAAACTCTTTTCACTTTCATTTGACGTAATGGTTCTACCCTG
1 GTCAAACTCCTTTCACTTTCATTTGACATGATGGTTCTGCCCTA
* * ** *
167812 GCCAAACTCTTTTCATCTTT-ATTTGATGTGACGGTTCTGCCCTA
1 GTCAAACTCCTTTCA-CTTTCATTTGACATGATGGTTCTGCCCTA
* * * *
167856 GTCAAACTCCTTTTATTTTCATTTGACTGTGATGGTTTTGCCCTA
1 GTCAAACTCCTTTCACTTTCATTTGAC-ATGATGGTTCTGCCCTA
* ** * * *
167901 GTCAAACTCC-TTCGCTTTTGTTTAACATGATGGTTCTGGCCTG
1 GTCAAACTCCTTTCACTTTCATTTGACATGATGGTTCTGCCCTA
* * * *
167944 GTCAAACTTCTTTCACTTTCATTTGACATGATAGTTCTATCCTTA
1 GTCAAACTCCTTTCACTTTCATTTGACATGATGGTTCT-GCCCTA
*
167989 GTCAAACTCTTTTCACT
1 GTCAAACTCCTTTCACT
168006 ATACTTGGTT
Statistics
Matches: 193, Mismatches: 40, Indels: 9
0.80 0.17 0.04
Matches are distributed among these distances:
43 25 0.13
44 122 0.63
45 46 0.24
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (44 bp):
GTCAAACTCCTTTCACTTTCATTTGACATGATGGTTCTGCCCTA
Found at i:168007 original size:24 final size:25
Alignment explanation
Indices: 167980--168026 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
167970 CATGATAGTT
*
167980 CTATCCTTAGTCAAAC-TCTTTTCA
1 CTATACTTAGTCAAACATCTTTTCA
* *
168004 CTATACTTGGTTAAACATCTTTT
1 CTATACTTAGTCAAACATCTTTT
168027 TATTCTAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (25 bp):
CTATACTTAGTCAAACATCTTTTCA
Found at i:168397 original size:85 final size:84
Alignment explanation
Indices: 168175--169181 Score: 769
Period size: 85 Copynumber: 11.9 Consensus size: 84
168165 AAGTATTACT
* * * * * * **
168175 TTTTATCCTTTGTTGACTTTTCAGTTCAATCCCAGTCAACCTTGTTATCCTTTGTTTACTTGTTG
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCGA-TCAACTTTCTTATCCTTTGTTTACCTATCA
** *
168240 GCTTAGTCCTCCGTAAAATCT
65 GCTTAGTCCTGAGT-AAATCC
* ** * * *
168261 TTTTATCCTTTGTTGACTGGTTGGTTTAATCCGAGTCAACCTTCTTATCCTTTATTTACCTATCA
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCGA-TCAACTTTCTTATCCTTTGTTTACCTATCA
**
168326 GCTTAGTCCTGCTTAAATCC
65 GCTTAGTCCTGAGTAAATCC
* * ** * * * * * *
168346 TTTTATCTTTTGTTAACTTGTTTGTTCAATCTCGATTAATTTTCTTATCCTTTATATACTTGTCA
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATC-CGATCAACTTTCTTATCCTTTGTTTACCTATCA
* *
168411 GTTTAGTCCTAAGTAAATCC
65 GCTTAGTCCTGAGTAAATCC
* * * * * *
168431 TTTTATCCTTTATTGACTTGTCAGTTCAATCCCAGTCAACCTTCTTATCCTTTGTTTACTTCTTA
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCGA-TCAACTTTCTTATCCTTTGTTTACCTATCA
* **
168496 ACTTAGTCCCAAGTAAATCC
65 GCTTAGTCCTGAGTAAATCC
* * * * * *
168516 TTTTATACTATGTTAACTTATCAGTTCAATCTTGGTCAACTTT-TGTATCCTTTGTTTACCTATC
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATC-CGATCAACTTTCT-TATCCTTTGTTTACCTATC
* * * *
168580 GGCTTA--ACTCGGGTAAATCT
64 AGCTTAGTCCT-GAGTAAATCC
* * *
168600 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCTTG-TCAACTTTTTTATCTTTTGTTTACCTATT
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCC--GATCAACTTTCTTATCCTTTGTTTACCTATC
* * * * * *
168664 GGCTCAATCC-CATGTAATTCT
64 AGCTTAGTCCTGA-GTAAATCC
* * * * *
168685 TTTTATCCTTTATTGACTTATCAGTTCAATCCTGATCAACTTTTTTATCCTTTATTTATC-AGT-
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCC-GATCAACTTTCTTATCCTTTGTTTACCTA-TC
* * *
168748 TGACTTAGCCCT-AGGTAAATTC
64 AG-CTTAGTCCTGA-GTAAATCC
* ** * * * * ** *
168770 TTTTATCATTTGTTGACTTGTTGGTTTAATCCCAGTTAACCTTCTTATTGTTTGTTTACCTGTCA
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCGA-TCAACTTTCTTATCCTTTGTTTACCTATCA
* *
168835 GCTTAGTCCTGGGTGAATCC
65 GCTTAGTCCTGAGTAAATCC
* ** * * * *
168855 TTTTATCTTTTGTAAACTTGAC-GATTCAATCCCAATCAACTTTCTTATCCTTTATTTACTTATC
1 TTTTATCCTTTGTTGACTTGTCAG-TTCAAT-CCGATCAACTTTCTTATCCTTTGTTTACCTATC
* *
168919 AGTTTAGTCCTAAGTAAATCC
64 AGCTTAGTCCTGAGTAAATCC
* * * ** * *
168940 TTTTATCCTTTGTTGACTTGTCCGTTCAATCCCATTCAACCTTCTTATAATTTCTTAACCTATCA
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCGA-TCAACTTTCTTATCCTTTGTTTACCTATCA
169005 GCTTAGTCC-GAGTAAATCC
65 GCTTAGTCCTGAGTAAATCC
* * * *
169024 TTTTATCCTTTGTTGACTTGTCAATTCAATCTTGATCAACCTTT-ATATCCTTTGTTTACCTTTC
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATC-CGATCAA-CTTTCTTATCCTTTGTTTACCTATC
* ** *
169088 GGCTTAGTCAAGGGTAAATCC
64 AGCTTAGTCCTGAGTAAATCC
* *
169109 TTTTATCCTTTGTTAACTTGTCAGTTCAATCCTGATCAACCTTT-TTATCCTTTGTTTACTTATC
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCC-GATCAA-CTTTCTTATCCTTTGTTTACCTATC
*
169173 AACTTAGTC
64 AGCTTAGTC
169182 TCGGGTAACC
Statistics
Matches: 731, Mismatches: 163, Indels: 55
0.77 0.17 0.06
Matches are distributed among these distances:
83 1 0.00
84 140 0.19
85 516 0.71
86 74 0.10
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (84 bp):
TTTTATCCTTTGTTGACTTGTCAGTTCAATCCGATCAACTTTCTTATCCTTTGTTTACCTATCAG
CTTAGTCCTGAGTAAATCC
Found at i:168438 original size:43 final size:41
Alignment explanation
Indices: 168390--168521 Score: 122
Period size: 43 Copynumber: 3.1 Consensus size: 41
168380 ATTAATTTTC
168390 TTATCCTTTATATACTTGTCAGTTTAGTCCTAAGTAAATCCTT
1 TTATCCTTTAT-TACTTGTCAGTTTAGTCC-AAGTAAATCCTT
* * * *
168433 TTATCCTTTATTGACTTGTCAGTTCAATCCCAGTCAA-CCTT
1 TTATCCTTTATT-ACTTGTCAGTTTAGTCCAAGTAAATCCTT
* * * **
168474 CTTATCCTTTGTTTACTTCTTAACTTAGTCCCAAGTAAATCCTT
1 -TTATCCTTT-ATTACTTGTCAGTTTAGT-CCAAGTAAATCCTT
168518 TTAT
1 TTAT
168522 ACTATGTTAA
Statistics
Matches: 71, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
41 4 0.06
42 24 0.34
43 39 0.55
44 4 0.06
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.45
Consensus pattern (41 bp):
TTATCCTTTATTACTTGTCAGTTTAGTCCAAGTAAATCCTT
Found at i:168645 original size:42 final size:42
Alignment explanation
Indices: 168174--168737 Score: 175
Period size: 42 Copynumber: 13.3 Consensus size: 42
168164 CAAGTATTAC
* * *
168174 TTTTTATCCTTTGTTGACTTTTCAGTTCAATCCCAGTCAACC
1 TTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTAGTCAACT
* * ** * * * *
168216 TTGTTATCCTTTGTTTACTTGTTGGCTT-AGTCCTCCGTAAAAT
1 TTTTTATCCTTTGTTGACTTGTCAG-TTCAATCCT-AGTCAACT
* ** * * *
168259 CTTTTTATCCTTTGTTGACTGGTTGGTTTAATCCGAGTCAACC
1 -TTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTAGTCAACT
* * * * * * * *
168302 TTCTTATCCTTTATTTACCTATCAGCTT-AGTCCT-GCTTAAAT
1 TTTTTATCCTTTGTTGACTTGTCAG-TTCAATCCTAG-TCAACT
* * * ** * *
168344 CCTTTTATCTTTTGTTAACTTGTTTGTTCAAT-CTCGATTAA-T
1 -TTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTAG-TCAACT
* * * *
168386 TTTCTTATCCTTTATAT-ACTTGTCAGTTTAGTCCTAAGT-AAAT
1 TTT-TTATCCTTTGT-TGACTTGTCAGTTCAATCCT-AGTCAACT
* * * *
168429 CCTTTTATCCTTTATTGACTTGTCAGTTCAATCCCAGTCAACC
1 -TTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTAGTCAACT
* * * * * * * *
168472 TTCTTATCCTTTGTTTACTTCTTAACTT-AGTCCCAAGT-AAAT
1 TTTTTATCCTTTGTTGACTT-GTCAGTTCAAT-CCTAGTCAACT
* * * * * * *
168514 CCTTTTATACTATGTTAACTTATCAGTTCAATCTTGGTCAACT
1 -TTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTAGTCAACT
* * * * * ** *
168557 TTTGTATCCTTTGTTTACCTATCGGCTT-AA-CTCGGGT-AAAT
1 TTTTTATCCTTTGTTGACTTGTCAG-TTCAATC-CTAGTCAACT
*
168598 CTTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTTGTCAACT
1 -TTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTAGTCAACT
* * * * ** * * *
168641 TTTTTATCTTTTGTTTACCTATTGGCTCAATCCCATGT-AATT
1 TTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTA-GTCAACT
* *
168683 CTTTTTATCCTTTATTGACTTATCAGTTCAATCCT-GATCAACT
1 -TTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTAG-TCAACT
168726 TTTTTATCCTTT
1 TTTTTATCCTTT
168738 ATTTATCAGT
Statistics
Matches: 371, Mismatches: 119, Indels: 64
0.67 0.21 0.12
Matches are distributed among these distances:
41 10 0.03
42 196 0.53
43 136 0.37
44 29 0.08
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (42 bp):
TTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTAGTCAACT
Found at i:169046 original size:424 final size:423
Alignment explanation
Indices: 168175--169179 Score: 1078
Period size: 424 Copynumber: 2.4 Consensus size: 423
168165 AAGTATTACT
* ** * *
168175 TTTTATCCTTTGTTGACTTTTCAGTTCAATCCCAGTCAACCTTGTTATCCTTTGTTTACTTGTTG
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCTTGTCAACCTTTTTATCCTTTGTTTACCT-TTG
* ** *
168240 GCTTAGTCCTC-CGTAAAATCTTTTTATCCTTTGTTGACTGGTTGGTTTAATCC-GAGTCAACCT
65 GCTTAGTCC-CACGT-AAATCTTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGA-TCAACCT
* * * *
168303 TCTTATCCTTTATTTACCTATCAGCTTAGTCCTGCTTAAATCCTTTTATCTTTTGTTAACTTGTT
127 TTTTATCCTTTATTTACCTATCAGCTTAGCCCTGCGTAAATCCTTTTATCATTTGTTAACTTGTT
* * ** * *
168368 TGTTCAATCTCGATTAATTTTCTTATCCTTTATATACTTGTCAGTTTAGTCCTAAGTAAATCCTT
192 GGTTCAATCCCGATTAACCTTCTTATCCTTTATATACCTGTCAGCTTAGTCCTAAGTAAATCCTT
** * * * * *
168433 TTATCCTTTATTGACTTGTCAGTTCAATCCCAGTCAACCTTCTTATCCTTTGTTTACTTCTTAAC
257 TTATCCTTTATAAACTTGACAGTTCAATCCCAATCAACCTTCTTATCCTTTATTTACTTATCAAC
*** *
168498 TTAGTCCCAAGTAAATCCTTTTATACTATGTTAACTTATCAGTTCAATCTTGGTCAACTTTTGTA
322 TTAGTCCCAAGTAAATCCTTTTATACTATGTTAACTTATCAGTTCAATCCCAGTCAACTTCTGTA
** * * * * *
168563 TCCTTTGTTTACCTATCGGCTTAACTCGGGTAAATCT
387 TAATTTCTTAACCTATCAGCTTAACTCGAGTAAATCC
* *
168600 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCTTGTCAACTTTTTTATCTTTTGTTTACCTATTG
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCTTGTCAACCTTTTTATCCTTTGTTTACCT-TTG
* * * * * * *
168665 GCTCAATCCCATGTAATTCTTTTTATCCTTTATTGACTTATCAGTTCAATCCTGATCAACTTTTT
65 GCTTAGTCCCACGTAAATCTTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGATCAACCTTTT
* * * *
168730 TATCCTTTATTTATC-AGT-TGACTTAGCCCTAG-GTAAATTCTTTTATCATTTGTTGACTTGTT
130 TATCCTTTATTTACCTA-TCAG-CTTAGCCCT-GCGTAAATCCTTTTATCATTTGTTAACTTGTT
* ** * * ** *
168792 GGTTTAATCCC-AGTTAACCTTCTTATTGTTTGTTTACCTGTCAGCTTAGTCCTGGGTGAATCCT
192 GGTTCAATCCCGA-TTAACCTTCTTATCCTTTATATACCTGTCAGCTTAGTCCTAAGTAAATCCT
* * *
168856 TTTATCTTTTGTAAACTTGAC-GATTCAATCCCAATCAACTTTCTTATCCTTTATTTACTTATCA
256 TTTATCCTTTATAAACTTGACAG-TTCAATCCCAATCAACCTTCTTATCCTTTATTTACTTATCA
** * * * * * * *
168920 GTTTAGTCCTAAGTAAATCCTTTTATCCTTTGTTGACTTGTCCGTTCAATCCCATTCAACCTTCT
320 ACTTAGTCCCAAGTAAATCCTTTTATACTATGTTAACTTATCAGTTCAATCCCAGTCAA-CTTCT
*
168985 -TATAATTTCTTAACCTATCAGCTT-AGTCCGAGTAAATCC
384 GTATAATTTCTTAACCTATCAGCTTAACT-CGAGTAAATCC
* *
169024 TTTTATCCTTTGTTGACTTGTCAATTCAAT-CTTGATCAACCTTTATATCCTTTGTTTACCTTTC
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCTTG-TCAACCTTTTTATCCTTTGTTTACCTTT-
* * * *
169088 GGCTTAGT-CAAGGGTAAATCCTTTTATCCTTTGTTAACTTGTCAGTTCAATCCTGATCAACCTT
64 GGCTTAGTCCCA-CGTAAATCTTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGATCAACCTT
* * *
169152 TTTATCCTTTGTTTACTTATCAACTTAG
128 TTTATCCTTTATTTACCTATCAGCTTAG
169180 TCTCGGGTAA
Statistics
Matches: 475, Mismatches: 91, Indels: 29
0.80 0.15 0.05
Matches are distributed among these distances:
423 14 0.03
424 387 0.81
425 74 0.16
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.46
Consensus pattern (423 bp):
TTTTATCCTTTGTTGACTTGTCAGTTCAATCCTTGTCAACCTTTTTATCCTTTGTTTACCTTTGG
CTTAGTCCCACGTAAATCTTTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGATCAACCTTTTT
ATCCTTTATTTACCTATCAGCTTAGCCCTGCGTAAATCCTTTTATCATTTGTTAACTTGTTGGTT
CAATCCCGATTAACCTTCTTATCCTTTATATACCTGTCAGCTTAGTCCTAAGTAAATCCTTTTAT
CCTTTATAAACTTGACAGTTCAATCCCAATCAACCTTCTTATCCTTTATTTACTTATCAACTTAG
TCCCAAGTAAATCCTTTTATACTATGTTAACTTATCAGTTCAATCCCAGTCAACTTCTGTATAAT
TTCTTAACCTATCAGCTTAACTCGAGTAAATCC
Found at i:169106 original size:339 final size:337
Alignment explanation
Indices: 168190--169181 Score: 944
Period size: 339 Copynumber: 2.9 Consensus size: 337
168180 TCCTTTGTTG
* * * * **
168190 ACTTTTCAGTTCAATCCCAGTCAACCTTGTTATCCTTTGTTTACTTGTTGGCTTAGTCCTCCGTA
1 ACTTATCAGTTCAATCCCAGTCAA-CTTTTTATCCTTTGTTTACTTATCGGCTTAGTCCTAAGT-
* ** * * * *
168255 AAATCTTTTTATCCTTTGTTGACTGGTTGGTTTAATCCGAGTCAACCTTCTTATCCTTTATTTAC
64 AAATCTTTTTATCCTTTGTTGACTTGTCAGTTCAATCCCATTCAACCTTCTTATCATTTATTTAC
** * * ** * *
168320 CTATCAGCTTAGTCCTGCTTAAATCCTTTTATCTTTTGTTAACTTGTTTGTTCAATCTCGATTAA
129 CTATCAGCTTAGTCC-GAGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTTGATCAA
* * * *
168385 -TTTTCTTATCCTTTATATA-CTTGTCAGTTTAGTCCTAA-GTAAATCCTTTTATCCTTTATTGA
193 CTTTT-TTATCCTTTATTTACCTT-TCGGCTTAGT-C-AAGGTAAATCCTTTTATCCTTTGTTGA
* *
168447 CTTGTCAGTTCAATCCCAGTCAACCTTCTTATCCTTTGTTTACTTCTTAACTTAGTCCCAAGTAA
254 CTTGTCAGTTCAATCCCAGTCAACCTTCTTATCCTTTGTTTACCTCTCAACTTAGTCCCAAGTAA
*
168512 ATCCTTTTATACTATGTTA
319 ATCCTTTTATACTATGTAA
*** * * **
168531 ACTTATCAGTTCAATCTTGGTCAACTTTTGTATCCTTTGTTTACCTATCGGCTTA--ACTCGGGT
1 ACTTATCAGTTCAATCCCAGTCAACTTTT-TATCCTTTGTTTACTTATCGGCTTAGTCCT-AAGT
* * * * *
168594 AAATCTTTTTATCCTTTGTTGACTTGTCAGTTCAAT-CCTTGTCAACTTTTTTATCTTTTGTTTA
64 AAATCTTTTTATCCTTTGTTGACTTGTCAGTTCAATCCCAT-TCAACCTTCTTATCATTTATTTA
** * * * * * * * *
168658 CCTATTGGCTCAATCCCATGTAATTCTTTTTATCCTTTATTGACTTATCAGTTCAATCCTGATCA
128 CCTATCAGCTTAGTCCGA-GTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTTGATCA
** * * * * *
168723 ACTTTTTTATCCTTTATTTATCAGTT-GACTTAGCCCTAGGTAAATTCTTTTATCATTTGTTGAC
192 ACTTTTTTATCCTTTATTTA-CCTTTCGGCTTAG-TCAAGGTAAATCCTTTTATCCTTTGTTGAC
** * * ** * * *** *
168787 TTGTTGGTTTAATCCCAGTTAACCTTCTTATTGTTTGTTTACCTGTCAGCTTAGTCCTGGGTGAA
255 TTGTCAGTTCAATCCCAGTCAACCTTCTTATCCTTTGTTTACCTCTCAACTTAGTCCCAAGTAAA
*
168852 TCCTTTTAT-CTTTTGTAA
320 TCCTTTTATAC-TATGTAA
* * * *
168870 ACTTGA-C-GATTCAATCCCAATCAACTTTCTTATCCTTTATTTACTTATCAGTTTAGTCCTAAG
1 ACTT-ATCAG-TTCAATCCCAGTCAACTTT-TTATCCTTTGTTTACTTATCGGCTTAGTCCTAAG
* * * * *
168933 TAAATCCTTTTATCCTTTGTTGACTTGTCCGTTCAATCCCATTCAACCTTCTTATAATTTCTTAA
63 TAAATCTTTTTATCCTTTGTTGACTTGTCAGTTCAATCCCATTCAACCTTCTTATCATTTATTTA
*
168998 CCTATCAGCTTAGTCCGAGTAAATCCTTTTATCCTTTGTTGACTTGTCAATTCAATCTTGATCAA
128 CCTATCAGCTTAGTCCGAGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTTGATCAA
* * * *
169063 CCTTTATATCCTTTGTTTACCTTTCGGCTTAGTCAAGGGTAAATCCTTTTATCCTTTGTTAACTT
193 CTTTTTTATCCTTTATTTACCTTTCGGCTTAGTCAA-GGTAAATCCTTTTATCCTTTGTTGACTT
* * * *
169128 GTCAGTTCAAT-CCTGATCAACCTTTTTATCCTTTGTTTACTTATCAACTTAGTC
257 GTCAGTTCAATCCCAG-TCAACCTTCTTATCCTTTGTTTACCTCTCAACTTAGTC
169182 TCGGGTAACC
Statistics
Matches: 512, Mismatches: 120, Indels: 40
0.76 0.18 0.06
Matches are distributed among these distances:
338 12 0.02
339 373 0.73
340 79 0.15
341 48 0.09
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (337 bp):
ACTTATCAGTTCAATCCCAGTCAACTTTTTATCCTTTGTTTACTTATCGGCTTAGTCCTAAGTAA
ATCTTTTTATCCTTTGTTGACTTGTCAGTTCAATCCCATTCAACCTTCTTATCATTTATTTACCT
ATCAGCTTAGTCCGAGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTTGATCAACTT
TTTTATCCTTTATTTACCTTTCGGCTTAGTCAAGGTAAATCCTTTTATCCTTTGTTGACTTGTCA
GTTCAATCCCAGTCAACCTTCTTATCCTTTGTTTACCTCTCAACTTAGTCCCAAGTAAATCCTTT
TATACTATGTAA
Found at i:170744 original size:20 final size:20
Alignment explanation
Indices: 170719--170772 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
170709 CTACCACTGT
*
170719 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
170739 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
170759 TTGTATCGATACAT
1 TTGTATCGATACAT
170773 TGTTTCTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:173410 original size:20 final size:21
Alignment explanation
Indices: 173385--173425 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
173375 ATCACATTTT
173385 TTTCTA-AATGTATCGATACA
1 TTTCTAGAATGTATCGATACA
173405 TTTCTAGAATGTATCGATACA
1 TTTCTAGAATGTATCGATACA
173426 AGGTCCCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (21 bp):
TTTCTAGAATGTATCGATACA
Found at i:173481 original size:13 final size:13
Alignment explanation
Indices: 173463--173487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
173453 TTCAACAATT
173463 TGTATCGATACAA
1 TGTATCGATACAA
173476 TGTATCGATACA
1 TGTATCGATACA
173488 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:177034 original size:343 final size:343
Alignment explanation
Indices: 176397--177042 Score: 1105
Period size: 343 Copynumber: 1.9 Consensus size: 343
176387 ACCTCTTTGT
*
176397 GCGTAACCAACTCCTGAACCTAACCAGCGAACCTCTAAAGTATGCAGACCACGGGATCAATGTTT
1 GCGTAACCAACTCCTGAACCCAACCAGCGAACCTCTAAAGTATGCAGACCACGGGATCAATGTTT
*
176462 TGAGTTTCGTAACTCAACACATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCG
66 TGAGTTTCGTAACTCAACACATAGGTTTCAATAGGCATCCGATCATGCCTAACCCGAAATGATCG
* * * * *
176527 ATGGCGATTTCAAAATTTCGGTCACTTCGTAGTGACCATTGAAGATTAATTAGATGGGCGATTCA
131 ATGGCGACTCCAAAATTTCGGTCACTTCGTAATGACCATTGAAGATCAATTAGATGGACGATTCA
176592 TCTACCGATCTTCCCCCTTTAATCAACATACTTCCCATCATGCCATAGAAATCCCCAATCGCGAG
196 TCTACCGATCTTCCCCCTTTAATCAACATACTTCCCATCATGCCATAGAAATCCCCAATCGCGAG
* * *
176657 GGATATTAAGTCAAGCGCGCCTTATTTGCCCTATCGTCGGGGTCGAGCGCACGTTACGACAGCAC
261 GGATATGAAGTCAAGCGCGCCTCATTTGCCCTATCGCCGGGGTCGAGCGCACGTTACGACAGCAC
176722 TGCCTCGGAGTAGTTTCC
326 TGCCTCGGAGTAGTTTCC
* *
176740 GCGTAACCAACT-CTCGAACCCAACCGGCGAACCTCTAAAGTATGCAGACCACGGGATCGATGTT
1 GCGTAACCAACTCCT-GAACCCAACCAGCGAACCTCTAAAGTATGCAGACCACGGGATCAATGTT
*
176804 TTGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATCATGCCTAACCCGAAATGATC
65 TTGAGTTTCGTAACTCAACACATAGGTTTCAATAGGCATCCGATCATGCCTAACCCGAAATGATC
*
176869 GGTGGCGACTCCAAAATTTCGGTCACTTCGTAATGACCATTGAAGATCAATTAGATGGACGATTC
130 GATGGCGACTCCAAAATTTCGGTCACTTCGTAATGACCATTGAAGATCAATTAGATGGACGATTC
* *
176934 ATCTACCGATCTTCCCCTTTTAATCAACATACTTCCCATCATGCCTTAGAAATCCCCAATCGCGA
195 ATCTACCGATCTTCCCCCTTTAATCAACATACTTCCCATCATGCCATAGAAATCCCCAATCGCGA
* * *
176999 GGGATATGAAGTCGAGCGTGCCTCATTTTCCCTATCGCCGGGGT
260 GGGATATGAAGTCAAGCGCGCCTCATTTGCCCTATCGCCGGGGT
177043 AGTTTGGGAC
Statistics
Matches: 283, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
342 2 0.01
343 281 0.99
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (343 bp):
GCGTAACCAACTCCTGAACCCAACCAGCGAACCTCTAAAGTATGCAGACCACGGGATCAATGTTT
TGAGTTTCGTAACTCAACACATAGGTTTCAATAGGCATCCGATCATGCCTAACCCGAAATGATCG
ATGGCGACTCCAAAATTTCGGTCACTTCGTAATGACCATTGAAGATCAATTAGATGGACGATTCA
TCTACCGATCTTCCCCCTTTAATCAACATACTTCCCATCATGCCATAGAAATCCCCAATCGCGAG
GGATATGAAGTCAAGCGCGCCTCATTTGCCCTATCGCCGGGGTCGAGCGCACGTTACGACAGCAC
TGCCTCGGAGTAGTTTCC
Found at i:178520 original size:21 final size:18
Alignment explanation
Indices: 178474--178526 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 18
178464 TAGCAATACA
178474 TTGTATCGATACGATACTT
1 TTGTATCGATAC-ATACTT
*
178493 ATGTATCGATACATTTACTGT
1 TTGTATCGATACA--TACT-T
178514 TTGTATCGATACA
1 TTGTATCGATACA
178527 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 1 0.03
19 11 0.38
20 4 0.14
21 13 0.45
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (18 bp):
TTGTATCGATACATACTT
Found at i:179256 original size:13 final size:13
Alignment explanation
Indices: 179238--179263 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
179228 TACACAAAGT
179238 ATGTATCGATACA
1 ATGTATCGATACA
179251 ATGTATCGATACA
1 ATGTATCGATACA
179264 CAAAAAAAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:183993 original size:13 final size:13
Alignment explanation
Indices: 183975--183999 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
183965 CATTTTTCTT
183975 TGTATCGATACAC
1 TGTATCGATACAC
183988 TGTATCGATACA
1 TGTATCGATACA
184000 GGGGGGTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:184154 original size:20 final size:20
Alignment explanation
Indices: 184111--184156 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
184101 AAATCTTTTG
184111 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
184132 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
184152 CAAAA
1 CAAAA
184157 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Done.