Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 66 of 373
Found at i:19940350 original size:42 final size:43
Alignment explanation
Indices: 19940233--19940384 Score: 123
Period size: 43 Copynumber: 3.5 Consensus size: 43
19940223 TAGGATTTCG
* ** * * *
19940233 ATATGTGATTTCGTGTAAGACCACATTTGGGAC-GTTGGCATCG
1 ATATTTGATTTCGTGTAAGACCATGTCTGGGACAG-TGACATCA
* * *
19940276 AT-TTGAGATTTACGTGTACGACCATGTTTGGGACA-TCGACATC-
1 ATATT-TGATTT-CGTGTAAGACCATGTCTGGGACAGT-GACATCA
* *
19940319 ATATTTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCA
1 ATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGACATCA
* *
19940362 ATATTTGATTACATGTAAGACCA
1 ATATTTGATTTCGTGTAAGACCA
19940385 CGTTTGAGAT
Statistics
Matches: 88, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
42 26 0.30
43 36 0.41
44 26 0.30
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
ATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGACATCA
Found at i:19946040 original size:47 final size:47
Alignment explanation
Indices: 19945989--19946211 Score: 322
Period size: 47 Copynumber: 4.7 Consensus size: 47
19945979 TTAGGATTCT
* * *
19945989 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
19946036 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
19946083 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
19946130 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
19946177 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
19946212 TCCCGAAGGG
Statistics
Matches: 160, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
46 1 0.01
47 159 0.99
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:19946385 original size:37 final size:37
Alignment explanation
Indices: 19946329--19946407 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
19946319 TCCAGCTCTA
* * *
19946329 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
19946366 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
19946403 AAGAC
1 AAGAC
19946408 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:19955412 original size:20 final size:20
Alignment explanation
Indices: 19955389--19955428 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19955379 TTTATTAATT
19955389 TTTAATAACTTTTTAAAATG
1 TTTAATAACTTTTTAAAATG
* * *
19955409 TTTATTTATTTTTTAAAATG
1 TTTAATAACTTTTTAAAATG
19955429 CTACTATGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTAATAACTTTTTAAAATG
Found at i:19957674 original size:48 final size:48
Alignment explanation
Indices: 19957603--19957730 Score: 143
Period size: 48 Copynumber: 2.7 Consensus size: 48
19957593 AGCTCCCGTA
* * * *
19957603 TAAGACCATATCTGGGATATGGCTTCGGCAGT-GACATGTGATCCCATG
1 TAAGACCATGTTTGGGACATGGCTTCGGCA-TCGACATGTGATCCCACG
* * **
19957651 TAAGACCATGTTTGGGACATGGCTTTGTCATCGTTATGTGATCCCACG
1 TAAGACCATGTTTGGGACATGGCTTCGGCATCGACATGTGATCCCACG
*
19957699 TAAGACCATGTTCGGGACATGGCATT-GGCATC
1 TAAGACCATGTTTGGGACATGGC-TTCGGCATC
19957731 ATAATGGGAC
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 1 0.01
48 65 0.96
49 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (48 bp):
TAAGACCATGTTTGGGACATGGCTTCGGCATCGACATGTGATCCCACG
Found at i:19957854 original size:48 final size:48
Alignment explanation
Indices: 19957638--19957869 Score: 156
Period size: 48 Copynumber: 4.9 Consensus size: 48
19957628 CGGCAGTGAC
* * * * *
19957638 ATGTGATCCCATGTAAGACCATGTTTGGGACATGGCTTTGTCATCGTT
1 ATGTGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCATT
* * * * *
19957686 ATGTGATCCCACGTAAGACCATGTTCGGGACATGGCATTGGCATCATA
1 ATGTGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCATT
* * * * *** * *
19957734 ATG-GGACATCGTATAAGACCATAACTGGG-C-T---ATCGGCTTCGA-T
1 ATGTGGTC-CCATGTAAGACCATGTTTGGGACATGACATTGGCATC-ATT
* *
19957777 ATGTGTGATCCCATGTAAAACCGTGTTTGGGACATGACATTGGCATCATT
1 ATGTG-G-TCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCATT
* *
19957827 ATGTGGTCTCATGTAAGACCATATTT-GGACTATGACATTGGCA
1 ATGTGGTCCCATGTAAGACCATGTTTGGGAC-ATGACATTGGCA
19957870 CTCTACCTTG
Statistics
Matches: 138, Mismatches: 34, Indels: 24
0.70 0.17 0.12
Matches are distributed among these distances:
43 10 0.07
44 2 0.01
45 14 0.10
46 3 0.02
47 8 0.06
48 86 0.62
49 2 0.01
50 13 0.09
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (48 bp):
ATGTGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCATT
Found at i:19957866 original size:141 final size:144
Alignment explanation
Indices: 19957599--19957869 Score: 345
Period size: 141 Copynumber: 1.9 Consensus size: 144
19957589 GATGAGCTCC
* *
19957599 CGTATAAGACCATATCTGGGATATGGCTTCGGCAGTGACATGTGATCCCATGTAAGACCATGTTT
1 CGTATAAGACCATAACTGGGATATGGCTTCGGCAGTGACATGTGATCCCATGTAAAACCATGTTT
* * * * * *
19957664 GGGACATGGCTTTGTCATCGTTATGTGATCCCACGTAAGACCATGTTCGGGACATGGCATTGGCA
66 GGGACATGACATTGGCATCATTATGTGATCCCACGTAAGACCATATTCGGGACATGACATTGGCA
19957729 TCATAATGGGACAT
131 TCATAATGGGACAT
* ** *
19957743 CGTATAAGACCATAACTGGGCTATCGGCTTC-G-A-T-ATGTGTGATCCCATGTAAAACCGTGTT
1 CGTATAAGACCATAACTGGGATAT-GGCTTCGGCAGTGACATGTGATCCCATGTAAAACCATGTT
* * * *
19957804 TGGGACATGACATTGGCATCATTATGTGGTCTCATGTAAGACCATATT-TGGACTATGACATTGG
65 TGGGACATGACATTGGCATCATTATGTGATCCCACGTAAGACCATATTCGGGAC-ATGACATTGG
19957868 CA
129 CA
19957870 CTCTACCTTG
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
140 4 0.04
141 74 0.68
142 1 0.01
143 1 0.01
144 23 0.21
145 6 0.06
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (144 bp):
CGTATAAGACCATAACTGGGATATGGCTTCGGCAGTGACATGTGATCCCATGTAAAACCATGTTT
GGGACATGACATTGGCATCATTATGTGATCCCACGTAAGACCATATTCGGGACATGACATTGGCA
TCATAATGGGACAT
Found at i:19965417 original size:48 final size:48
Alignment explanation
Indices: 19965361--19965474 Score: 167
Period size: 48 Copynumber: 2.4 Consensus size: 48
19965351 AGCTCCTGTA
* *
19965361 TAAGACCATATCTAGGATATGGCTTTGGCAGT-GACATGTGATCCCATG
1 TAAGACCATGTCTGGGATATGGCTTTGGCA-TCGACATGTGATCCCATG
* **
19965409 TAAGACCATGTCTGGGACATGGCTTTGGCATCGTTATGTGATCCCATG
1 TAAGACCATGTCTGGGATATGGCTTTGGCATCGACATGTGATCCCATG
19965457 TAAGACCATGTCTGGGAT
1 TAAGACCATGTCTGGGAT
19965475 GTCGAAACTA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 1 0.02
48 58 0.98
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (48 bp):
TAAGACCATGTCTGGGATATGGCTTTGGCATCGACATGTGATCCCATG
Found at i:19966194 original size:13 final size:15
Alignment explanation
Indices: 19966160--19966193 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
19966150 ATGTCATGCA
19966160 AATAAACATAGAAAAT
1 AATAAACATA-AAAAT
19966176 AATAAACATAAAATAT
1 AATAAACATAAAA-AT
19966192 AA
1 AA
19966194 AATTACATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (15 bp):
AATAAACATAAAAAT
Found at i:19966702 original size:7 final size:7
Alignment explanation
Indices: 19966685--19966820 Score: 74
Period size: 8 Copynumber: 18.6 Consensus size: 7
19966675 AAAATTATAC
19966685 ATAAA-A
1 ATAAATA
19966691 ATAAATA
1 ATAAATA
19966698 ATAAATA
1 ATAAATA
19966705 ATAAAATA
1 AT-AAATA
19966713 ATATAATGA
1 ATA-AAT-A
19966722 ATAATATA
1 ATAA-ATA
19966730 TATAATTATA
1 -ATAA--ATA
19966740 ATATAATA
1 ATA-AATA
19966748 TATAAAT-
1 -ATAAATA
19966755 A-AAAT-
1 ATAAATA
19966760 ATATAATA
1 ATA-AATA
19966768 A-AATATA
1 ATAA-ATA
19966775 ATAAAT-
1 ATAAATA
19966781 AT-AATA
1 ATAAATA
19966787 A-ATAATA
1 ATA-AATA
19966794 CATAAATA
1 -ATAAATA
19966802 A-AAATA
1 ATAAATA
19966808 ATATATATA
1 ATA-A-ATA
19966817 ATAA
1 ATAA
19966821 TTTTTTTACA
Statistics
Matches: 108, Mismatches: 0, Indels: 42
0.72 0.00 0.28
Matches are distributed among these distances:
5 8 0.07
6 17 0.16
7 27 0.25
8 28 0.26
9 23 0.21
10 5 0.05
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (7 bp):
ATAAATA
Found at i:19966724 original size:12 final size:11
Alignment explanation
Indices: 19966694--19966821 Score: 93
Period size: 10 Copynumber: 12.5 Consensus size: 11
19966684 CATAAAAATA
19966694 AATAATA-AAT
1 AATAATATAAT
*
19966704 AATAAAATAAT
1 AATAATATAAT
*
19966715 -ATAAT-GAAT
1 AATAATATAAT
19966724 AATATATATAAT
1 AATA-ATATAAT
*
19966736 TATAATATAAT
1 AATAATATAAT
19966747 -AT-ATA-AAT
1 AATAATATAAT
19966755 AA-AATAT-AT
1 AATAATATAAT
*
19966764 AATAAAAT-AT
1 AATAATATAAT
19966774 AATAA-AT-AT
1 AATAATATAAT
19966783 AATAA-ATAAT
1 AATAATATAAT
*
19966793 ACATAA-ATAAA
1 A-ATAATATAAT
19966804 AATAATATATAT
1 AATAATATA-AT
19966816 AATAAT
1 AATAAT
19966822 TTTTTTACAT
Statistics
Matches: 98, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
8 3 0.03
9 25 0.26
10 33 0.34
11 24 0.24
12 13 0.13
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.34
Consensus pattern (11 bp):
AATAATATAAT
Found at i:19966742 original size:35 final size:35
Alignment explanation
Indices: 19966680--19966820 Score: 113
Period size: 35 Copynumber: 4.2 Consensus size: 35
19966670 TTTTTAAAAT
*
19966680 TATACATAAA-AATA-A-ATAATAAATAATAAAATAA
1 TATA-ATAAATAATATATATAATTAA-AATAAAATAA
* *
19966714 TATAATGAATAATATATATAATT---ATAATATAA
1 TATAATAAATAATATATATAATTAAAATAAAATAA
* *
19966746 TAT-ATAAATAAAATATATAA-TAAAATATAATAAA
1 TATAATAAATAATATATATAATTAAAATAAAAT-AA
* * *
19966780 TATAATAAATAATACATA-AATAAAAATAATAT-A
1 TATAATAAATAATATATATAATTAAAATAAAATAA
19966813 TATAATAA
1 TATAATAA
19966821 TTTTTTTACA
Statistics
Matches: 86, Mismatches: 12, Indels: 19
0.74 0.10 0.16
Matches are distributed among these distances:
30 1 0.01
31 15 0.17
32 11 0.13
33 18 0.21
34 15 0.17
35 21 0.24
36 5 0.06
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (35 bp):
TATAATAAATAATATATATAATTAAAATAAAATAA
Found at i:19966785 original size:50 final size:52
Alignment explanation
Indices: 19966680--19966820 Score: 136
Period size: 52 Copynumber: 2.8 Consensus size: 52
19966670 TTTTTAAAAT
* *
19966680 TATACATAAA-AATA-AATA-ATAAATAATAA-A-ATAATATAATGAATAATATA
1 TATA-ATAAATAATATAATATATAAATAA-AATATATAATAAAAT-AATAATAAA
*
19966730 TATAAT-TATAATATAATATATAAATAAAATATATAATAAAAT-ATAATAAA
1 TATAATAAATAATATAATATATAAATAAAATATATAATAAAATAATAATAAA
* *
19966780 TATAATAAATAATACATAA-ATAAAAATAATATATATAATAA
1 TATAATAAATAAT--ATAATATATAAATAAAATATATAATAA
19966821 TTTTTTTACA
Statistics
Matches: 77, Mismatches: 6, Indels: 14
0.79 0.06 0.14
Matches are distributed among these distances:
48 1 0.01
49 6 0.08
50 23 0.30
51 14 0.18
52 29 0.38
53 4 0.05
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (52 bp):
TATAATAAATAATATAATATATAAATAAAATATATAATAAAATAATAATAAA
Found at i:19966887 original size:29 final size:29
Alignment explanation
Indices: 19966854--19966910 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
19966844 TTTATAGTAA
*
19966854 AAATAAATAATATATAAAATATTTAAAAT
1 AAATAAATAATATATAAAAAATTTAAAAT
* *
19966883 AAATAAGTTATATATAAAAAATTTAAAA
1 AAATAAATAATATATAAAAAATTTAAAA
19966911 AGGATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (29 bp):
AAATAAATAATATATAAAAAATTTAAAAT
Found at i:19967106 original size:30 final size:30
Alignment explanation
Indices: 19967072--19967129 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19967062 ATAATGGCCA
* *
19967072 TTAGGACTAAATTGAAACAAAAATAAAAGG
1 TTAGGACCAAATTAAAACAAAAATAAAAGG
* *
19967102 TTAGGGCCAAATTAAAATAAAAATAAAA
1 TTAGGACCAAATTAAAACAAAAATAAAA
19967130 TGAAATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (30 bp):
TTAGGACCAAATTAAAACAAAAATAAAAGG
Found at i:19968540 original size:45 final size:45
Alignment explanation
Indices: 19968485--19969108 Score: 227
Period size: 45 Copynumber: 14.0 Consensus size: 45
19968475 CCATGCTGAA
* *
19968485 ATCTTTGATCTGCTCCCCGCCTAATACAGAGACACCAAATCTGTC
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
* * * * * * *
19968530 ATCTTCGATCTGCT--TCGATGTAA-ACACACAAATGTCAGATCTG-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGAGACA--CCAAATCTGTC
**
19968574 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
* ** * * ** * *
19968620 ATCTTCGATCTACT--TTGATGTAA-ACACACGA-ATGTTAGATCT-AC
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-GACA--CCAAATCTGTC
*
19968664 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
* * * *
19968710 ATCTTCGATCTGCT--TCGATGTAA-ACACACGA-ATGCCAGATCTG-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-GACA--CCAAATCTGTC
* *
19968754 TATCTTCGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
* * * * *
19968800 ATCTTCGATCTGCT--TCGATGTAA-ACACACGA-ATGTCAGATCTG-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-GACA--CCAAATCTGTC
**
19968844 TATCTTCGATCTGCTCCCCGTCTAATGTAGAGACACCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
* * * * * *
19968890 ATCTTCGATCTACT--TCGATGTAA-ACACACGA-ATGTCAGATCTG-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-GACA--CCAAATCTGTC
* ** *
19968934 TATCTTCAATCTGCTCCCCGTCTAAT--AGAGATGCCAAATCTATC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
* * * * *
19968978 ATCTTCGATCTGCT--TCGATGTAA-ACACACGA-ATGTCAGATCTG-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-GACA--CCAAATCTGTC
* *
19969022 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG--
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
* * ** **
19969066 ATTCTTCGATTTGTTCCTTGTC-AATACAGAGATGCCAAATCTG
1 A-TCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTG
19969109 CTATCGGTGA
Statistics
Matches: 419, Mismatches: 100, Indels: 122
0.65 0.16 0.19
Matches are distributed among these distances:
41 2 0.00
42 4 0.01
43 71 0.17
44 53 0.13
45 223 0.53
46 36 0.09
47 30 0.07
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (45 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
Found at i:19968599 original size:90 final size:90
Alignment explanation
Indices: 19968485--19969065 Score: 977
Period size: 90 Copynumber: 6.5 Consensus size: 90
19968475 CCATGCTGAA
* * *
19968485 ATCTTTGATCTGCTCCCCGCCTAATACAGAGACACCAAATCTGTCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
19968550 TAAACACACAAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * *
19968575 ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTACTTTGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
* *
19968640 TAAACACACGAATGTTAGATCTACT
66 TAAACACACGAATGTCAGATCTGCT
19968665 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
19968730 TAAACACACGAATGCCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
*
19968755 ATCTTCGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
19968820 TAAACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
** * *
19968845 ATCTTCGATCTGCTCCCCGTCTAATGTAGAGACACCAAATCTGTCATCTTCGATCTACTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
19968910 TAAACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * *
19968935 ATCTTCAATCTGCTCCCCGTCTAAT--AGAGATGCCAAATCTATCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
19968998 TAAACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
*
19969023 ATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
19969066 ATTCTTCGAT
Statistics
Matches: 458, Mismatches: 31, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
88 82 0.18
90 376 0.82
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (90 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
TAAACACACGAATGTCAGATCTGCT
Found at i:19975341 original size:18 final size:18
Alignment explanation
Indices: 19975318--19975354 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
19975308 TTCTTTGGTT
19975318 CACCTTCCAATGCGCATA
1 CACCTTCCAATGCGCATA
19975336 CACCTTCCAATGCGCATA
1 CACCTTCCAATGCGCATA
19975354 C
1 C
19975355 GTGTCCCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.41, G:0.11, T:0.22
Consensus pattern (18 bp):
CACCTTCCAATGCGCATA
Found at i:19977131 original size:10 final size:10
Alignment explanation
Indices: 19977116--19977140 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19977106 TTTTAGGTTT
19977116 TCTCTTTCTC
1 TCTCTTTCTC
19977126 TCTCTTTCTC
1 TCTCTTTCTC
19977136 TCTCT
1 TCTCT
19977141 CTGGTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (10 bp):
TCTCTTTCTC
Found at i:19980665 original size:13 final size:15
Alignment explanation
Indices: 19980631--19980664 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
19980621 ATGTCATGCA
19980631 AATAAACATAGAAAAT
1 AATAAACATA-AAAAT
19980647 AATAAACATAAAATAT
1 AATAAACATAAAA-AT
19980663 AA
1 AA
19980665 AATTACATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (15 bp):
AATAAACATAAAAAT
Found at i:19981192 original size:20 final size:20
Alignment explanation
Indices: 19981162--19981298 Score: 65
Period size: 19 Copynumber: 6.7 Consensus size: 20
19981152 ATTATACATA
19981162 ATAAAAAATAA-AAAATAAT
1 ATAAAAAATAATAAAATAAT
19981181 A-AAATAATATAATGAATAATATAT
1 ATAAA-AA-ATAAT-AA-AATA-AT
* *
19981205 ATAATAAAATGATATAATATAT
1 ATAA-AAAATAATAAAATA-AT
19981227 AATAAAATATATAAATAAAAT-AT
1 -ATAAAA-A-AT-AATAAAATAAT
*
19981250 ATAATAAAAT-ATAATA-AAT
1 ATAA-AAAATAATAAAATAAT
* *
19981269 ATAATAAATAAT-ACATAA-
1 ATAAAAAATAATAAAATAAT
19981287 AT-AAAAATAATA
1 ATAAAAAATAATA
19981299 TATATAATAA
Statistics
Matches: 93, Mismatches: 8, Indels: 35
0.68 0.06 0.26
Matches are distributed among these distances:
17 8 0.09
18 11 0.12
19 18 0.19
20 4 0.04
21 2 0.02
22 16 0.17
23 14 0.15
24 9 0.10
25 10 0.11
26 1 0.01
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (20 bp):
ATAAAAAATAATAAAATAAT
Found at i:19981200 original size:12 final size:11
Alignment explanation
Indices: 19981159--19981309 Score: 92
Period size: 10 Copynumber: 14.0 Consensus size: 11
19981149 AAAATTATAC
*
19981159 ATAATAA-AAA
1 ATAATAATAAT
19981169 ATAA-AA-AAT
1 ATAATAATAAT
19981178 AATAA-AATAAT
1 -ATAATAATAAT
19981189 ATAATGAATAAT
1 ATAAT-AATAAT
*
19981201 ATATATAATAAA
1 ATA-ATAATAAT
19981213 ATGATATAAT-AT
1 AT-A-ATAATAAT
19981225 ATAATAA-AAT
1 ATAATAATAAT
*
19981235 AT-ATAAATAAA
1 ATAAT-AATAAT
*
19981246 ATATATAATAAA
1 ATA-ATAATAAT
19981258 AT-ATAATAA-
1 ATAATAATAAT
19981267 AT-ATAATAA-
1 ATAATAATAAT
19981276 ATAATACATAA-
1 ATAATA-ATAAT
*
19981287 ATAAAAATAAT
1 ATAATAATAAT
19981298 ATATATAATAAT
1 ATA-ATAATAAT
19981310 TTTTTACATA
Statistics
Matches: 120, Mismatches: 6, Indels: 28
0.78 0.04 0.18
Matches are distributed among these distances:
9 17 0.14
10 38 0.32
11 20 0.17
12 34 0.28
13 11 0.09
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:19981231 original size:59 final size:56
Alignment explanation
Indices: 19981159--19981307 Score: 142
Period size: 59 Copynumber: 2.6 Consensus size: 56
19981149 AAAATTATAC
* *
19981159 ATAATAAAAAATAAAAAATAATAAAATAATATAATGAATAATAT-ATATAATAAAATGAT
1 ATAATAAATAATAAAAAATAATAAAATAATATAAT-AA-AATATAATA-AATAAAAT-AA
* *
19981218 ATAATATATAATAAAATATATAAATAAAAT-ATATAATAAAATATAATAAATATAATAA
1 ATAATAAATAATAAAA-A-AT-AATAAAATAATATAATAAAATATAATAAATAAAATAA
* *
19981276 ATAATACATAA-ATAAAAATAATATATATAATA
1 ATAATAAATAATA-AAAAATAATA-AAATAATA
19981308 ATTTTTTACA
Statistics
Matches: 77, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
55 4 0.05
56 5 0.06
57 5 0.06
58 14 0.18
59 26 0.34
60 6 0.08
61 9 0.12
62 8 0.10
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (56 bp):
ATAATAAATAATAAAAAATAATAAAATAATATAATAAAATATAATAAATAAAATAA
Found at i:19981298 original size:29 final size:27
Alignment explanation
Indices: 19981159--19981309 Score: 98
Period size: 29 Copynumber: 5.4 Consensus size: 27
19981149 AAAATTATAC
* *
19981159 ATAATAAAAAATAAAAAATAATAAAATAAT
1 ATAATAAATAATAAAATAT-A-AAAAT-AT
* *
19981189 ATAATGAATAAT-ATATATAATAAAATGAT
1 ATAATAAATAATAAAATAT-A-AAAAT-AT
* *
19981218 ATAATATATAATAAAATATATAAATA-
1 ATAATAAATAATAAAATATAAAAATAT
* *
19981244 A-AATATATAATAAAATATAATAA-AT
1 ATAATAAATAATAAAATATAAAAATAT
19981269 ATAATAAATAATACATAA-ATAAAAATA-
1 ATAATAAATAATA-A-AATATAAAAATAT
19981296 ATATATATAATAAT
1 ATA-ATA-AATAAT
19981310 TTTTTACATA
Statistics
Matches: 100, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
24 1 0.01
25 21 0.21
26 11 0.11
27 11 0.11
28 10 0.10
29 31 0.31
30 15 0.15
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (27 bp):
ATAATAAATAATAAAATATAAAAATAT
Found at i:19981325 original size:80 final size:78
Alignment explanation
Indices: 19981155--19981309 Score: 183
Period size: 80 Copynumber: 2.0 Consensus size: 78
19981145 TTTTAAAATT
* * *
19981155 ATACATAATAAAAAATAAAAAATAATAAAATAATATAATGAATAATATATATAATAAAATGATAT
1 ATACATAATAAAAAATAAAAAATAATAAAATAATATAATAAATAATACATATAATAAAATAATAT
19981220 AATATATAATAAA
66 AATATATAATAAA
* *
19981233 ATATATAAATAAAATATATAATAAAAT-ATAATA-AATATAATAAATAATACATA-AATAAAAAT
1 ATACAT-AATAAAA-A-ATAA-AAAATAATAAAATAATATAATAAATAATACATATAAT-AAAAT
19981295 AATAT-ATATAATAAT
61 AATATAATAT-ATAAT
19981310 TTTTTACATA
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
78 5 0.08
79 14 0.21
80 33 0.50
81 9 0.14
82 5 0.08
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (78 bp):
ATACATAATAAAAAATAAAAAATAATAAAATAATATAATAAATAATACATATAATAAAATAATAT
AATATATAATAAA
Found at i:19981334 original size:19 final size:21
Alignment explanation
Indices: 19981296--19981334 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19981286 AATAAAAATA
*
19981296 ATATATATAATAATTTTTTAC
1 ATATATATAATAATTGTTTAC
19981317 ATATATA-AATAA-TGTTTA
1 ATATATATAATAATTGTTTA
19981335 TAGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (21 bp):
ATATATATAATAATTGTTTAC
Found at i:19981374 original size:29 final size:29
Alignment explanation
Indices: 19981341--19981397 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
19981331 TTTATAGTAA
*
19981341 AAATAAATAATATATAAAATATTTAAAAT
1 AAATAAATAATATATAAAAAATTTAAAAT
*
19981370 AAATAAATTATATATAAAAAATTTAAAA
1 AAATAAATAATATATAAAAAATTTAAAA
19981398 AGGATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
AAATAAATAATATATAAAAAATTTAAAAT
Found at i:19981593 original size:30 final size:30
Alignment explanation
Indices: 19981559--19981616 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19981549 ATAATGGCTA
* *
19981559 TTAGGACTAAATTGAAACAAAAATAAAAGG
1 TTAGGACCAAATTAAAACAAAAATAAAAGG
* *
19981589 TTAGGGCCAAATTAAAATAAAAATAAAA
1 TTAGGACCAAATTAAAACAAAAATAAAA
19981617 TAAAATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (30 bp):
TTAGGACCAAATTAAAACAAAAATAAAAGG
Found at i:19985912 original size:20 final size:20
Alignment explanation
Indices: 19985875--19985912 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19985865 CGCTTTCACT
*
19985875 CTTATTTATCAATTAATTCA
1 CTTATTTATCAATAAATTCA
19985895 CTTATTTGAT-AATAAATT
1 CTTATTT-ATCAATAAATT
19985913 TTATCACAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (20 bp):
CTTATTTATCAATAAATTCA
Found at i:19990394 original size:20 final size:19
Alignment explanation
Indices: 19990365--19990434 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 19
19990355 AAATCATGTG
*
19990365 AAAATTATTTTAACCAAATC
1 AAAATGATTTTAA-CAAATC
* * * *
19990385 AAAATGATTTCAGTCAAGTT
1 AAAATGATTTTA-ACAAATC
* *
19990405 AAAATCATTTTAACACATC
1 AAAATGATTTTAACAAATC
19990424 AAAATGATTTT
1 AAAATGATTTT
19990435 CAAACAAGTC
Statistics
Matches: 37, Mismatches: 12, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
19 13 0.35
20 24 0.65
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.36
Consensus pattern (19 bp):
AAAATGATTTTAACAAATC
Found at i:19990443 original size:40 final size:40
Alignment explanation
Indices: 19990365--19990443 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
19990355 AAATCATGTG
* **
19990365 AAAATTATTTTAACCAAATCAAAATGATTTCAGTCAAGTT
1 AAAATCATTTTAACCAAATCAAAATGATTTCAAACAAGTT
*
19990405 AAAATCATTTTAA-CACATCAAAATGATTTTCAAACAAGT
1 AAAATCATTTTAACCAAATCAAAATGA-TTTCAAACAAGT
19990444 CAGAATTGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 12 0.35
40 22 0.65
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (40 bp):
AAAATCATTTTAACCAAATCAAAATGATTTCAAACAAGTT
Found at i:19992000 original size:14 final size:14
Alignment explanation
Indices: 19991956--19992016 Score: 68
Period size: 14 Copynumber: 4.4 Consensus size: 14
19991946 TTGGGTATTT
19991956 AGAATAAAAAATTG
1 AGAATAAAAAATTG
** *
19991970 AGAATTGACAATTG
1 AGAATAAAAAATTG
*
19991984 AGAATAAAAAATCG
1 AGAATAAAAAATTG
* *
19991998 AGAACAAGAAATTG
1 AGAATAAAAAATTG
19992012 AGAAT
1 AGAAT
19992017 CAAATTGTGA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.57, C:0.05, G:0.18, T:0.20
Consensus pattern (14 bp):
AGAATAAAAAATTG
Found at i:19992010 original size:28 final size:28
Alignment explanation
Indices: 19991956--19992016 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
19991946 TTGGGTATTT
* **
19991956 AGAATAAAAAATTGAGAATTGACAATTG
1 AGAATAAAAAATCGAGAAAAGACAATTG
19991984 AGAATAAAAAATCGAGAACAAGA-AATTG
1 AGAATAAAAAATCGAGAA-AAGACAATTG
19992012 AGAAT
1 AGAAT
19992017 CAAATTGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.57, C:0.05, G:0.18, T:0.20
Consensus pattern (28 bp):
AGAATAAAAAATCGAGAAAAGACAATTG
Found at i:19992354 original size:21 final size:22
Alignment explanation
Indices: 19992320--19992360 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
19992310 AAAAACACCG
19992320 TAAATCGATAAATTT-TCAAAA
1 TAAATCGATAAATTTCTCAAAA
19992341 TAAA-CGATATAATTTCTCAA
1 TAAATCGATA-AATTTCTCAA
19992361 TTAATTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (22 bp):
TAAATCGATAAATTTCTCAAAA
Found at i:19994217 original size:26 final size:26
Alignment explanation
Indices: 19994177--19994232 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
19994167 ATATAATAAT
19994177 AATATAATAAATAATACA-AATTTAAA
1 AATATAATAAATAATA-ATAATTTAAA
** *
19994203 AATATAATACTTAATAATAATTTCAA
1 AATATAATAAATAATAATAATTTAAA
19994229 AATA
1 AATA
19994233 GCATTTACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (26 bp):
AATATAATAAATAATAATAATTTAAA
Found at i:19996151 original size:88 final size:87
Alignment explanation
Indices: 19996028--19996245 Score: 294
Period size: 88 Copynumber: 2.5 Consensus size: 87
19996018 ACAATACAGA
* * * * **
19996028 GATGGCAAATCATCTTAGATTTGCATCAGCGTAAACA-CGTGAAAGCCAAACCTGCTATGTCTTC
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATC-TGAAAGCCAAACCTGCTATGTCTTC
**
19996092 GATTTGCTCCTTTGTAGGCACAAG
65 GATTTGCTCC-TTGTAAACACAAG
* * *
19996116 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCTTCG
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCCAAACCTGCTATGTCTTCG
19996181 ATTTGCTCCTTGTAAACACAAG
66 ATTTGCTCCTTGTAAACACAAG
* *
19996203 AATGCCAAATCATCTTGGATCTGCTTCAGTAAAAACATCTGAA
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAA
19996246 GATTAGATCT
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
87 52 0.45
88 63 0.54
89 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (87 bp):
GATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCCAAACCTGCTATGTCTTCG
ATTTGCTCCTTGTAAACACAAG
Found at i:19996225 original size:87 final size:88
Alignment explanation
Indices: 19996033--19996261 Score: 300
Period size: 87 Copynumber: 2.6 Consensus size: 88
19996023 ACAGAGATGG
* * * ** * * *
19996033 CAAATCATCTTAGATTTGCATCAGCGTAAACA-CGTGAAAGCCAAACCTGCTATGTCTTCGATTT
1 CAAATCATCTTGGATCTGCTTCAGTATAAACATC-TGAAGGTCAGACCTGCTATGTCTTCGATTT
** *
19996097 GCTCCTTTGTAGGCACAAGGATGC
65 GCTCCTTTGTAAACACAAGAATGC
19996121 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCTTCGATTTG
1 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCTTCGATTTG
19996186 CTCC-TTGTAAACACAAGAATGC
66 CTCCTTTGTAAACACAAGAATGC
* * * *
19996208 CAAATCATCTTGGATCTGCTTCAGTAAAAACATCTGAAGATTAGATCTGCTATG
1 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATG
19996262 CTTTGGTCTG
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
87 65 0.52
88 59 0.47
89 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (88 bp):
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCTTCGATTTG
CTCCTTTGTAAACACAAGAATGC
Found at i:20006733 original size:15 final size:15
Alignment explanation
Indices: 20006691--20006733 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
20006681 ATAACTTTGA
*
20006691 ATGCAAATG-ATGCG
1 ATGCAAATGCATGAG
20006705 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
20006720 ATGCAAATGCATGA
1 ATGCAAATGCATGA
20006734 ATGTAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.20
14 3 0.12
15 11 0.44
16 6 0.24
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.23
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:20010887 original size:26 final size:26
Alignment explanation
Indices: 20010847--20010902 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
20010837 ATATAATAAT
20010847 AATATAATAAATAATACA-AATTTAAA
1 AATATAATAAATAATA-ATAATTTAAA
** *
20010873 AATATAATACTTAATAATAATTTCAA
1 AATATAATAAATAATAATAATTTAAA
20010899 AATA
1 AATA
20010903 GCATTTACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (26 bp):
AATATAATAAATAATAATAATTTAAA
Found at i:20017574 original size:49 final size:49
Alignment explanation
Indices: 20017477--20017645 Score: 181
Period size: 49 Copynumber: 3.5 Consensus size: 49
20017467 ATGCCGACGT
*
20017477 CATGTCCCAGACATGGTCTTACACTGGCTTTCACATAGCGAGGCCGATGC
1 CATGTCCCAGACA-GGTCTTACACTGGCTCTCACATAGCGAGGCCGATGC
* *
20017527 CATGTCCCAGACAGGTCTTACACTGGCTCTCATC-TATCG-GTGTCGATGC
1 CATGTCCCAGACAGGTCTTACACTGGCTCTCA-CATAGCGAG-GCCGATGC
* * * * *
20017576 CATGTCCCAGACAGGTCTTCCACT-G-ACACACA-A-C-AAGCTGATGC
1 CATGTCCCAGACAGGTCTTACACTGGCTCTCACATAGCGAGGCCGATGC
*
20017620 CATGTCCCAGACATGTCTTACACTGG
1 CATGTCCCAGACAGGTCTTACACTGG
20017646 TACACAAATA
Statistics
Matches: 103, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
44 28 0.27
45 2 0.02
46 2 0.02
47 3 0.03
48 2 0.02
49 52 0.50
50 14 0.14
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.24
Consensus pattern (49 bp):
CATGTCCCAGACAGGTCTTACACTGGCTCTCACATAGCGAGGCCGATGC
Found at i:20026217 original size:44 final size:44
Alignment explanation
Indices: 20026127--20026286 Score: 169
Period size: 44 Copynumber: 3.6 Consensus size: 44
20026117 GAAATCCAAA
* * * * * *
20026127 CTCGTTGAGTTGGTCTGGGTTCGTGATATGTATGAG-GCATCCGAG
1 CTCGTTGAGTTGGTCCGAGTTCATTATA-G-ATGCGAGCATCTGAG
* * * *
20026172 CTCATTAAGTTGGTCTGAGTTCATTATAGATGTGAGCATCTGAG
1 CTCGTTGAGTTGGTCCGAGTTCATTATAGATGCGAGCATCTGAG
* *
20026216 CTCGTTGCGTTGGTCCGAGTTCATTATGGATGCGAGCATCTGAG
1 CTCGTTGAGTTGGTCCGAGTTCATTATAGATGCGAGCATCTGAG
* *
20026260 CTCGTTGAGTTAGTCCAAGTTCATTAT
1 CTCGTTGAGTTGGTCCGAGTTCATTAT
20026287 GGATACGATA
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
43 4 0.04
44 71 0.72
45 23 0.23
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.35
Consensus pattern (44 bp):
CTCGTTGAGTTGGTCCGAGTTCATTATAGATGCGAGCATCTGAG
Found at i:20028468 original size:66 final size:65
Alignment explanation
Indices: 20028350--20028472 Score: 210
Period size: 66 Copynumber: 1.9 Consensus size: 65
20028340 CATCAGGAAG
* *
20028350 ATTATCCTCCTTGGGCTCTTCCCTTGAACTCTAAACCTATATAGAAACTAGATACTATTGGGGAC
1 ATTATCCTCCTTCGGCTCTTCCCTTAAACTCTAAACCTATATAGAAACTAGATACTATTGGGGAC
*
20028415 ATTATCCTCCTTCGGCTCTTCCCTTAAACCTCTAAACCTATATGGAAACTAGATACTA
1 ATTATCCTCCTTCGGCTCTTCCCTTAAA-CTCTAAACCTATATAGAAACTAGATACTA
20028473 ATGGATCTAC
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
65 26 0.48
66 28 0.52
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (65 bp):
ATTATCCTCCTTCGGCTCTTCCCTTAAACTCTAAACCTATATAGAAACTAGATACTATTGGGGAC
Found at i:20029776 original size:12 final size:12
Alignment explanation
Indices: 20029741--20029785 Score: 63
Period size: 12 Copynumber: 3.6 Consensus size: 12
20029731 AAACTTAAAC
20029741 AAATAAATAAGAA
1 AAATAAATAAG-A
20029754 AAATGAAATAAGA
1 AAAT-AAATAAGA
*
20029767 AAATAAATAAGT
1 AAATAAATAAGA
20029779 AAATAAA
1 AAATAAA
20029786 AATATAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 14 0.47
13 9 0.30
14 7 0.23
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (12 bp):
AAATAAATAAGA
Found at i:20029862 original size:3 final size:3
Alignment explanation
Indices: 20029856--20029887 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
20029846 CTAATAATAA
*
20029856 TAG TAG TAG CAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
20029888 AAAAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.31
Consensus pattern (3 bp):
TAG
Found at i:20029897 original size:3 final size:3
Alignment explanation
Indices: 20029891--20030110 Score: 116
Period size: 3 Copynumber: 74.3 Consensus size: 3
20029881 AGTAGTAAAA
* ** * **
20029891 AAT AAT AAT AAT GAT GGT AAT AAT AAT AGT AAT AAT AAT -AT GCT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * * * * *
20029939 AAT AGT AGT AA- AA- AAT AAT AGT AAC AGT AAT TAT AAA AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
20029985 AGT AAT -AT AAT AAT AAT AAT -AT ATT GAT AAT AAAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * * * *
20030029 AA- AAGG AAT AGT AAT AAT AAG AAT ATT AAT AAT AGT AAT AAT -AT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20030073 AAAT AAT -AT AAAT AAT AAT -AT ATAT AAT AAT AAT AAT A
1 -AAT AAT AAT -AAT AAT AAT AAT A-AT AAT AAT AAT AAT A
20030111 TAGCAAAAAT
Statistics
Matches: 163, Mismatches: 40, Indels: 28
0.71 0.17 0.12
Matches are distributed among these distances:
2 18 0.11
3 132 0.81
4 13 0.08
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:20029955 original size:13 final size:13
Alignment explanation
Indices: 20029912--20029962 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
20029902 TGATGGTAAT
*
20029912 AATAATAGT-AAT
1 AATAATAGTAAAA
*
20029924 AATAATATGCTAAAT
1 AATAATA-G-TAAAA
*
20029939 AATAGTAGTAAAA
1 AATAATAGTAAAA
20029952 AATAATAGTAA
1 AATAATAGTAA
20029963 CAGTAATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 7 0.21
13 15 0.45
14 2 0.06
15 9 0.27
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (13 bp):
AATAATAGTAAAA
Found at i:20031213 original size:14 final size:14
Alignment explanation
Indices: 20031189--20031227 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
20031179 TAATTGGGTT
20031189 GTTTAGTTGGGCTTG
1 GTTT-GTTGGGCTTG
*
20031204 GTTTGTTGGGTTTG
1 GTTTGTTGGGCTTG
20031218 GTTTGTTGGG
1 GTTTGTTGGG
20031228 GTAGTGGGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.03, C:0.03, G:0.44, T:0.51
Consensus pattern (14 bp):
GTTTGTTGGGCTTG
Found at i:20032007 original size:45 final size:45
Alignment explanation
Indices: 20031950--20032105 Score: 163
Period size: 45 Copynumber: 3.5 Consensus size: 45
20031940 TTCAATCTGT
* * **
20031950 TCCACTACAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGACCCACTATCTTCAGTCTAC
* * * *
20031995 TCTACTGTAACTTCAGGGAGATAAGACCCACTATCTTTAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACCCACTATCTTCAGTCTAC
** * ** *
20032040 TCCACTGCAACTTCAGGGAGATAAGA--CTTTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACCCACTATCTTCAGTCTAC
*
20032083 TCCACTACAACTTCAGGGAGATA
1 TCCACTGCAACTTCAGGGAGATA
20032106 CGGTTTGTTT
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 33 0.35
45 61 0.65
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAGATAAGACCCACTATCTTCAGTCTAC
Found at i:20044070 original size:26 final size:26
Alignment explanation
Indices: 20044040--20044103 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
20044030 CAAAAATTAT
**
20044040 TAAAAAAACTTAAACAAATAAATAAG
1 TAAAAAAAAATAAACAAATAAATAAG
20044066 -AAAAATAAAATAAACAAATAAATAAG
1 TAAAAA-AAAATAAACAAATAAATAAG
*
20044092 TAAATAAAAATA
1 TAAAAAAAAATA
20044104 TAAAATATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 5 0.15
26 24 0.73
27 4 0.12
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (26 bp):
TAAAAAAAAATAAACAAATAAATAAG
Found at i:20044185 original size:3 final size:3
Alignment explanation
Indices: 20044179--20044412 Score: 153
Period size: 3 Copynumber: 79.0 Consensus size: 3
20044169 ATGATGATGG
* ** *
20044179 TAA TAA TAA TAG TAA TAA TAA T-A TGC TAAA TAA TAG TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * * * * * *
20044223 -AA TAA TAG TAA CAG TAA TTA TAA AAA TGA TAA TAG TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
20044269 -GA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAT TGA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* * * *
20044314 TAA TAG TAA -AA GGAA CAA TAA TAA TAA CAA TAA T-A TAAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
* *
20044359 T-A TATA TAA -AA TAA TAA TAA TAA TAA TGA TCA TAA TAA TAA TAAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
20044404 TAA TAA TAA
1 TAA TAA TAA
20044413 GAAAATAGTA
Statistics
Matches: 181, Mismatches: 36, Indels: 28
0.74 0.15 0.11
Matches are distributed among these distances:
2 17 0.09
3 150 0.83
4 14 0.08
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:20047212 original size:29 final size:29
Alignment explanation
Indices: 20047144--20047217 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
20047134 TTACTGTAGC
*
20047144 AATTTTTTTATT-TTATAAAAATTACCTT
1 AATTTTTTTATTATTATAAAAATGACCTT
*
20047172 AAATTTTTTATTAATTATAAAAATGACC-T
1 AATTTTTTTATT-ATTATAAAAATGACCTT
20047201 -ATTTTTATTATTATTAT
1 AATTTTT-TTATTATTAT
20047218 TATATATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 21 0.52
29 6 0.15
30 13 0.32
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.55
Consensus pattern (29 bp):
AATTTTTTTATTATTATAAAAATGACCTT
Found at i:20047750 original size:18 final size:20
Alignment explanation
Indices: 20047728--20047774 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
20047718 TACATAAATT
*
20047728 ATTTACATAAA-AATTAT-A
1 ATTTACATAAATAACTATCA
*
20047746 TTTTACA-AAATAACTATCA
1 ATTTACATAAATAACTATCA
20047765 ATTTACATAA
1 ATTTACATAA
20047775 TTCAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 3 0.13
18 11 0.48
19 7 0.30
20 2 0.09
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTACATAAATAACTATCA
Found at i:20049373 original size:19 final size:18
Alignment explanation
Indices: 20049351--20049395 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 18
20049341 ATTAATTACT
20049351 AAAAAATTATATAAAAATA
1 AAAAAATT-TATAAAAATA
20049370 AAAACAATTTATAAAAATA
1 AAAA-AATTTATAAAAATA
20049389 AATAAAA
1 AA-AAAA
20049396 ATACACATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAAATTTATAAAAATA
Found at i:20052926 original size:18 final size:18
Alignment explanation
Indices: 20052905--20052941 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
20052895 TAAAAAGAAA
20052905 AATAACATTAAATATTTT
1 AATAACATTAAATATTTT
20052923 AATAACATTAAATATTTT
1 AATAACATTAAATATTTT
20052941 A
1 A
20052942 TATAGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAACATTAAATATTTT
Found at i:20056912 original size:21 final size:21
Alignment explanation
Indices: 20056887--20056935 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
20056877 TGTCAATTTT
20056887 CACACGGCCGCGTCCCCTGGA
1 CACACGGCCGCGTCCCCTGGA
* *
20056908 CACACGGCCTCTTCCCCTGGA
1 CACACGGCCGCGTCCCCTGGA
20056929 CACACGG
1 CACACGG
20056936 GCATGTGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.16, C:0.47, G:0.24, T:0.12
Consensus pattern (21 bp):
CACACGGCCGCGTCCCCTGGA
Found at i:20058410 original size:21 final size:23
Alignment explanation
Indices: 20058374--20058415 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
20058364 AAAATGTCAA
20058374 AATATGCATAATAAGTCCATTTC
1 AATATGCATAATAAGTCCATTTC
20058397 AATATGC-T-ATAAGTCCATT
1 AATATGCATAATAAGTCCATT
20058416 CAACCAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
22 1 0.05
23 7 0.37
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (23 bp):
AATATGCATAATAAGTCCATTTC
Found at i:20061578 original size:38 final size:38
Alignment explanation
Indices: 20061505--20061614 Score: 112
Period size: 38 Copynumber: 2.8 Consensus size: 38
20061495 CTAATCCAAT
* * *
20061505 CAAAACATGCAAAACAGAAGCGAATAAGAACTGGTCCACC
1 CAAAACATGC-CAACAGAAGC-TATAAGAGCTGGTCCACC
* * *
20061545 TAAAACATGCCAACAGAAGCTATAAGAGTTGGTCTACC
1 CAAAACATGCCAACAGAAGCTATAAGAGCTGGTCCACC
* * *
20061583 CGAAACATGCCAATAAAAGCTCATAAGAGCTG
1 CAAAACATGCCAACAGAAGCT-ATAAGAGCTG
20061615 AACAGAAGCT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
38 31 0.53
39 18 0.31
40 9 0.16
ACGTcount: A:0.44, C:0.23, G:0.18, T:0.15
Consensus pattern (38 bp):
CAAAACATGCCAACAGAAGCTATAAGAGCTGGTCCACC
Found at i:20063220 original size:34 final size:34
Alignment explanation
Indices: 20063182--20063249 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
20063172 CAAATTGTGA
*
20063182 GTTTATTCTTTTATCTCTTTGAAAGAATTTGTTT
1 GTTTATTCTGTTATCTCTTTGAAAGAATTTGTTT
* *
20063216 GTTTATTCTGTTGTCTCTTTGAAAGAGTTTGTTT
1 GTTTATTCTGTTATCTCTTTGAAAGAATTTGTTT
20063250 TGAACTTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.18, C:0.09, G:0.16, T:0.57
Consensus pattern (34 bp):
GTTTATTCTGTTATCTCTTTGAAAGAATTTGTTT
Found at i:20066117 original size:29 final size:30
Alignment explanation
Indices: 20066074--20066135 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
20066064 ACTTAACAAG
20066074 CAAATGCCTCTAAAATAATAA-AAAAATAA
1 CAAATGCCTCTAAAATAATAACAAAAATAA
*
20066103 CAAATGCCT-TCAAAATAATAACAAAATTAA
1 CAAATGCCTCT-AAAATAATAACAAAAATAA
20066133 CAA
1 CAA
20066136 TAAAATGAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 1 0.03
29 19 0.63
30 10 0.33
ACGTcount: A:0.60, C:0.16, G:0.03, T:0.21
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAAATAA
Found at i:20066212 original size:11 final size:11
Alignment explanation
Indices: 20066172--20066211 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
20066162 ACAATAACAA
20066172 CAAAATAATAG
1 CAAAATAATAG
*
20066183 CAACATAATAG
1 CAAAATAATAG
* *
20066194 TAAAATAGTAG
1 CAAAATAATAG
20066205 CAAAATA
1 CAAAATA
20066212 GGGAGAAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:20069990 original size:42 final size:42
Alignment explanation
Indices: 20069943--20070085 Score: 146
Period size: 43 Copynumber: 3.4 Consensus size: 42
20069933 GTTACCAAGA
*
20069943 TGTGATTACATGTAAGACCATGTCTGAGACATTGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGCATTGTAT
* * * *
20069985 TGTGATTACGTGTAAGACCATTTTTGGGACATTGTCATCGTTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTG-CATTG-TAT
* * * *
20070029 T-CGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATTG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACA-TTGCATTGTAT
*
20070070 ATGTGATAACATGTAA
1 -TGTGATTACATGTAA
20070086 CACCTTATCT
Statistics
Matches: 80, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.03
42 31 0.39
43 41 0.51
44 6 0.08
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (42 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGCATTGTAT
Found at i:20070056 original size:43 final size:42
Alignment explanation
Indices: 20069946--20070058 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
20069936 ACCAAGATGT
* * *
20069946 GATTACATGTAAGACCATGTCTGAGACATTGCATTGTATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGCATCGTATTGC
* * *
20069988 GATTACGTGTAAGACCATTTTTGGGACATTGTCATCGTTATT-C
1 GATTACATGTAAGACCATGTCTGGGACATTG-CATCG-TATTGC
* *
20070031 GATTTCATGTAAGACCCTGTCTGGGACA
1 GATTACATGTAAGACCATGTCTGGGACA
20070059 GTGGCATTGA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 27 0.47
43 27 0.47
44 4 0.07
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATTGCATCGTATTGC
Found at i:20072183 original size:27 final size:27
Alignment explanation
Indices: 20072153--20072207 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
20072143 CGAAAAAATG
*
20072153 ATTCGAGTATTCAAAAAATTGTCTTGT
1 ATTCGAGTATTCAAAAAATTATCTTGT
20072180 ATTCGAGTATTCAAAAAATTATCTTGT
1 ATTCGAGTATTCAAAAAATTATCTTGT
20072207 A
1 A
20072208 CTTCTAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (27 bp):
ATTCGAGTATTCAAAAAATTATCTTGT
Found at i:20077747 original size:43 final size:44
Alignment explanation
Indices: 20077689--20077803 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 44
20077679 GTTACCGAGA
* * *
20077689 TGTGGTTACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
*
20077732 TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTTAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
* * * *
20077776 T-CGATTTCGTGTAAGACCTTGTGTGGGA
1 TGTGATTACGTGTAAGACCATGTCTGGGA
20077804 AAGTTTCGTC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 58 0.94
44 4 0.06
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.35
Consensus pattern (44 bp):
TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
Found at i:20077947 original size:33 final size:32
Alignment explanation
Indices: 20077905--20077970 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
20077895 GTCAAGTTGA
* *
20077905 GAAAGAATGTATGGATGAGTTAAGTGACTCAG
1 GAAAGAATGTATGAATGAGTTAAATGACTCAG
*
20077937 GAAAGTAATGTGTGAATGAGTTAAATGACTCAG
1 GAAAG-AATGTATGAATGAGTTAAATGACTCAG
20077970 G
1 G
20077971 TACGACGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 5 0.17
33 25 0.83
ACGTcount: A:0.38, C:0.06, G:0.30, T:0.26
Consensus pattern (32 bp):
GAAAGAATGTATGAATGAGTTAAATGACTCAG
Found at i:20079273 original size:18 final size:18
Alignment explanation
Indices: 20079250--20079286 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
20079240 AGAATGTTTT
20079250 AAGGTCTCGTAGAACCTA
1 AAGGTCTCGTAGAACCTA
20079268 AAGGTCTCGTAGAACCTA
1 AAGGTCTCGTAGAACCTA
20079286 A
1 A
20079287 TAAGGGACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (18 bp):
AAGGTCTCGTAGAACCTA
Found at i:20081621 original size:19 final size:19
Alignment explanation
Indices: 20081594--20081634 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
20081584 CACATAAGAC
* *
20081594 AAACGAACAAAGAAAACAA
1 AAACAAACAAACAAAACAA
*
20081613 AAACAAACAAACAATACAA
1 AAACAAACAAACAAAACAA
20081632 AAA
1 AAA
20081635 ATAAAATTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.76, C:0.17, G:0.05, T:0.02
Consensus pattern (19 bp):
AAACAAACAAACAAAACAA
Found at i:20084100 original size:39 final size:39
Alignment explanation
Indices: 20084047--20084129 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 39
20084037 GATCAGCTAC
*
20084047 CAAA-TTCTCACGTCCTTTCTTATCCTTAATCTCGAGAT
1 CAAATTTCTCACGTCCTTTCTTATACTTAATCTCGAGAT
* *
20084085 CAAATTTCTCACGTCCTTTCTTATATTTAATCTTGAGAT
1 CAAATTTCTCACGTCCTTTCTTATACTTAATCTCGAGAT
*
20084124 CGAATT
1 CAAATT
20084130 CTTGCAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 4 0.10
39 36 0.90
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.42
Consensus pattern (39 bp):
CAAATTTCTCACGTCCTTTCTTATACTTAATCTCGAGAT
Found at i:20085909 original size:30 final size:30
Alignment explanation
Indices: 20085873--20085932 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
20085863 TATAGAAAAC
* *
20085873 ATACATTGGTTCTTACACTTGGGTGGGATT
1 ATACATTGGTCCTTACACTTGGGAGGGATT
20085903 ATACATTGGTCCTTACACTTGGGAGGGATT
1 ATACATTGGTCCTTACACTTGGGAGGGATT
20085933 TTCTTTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.37
Consensus pattern (30 bp):
ATACATTGGTCCTTACACTTGGGAGGGATT
Found at i:20091378 original size:46 final size:46
Alignment explanation
Indices: 20091268--20091398 Score: 149
Period size: 46 Copynumber: 2.8 Consensus size: 46
20091258 CGACCACATT
* * * *
20091268 ACGAGAGCCAGTGTAAGACCATGTTTGAGACATGGCATCGGTATTGAG
1 ACGAGAGCCAGTGTAAGA-CATGTCTGAGACAT-GCATCAGCATCGAG
* *
20091316 ACGAGAGCTAGTGTAAGACATGTCTGAGACATGCATCAGCCTCGAG
1 ACGAGAGCCAGTGTAAGACATGTCTGAGACATGCATCAGCATCGAG
*
20091362 -CTGTA-AGCCAGTGTAAGACATGTCTGGGACATGCATC
1 AC-G-AGAGCCAGTGTAAGACATGTCTGAGACATGCATC
20091399 GACTACGAGT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
45 1 0.01
46 41 0.56
47 14 0.19
48 17 0.23
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
ACGAGAGCCAGTGTAAGACATGTCTGAGACATGCATCAGCATCGAG
Found at i:20107613 original size:57 final size:57
Alignment explanation
Indices: 20107538--20107673 Score: 202
Period size: 57 Copynumber: 2.4 Consensus size: 57
20107528 TGGACCTAAT
*
20107538 TTCT-TCATTTGATTTGGATTGAAACGCGACTTTATTCAAAAATAACTTTTGGCTTC
1 TTCTCTCATTTGATTTGGATTGAAACGCGACTTTATTCAAAAACAACTTTTGGCTTC
* * *
20107594 TTCTCTCAGTTGATTTGGATTGAAAGGCGACTTTGTTCAAAAACAACTTTTGGCTTC
1 TTCTCTCATTTGATTTGGATTGAAACGCGACTTTATTCAAAAACAACTTTTGGCTTC
* *
20107651 TTCTCCACATTTGAATTGGATTG
1 TTCT-CTCATTTGATTTGGATTG
20107674 GAAGGTGACT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
56 4 0.06
57 52 0.73
58 15 0.21
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (57 bp):
TTCTCTCATTTGATTTGGATTGAAACGCGACTTTATTCAAAAACAACTTTTGGCTTC
Found at i:20108066 original size:21 final size:21
Alignment explanation
Indices: 20108040--20108088 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
20108030 ATCATTTTCA
*
20108040 CCATGGTAATTTTAG-TTTGAC
1 CCATGGTAACTTTAGCTTT-AC
20108061 CCATGGTAACTTTAGCTTTAC
1 CCATGGTAACTTTAGCTTTAC
*
20108082 ACATGGT
1 CCATGGT
20108089 GCTTTGTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (21 bp):
CCATGGTAACTTTAGCTTTAC
Found at i:20117157 original size:26 final size:26
Alignment explanation
Indices: 20117128--20117180 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
20117118 TTCATGAAAA
20117128 ATCACTTAGTAAAAAGTGTTAAATAC
1 ATCACTTAGTAAAAAGTGTTAAATAC
20117154 ATCACTTAGTAAAAAGTGTTAAATAC
1 ATCACTTAGTAAAAAGTGTTAAATAC
20117180 A
1 A
20117181 CTCCAATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.30
Consensus pattern (26 bp):
ATCACTTAGTAAAAAGTGTTAAATAC
Found at i:20119035 original size:17 final size:17
Alignment explanation
Indices: 20119013--20119046 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
20119003 CTAAGAGAAA
20119013 ACTAAAGCAAAAACTAT
1 ACTAAAGCAAAAACTAT
20119030 ACTAAAGCAAAAACTAT
1 ACTAAAGCAAAAACTAT
20119047 CCTGAGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.18, G:0.06, T:0.18
Consensus pattern (17 bp):
ACTAAAGCAAAAACTAT
Found at i:20121923 original size:23 final size:25
Alignment explanation
Indices: 20121888--20121948 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
20121878 TAATTCATTT
* *
20121888 AATTTAATTAAAT-AAATTATTAAA
1 AATTTAATAAAATAAAAATATTAAA
20121912 AATTT-ATAAAATAAAAATATTAAA
1 AATTTAATAAAATAAAAATATTAAA
* *
20121936 AAATAAATAAAAT
1 AATTTAATAAAAT
20121949 TAATTCAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 6 0.19
24 18 0.58
25 7 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
AATTTAATAAAATAAAAATATTAAA
Found at i:20121928 original size:16 final size:16
Alignment explanation
Indices: 20121908--20121942 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
20121898 AATAAATTAT
*
20121908 TAAAAAT-TTATAAAA
1 TAAAAATATTAAAAAA
20121923 TAAAAATATTAAAAAA
1 TAAAAATATTAAAAAA
20121939 TAAA
1 TAAA
20121943 TAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAAATATTAAAAAA
Found at i:20122203 original size:13 final size:13
Alignment explanation
Indices: 20122185--20122224 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
20122175 ATTTCCTAAT
20122185 TTTTAAAATATCA
1 TTTTAAAATATCA
20122198 TTTT-AAATAT--
1 TTTTAAAATATCA
*
20122208 TTTTAAACTATCA
1 TTTTAAAATATCA
20122221 TTTT
1 TTTT
20122225 CACGATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
10 4 0.17
11 5 0.22
12 6 0.26
13 8 0.35
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTTAAAATATCA
Found at i:20122232 original size:23 final size:23
Alignment explanation
Indices: 20122183--20122233 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
20122173 AGATTTCCTA
*
20122183 ATTTTTAAAATATCATTTTAAAT
1 ATTTTTAAAATATCATTTTAAAG
* * *
20122206 ATTTTTAAACTATCATTTTCACG
1 ATTTTTAAAATATCATTTTAAAG
20122229 ATTTT
1 ATTTT
20122234 ATGGTAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTTTAAAATATCATTTTAAAG
Found at i:20124378 original size:12 final size:12
Alignment explanation
Indices: 20124361--20124388 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
20124351 ATTTTAATGT
20124361 TTTTAATTATAA
1 TTTTAATTATAA
20124373 TTTTAATTATAA
1 TTTTAATTATAA
20124385 TTTT
1 TTTT
20124389 TTTAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTTAATTATAA
Found at i:20126458 original size:29 final size:28
Alignment explanation
Indices: 20126406--20126466 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
20126396 TATAATATAA
20126406 TTTATAATTTAATTAAAAAATTAAAATATT
1 TTTATAATTTAATTAAAAAATT--AATATT
* *
20126436 TTTATAA-TTAATTATAAATTTAATATT
1 TTTATAATTTAATTAAAAAATTAATATT
20126463 TTTA
1 TTTA
20126467 ATTAGAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.34
29 12 0.41
30 7 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TTTATAATTTAATTAAAAAATTAATATT
Found at i:20127003 original size:14 final size:14
Alignment explanation
Indices: 20126976--20127027 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
20126966 GCTACCAAAA
*
20126976 AATTAAATATAATT
1 AATTACATATAATT
*
20126990 AATTACATAAAATT
1 AATTACATATAATT
20127004 AATTTA-A-ATAATT
1 AA-TTACATATAATT
20127017 AATTACATATA
1 AATTACATATA
20127028 GTAAAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 3 0.09
13 8 0.25
14 18 0.56
15 3 0.09
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTACATATAATT
Found at i:20129300 original size:21 final size:21
Alignment explanation
Indices: 20129257--20129303 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
20129247 ATTATACACT
*
20129257 ATAA-AACATTTGAAATATCA
1 ATAATAACATTTGAAATATAA
* *
20129277 ATAATAACATTTGAGATTTAA
1 ATAATAACATTTGAAATATAA
20129298 ATAATA
1 ATAATA
20129304 TCAATTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (21 bp):
ATAATAACATTTGAAATATAA
Found at i:20130813 original size:18 final size:17
Alignment explanation
Indices: 20130790--20130823 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
20130780 GAATAGATTT
20130790 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
20130808 TTAATTAAAAAATTTA
1 TTAATTAAAAAATTTA
20130824 TTTTTTTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:20131003 original size:4 final size:4
Alignment explanation
Indices: 20130996--20131021 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
20130986 CAATCCGATT
20130996 TTTG TTTG TTTG TTTG TTTG TTTG TT
1 TTTG TTTG TTTG TTTG TTTG TTTG TT
20131022 CTAAGACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTTG
Found at i:20139446 original size:18 final size:18
Alignment explanation
Indices: 20139419--20139533 Score: 56
Period size: 18 Copynumber: 6.1 Consensus size: 18
20139409 TGTGAGGATG
20139419 TTAC-ATATACTATATGA
1 TTACAATATACTATATGA
*
20139436 TTACAATATACACTATGTGA
1 TTACAATAT--ACTATATGA
* *
20139456 -TCCAAGCATACTATATGA
1 TTACAA-TATACTATATGA
* *
20139474 TAATAATATTGTACTATATGA
1 TTACAATA---TACTATATGA
* * *
20139495 TCA-AAGTATACTACATTA
1 TTACAA-TATACTATATGA
20139513 TTACAATATACATTATATGA
1 TTACAATATAC--TATATGA
20139533 T
1 T
20139534 CAACACATAC
Statistics
Matches: 72, Mismatches: 14, Indels: 21
0.67 0.13 0.20
Matches are distributed among these distances:
17 4 0.06
18 28 0.39
19 8 0.11
20 18 0.25
21 14 0.19
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (18 bp):
TTACAATATACTATATGA
Found at i:20139467 original size:38 final size:38
Alignment explanation
Indices: 20139425--20139549 Score: 126
Period size: 38 Copynumber: 3.3 Consensus size: 38
20139415 GATGTTACAT
*
20139425 ATACTATATGATTACAATATACACTATGTGATCCAAGC
1 ATACTATATGATTACAATATACACTATATGATCCAAGC
* * ** * *
20139463 ATACTATATGATAATAATATTGTACTATATGATCAAAGT
1 ATACTATATGATTACAATA-TACACTATATGATCCAAGC
* * * *
20139502 ATACTACATTATTACAATATACATTATATGAT-CAACAC
1 ATACTATATGATTACAATATACACTATATGATCCAA-GC
20139540 ATACTATATG
1 ATACTATATG
20139550 CTAAACCCTA
Statistics
Matches: 66, Mismatches: 19, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
37 2 0.03
38 35 0.53
39 29 0.44
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.35
Consensus pattern (38 bp):
ATACTATATGATTACAATATACACTATATGATCCAAGC
Found at i:20139671 original size:7 final size:7
Alignment explanation
Indices: 20139659--20139688 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
20139649 ATATATGATC
20139659 ATACCAT
1 ATACCAT
20139666 ATACCAT
1 ATACCAT
20139673 ATACCAT
1 ATACCAT
20139680 ATACCAT
1 ATACCAT
20139687 AT
1 AT
20139689 GATTACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (7 bp):
ATACCAT
Found at i:20146164 original size:46 final size:46
Alignment explanation
Indices: 20146097--20146451 Score: 263
Period size: 46 Copynumber: 7.5 Consensus size: 46
20146087 TTTGTGTTCT
* *
20146097 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAATATGAGAGCC
* * * *
20146143 AGTGTAAGATATGTCTGGGACATGCATCAGCCTCGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTC-A-ATA-TGAGAGCC
* ** * * *
20146191 AGTGTAAGACATGTCTAGGACATGCATCGGCGTTGAGACGAGAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAATATGAGAGCC
* *
20146237 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATA-GATAAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTC-A-ATATGA-GAGCC
* * * ** * *
20146285 AGTGTAAGACCTGTCTAGGACATGGCGTCAG-CT-TGT-TGTA-TGTC
1 AGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCAATATG-AGAGCC
* * * * * *
20146329 AGTGTAAGACCTATCTAGGACATGGCATTGACACCCATAGATGAGAGCC
1 AGTGTAAGACATGTCTAGGACAT-GCATCGGC-CTCA-ATATGAGAGCC
* *
20146378 AGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCACTATATGAAAGCC
1 AGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCA--ATATGAGAGCC
*
20146427 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTAGGACATG
20146452 GCGTCAGCAT
Statistics
Matches: 245, Mismatches: 46, Indels: 33
0.76 0.14 0.10
Matches are distributed among these distances:
44 27 0.11
45 3 0.01
46 70 0.29
47 3 0.01
48 70 0.29
49 60 0.24
50 12 0.05
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAATATGAGAGCC
Found at i:20146244 original size:94 final size:94
Alignment explanation
Indices: 20146097--20146308 Score: 289
Period size: 94 Copynumber: 2.3 Consensus size: 94
20146087 TTTGTGTTCT
* * * * *
20146097 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAGAGCCAGTGTAAGATATGTCTGGG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGACGAGAGCCAGTGTAAGACATGTCTAGG
**
20146162 ACATGCATCAGCCTCGAGATATTTAAGCC
66 ACATGCATCAGCCTCGAGATAGATAAGCC
**** *
20146191 AGTGTAAGACATGTCTAGGACATGCATCGGCGTTGAGACGAGAGCTAGTGTAAGACATGTCTAGG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGACGAGAGCCAGTGTAAGACATGTCTAGG
* *
20146256 ACATGCATCGGCCTCGAGATAGATAAGCT
66 ACATGCATCAGCCTCGAGATAGATAAGCC
*
20146285 AGTGTAAGACCTGTCTAGGACATG
1 AGTGTAAGACATGTCTAGGACATG
20146309 GCGTCAGCTT
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 103 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGACGAGAGCCAGTGTAAGACATGTCTAGG
ACATGCATCAGCCTCGAGATAGATAAGCC
Found at i:20146389 original size:49 final size:49
Alignment explanation
Indices: 20146186--20146453 Score: 166
Period size: 49 Copynumber: 5.6 Consensus size: 49
20146176 CGAGATATTT
* * ** *
20146186 AAGCCAGTGTAAGACATGTCTAGGACAT-GCATCG---GCGTTGAGACGA
1 AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGACCCCACT-AGATGA
* * * * * *
20146232 GAGCTAGTGTAAGACATGTCTAGGACAT-GCATCG--GCCTCGAGATAGA
1 AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGACCCCACTAGAT-GA
* * * * * *
20146279 TAAGCTAGTGTAAGACCTGTCTAGGACATGGCGTC-A----GCTTGTTGT
1 -AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGACCCCACTAGATGA
* * * *
20146324 ATGTCAGTGTAAGACCTATCTAGGACATGGCATTGACACCCA-TAGATGA
1 AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGAC-CCCACTAGATGA
* * * *
20146373 GAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCACTATATGA
1 AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGACCCCACTAGATGA
*
20146422 AAGCCAGTGTAAGACCATGTCTGGGACATGGC
1 AAGCCAGTGTAAGACC-TGTCTAGGACATGGC
20146454 GTCAGCATCT
Statistics
Matches: 174, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
44 28 0.16
45 2 0.01
46 38 0.22
47 3 0.02
48 29 0.17
49 60 0.34
50 14 0.08
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGACCCCACTAGATGA
Found at i:20153908 original size:28 final size:30
Alignment explanation
Indices: 20153861--20153921 Score: 92
Period size: 28 Copynumber: 2.1 Consensus size: 30
20153851 ATTTATTTTA
20153861 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
20153891 TTGTTAATTTT-TT-TTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
20153919 TTG
1 TTG
20153922 CTTCTTAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 15 0.50
29 4 0.13
30 11 0.37
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:20156991 original size:43 final size:43
Alignment explanation
Indices: 20156941--20157027 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 43
20156931 ATTTATGATT
* *
20156941 TCGATATGTGTTTACGA-GTAAGACCCTGTCTGGGACAG-TGGCA
1 TCGATATGTGGTTAC-ATGTAAGACCATGTCTGGGA-AGTTGGCA
20156984 TCGATATGTGGTTACATGTAAGACCATGTCTGGGAAGTTGGCA
1 TCGATATGTGGTTACATGTAAGACCATGTCTGGGAAGTTGGCA
20157027 T
1 T
20157028 TGTACGATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 3 0.08
43 37 0.93
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (43 bp):
TCGATATGTGGTTACATGTAAGACCATGTCTGGGAAGTTGGCA
Found at i:20161315 original size:20 final size:20
Alignment explanation
Indices: 20161290--20161346 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
20161280 AATACTATGA
*
20161290 ACCATTCCATTTACTTTCTT
1 ACCATTCCATTTACTTACTT
20161310 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
20161330 TCCATTTCATTTACTTA
1 ACCATTCCATTTACTTA
20161347 GTATAAACTT
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:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:20166215 original size:27 final size:27
Alignment explanation
Indices: 20166175--20166228 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
20166165 TAACGTTAGT
20166175 CCATCCTCACGTTCATGAACCCAAGTA
1 CCATCCTCACGTTCATGAACCCAAGTA
*
20166202 CCATCCTCATGTTCATGAACCCAAGTA
1 CCATCCTCACGTTCATGAACCCAAGTA
20166229 TAACAATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.35, G:0.11, T:0.24
Consensus pattern (27 bp):
CCATCCTCACGTTCATGAACCCAAGTA
Found at i:20168006 original size:17 final size:18
Alignment explanation
Indices: 20167977--20168011 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
20167967 AAAACTTGGT
20167977 TTTAAAGACTAATTAAAA
1 TTTAAAGACTAATTAAAA
20167995 TTTAAA-ACTAATTAAAA
1 TTTAAAGACTAATTAAAA
20168012 GTTGAATCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (18 bp):
TTTAAAGACTAATTAAAA
Found at i:20169554 original size:15 final size:16
Alignment explanation
Indices: 20169515--20169551 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
20169505 CAAACCCATT
20169515 AGGAAGGTGAAGAGCA
1 AGGAAGGTGAAGAGCA
*
20169531 A-GAAGGTGAAGAGGA
1 AGGAAGGTGAAGAGCA
20169546 AGGAAG
1 AGGAAG
20169552 TGATAAGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.46, C:0.03, G:0.46, T:0.05
Consensus pattern (16 bp):
AGGAAGGTGAAGAGCA
Found at i:20178174 original size:17 final size:18
Alignment explanation
Indices: 20178152--20178187 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
20178142 TTAATCTTGT
20178152 TTAATAAATTAATA-GCA
1 TTAATAAATTAATATGCA
20178169 TTAATAAATTAATATGCA
1 TTAATAAATTAATATGCA
20178187 T
1 T
20178188 ATATTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (18 bp):
TTAATAAATTAATATGCA
Found at i:20181677 original size:19 final size:19
Alignment explanation
Indices: 20181649--20181692 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
20181639 CTCATTCACA
*
20181649 TCTCTTCTCTTACAATTCT
1 TCTCTCCTCTTACAATTCT
* * *
20181668 TCTCTCCTCTTTCACTTTT
1 TCTCTCCTCTTACAATTCT
20181687 TCTCTC
1 TCTCTC
20181693 ATTTTCCCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.09, C:0.36, G:0.00, T:0.55
Consensus pattern (19 bp):
TCTCTCCTCTTACAATTCT
Found at i:20188372 original size:25 final size:24
Alignment explanation
Indices: 20188338--20188384 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
20188328 TAAAGAAATG
*
20188338 GAAAAAAAAAGAGAAAGAAAATGAT
1 GAAAAAAAAAGA-AAAAAAAATGAT
*
20188363 GAAAACAAAAGAAAAAAAAATG
1 GAAAAAAAAAGAAAAAAAAATG
20188385 TGTCCATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
GAAAAAAAAAGAAAAAAAAATGAT
Found at i:20189762 original size:79 final size:81
Alignment explanation
Indices: 20189626--20189808 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
20189616 TCGAATGATG
* *
20189626 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTAGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
20189690 TGTGTGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
20189705 TTCCGGGCTAAG-CCCGAAGGCATTAGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTAGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
20189767 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
20189785 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
20189809 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTAGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:20189824 original size:40 final size:40
Alignment explanation
Indices: 20189627--20189810 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
20189617 CGAATGATGT
* * * *
20189627 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
20189667 CCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
20189707 CCGGGCTAAG-CCCGAAGGCATTAGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
20189745 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
20189786 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
20189811 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 81 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:20189832 original size:79 final size:79
Alignment explanation
Indices: 20189679--20189843 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
20189669 GGACTAAGAT
* * **
20189679 CCGAAGGCATTTGTGTGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTAGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTAGAACGAGTTACTAA
*
20189744 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
20189758 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTAGAACGAGTTA-C
* *
20189821 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
20189837 CCGAAGG
1 CCGAAGG
20189844 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTAGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:20193482 original size:21 final size:20
Alignment explanation
Indices: 20193448--20193486 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
20193438 CAAGCCAATT
20193448 CATATAACCAATTACACCATA
1 CATATAACCAATTA-ACCATA
20193469 CATATAAACC-ATTAACCA
1 CATAT-AACCAATTAACCA
20193487 CACTTCCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (20 bp):
CATATAACCAATTAACCATA
Found at i:20194563 original size:43 final size:43
Alignment explanation
Indices: 20194515--20194626 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
20194505 ATTCAACGAA
*
20194515 ATCGCACACTTAGTGCCAATTAATTAGCTGAAGCTATAATTGT
1 ATCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGT
*
20194558 ATCGCACACTTAGTGCCAATTAATTAGCCGAGGCTATAATTGT
1 ATCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGT
* *
20194601 ATCACACATTTAGTGCCAATTAATTA
1 ATCGCACACTTAGTGCCAATTAATTA
20194627 AACCGAACTT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (43 bp):
ATCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGT
Found at i:20195209 original size:21 final size:21
Alignment explanation
Indices: 20195165--20195209 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20195155 TATTTGATTT
* *
20195165 ATTTACACTTTTAACCACTCA
1 ATTTACACTTTTAACAAATCA
* *
20195186 ATTTACACTTTTCACAAATTA
1 ATTTACACTTTTAACAAATCA
20195207 ATT
1 ATT
20195210 CCTTTTATGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTACACTTTTAACAAATCA
Found at i:20199921 original size:40 final size:40
Alignment explanation
Indices: 20199877--20199952 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
20199867 TAGTGCAACA
*
20199877 TATAGCTGAAGCTATTCCAATTCGCACACTTAGTGTTATT
1 TATAGCTGAAGCTATTCCAAATCGCACACTTAGTGTTATT
*
20199917 TATAGCTGAAGCTATTTCAAATCGCACACTTAGTGT
1 TATAGCTGAAGCTATTCCAAATCGCACACTTAGTGT
20199953 CGAACGTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (40 bp):
TATAGCTGAAGCTATTCCAAATCGCACACTTAGTGTTATT
Found at i:20200711 original size:34 final size:35
Alignment explanation
Indices: 20200668--20200739 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
20200658 AAGCTCTTAA
20200668 AACTTAGG-TTTTTTTTCCCTATTTTCGATGGATG
1 AACTTAGGTTTTTTTTTCCCTATTTTCGATGGATG
*
20200702 AACTTAGGTTTTTTTTTTCCTATTTTCGATGGATG
1 AACTTAGGTTTTTTTTTCCCTATTTTCGATGGATG
20200737 AAC
1 AAC
20200740 ACTAATCTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 8 0.22
35 28 0.78
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.50
Consensus pattern (35 bp):
AACTTAGGTTTTTTTTTCCCTATTTTCGATGGATG
Found at i:20208262 original size:52 final size:52
Alignment explanation
Indices: 20208184--20208288 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
20208174 ATTGTTATGG
20208184 CCATTTTTATAGCTCATGATTCATCACAATTCAATAGGCCATTATTTACGTC
1 CCATTTTTATAGCTCATGATTCATCACAATTCAATAGGCCATTATTTACGTC
*
20208236 CCATTTTTATAGTTCATGATTCATCACAATTCAATAGGCCATTATTTACGTC
1 CCATTTTTATAGCTCATGATTCATCACAATTCAATAGGCCATTATTTACGTC
20208288 C
1 C
20208289 ATCATTCTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.39
Consensus pattern (52 bp):
CCATTTTTATAGCTCATGATTCATCACAATTCAATAGGCCATTATTTACGTC
Found at i:20208272 original size:25 final size:25
Alignment explanation
Indices: 20208192--20208272 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
20208182 GGCCATTTTT
20208192 ATAGCTCATGATTCATCACAATTCA
1 ATAGCTCATGATTCATCACAATTCA
* * * * **
20208217 ATAGGC-CATTATTTACGTCCCATTTTT
1 ATA-GCTCATGA-TT-CATCACAATTCA
*
20208244 ATAGTTCATGATTCATCACAATTCA
1 ATAGCTCATGATTCATCACAATTCA
20208269 ATAG
1 ATAG
20208273 GCCATTATTT
Statistics
Matches: 39, Mismatches: 13, Indels: 8
0.65 0.22 0.13
Matches are distributed among these distances:
25 18 0.46
26 7 0.18
27 14 0.36
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (25 bp):
ATAGCTCATGATTCATCACAATTCA
Found at i:20217204 original size:30 final size:30
Alignment explanation
Indices: 20217168--20217224 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
20217158 AGTATGTACC
20217168 TAAACCTCATGAGTATTGGACTCGATTACA
1 TAAACCTCATGAGTATTGGACTCGATTACA
20217198 TAAACCTCATGAGTATTGGACTCGATT
1 TAAACCTCATGAGTATTGGACTCGATT
20217225 CAGGTTAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (30 bp):
TAAACCTCATGAGTATTGGACTCGATTACA
Found at i:20227459 original size:49 final size:48
Alignment explanation
Indices: 20227400--20227525 Score: 153
Period size: 48 Copynumber: 2.6 Consensus size: 48
20227390 ACGAGATCCC
* *
20227400 GTGTAAGACCATGTCTGGGACATGGCATTGGTTTTCGAGATAAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTT-GAGATAAGAGCCA
* * ** *
20227449 GTGTAGGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGAGATAAGAGCCA
* * *
20227497 GTGTAAGACCATATCTGGGATATGACATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
20227526 ATCATTGATA
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
48 34 0.52
49 32 0.48
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGAGATAAGAGCCA
Found at i:20227516 original size:48 final size:48
Alignment explanation
Indices: 20227400--20227570 Score: 148
Period size: 48 Copynumber: 3.5 Consensus size: 48
20227390 ACGAGATCCC
* * * * ** *
20227400 GTGTAAGACCATGTCTGGGACATGGCATTGGTTTTCGAGATAAGAGCCA
1 GTGTAAGACCATATCTGGGACATGGCATCGGTATT-GATATGTGTGCCA
* * *
20227449 GTGTAGGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCCA
1 GTGTAAGACCATATCTGGGACATGGCATCGGTATTGATATGTGTGCCA
* * * **
20227497 GTGTAAGACCATATCTGGGATATGACATC-ATCATTGATATGTGATTTCA
1 GTGTAAGACCATATCTGGGACATGGCATCGGT-ATTGATATGTG-TGCCA
* *
20227546 -TATAAGACCATATCTGGGATATGGC
1 GTGTAAGACCATATCTGGGACATGGC
20227571 GTATATGAGA
Statistics
Matches: 103, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.01
48 67 0.65
49 35 0.34
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (48 bp):
GTGTAAGACCATATCTGGGACATGGCATCGGTATTGATATGTGTGCCA
Found at i:20227604 original size:40 final size:40
Alignment explanation
Indices: 20227533--20227610 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
20227523 ATCATCATTG
* *
20227533 ATATGTGATTTCATATAAGACCATATCTGGGATATGGCGT
1 ATATGAGATTTCATATAAGACCATATCTGGGACATGGCGT
* * * * *
20227573 ATATGAGATTTCGTGTAAGACTATGTTTGGGACATGGC
1 ATATGAGATTTCATATAAGACCATATCTGGGACATGGC
20227611 ATCGACACCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.35
Consensus pattern (40 bp):
ATATGAGATTTCATATAAGACCATATCTGGGACATGGCGT
Found at i:20227804 original size:21 final size:22
Alignment explanation
Indices: 20227778--20227818 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
20227768 ATTCAAGATT
20227778 ATGATTAAGAA-GTAGGGTAGA
1 ATGATTAAGAATGTAGGGTAGA
*
20227799 ATGATTAAGAATGTATGGTA
1 ATGATTAAGAATGTAGGGTA
20227819 CAGATATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (22 bp):
ATGATTAAGAATGTAGGGTAGA
Found at i:20240903 original size:46 final size:46
Alignment explanation
Indices: 20240850--20241025 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
20240840 TATTTGGGCA
*
20240850 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
20240896 TCCGAACTCGTTGAGTTGAGTCCAAG-T---TTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
* *
20240943 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
20240989 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20241026 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 2 0.02
46 59 0.56
47 25 0.24
48 2 0.02
50 5 0.05
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:20240999 original size:93 final size:93
Alignment explanation
Indices: 20240846--20241016 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
20240836 AGGATATTTG
* * *
20240846 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
20240911 TTGAGTCCAAGTTTGTGAGATGTAACTA
66 TTGAGTCCAAGTTTGTGAGATGTAACTA
* *
20240939 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
*
20241004 TTGAGTCCGAGTT
66 TTGAGTCCAAGTT
20241017 CGCTTATGGG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTTGTGAGATGTAACTA
Found at i:20244038 original size:29 final size:29
Alignment explanation
Indices: 20244005--20244082 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
20243995 GTTTCTTGGC
20244005 TTTTTTTGGGGGGTTAGG-TTTTTCTTTT
1 TTTTTTTGGGGGGTTAGGTTTTTTCTTTT
***
20244033 TCTTTTTTTTTGGGTTAGGTTTTTTC-TTT
1 T-TTTTTTGGGGGGTTAGGTTTTTTCTTTT
20244062 TTTTTTT---GGGTTAGGTTTTTT
1 TTTTTTTGGGGGGTTAGGTTTTTT
20244083 TTTGGGAGGG
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
25 14 0.31
28 7 0.16
29 18 0.40
30 6 0.13
ACGTcount: A:0.04, C:0.04, G:0.23, T:0.69
Consensus pattern (29 bp):
TTTTTTTGGGGGGTTAGGTTTTTTCTTTT
Found at i:20244040 original size:30 final size:30
Alignment explanation
Indices: 20244004--20244082 Score: 89
Period size: 25 Copynumber: 2.8 Consensus size: 30
20243994 GGTTTCTTGG
20244004 CTTTTTTTGGGGGGTTAGG-TTTTTCTTTTT
1 CTTTTTTT-GGGGGTTAGGTTTTTTCTTTTT
**
20244034 CTTTTTTTTTGGGTTAGGTTTTTTC--TTT
1 CTTTTTTTGGGGGTTAGGTTTTTTCTTTTT
20244062 -TTTTTTT--GGGTTAGGTTTTTT
1 CTTTTTTTGGGGGTTAGGTTTTTT
20244083 TTTGGGAGGG
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
25 14 0.30
27 7 0.15
28 3 0.07
29 8 0.17
30 14 0.30
ACGTcount: A:0.04, C:0.05, G:0.23, T:0.68
Consensus pattern (30 bp):
CTTTTTTTGGGGGTTAGGTTTTTTCTTTTT
Found at i:20244057 original size:25 final size:25
Alignment explanation
Indices: 20244029--20244082 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
20244019 TAGGTTTTTC
20244029 TTTTTC-TTTTTTTTTGGGTTAGGT
1 TTTTTCTTTTTTTTTTGGGTTAGGT
20244053 TTTTTCTTTTTTTTTTGGGTTAGGT
1 TTTTTCTTTTTTTTTTGGGTTAGGT
20244078 TTTTT
1 TTTTT
20244083 TTTGGGAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 6 0.21
25 23 0.79
ACGTcount: A:0.04, C:0.04, G:0.19, T:0.74
Consensus pattern (25 bp):
TTTTTCTTTTTTTTTTGGGTTAGGT
Found at i:20245078 original size:72 final size:72
Alignment explanation
Indices: 20244942--20245340 Score: 618
Period size: 72 Copynumber: 5.5 Consensus size: 72
20244932 GTGATCTGAA
*
20244942 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTTAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
*
20245007 GTCTCGAG
65 GTCCCGAG
*
20245015 GCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
20245080 TCCCGAG
66 TCCCGAG
* * * * *
20245087 GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAATATCTCAGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAACAGAAATTGAAATTACCTCAGC
* **
20245152 ATGTCTTGAG
63 GTGTCCCGAG
* *
20245162 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTGAAATTACCTCAGTGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
20245227 TCCCGAG
66 TCCCGAG
*
20245234 GCTCAACTCAGCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
20245299 TCCTGAG
66 TCCCGAG
*
20245306 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
20245341 TTTTTGAAAC
Statistics
Matches: 299, Mismatches: 24, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
72 200 0.67
73 35 0.12
74 6 0.02
75 58 0.19
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
TCCCGAG
Done.