Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 7 of 128
Found at i:1979198 original size:114 final size:114
Alignment explanation
Indices: 1978784--1979220 Score: 499
Period size: 114 Copynumber: 3.7 Consensus size: 114
1978774 TGGAGATGGT
* * * *
1978784 GGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCCGAAGGATATGGTAGAGGCAGTGGTGGTGG
1 GGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGG-CTAA--AGATGGCA-AGGTAGTGGTGGTGG
* * * * *
1978849 TTACATGCATTTTGGCGGCGGTGGTGGTGGTCACATGCGTTTTGCTGGTGGTGG
62 TCACATGCAGTTTGGTGGTGGTGGTGGTGGTCACATGCATTTTG-TGGTGGTGG
** * *
1978903 TGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAGGGCATGGTGGAGGTGGTGGTGCTG
1 -GGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAA--G-ATGG-CAAGGTAGTGGTGGTG
1978968 GTCACATGCAGTTTGGTGGTGGTGGTGGTGGTCACATGCA-TTT-TGGTGGT--
61 GTCACATGCAGTTTGGTGGTGGTGGTGGTGGTCACATGCATTTTGTGGTGGTGG
* ** *
1979018 GGTGGAAGTGGTAGCAGTAATGTTGATGGTGGGGCTAAAGGGCATGGTGGAGGTGGTGGTGGTGG
1 GGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAA--G-ATGG-CAAGGTAGTGGTGGTGG
1979083 TCACATGCAGTTTGGTGGTGGTGGTGGTGGTCACATGCATTTTGGTGGTGGTGG
62 TCACATGCAGTTTGGTGGTGGTGGTGGTGGTCACATGCATTTT-GTGGTGGTGG
*
1979137 CGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAA-AT-GCAAGGTAGAGGTGGTGGTCA
1 -GGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAGATGGCAAGGTAGTGGTGGTGGTCA
* * *
1979200 AATGCATTTTGCTGGTGGTGG
65 CATGCAGTTTGGTGGTGGTGG
1979221 CGGTTTTAAA
Statistics
Matches: 285, Mismatches: 22, Indels: 26
0.86 0.07 0.08
Matches are distributed among these distances:
114 136 0.48
115 4 0.01
116 2 0.01
117 15 0.05
119 6 0.02
120 122 0.43
ACGTcount: A:0.16, C:0.09, G:0.46, T:0.29
Consensus pattern (114 bp):
GGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAGATGGCAAGGTAGTGGTGGTGGTCAC
ATGCAGTTTGGTGGTGGTGGTGGTGGTCACATGCATTTTGTGGTGGTGG
Found at i:1980599 original size:23 final size:23
Alignment explanation
Indices: 1980555--1980599 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1980545 TTTTAAATTC
*
1980555 TAACCAAATTATCTAAAAAAAGG
1 TAACCAAATAATCTAAAAAAAGG
*
1980578 TAACCAAATGAATC-AAATAAAG
1 TAACCAAAT-AATCTAAAAAAAG
1980600 TGCTGTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.58, C:0.13, G:0.09, T:0.20
Consensus pattern (23 bp):
TAACCAAATAATCTAAAAAAAGG
Found at i:1980934 original size:31 final size:30
Alignment explanation
Indices: 1980896--1980975 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
1980886 ATGTATTATT
* *
1980896 TGGTACCTATACTTTTATAAAATGTCTAATG
1 TGGTACCTATACTTTT-GAAAATGTCCAATG
1980927 TGGTACCTATA-TTTTGAAAATGTCCAATG
1 TGGTACCTATACTTTTGAAAATGTCCAATG
* *
1980956 TGGTATCTTTAC-TTTGAAAA
1 TGGTACCTATACTTTTGAAAA
1980976 AATCTAATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 29 0.66
30 4 0.09
31 11 0.25
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.41
Consensus pattern (30 bp):
TGGTACCTATACTTTTGAAAATGTCCAATG
Found at i:1980984 original size:29 final size:29
Alignment explanation
Indices: 1980896--1980985 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
1980886 ATGTATTATT
* *
1980896 TGGTACCTATACTTTTATAAAATGTCTAATG
1 TGGTACCTATACTTTGA-AAAA-ATCTAATG
* ** *
1980927 TGGTACCTATATTTTGAAAATGTCCAATG
1 TGGTACCTATACTTTGAAAAAATCTAATG
* *
1980956 TGGTATCTTTACTTTGAAAAAATCTAATG
1 TGGTACCTATACTTTGAAAAAATCTAATG
1980985 T
1 T
1980986 AATACTTAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
29 31 0.63
30 3 0.06
31 15 0.31
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (29 bp):
TGGTACCTATACTTTGAAAAAATCTAATG
Found at i:1984561 original size:10 final size:10
Alignment explanation
Indices: 1984546--1984576 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1984536 CTAATAATGT
1984546 AAGTTAAGCA
1 AAGTTAAGCA
1984556 AAGTTAAGCA
1 AAGTTAAGCA
*
1984566 AAGTCAAGCA
1 AAGTTAAGCA
1984576 A
1 A
1984577 TCATGGCAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (10 bp):
AAGTTAAGCA
Found at i:1985459 original size:105 final size:106
Alignment explanation
Indices: 1985266--1985478 Score: 419
Period size: 105 Copynumber: 2.0 Consensus size: 106
1985256 GCCTAGAATA
1985266 AAAAACTAACAAATTCATTGATCTCTTCTTCACAGTAGTCCCCTAGAGGGTGGTCCAAAGAAATC
1 AAAAACTAACAAATTCATTGATCTCTTCTTCACAGTAGTCCCCTAGAGGGTGGTCCAAAGAAATC
1985331 ATGGATAAGTCCTCCTCATCTGCAAGAAAATCAATATAATG
66 ATGGATAAGTCCTCCTCATCTGCAAGAAAATCAATATAATG
1985372 AAAAACTAAC-AATTCATTGATCTCTTCTTCACAGTAGTCCCCTAGAGGGTGGTCCAAAGAAATC
1 AAAAACTAACAAATTCATTGATCTCTTCTTCACAGTAGTCCCCTAGAGGGTGGTCCAAAGAAATC
1985436 ATGGATAAGTCCTCCTCATCTGCAAGAAAATCAATATAATG
66 ATGGATAAGTCCTCCTCATCTGCAAGAAAATCAATATAATG
1985477 AA
1 AA
1985479 CTGCTAATGA
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
105 97 0.91
106 10 0.09
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (106 bp):
AAAAACTAACAAATTCATTGATCTCTTCTTCACAGTAGTCCCCTAGAGGGTGGTCCAAAGAAATC
ATGGATAAGTCCTCCTCATCTGCAAGAAAATCAATATAATG
Found at i:1988267 original size:24 final size:24
Alignment explanation
Indices: 1988240--1988286 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1988230 ACACCAGGTT
1988240 TCTTCAAC-CAATTAAACTCTGTTA
1 TCTT-AACTCAATTAAACTCTGTTA
**
1988264 TCTTTTCTCAATTAAACTCTGTT
1 TCTTAACTCAATTAAACTCTGTT
1988287 TAGTTTAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.28, C:0.23, G:0.04, T:0.45
Consensus pattern (24 bp):
TCTTAACTCAATTAAACTCTGTTA
Found at i:1993534 original size:18 final size:17
Alignment explanation
Indices: 1993513--1993547 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1993503 TTATTATTAA
*
1993513 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1993531 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1993548 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1993654 original size:18 final size:17
Alignment explanation
Indices: 1993633--1993667 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1993623 TTATTATTAA
*
1993633 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1993651 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1993668 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1993774 original size:18 final size:17
Alignment explanation
Indices: 1993753--1993787 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1993743 TTATTATTAA
*
1993753 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1993771 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1993788 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1993894 original size:18 final size:17
Alignment explanation
Indices: 1993873--1993907 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1993863 TTATTATTAA
*
1993873 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1993891 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1993908 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1994014 original size:18 final size:17
Alignment explanation
Indices: 1993993--1994027 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1993983 TTATTATTAA
*
1993993 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1994011 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1994028 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1994132 original size:16 final size:16
Alignment explanation
Indices: 1994088--1994134 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1994078 TACTATAAAA
*
1994088 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
1994104 TATTATT-AAATATAT
1 TATAATTAAAATATAT
1994119 TATAATTAAAATATAT
1 TATAATTAAAATATAT
1994135 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:1994215 original size:120 final size:120
Alignment explanation
Indices: 1993489--1994207 Score: 1357
Period size: 120 Copynumber: 6.0 Consensus size: 120
1993479 TTGTGTGAAA
1993489 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA
1 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA
1993554 TAATCAATATTCTTGTATGAATTTACTCTGATCATAATATATGATACTATAAAAT
66 TAATCAATATTCTTGTATGAATTTACTCTGATCATAATATATGATACTATAAAAT
1993609 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA
1 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA
1993674 TAATCAATATTCTTGTATGAATTTACTCTGATCATAATATATGATACTATAAAAT
66 TAATCAATATTCTTGTATGAATTTACTCTGATCATAATATATGATACTATAAAAT
1993729 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA
1 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA
1993794 TAATCAATATTCTTGTATGAATTTACTCTGATCATAATATATGATACTATAAAAT
66 TAATCAATATTCTTGTATGAATTTACTCTGATCATAATATATGATACTATAAAAT
1993849 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA
1 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA
1993914 TAATCAATATTCTTGTATGAATTTACTCTGATCATAATATATGATACTATAAAAT
66 TAATCAATATTCTTGTATGAATTTACTCTGATCATAATATATGATACTATAAAAT
1993969 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA
1 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA
* **
1994034 TAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAT
66 TAATCAATATTCTTGTATGAATTTACTCTGATCATAATATATGATACTATAAAAT
* *
1994089 ATAATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA
1 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA
* * **
1994154 TAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAA
66 TAATCAATATTCTTGTATGAATTTACTCTGATCATAATATATGATACTATAAAA
1994208 GAAAATTTGA
Statistics
Matches: 593, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 593 1.00
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (120 bp):
ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA
TAATCAATATTCTTGTATGAATTTACTCTGATCATAATATATGATACTATAAAAT
Found at i:1997422 original size:23 final size:23
Alignment explanation
Indices: 1997392--1997453 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
1997382 AATAGTTATA
*
1997392 TGGCTACATTTCAGTGGTAGCTT
1 TGGCTACATATCAGTGGTAGCTT
*
1997415 TGGCTACATAACAGTGGTAGCTT
1 TGGCTACATATCAGTGGTAGCTT
*
1997438 CGGCTACATATCAGTG
1 TGGCTACATATCAGTG
1997454 TTGCACTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (23 bp):
TGGCTACATATCAGTGGTAGCTT
Found at i:2001646 original size:7 final size:7
Alignment explanation
Indices: 2001636--2001672 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
2001626 ATTAAAAAGT
2001636 AAATTTA
1 AAATTTA
2001643 AAATTTA
1 AAATTTA
2001650 AAATTTA
1 AAATTTA
2001657 AAA--TA
1 AAATTTA
2001662 AAATTCTA
1 AAATT-TA
2001670 AAA
1 AAA
2001673 ATAAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.19
7 17 0.63
8 5 0.19
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (7 bp):
AAATTTA
Found at i:2001655 original size:14 final size:12
Alignment explanation
Indices: 2001636--2001678 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 12
2001626 ATTAAAAAGT
2001636 AAATTTAAAATTTA
1 AAATTTAAAA--TA
2001650 AAATTTAAAATA
1 AAATTTAAAATA
2001662 AAATTCTAAAAATA
1 AAATT-T-AAAATA
2001676 AAA
1 AAA
2001679 ATATATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.26
13 1 0.04
14 19 0.70
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATTTAAAATA
Found at i:2001677 original size:19 final size:19
Alignment explanation
Indices: 2001641--2001678 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2001631 AAAGTAAATT
*
2001641 TAAAATTTAAAATTTAAAA
1 TAAAATTTAAAATATAAAA
2001660 TAAAATTCTAAAA-ATAAAA
1 TAAAATT-TAAAATATAAAA
2001679 ATATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATTTAAAATATAAAA
Found at i:2010219 original size:356 final size:354
Alignment explanation
Indices: 2009567--2010477 Score: 1193
Period size: 356 Copynumber: 2.6 Consensus size: 354
2009557 TGAGTTTTAT
*
2009567 CTTCATAAGGGATGTGCTGAGTTAGAGTTAGCCCCCCAGATTCAGCATCCCTTCCACCCCAAACA
1 CTTCATAAGGAATGTGCTGAGTTAGAGTTAGCCCCCCAGATTCAGCATCCCTTCCACCCCAAACA
* * ** * * *
2009632 CCCTCTCAATCTTTTGCCAAAATCACCTTAT---CC-TTCGGTGTGCGATTTGTGTGGTAAGGAC
66 CCCTCTCACTCTTTTGCCAGAATCACCTTATGGGCCAAACAGT-TGCAATTTGTGTGGTAAGGAG
* * * * * *
2009693 TTTGACGGATTTGTTTATACTTGCT-ATGATTGTAAGTTCGATCTGCACATCAATTGTGCTTTGC
130 TTTCAGGGATTTGCTTATAATTG-TGGTGCTTGTAAGTTCGATCTGCACATCAATTGTGCTTTGC
**
2009757 TTCAATCATCCATTGCTGCAAATTTTCCTAATTCTTTGCACCCCCATCTGTTGTTCTTCATTCAA
194 TTCAATCATCCATTGCTGCAAATTTTCCTAATTCTTTGCACCCCCATCCATTGTTCTTCATTCAA
*
2009822 AATCCTAACAAGGAAGTCGAGCCTGATTGCTACGTGTGTCAAAAACCAATATCTGGTCCATTTTA
259 AATCATAACAAGGAAGTCGAGCCTGATTGCTACGTGTGTCAAAAACCAATATCTGGTCCATTTTA
2009887 CCACTGTTCAGATTGCAC-TATCCATTTAAC
324 CCACTGTTCAGATTGCACTTATCCATTTAAC
*
2009917 CTTCATAAGGAATGTGCTGAGTTAGAGTTAGCCCCCCAGATTCAGCATCCCCTCCACCCCAAACA
1 CTTCATAAGGAATGTGCTGAGTTAGAGTTAGCCCCCCAGATTCAGCATCCCTTCCACCCCAAACA
* * *
2009982 CACTCTCACTCTTTTGCCAGAATCACCTTATGGGGGCGCAAACTGTTGCAATTTGTGTGGTAAGA
66 CCCTCTCACTCTTTTGCCAGAATCACCTTAT--GGGC-CAAACAGTTGCAATTTGTGTGGTAAGG
* *
2010047 AGTTTCAGGGATTTGCTTATAATTGTGGTGCTTGTCAGTTCGATCTGGACATCAATTGTGCTTTG
128 AGTTTCAGGGATTTGCTTATAATTGTGGTGCTTGTAAGTTCGATCTGCACATCAATTGTGCTTTG
*
2010112 CTTCAATCATCTATTGCTGCAAATTTTCCTAATTCTTTGCACCCCCATCCATTGTTCTTCATTCA
193 CTTCAATCATCCATTGCTGCAAATTTTCCTAATTCTTTGCACCCCCATCCATTGTTCTTCATTCA
* * *
2010177 AAATCATAACAGGGAAGTCGAGCTTGATTGCT-CCTGGTGTCAAAAACCAATATCTGGTCCATTT
258 AAATCATAACAAGGAAGTCGAGCCTGATTGCTACGT-GTGTCAAAAACCAATATCTGGTCCATTT
2010241 TACCACTGTTCAGATTGCACTTATCCATTTAAC
322 TACCACTGTTCAGATTGCACTTATCCATTTAAC
* ** **
2010274 CTTCATAAGGAATGTGCT--G--A-A-CT-GCCCCTTGAGATTCAGCATCCCTTAAACCCCAAAC
1 CTTCATAAGGAATGTGCTGAGTTAGAGTTAGCCCC-CCAGATTCAGCATCCCTTCCACCCCAAAC
* * * * * * *
2010332 ACCCTCTCACTCTTTTTCCAGATTCACTTTACCCTTGGGACAAAAACAGGTGCCATTTGTGTTGT
65 ACCCTCTCACTCTTTTGCCAGAATCACCTTA----TGGG-C-CAAACAGTTGCAATTTGTGTGGT
* * * * * *
2010397 AAGGAGTTTCGGGGATTTTCTTATAATTGTGGTGCTTGTTATTTCGGTCTGCATATCAATTGTGC
124 AAGGAGTTTCAGGGATTTGCTTATAATTGTGGTGCTTGTAAGTTCGATCTGCACATCAATTGTGC
*
2010462 TTTTCTTCAATCATCC
189 TTTGCTTCAATCATCC
2010478 TTAAATACAT
Statistics
Matches: 493, Mismatches: 52, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
350 96 0.19
351 52 0.11
352 1 0.00
353 4 0.01
354 90 0.18
355 6 0.01
356 211 0.43
357 33 0.07
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (354 bp):
CTTCATAAGGAATGTGCTGAGTTAGAGTTAGCCCCCCAGATTCAGCATCCCTTCCACCCCAAACA
CCCTCTCACTCTTTTGCCAGAATCACCTTATGGGCCAAACAGTTGCAATTTGTGTGGTAAGGAGT
TTCAGGGATTTGCTTATAATTGTGGTGCTTGTAAGTTCGATCTGCACATCAATTGTGCTTTGCTT
CAATCATCCATTGCTGCAAATTTTCCTAATTCTTTGCACCCCCATCCATTGTTCTTCATTCAAAA
TCATAACAAGGAAGTCGAGCCTGATTGCTACGTGTGTCAAAAACCAATATCTGGTCCATTTTACC
ACTGTTCAGATTGCACTTATCCATTTAAC
Found at i:2014951 original size:20 final size:20
Alignment explanation
Indices: 2014926--2014982 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
2014916 TACGATAATT
2014926 TTTATAATTTTTTTACGAAA
1 TTTATAATTTTTTTACGAAA
* **
2014946 TTTAT-ATTTCTTTAC-ATT
1 TTTATAATTTTTTTACGAAA
*
2014964 TTGTATAATTTTATTACGA
1 TT-TATAATTTTTTTACGA
2014983 CTTAATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.10
19 12 0.41
20 13 0.45
21 1 0.03
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTATAATTTTTTTACGAAA
Found at i:2015079 original size:9 final size:9
Alignment explanation
Indices: 2015027--2015086 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
2015017 TTTCTATATA
2015027 TTTTAT-AT
1 TTTTATAAT
*
2015035 TTTTACAAT
1 TTTTATAAT
*
2015044 TTTTATAAAA
1 TTTTAT-AAT
**
2015054 AATT-TAAT
1 TTTTATAAT
2015062 TTTTCATAAT
1 TTTT-ATAAT
2015072 TTTTATAAT
1 TTTTATAAT
2015081 TTTTAT
1 TTTTAT
2015087 CGTGGTTGTG
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
8 9 0.22
9 19 0.47
10 12 0.30
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:2018239 original size:30 final size:30
Alignment explanation
Indices: 2018205--2018267 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
2018195 ACTTATTTTA
2018205 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
2018235 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
2018265 TTG
1 TTG
2018268 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:2020519 original size:6 final size:6
Alignment explanation
Indices: 2020508--2020536 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2020498 TATATATGTG
2020508 TGTGTC TGTGTC TGTGTC TGTGTC TGTGT
1 TGTGTC TGTGTC TGTGTC TGTGTC TGTGT
2020537 GGTAAGATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.34, T:0.52
Consensus pattern (6 bp):
TGTGTC
Found at i:2021334 original size:14 final size:14
Alignment explanation
Indices: 2021315--2021350 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
2021305 TTTTAATTAC
2021315 TTATGTTTGAAATA
1 TTATGTTTGAAATA
2021329 TTATGTTTGAAATA
1 TTATGTTTGAAATA
2021343 TTATGTTT
1 TTATGTTT
2021351 TAGTCACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.56
Consensus pattern (14 bp):
TTATGTTTGAAATA
Found at i:2025295 original size:97 final size:97
Alignment explanation
Indices: 2025175--2025369 Score: 273
Period size: 97 Copynumber: 2.0 Consensus size: 97
2025165 TCCATCAACA
* * * * ** ** *
2025175 TACCTCCGCTAATAGAACTATTCAACCAATACCTAGAGAACACGTGAGCTGCTACTTTTGAGTAG
1 TACCTCCACTAATAGAACTATTCAACCAATACCTAAAGAACACATGAACCACTACTTTTGAACAA
2025240 GCAATTTATATTGATGGAACGAGCATCACTTG
66 GCAATTTATATTGATGGAACGAGCATCACTTG
* *
2025272 TACCTCCATTAATAGTACTATTCAACCAATACCTAAAGAACACATGAACCACTACTTTTGAACAA
1 TACCTCCACTAATAGAACTATTCAACCAATACCTAAAGAACACATGAACCACTACTTTTGAACAA
* *
2025337 GTAATTTATATTGATGGAACGAGCATTACTTG
66 GCAATTTATATTGATGGAACGAGCATCACTTG
2025369 T
1 T
2025370 CACCCGCATA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
97 85 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (97 bp):
TACCTCCACTAATAGAACTATTCAACCAATACCTAAAGAACACATGAACCACTACTTTTGAACAA
GCAATTTATATTGATGGAACGAGCATCACTTG
Found at i:2025930 original size:15 final size:15
Alignment explanation
Indices: 2025910--2025947 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
2025900 TACAATATTA
* *
2025910 CTAGTATTCTTCACC
1 CTAGTATTATCCACC
2025925 CTAGTATTATCCACC
1 CTAGTATTATCCACC
2025940 CTAGTATT
1 CTAGTATT
2025948 GTCCCCAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.08, T:0.39
Consensus pattern (15 bp):
CTAGTATTATCCACC
Found at i:2026294 original size:15 final size:15
Alignment explanation
Indices: 2026291--2026334 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 15
2026281 TCTATATCTT
2026291 TATATTTTTATAGTC
1 TATATTTTTATAGTC
2026306 TATAATTTTTTATAGTC
1 TAT-A-TTTTTATAGTC
*
2026323 TATATCTTTATA
1 TATATTTTTATA
2026335 ATTTTAAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 10 0.38
16 2 0.08
17 14 0.54
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.59
Consensus pattern (15 bp):
TATATTTTTATAGTC
Found at i:2026297 original size:23 final size:23
Alignment explanation
Indices: 2026267--2026340 Score: 90
Period size: 23 Copynumber: 3.5 Consensus size: 23
2026257 TGAATGAAAT
2026267 TTTA-ATTTTTATAGTCTATATC
1 TTTATATTTTTATAGTCTATATC
2026289 TTTATATTTTTATAGTCTATA--
1 TTTATATTTTTATAGTCTATATC
2026310 ---AT-TTTTTATAGTCTATATC
1 TTTATATTTTTATAGTCTATATC
*
2026329 TTTATAATTTTA
1 TTTATATTTTTA
2026341 AGGGGCCAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
17 15 0.34
18 2 0.05
22 6 0.14
23 21 0.48
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTATATTTTTATAGTCTATATC
Found at i:2027238 original size:24 final size:24
Alignment explanation
Indices: 2027183--2027238 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
2027173 AGAACTTCTA
* *
2027183 TTTTATTAAAAATATAAAAATAAG
1 TTTTATTAAAAATATAAAAACAAC
*
2027207 TTACTATT-AAAATATTAAAAACAAC
1 TT-TTATTAAAAATA-TAAAAACAAC
2027232 TTTTATT
1 TTTTATT
2027239 TTATTAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (24 bp):
TTTTATTAAAAATATAAAAACAAC
Found at i:2027652 original size:18 final size:18
Alignment explanation
Indices: 2027626--2027668 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
2027616 GACTGGAAAA
* *
2027626 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
2027644 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
2027662 AGGATAC
1 AGGATAC
2027669 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:2028207 original size:7 final size:7
Alignment explanation
Indices: 2028197--2028232 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
2028187 TTATATACAT
2028197 AATACTA
1 AATACTA
2028204 AATACTA
1 AATACTA
2028211 AATACTA
1 AATACTA
2028218 AATACTA
1 AATACTA
2028225 AATA-TA
1 AATACTA
2028231 AA
1 AA
2028233 ACGACTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:2030372 original size:15 final size:15
Alignment explanation
Indices: 2030352--2030382 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2030342 TTTTGTTTGA
2030352 TTTCATCTAAATTAT
1 TTTCATCTAAATTAT
2030367 TTTCATCTAAATTAT
1 TTTCATCTAAATTAT
2030382 T
1 T
2030383 CGAGTCATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTCATCTAAATTAT
Found at i:2031500 original size:12 final size:12
Alignment explanation
Indices: 2031479--2031510 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2031469 GTGAAAGACA
2031479 GACAAAGACAAC
1 GACAAAGACAAC
*
2031491 GACAACGACAAC
1 GACAAAGACAAC
2031503 GACAAAGA
1 GACAAAGA
2031511 AACAACAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.56, C:0.25, G:0.19, T:0.00
Consensus pattern (12 bp):
GACAAAGACAAC
Found at i:2034823 original size:2 final size:2
Alignment explanation
Indices: 2034816--2034840 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2034806 ATCATTGTTC
2034816 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2034841 GCTAAGAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2039823 original size:21 final size:22
Alignment explanation
Indices: 2039794--2039837 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2039784 CGTGGGACTG
* *
2039794 CTATTGGT-ATTTTTTTTTTTA
1 CTATGGGTAATTTTCTTTTTTA
2039815 CTATGGGTAATTTTCTTTTTTA
1 CTATGGGTAATTTTCTTTTTTA
2039837 C
1 C
2039838 AATAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.16, C:0.09, G:0.11, T:0.64
Consensus pattern (22 bp):
CTATGGGTAATTTTCTTTTTTA
Found at i:2040971 original size:28 final size:28
Alignment explanation
Indices: 2040931--2040986 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
2040921 GCAACTCAGT
*
2040931 TAATTTAAGGAAATTTAAATAATTTCAA
1 TAATTCAAGGAAATTTAAATAATTTCAA
*
2040959 TAATTCAAGGAAATTTGAATAATTTCAA
1 TAATTCAAGGAAATTTAAATAATTTCAA
2040987 ATTATTCCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (28 bp):
TAATTCAAGGAAATTTAAATAATTTCAA
Found at i:2043818 original size:42 final size:41
Alignment explanation
Indices: 2043759--2043843 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 41
2043749 ACGCTCAAGC
* *
2043759 TTTCAAAAAAGTTGAATTATTGCTTCTGATGAAAATATTGA
1 TTTCAAAAAAGTTGAATTATTACTTCTAATGAAAATATTGA
* *
2043800 TTTCAAAAAGAGTTGAATTGTTATTTCTAATGAAAATATTGA
1 TTTCAAAAA-AGTTGAATTATTACTTCTAATGAAAATATTGA
2043842 TT
1 TT
2043844 AAAATATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 9 0.23
42 30 0.77
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (41 bp):
TTTCAAAAAAGTTGAATTATTACTTCTAATGAAAATATTGA
Found at i:2045835 original size:3 final size:3
Alignment explanation
Indices: 2045827--2045860 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
2045817 CCTGTGATTG
*
2045827 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2045861 CATCATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2046000 original size:35 final size:34
Alignment explanation
Indices: 2045960--2046039 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 34
2045950 ACCCCTCTTT
*
2045960 TACATATATAGTTTT-TATATTTCATAATTCATATA
1 TACATATATAGTTTTCTATATTTCATAATTC--ACA
* * *
2045995 TACATACATATTTTTCGTATATTTTATAATTCACA
1 TACATATATAGTTTTC-TATATTTCATAATTCACA
2046030 TACATATATA
1 TACATATATA
2046040 TCCACATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
35 24 0.63
37 14 0.37
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.49
Consensus pattern (34 bp):
TACATATATAGTTTTCTATATTTCATAATTCACA
Found at i:2047696 original size:20 final size:18
Alignment explanation
Indices: 2047653--2047701 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
2047643 ACTAGTACCA
*
2047653 GTTATCAACTAACTAACT
1 GTTAACAACTAACTAACT
*
2047671 GCTAACAACTAACTATAACT
1 GTTAACAACTAAC--TAACT
*
2047691 GTTAACTACTA
1 GTTAACAACTA
2047702 TTTTAAAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 11 0.44
20 14 0.56
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (18 bp):
GTTAACAACTAACTAACT
Found at i:2049908 original size:33 final size:33
Alignment explanation
Indices: 2049866--2049933 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
2049856 AGTACATGTA
2049866 AGCAAGCACAGATTTGTACAACATCTCATATGG
1 AGCAAGCACAGATTTGTACAACATCTCATATGG
2049899 AGCAAGCACAGATTTGTACAACATCTCATATGG
1 AGCAAGCACAGATTTGTACAACATCTCATATGG
2049932 AG
1 AG
2049934 ACTTTCCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (33 bp):
AGCAAGCACAGATTTGTACAACATCTCATATGG
Found at i:2052739 original size:58 final size:59
Alignment explanation
Indices: 2052644--2052754 Score: 147
Period size: 58 Copynumber: 1.9 Consensus size: 59
2052634 AGCTTTTGCA
* *
2052644 ACTTCAACATGGCTAGAGGAAGACTCATTCTAAACTTTGCAACCTTAACATGGCCAGAG
1 ACTTCAACATGGCTAGAGGAAGACTCATTCCAAACTTTGCAACATTAACATGGCCAGAG
* *
2052703 ACTTCAACATGG-T-GAGGGAGGA-TCCATTCCAAACTTTGCAATATTAACATGG
1 ACTTCAACATGGCTAGA-GGAAGACT-CATTCCAAACTTTGCAACATTAACATGG
2052755 AAAGAGGACT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 3 0.07
58 31 0.67
59 12 0.26
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (59 bp):
ACTTCAACATGGCTAGAGGAAGACTCATTCCAAACTTTGCAACATTAACATGGCCAGAG
Found at i:2055551 original size:38 final size:38
Alignment explanation
Indices: 2055509--2055624 Score: 128
Period size: 38 Copynumber: 3.1 Consensus size: 38
2055499 CTTAGTAGCA
2055509 TCAAGATGGTGGGAAGATTCGCTCAACACTTCAAAGCT
1 TCAAGATGGTGGGAAGATTCGCTCAACACTTCAAAGCT
* * *
2055547 TCAAGATGGTGGCAAGATTCTC-CTAACACTTCAAAGCA
1 TCAAGATGGTGGGAAGATTCGCTC-AACACTTCAAAGCT
* * * * *
2055585 TCAAGATAGAGGGAAGA-TCTGTTCAACATTTCAAATCT
1 TCAAGATGGTGGGAAGATTC-GCTCAACACTTCAAAGCT
2055623 TC
1 TC
2055625 GAGGTGACTG
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
37 3 0.05
38 60 0.94
39 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (38 bp):
TCAAGATGGTGGGAAGATTCGCTCAACACTTCAAAGCT
Found at i:2056187 original size:35 final size:35
Alignment explanation
Indices: 2056146--2056215 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
2056136 AATAAAATAT
2056146 TATCTAGATAAATACTAAATTAAATATAATATTAA
1 TATCTAGATAAATACTAAATTAAATATAATATTAA
* * *
2056181 TATCTAGATAAATATTAAATTTAATTTAATATTAA
1 TATCTAGATAAATACTAAATTAAATATAATATTAA
2056216 ATTCATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.41
Consensus pattern (35 bp):
TATCTAGATAAATACTAAATTAAATATAATATTAA
Found at i:2061761 original size:123 final size:123
Alignment explanation
Indices: 2061611--2061855 Score: 341
Period size: 123 Copynumber: 2.0 Consensus size: 123
2061601 ATATTTTAAA
* * * * * *
2061611 TTCCAAAACGTCACACCAATGAATTTAATAGAGGAATTTTAACGGTGATAATAATGGGTCCTGAA
1 TTCCAAAACGTCACACCAATGAATTTAATAGAAGAATATTAACAGTGATAATAATAGATCCTAAA
* * *
2061676 TTTTTAAATCTGAAAAGTAGATAATTAAATTAT-TTAAAATAAGAGTATGGAA-ACTAAG
66 TTTTTAAATCCGAAAAGAAGATAATTAAATT-TCTAAAAATAAGAGTAT-GAAGACTAAG
*
2061734 TTCCAAAACGTCACACCAATGAATTTAATAGAAGAATATTAACAGTGGTAATAATAGATCCTAAA
1 TTCCAAAACGTCACACCAATGAATTTAATAGAAGAATATTAACAGTGATAATAATAGATCCTAAA
* * *
2061799 TTTTTAAATCCGAAAAGAAGTTGATTAAATTTCTAAAAATAAGATTATGAAGACTAA
66 TTTTTAAATCCGAAAAGAAGATAATTAAATTTCTAAAAATAAGAGTATGAAGACTAA
2061856 AATTCAAATA
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
122 4 0.04
123 103 0.96
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (123 bp):
TTCCAAAACGTCACACCAATGAATTTAATAGAAGAATATTAACAGTGATAATAATAGATCCTAAA
TTTTTAAATCCGAAAAGAAGATAATTAAATTTCTAAAAATAAGAGTATGAAGACTAAG
Found at i:2062424 original size:24 final size:23
Alignment explanation
Indices: 2062392--2062448 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 23
2062382 TAAAAAATAT
2062392 ATAAAAAATATTAAAATTTTAAAA
1 ATAAAAAATATTAAAA-TTTAAAA
2062416 ATAAAAAATATATTAAAATTTAAAA
1 AT-AAAAA-ATATTAAAATTTAAAA
2062441 ATAAAAAA
1 ATAAAAAA
2062449 GTTAAATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 1 0.03
24 7 0.23
25 14 0.45
26 9 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
ATAAAAAATATTAAAATTTAAAA
Found at i:2062431 original size:18 final size:18
Alignment explanation
Indices: 2062382--2062443 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
2062372 TAATATTATT
*
2062382 TAAAAAATATATAAAAAA
1 TAAAAAATATATTAAAAA
*
2062400 TATTAAAAT-T-TTAAAAA
1 TA-AAAAATATATTAAAAA
*
2062417 TAAAAAATATATTAAAAT
1 TAAAAAATATATTAAAAA
*
2062435 TTAAAAATA
1 TAAAAAATA
2062444 AAAAAGTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
16 5 0.14
17 9 0.25
18 17 0.47
19 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAAAATATATTAAAAA
Found at i:2064154 original size:13 final size:13
Alignment explanation
Indices: 2064136--2064162 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2064126 TATACTTTAA
2064136 TGGTGGTTATAAG
1 TGGTGGTTATAAG
2064149 TGGTGGTTATAAG
1 TGGTGGTTATAAG
2064162 T
1 T
2064163 TGGGTGTTGT
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:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (13 bp):
TGGTGGTTATAAG
Found at i:2066552 original size:17 final size:17
Alignment explanation
Indices: 2066530--2066569 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
2066520 GAAGTCCTAG
2066530 ATTTGTATC-ATTAGACA
1 ATTTGTATCTATT-GACA
2066547 ATTTGTATCTATTGACA
1 ATTTGTATCTATTGACA
2066564 ATTTGT
1 ATTTGT
2066570 TTTCATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (17 bp):
ATTTGTATCTATTGACA
Found at i:2067404 original size:19 final size:19
Alignment explanation
Indices: 2067380--2067425 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
2067370 TCTTGTCACT
2067380 ATATATTTTAGAAT-TAAAA
1 ATATATTTTA-AATGTAAAA
2067399 ATATA--TTAAATGTAAAA
1 ATATATTTTAAATGTAAAA
2067416 ATATGATTTT
1 ATAT-ATTTT
2067426 TGTAATTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.13
17 12 0.52
18 1 0.04
19 5 0.22
20 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (19 bp):
ATATATTTTAAATGTAAAA
Found at i:2067553 original size:30 final size:31
Alignment explanation
Indices: 2067510--2067569 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
2067500 GGAGGTGGGA
*
2067510 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
*
2067541 TGGGAA-GGAATAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
2067570 TAAAAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:2067715 original size:30 final size:31
Alignment explanation
Indices: 2067674--2067734 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
2067664 GGGTTGGGAG
* *
2067674 GGGAGAGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
2067705 GGGA-AGGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
2067735 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.20
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:2080630 original size:25 final size:25
Alignment explanation
Indices: 2080610--2080667 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
2080600 ATTAAATTTT
2080610 AAAAAATCATAGTTTTATAAATTCC
1 AAAAAATCATAGTTTTATAAATTCC
*
2080635 ACAAAATCATAGTTTTATAAATTCC
1 AAAAAATCATAGTTTTATAAATTCC
2080660 ACAAAAAT
1 A-AAAAAT
2080668 ATTAAAACTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 25 0.83
26 5 0.17
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.33
Consensus pattern (25 bp):
AAAAAATCATAGTTTTATAAATTCC
Found at i:2080764 original size:20 final size:19
Alignment explanation
Indices: 2080739--2080783 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
2080729 TGGATTTGGG
* *
2080739 GAATTTTTTATAATTTTTTT
1 GAATTTTTAAT-ATCTTTTT
2080759 GAATTTTTAATATCTTTTT
1 GAATTTTTAATATCTTTTT
2080778 -AATTTT
1 GAATTTT
2080784 CAAGTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 6 0.26
19 7 0.30
20 10 0.43
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
GAATTTTTAATATCTTTTT
Found at i:2081912 original size:45 final size:45
Alignment explanation
Indices: 2081828--2081994 Score: 142
Period size: 45 Copynumber: 3.7 Consensus size: 45
2081818 AGATCATATA
* * * ** * *
2081828 AAATATTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAGATAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGACAGC
* *
2081873 GAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGACAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGACAGC
** * * **
2081918 AAATCTGGTCTCCCT-ACAATTGCAGTGGAGCAGGTTGGAGTTA-C
1 AAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGGTTGAAGACAGC
* *
2081962 AAGTCTTATCTCCCT-AACATTGCAGTGGAGCAG
1 AAATCTTATCTCCCTGAA-GTTGCAGTGGAGCAG
2081995 ACTAAAACCA
Statistics
Matches: 100, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
43 1 0.01
44 30 0.30
45 69 0.69
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (45 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGACAGC
Found at i:2081989 original size:44 final size:45
Alignment explanation
Indices: 2081892--2081994 Score: 129
Period size: 44 Copynumber: 2.3 Consensus size: 45
2081882 CTCTCTGAAG
*
2081892 TTGCAGTGGAGCAGGTTGAAGACAGCAAATCTGGTCTCCCTACAA
1 TTGCAGTGGAGCAGGTTGAAGACAGCAAATCTGATCTCCCTACAA
* ** * *
2081937 TTGCAGTGGAGCAGGTTGGAGTTA-CAAGTCTTATCTCCCTA-ACA
1 TTGCAGTGGAGCAGGTTGAAGACAGCAAATCTGATCTCCCTACA-A
2081981 TTGCAGTGGAGCAG
1 TTGCAGTGGAGCAG
2081995 ACTAAAACCA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
43 1 0.02
44 29 0.57
45 21 0.41
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (45 bp):
TTGCAGTGGAGCAGGTTGAAGACAGCAAATCTGATCTCCCTACAA
Found at i:2092711 original size:13 final size:13
Alignment explanation
Indices: 2092693--2092723 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2092683 TTTATTTGTA
2092693 TAAATTTAAATTT
1 TAAATTTAAATTT
*
2092706 TAAATTTTAATTT
1 TAAATTTAAATTT
2092719 TAAAT
1 TAAAT
2092724 AATTTTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TAAATTTAAATTT
Found at i:2095980 original size:18 final size:19
Alignment explanation
Indices: 2095957--2096000 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
2095947 TTTTTATCAT
2095957 ATATTTTT-TGAA-TTTTAA
1 ATATTTTTAT-AACTTTTAA
2095975 ATATTTTTATAACTTTTAA
1 ATATTTTTATAACTTTTAA
2095994 ATTATTT
1 A-TATTT
2096001 GTTAGTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.43
19 8 0.35
20 5 0.22
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
ATATTTTTATAACTTTTAA
Found at i:2100690 original size:20 final size:21
Alignment explanation
Indices: 2100662--2100704 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
2100652 TTAAATATAA
2100662 ATTAAAAATTCATAAA-AATT
1 ATTAAAAATTCATAAACAATT
* *
2100682 ATTATAAATTTATAAACAATT
1 ATTAAAAATTCATAAACAATT
2100703 AT
1 AT
2100705 AAGACATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTAAAAATTCATAAACAATT
Found at i:2102562 original size:59 final size:57
Alignment explanation
Indices: 2102451--2102574 Score: 133
Period size: 59 Copynumber: 2.1 Consensus size: 57
2102441 CGTCGTCCTC
* * * *
2102451 CTTGTTTTGCTCTATTTTTTAATGTCATCCTCTCGATTTAATAATCTCTTTTGGGGT
1 CTTGTTTTGCTCTATTTTTTAATATCATCCTCTCAATTTAAAAACCTCTTTTGGGGT
* * * *
2102508 CTTGTCTTCTGCTCTATTTTTTGATATCCTTCTCTCAATTTAAAAACC-CTTTTTGGGGGC
1 CTTGT-TT-TGCTCTATTTTTTAATATCATCCTCTCAATTTAAAAACCTC-TTTT-GGGGT
2102568 CTTGTTT
1 CTTGTTT
2102575 GAGCTTTCGT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
57 5 0.09
58 3 0.05
59 38 0.69
60 9 0.16
ACGTcount: A:0.15, C:0.20, G:0.14, T:0.51
Consensus pattern (57 bp):
CTTGTTTTGCTCTATTTTTTAATATCATCCTCTCAATTTAAAAACCTCTTTTGGGGT
Found at i:2103179 original size:40 final size:39
Alignment explanation
Indices: 2103096--2103181 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
2103086 TAATTTTTAA
** *
2103096 TATTTTTTGTATTTTTAATAATTTTCTCTAACTTATTCG
1 TATTTTTTGTATTTTTAATAATTTTCTAAAACTTATGCG
*
2103135 TATTTCTTTGTATTTTTTAATAA-TTTCTAAAATTTTATGC-
1 TATTT-TTTGTA-TTTTTAATAATTTTCTAAAA-CTTATGCG
2103175 TATTTTT
1 TATTTTT
2103182 ATGATAATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
39 7 0.17
40 18 0.45
41 15 0.38
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.63
Consensus pattern (39 bp):
TATTTTTTGTATTTTTAATAATTTTCTAAAACTTATGCG
Found at i:2103670 original size:622 final size:622
Alignment explanation
Indices: 2102646--2103817 Score: 2335
Period size: 622 Copynumber: 1.9 Consensus size: 622
2102636 TGAGGAGGAC
2102646 TGATGTGTTTTGACGCTAGTGTTCCTTTTTTTGTGAGTGTTTTACTGCTACTCCCAGATGGTGGA
1 TGATGTGTTTTGACGCTAGTGTTCCTTTTTTTGTGAGTGTTTTACTGCTACTCCCAGATGGTGGA
2102711 TGGGTGGTGGTGCCTAAAGCCTCCATATGCTACTTTTCTTATTTTTCTGTTTATTTGTCAGATCC
66 TGGGTGGTGGTGCCTAAAGCCTCCATATGCTACTTTTCTTATTTTTCTGTTTATTTGTCAGATCC
2102776 AAAACCTTTAACGATTTAGTCATTGTTTGAGTATTGTTTTGGGAATGTCGCTGGTGGTTAATTTT
131 AAAACCTTTAACGATTTAGTCATTGTTTGAGTATTGTTTTGGGAATGTCGCTGGTGGTTAATTTT
2102841 GATTTGTCTAAGGTGGCTCTGAACCTCTGCTCTCTTACAGTGTCTTCTAGTGGGTGATTAAGGAC
196 GATTTGTCTAAGGTGGCTCTGAACCTCTGCTCTCTTACAGTGTCTTCTAGTGGGTGATTAAGGAC
2102906 GCTCGACTCTGTCTCGTGCTTCATTGTTTCTCTCCCTTTTTGTAAGTAGGGTCTTTAGTGGAAAC
261 GCTCGACTCTGTCTCGTGCTTCATTGTTTCTCTCCCTTTTTGTAAGTAGGGTCTTTAGTGGAAAC
2102971 GGAGGCATTTGGTATGAGGTCCAAAAAAATAAAATTAAAAATGCCAAACACTCCAAACCAATAAA
326 GGAGGCATTTGGTATGAGGTCCAAAAAAATAAAATTAAAAATGCCAAACACTCCAAACCAATAAA
2103036 AAAATCTATAATTTTTATAACATTTTAATAATTTTTATAAAAGTTACTACTAATTTTTAATATTT
391 AAAATCTATAATTTTTATAACATTTTAATAATTTTTATAAAAGTTACTACTAATTTTTAATATTT
2103101 TTTGTATTTTTAATAATTTTCTCTAACTTATTCGTATTTCTTTGTATTTTTTAATAATTTCTAAA
456 TTTGTATTTTTAATAATTTTCTCTAACTTATTCGTATTTCTTTGTATTTTTTAATAATTTCTAAA
*
2103166 ATTTTATGCTATTTTTATGATAATGTATTTATATTTAACGATGTTTTAATAAATTTCCTGTGTTT
521 ATTTTATGCTATTTTTATAATAATGTATTTATATTTAACGATGTTTTAATAAATTTCCTGTGTTT
2103231 TTATAAACTATTTATAACATTTAAAAATTTTCTATCA
586 TTATAAACTATTTATAACATTTAAAAATTTTCTATCA
2103268 TGATGTGTTTTGACGCTAGTGTTCCTTTTTTTGTGAGTGTTTTACTGCTACTCCCAGATGGTGGA
1 TGATGTGTTTTGACGCTAGTGTTCCTTTTTTTGTGAGTGTTTTACTGCTACTCCCAGATGGTGGA
2103333 TGGGTGGTGGTGCCTAAAGCCTCCATATGCTACTTTTCTTATTTTTCTGTTTATTTGTCAGATCC
66 TGGGTGGTGGTGCCTAAAGCCTCCATATGCTACTTTTCTTATTTTTCTGTTTATTTGTCAGATCC
2103398 AAAACCTTTAACGATTTAGTCATTGTTTGAGTATTGTTTTGGGAATGTCGCTGGTGGTTAATTTT
131 AAAACCTTTAACGATTTAGTCATTGTTTGAGTATTGTTTTGGGAATGTCGCTGGTGGTTAATTTT
2103463 GATTTGTCTAAGGTGGCTCTGAACCTCTGCTCTCTTACAGTGTCTTCTAGTGGGTGATTAAGGAC
196 GATTTGTCTAAGGTGGCTCTGAACCTCTGCTCTCTTACAGTGTCTTCTAGTGGGTGATTAAGGAC
2103528 GCTCGACTCTGTCTCGTGCTTCATTGTTTCTCTCCCTTTTTGTAAGTAGGGTCTTTAGTGGAAAC
261 GCTCGACTCTGTCTCGTGCTTCATTGTTTCTCTCCCTTTTTGTAAGTAGGGTCTTTAGTGGAAAC
2103593 GGAGGCATTTGGTATGAGGTCCAAAAAAATAAAATTAAAAATGCCAAACACTCCAAACCAATAAA
326 GGAGGCATTTGGTATGAGGTCCAAAAAAATAAAATTAAAAATGCCAAACACTCCAAACCAATAAA
2103658 AAAATCTATAATTTTTATAACATTTTAATAATTTTTATAAAAGTTACTACTAATTTTTAATATTT
391 AAAATCTATAATTTTTATAACATTTTAATAATTTTTATAAAAGTTACTACTAATTTTTAATATTT
2103723 TTTGTATTTTTAATAATTTTCTCTAACTTATTCGTATTTCTTTGTATTTTTTAATAATTTCTAAA
456 TTTGTATTTTTAATAATTTTCTCTAACTTATTCGTATTTCTTTGTATTTTTTAATAATTTCTAAA
2103788 ATTTTATGCTATTTTTATAATAATGTATTT
521 ATTTTATGCTATTTTTATAATAATGTATTT
2103818 CCTGTATTTT
Statistics
Matches: 549, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
622 549 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (622 bp):
TGATGTGTTTTGACGCTAGTGTTCCTTTTTTTGTGAGTGTTTTACTGCTACTCCCAGATGGTGGA
TGGGTGGTGGTGCCTAAAGCCTCCATATGCTACTTTTCTTATTTTTCTGTTTATTTGTCAGATCC
AAAACCTTTAACGATTTAGTCATTGTTTGAGTATTGTTTTGGGAATGTCGCTGGTGGTTAATTTT
GATTTGTCTAAGGTGGCTCTGAACCTCTGCTCTCTTACAGTGTCTTCTAGTGGGTGATTAAGGAC
GCTCGACTCTGTCTCGTGCTTCATTGTTTCTCTCCCTTTTTGTAAGTAGGGTCTTTAGTGGAAAC
GGAGGCATTTGGTATGAGGTCCAAAAAAATAAAATTAAAAATGCCAAACACTCCAAACCAATAAA
AAAATCTATAATTTTTATAACATTTTAATAATTTTTATAAAAGTTACTACTAATTTTTAATATTT
TTTGTATTTTTAATAATTTTCTCTAACTTATTCGTATTTCTTTGTATTTTTTAATAATTTCTAAA
ATTTTATGCTATTTTTATAATAATGTATTTATATTTAACGATGTTTTAATAAATTTCCTGTGTTT
TTATAAACTATTTATAACATTTAAAAATTTTCTATCA
Found at i:2103801 original size:40 final size:39
Alignment explanation
Indices: 2103718--2103803 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
2103708 TAATTTTTAA
** *
2103718 TATTTTTTGTATTTTTAATAATTTTCTCTAACTTATTCG
1 TATTTTTTGTATTTTTAATAATTTTCTAAAACTTATGCG
*
2103757 TATTTCTTTGTATTTTTTAATAA-TTTCTAAAATTTTATGC-
1 TATTT-TTTGTA-TTTTTAATAATTTTCTAAAA-CTTATGCG
2103797 TATTTTT
1 TATTTTT
2103804 ATAATAATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
39 7 0.17
40 18 0.45
41 15 0.38
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.63
Consensus pattern (39 bp):
TATTTTTTGTATTTTTAATAATTTTCTAAAACTTATGCG
Found at i:2105176 original size:40 final size:40
Alignment explanation
Indices: 2105104--2105179 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
2105094 ACTGTTCATG
* *
2105104 CCACGTCAGCAAATCGCGTCCTCGTAGGCGCGATTTGTGT
1 CCACGTAAGCAAATCGCGTCCACGTAGGCGCGATTTGTGT
**
2105144 CCACGTAAGCAAATCGCGTTGACGT-GGACGCGATTT
1 CCACGTAAGCAAATCGCGTCCACGTAGG-CGCGATTT
2105180 TCTGACGCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.06
40 29 0.94
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.24
Consensus pattern (40 bp):
CCACGTAAGCAAATCGCGTCCACGTAGGCGCGATTTGTGT
Found at i:2110515 original size:27 final size:26
Alignment explanation
Indices: 2110484--2110548 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
2110474 GGGCTGCCAT
** *
2110484 AGGCGGCACCATTGGTGCCAATGGCAG
1 AGGCGGCACCA-TGGTGCCAATACCAC
*
2110511 AGGCGGCACCGATGGTGCCACTACCAC
1 AGGCGGCACC-ATGGTGCCAATACCAC
2110538 AGGCGGCACCA
1 AGGCGGCACCA
2110549 CTTCCCTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.03
27 31 0.94
28 1 0.03
ACGTcount: A:0.23, C:0.32, G:0.34, T:0.11
Consensus pattern (26 bp):
AGGCGGCACCATGGTGCCAATACCAC
Found at i:2110618 original size:10 final size:11
Alignment explanation
Indices: 2110587--2110650 Score: 54
Period size: 11 Copynumber: 6.5 Consensus size: 11
2110577 CCCGGTGGGT
*
2110587 GGAGAAGAAAA
1 GGAGAAGGAAA
2110598 GGAGAAGGAAA
1 GGAGAAGGAAA
2110609 GGAG-AGGAAA
1 GGAGAAGGAAA
2110619 -GA-AA-GAAA
1 GGAGAAGGAAA
*
2110627 -GAAAAGG-AA
1 GGAGAAGGAAA
2110636 GGAGAA-GAAA
1 GGAGAAGGAAA
2110646 -GAGAA
1 GGAGAA
2110651 AAAAAAAGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
8 6 0.13
9 13 0.28
10 13 0.28
11 14 0.30
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (11 bp):
GGAGAAGGAAA
Found at i:2110645 original size:19 final size:19
Alignment explanation
Indices: 2110596--2110679 Score: 64
Period size: 18 Copynumber: 4.3 Consensus size: 19
2110586 TGGAGAAGAA
* *
2110596 AAGGAGAAGGAAAGGAGAGG
1 AAGGAGAA-GAAAGAAAAGG
*
2110616 AAAGA-AAGAAAGAAAAGG
1 AAGGAGAAGAAAGAAAAGG
**
2110634 AAGGAGAAGAAAGAGAAAAAAA
1 AAGGAGAAG-AA-AG-AAAAGG
2110656 AAGGAGAAG-AAGAAAAGGG
1 AAGGAGAAGAAAGAAAA-GG
2110675 AAGGA
1 AAGGA
2110680 AGGAAAAAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
18 17 0.33
19 12 0.24
20 7 0.14
21 2 0.04
22 13 0.25
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (19 bp):
AAGGAGAAGAAAGAAAAGG
Found at i:2110653 original size:22 final size:22
Alignment explanation
Indices: 2110587--2110666 Score: 72
Period size: 22 Copynumber: 3.4 Consensus size: 22
2110577 CCCGGTGGGT
2110587 GGAGAAGAAAAGGAGAAGGAAAGGAGA
1 GGAGAAG-AAA-GAGAA--AAAGGA-A
*
2110614 GGA-AAGAAAGAAAGAAAAGGAA
1 GGAGAAGAAAGAGA-AAAAGGAA
**
2110636 GGAGAAGAAAGAGAAAAAAAAA
1 GGAGAAGAAAGAGAAAAAGGAA
2110658 GGAGAAGAA
1 GGAGAAGAA
2110667 GAAAAGGGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
22 19 0.40
23 15 0.32
24 3 0.06
25 4 0.09
26 3 0.06
27 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (22 bp):
GGAGAAGAAAGAGAAAAAGGAA
Found at i:2110686 original size:15 final size:14
Alignment explanation
Indices: 2110625--2110677 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
2110615 GAAAGAAAGA
*
2110625 AAGAAAAGGAAGGAG
1 AAGAAAAGG-AGAAG
2110640 AAG-AAA-GAGAA-
1 AAGAAAAGGAGAAG
*
2110651 AAAAAAAGGAGAAG
1 AAGAAAAGGAGAAG
2110665 AAGAAAAGG-GAAG
1 AAGAAAAGGAGAAG
2110678 GAAGGAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
11 2 0.06
12 6 0.19
13 10 0.31
14 11 0.34
15 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (14 bp):
AAGAAAAGGAGAAG
Found at i:2110686 original size:34 final size:36
Alignment explanation
Indices: 2110591--2110703 Score: 99
Period size: 34 Copynumber: 3.1 Consensus size: 36
2110581 GTGGGTGGAG
* *
2110591 AAGAAAAGGAGAAGGAAAGGAGAGGAAAGAAA-GAAAGAA
1 AAGAAAAGGAGAA-GAAA-GAGA-AAAAAAAAGGAAA-AA
* * *
2110630 AAG-GAAGGAGAAGAAAGAGAAAAAAAAAGGAGAAG
1 AAGAAAAGGAGAAGAAAGAGAAAAAAAAAGGAAAAA
* *
2110665 AAGAAAAGG-GAAGGAAG-GAAAAAGAAAGGAAAAA
1 AAGAAAAGGAGAAGAAAGAGAAAAAAAAAGGAAAAA
2110699 AAGAA
1 AAGAA
2110704 GTAAAGGTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
34 19 0.31
35 17 0.27
36 11 0.18
37 4 0.06
38 8 0.13
39 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (36 bp):
AAGAAAAGGAGAAGAAAGAGAAAAAAAAAGGAAAAA
Found at i:2111599 original size:137 final size:137
Alignment explanation
Indices: 2111439--2111859 Score: 666
Period size: 137 Copynumber: 3.0 Consensus size: 137
2111429 AAATTTGGGA
* **
2111439 AAAAAATACGAACTAAGGGCCGAAATAAGGGTTTTTTACTAAATTAAAAAAAAACAGAAATAATT
1 AAAAAATACTAAGAAAGGGCCGAAATAAGGGTTTTTTACTAAATTAAAAAAAAACAGAAATAATT
2111504 AATACATTTCAAGCATAATGTACTAAGATAAAGTAAAATAATAAAATTAGAAAATATGATTTTTT
66 AATACATTTCAAGCATAATGTACTAAGATAAAGTAAAATAATAAAATTAGAAAATATGATTTTTT
2111569 TTAAAGT
131 TTAAAGT
2111576 AAAAAATACTAAGAAAGGGCCGAAATAAGGGTTTTTTACTAAATTAAAAAAAAACAGAAATAATT
1 AAAAAATACTAAGAAAGGGCCGAAATAAGGGTTTTTTACTAAATTAAAAAAAAACAGAAATAATT
* *
2111641 AATACATTTCAAGCATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATATGATTTTTT
66 AATACATTTCAAGCATAATGTACTAAGATAAAGTAAAATAATAAAATTAGAAAATATGATTTTTT
2111706 TTAAAGT
131 TTAAAGT
* *
2111713 AAAAAATACTAAGAAAGGGCCGAAATAAGGGTTTTTTTACTAAATTTAAAAAAAACAGAATTAAT
1 AAAAAATACTAAGAAAGGGCCGAAATAAGGG-TTTTTTACTAAATTAAAAAAAAACAGAAATAAT
* * * * *
2111778 TAATACATTTAAAACATACTGTACTAAGATAAAGTTAAATAATAAAA-TACCAAAATAAT-ATAT
65 TAATACATTTCAAGCATAATGTACTAAGATAAAGTAAAATAATAAAATTA-GAAAAT-ATGAT-T
2111841 TTTTATTGAAAGT
127 TTTT-TT-AAAGT
2111854 AAAAAA
1 AAAAAA
2111860 ATTCGAGAAA
Statistics
Matches: 264, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
137 165 0.62
138 79 0.30
139 7 0.03
140 2 0.01
141 11 0.04
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.29
Consensus pattern (137 bp):
AAAAAATACTAAGAAAGGGCCGAAATAAGGGTTTTTTACTAAATTAAAAAAAAACAGAAATAATT
AATACATTTCAAGCATAATGTACTAAGATAAAGTAAAATAATAAAATTAGAAAATATGATTTTTT
TTAAAGT
Found at i:2114268 original size:77 final size:77
Alignment explanation
Indices: 2114177--2114584 Score: 744
Period size: 77 Copynumber: 5.3 Consensus size: 77
2114167 AATTGGATAC
*
2114177 AATTTTAATTATTCCAAATGAATCATGTTTTTAATACCTTAATTTGGATACAACTTAAGCATAAG
1 AATTTTAATTATTCCAAATGAATCATGTTTTTAATACCTTAATTTGGATACAATTTAAGCATAAG
2114242 CATAAGCTGAAT
66 CATAAGCTGAAT
2114254 AATTTTAATTATTCCAAATGAATCATGTTTTTAATACCTTAATTTGGATACAATTTAAGCATAAG
1 AATTTTAATTATTCCAAATGAATCATGTTTTTAATACCTTAATTTGGATACAATTTAAGCATAAG
*
2114319 CATAAGCAGAAT
66 CATAAGCTGAAT
* * * *
2114331 AATTTTAATTATTCCAAATGAATCATGTTGTTAATACCTTAATTTGTATACAACTTAAGCATAAA
1 AATTTTAATTATTCCAAATGAATCATGTTTTTAATACCTTAATTTGGATACAATTTAAGCATAAG
2114396 CATAAGCTGAAT
66 CATAAGCTGAAT
2114408 AATTTTAATTATTCCAAATGAATCATGTTTTTAATACCTTAATTTGGATACAATTTAAGCATAAG
1 AATTTTAATTATTCCAAATGAATCATGTTTTTAATACCTTAATTTGGATACAATTTAAGCATAAG
*
2114473 CATAAGCAGAAT
66 CATAAGCTGAAT
*
2114485 AATTTTAATTATTCCAAATGAATCATGTTTTTAATACCTTAATTTGGATGCAATTTAAGCATAAG
1 AATTTTAATTATTCCAAATGAATCATGTTTTTAATACCTTAATTTGGATACAATTTAAGCATAAG
2114550 CATAAGCTGAAT
66 CATAAGCTGAAT
2114562 AATTTTAATTATTCCAAATGAAT
1 AATTTTAATTATTCCAAATGAAT
2114585 TATACTTTTT
Statistics
Matches: 317, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 317 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (77 bp):
AATTTTAATTATTCCAAATGAATCATGTTTTTAATACCTTAATTTGGATACAATTTAAGCATAAG
CATAAGCTGAAT
Found at i:2116510 original size:12 final size:12
Alignment explanation
Indices: 2116493--2116521 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
2116483 TAGAAAATGA
2116493 ATGTATTAAAAT
1 ATGTATTAAAAT
2116505 ATGTATTAAAAT
1 ATGTATTAAAAT
2116517 ATGTA
1 ATGTA
2116522 GGTATACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (12 bp):
ATGTATTAAAAT
Found at i:2118106 original size:44 final size:44
Alignment explanation
Indices: 2118049--2118607 Score: 494
Period size: 44 Copynumber: 12.7 Consensus size: 44
2118039 ATCTGATGCG
* * *
2118049 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGGTTTTA
* * ** *
2118093 ATCTGTTCCACTGCAACTTCAGGGAGATAGGAT-TATTTTTCTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGGTT-TTA
* **
2118137 TTCCACTCCACTGCAAC-TCAGGGAGATAAGATCTATGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGGTTTTA
* * *
2118180 ATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TAT-TTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGGTT-TT-A
* * *
2118224 GTCTACTCCACTGTAACTTCAGGGAGATAAGATCTATGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGGTTTTA
* * *
2118268 ATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TAT-TTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGGTT-TT-A
* * * * *
2118312 GTCTACTCCCCTGTAACTTCAGGGAGATAAGATCTATGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGGTTTTA
* * * *
2118356 ATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TAT-TTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGGTT-TT-A
* * * * *
2118400 GTCTACTCCCCTGTAACTTCAGGGAGATAAGATCTATGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGGTTTTA
* * * *
2118444 ATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TAT-TTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGGTT-TT-A
* * * * *
2118488 GTCTACTCCCCTGTAACTTCAGGGAGATAAGATCTATGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGGTTTTA
* * * *
2118532 ATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TAT-TTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGGTT-TT-A
* *
2118576 GTCTACTCCACTGCAACTTCAGGGAGATAAGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA
2118608 CTTGTATCTT
Statistics
Matches: 403, Mismatches: 91, Indels: 42
0.75 0.17 0.08
Matches are distributed among these distances:
42 7 0.02
43 59 0.15
44 312 0.77
45 20 0.05
46 5 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGGTTTTA
Found at i:2118283 original size:88 final size:88
Alignment explanation
Indices: 2118058--2118607 Score: 933
Period size: 88 Copynumber: 6.3 Consensus size: 88
2118048 GATCTGCTCT
* * * * * *
2118058 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGTTCCACTGCAACTTCAGGGAGATAG
1 ACTGTAACTTCAGGGAGATAAGATCTATGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
*
2118123 GATTATTTTTCTTCT-TCCACTCC
66 GATTA-TTTTCTTCTGTCTACTCC
* * *
2118146 ACTGCAAC-TCAGGGAGATAAGATCTATGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAG
1 ACTGTAACTTCAGGGAGATAAGATCTATGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
2118210 GATTATTTTCTTCTGTCTACTCC
66 GATTATTTTCTTCTGTCTACTCC
* *
2118233 ACTGTAACTTCAGGGAGATAAGATCTATGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAG
1 ACTGTAACTTCAGGGAGATAAGATCTATGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
2118298 GATTATTTTCTTCTGTCTACTCC
66 GATTATTTTCTTCTGTCTACTCC
*
2118321 CCTGTAACTTCAGGGAGATAAGATCTATGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
1 ACTGTAACTTCAGGGAGATAAGATCTATGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
2118386 GATTATTTTCTTCTGTCTACTCC
66 GATTATTTTCTTCTGTCTACTCC
*
2118409 CCTGTAACTTCAGGGAGATAAGATCTATGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
1 ACTGTAACTTCAGGGAGATAAGATCTATGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
2118474 GATTATTTTCTTCTGTCTACTCC
66 GATTATTTTCTTCTGTCTACTCC
*
2118497 CCTGTAACTTCAGGGAGATAAGATCTATGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
1 ACTGTAACTTCAGGGAGATAAGATCTATGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
2118562 GATTATTTTCTTCTGTCTACTCC
66 GATTATTTTCTTCTGTCTACTCC
*
2118585 ACTGCAACTTCAGGGAGATAAGA
1 ACTGTAACTTCAGGGAGATAAGA
2118608 CTTGTATCTT
Statistics
Matches: 450, Mismatches: 10, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
86 9 0.02
87 72 0.16
88 369 0.82
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (88 bp):
ACTGTAACTTCAGGGAGATAAGATCTATGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
GATTATTTTCTTCTGTCTACTCC
Found at i:2118669 original size:45 final size:45
Alignment explanation
Indices: 2118614--2118974 Score: 352
Period size: 44 Copynumber: 8.1 Consensus size: 45
2118604 AAGACTTGTA
*
2118614 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTT
* * * * * *
2118659 TCTTTGATCTACTTC-ACGCTAGTACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTT
* * *
2118703 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAAATCTGCTA
1 TCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTT
* * * ** *
2118748 TCTTTGATCTACTTC-ACGCCAGTGCATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTT
* *
2118792 TCTTCGATCTACTTCGCCACCAGTATAGGAAGATAAGATCTGCTA
1 TCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTT
* *** * * * *
2118837 TCTTCGATCTACTTC-ACGGTAATACATGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTT
* * * * *
2118881 TCTTCGATCTACTTTGCCACTAGTATGGGGAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTT
* * * * * * *
2118926 TCTTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGATT
1 TCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTT
2118970 TCTTC
1 TCTTC
2118975 AATTGATTCC
Statistics
Matches: 246, Mismatches: 67, Indels: 7
0.77 0.21 0.02
Matches are distributed among these distances:
44 128 0.52
45 118 0.48
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTT
Found at i:2118719 original size:89 final size:89
Alignment explanation
Indices: 2118614--2118974 Score: 578
Period size: 89 Copynumber: 4.1 Consensus size: 89
2118604 AAGACTTGTA
* *
2118614 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCT
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
*
2118679 AGTACATGAAGACAAGATCTGCTT
66 AATACATGAAGACAAGATCTGCTT
*
2118703 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAAATCTGCTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
* *
2118768 AGTGCATGAAGACAAGATCTGCTT
66 AATACATGAAGACAAGATCTGCTT
* * * **
2118792 TCTTCGATCTACTTCGCCACCAGTATAGGAAGATAAGATCTGCTATCTTCGATCTACTTCACGGT
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
*
2118857 AATACATGAAGACAAGATCTACTT
66 AATACATGAAGACAAGATCTGCTT
* * *
2118881 TCTTCGATCTACTTTGCCACTAGTATGGGGAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
*
2118946 AATACATGAAGACAAGATCTGATT
66 AATACATGAAGACAAGATCTGCTT
2118970 TCTTC
1 TCTTC
2118975 AATTGATTCC
Statistics
Matches: 249, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 249 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (89 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
AATACATGAAGACAAGATCTGCTT
Found at i:2119145 original size:132 final size:132
Alignment explanation
Indices: 2118993--2119455 Score: 764
Period size: 132 Copynumber: 3.5 Consensus size: 132
2118983 CCACCGCCGA
* * * * * ***
2118993 CCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAGATTTTGCCA
1 CCAGGGAGATAGAATTACTGGTTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
* * * *
2119058 GCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTAATCTTCGATCTATTCCACTGTT
2119123 GC
131 GC
* *
2119125 CCAGAGAGATAGAATTACTGGTTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCCACCA
1 CCAGGGAGATAGAATTACTGGTTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
*
2119190 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTAATCTTCGATCTATTCCACTGCT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTAATCTTCGATCTATTCCACTGTT
2119255 GC
131 GC
*
2119257 CCAGGGAGATAGAATTACTGGTTTCAATGTACTCCATTGTAACCTCAGGGAGGTAAAATCCACCA
1 CCAGGGAGATAGAATTACTGGTTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
* *
2119322 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTAATCTTTGATCTATTCCACTATT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTAATCTTCGATCTATTCCACTGTT
2119387 GC
131 GC
2119389 CCAGGGAGATAGAATTACTGGTTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
1 CCAGGGAGATAGAATTACTGGTTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
2119454 TC
66 TC
2119456 AACCTGCTCC
Statistics
Matches: 309, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 309 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
CCAGGGAGATAGAATTACTGGTTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTAATCTTCGATCTATTCCACTGTT
GC
Found at i:2120773 original size:13 final size:14
Alignment explanation
Indices: 2120755--2120803 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
2120745 CCTTAGCCTC
2120755 TCCATTTT-ACTTT
1 TCCATTTTCACTTT
**
2120768 TCCATTTTCAAATT
1 TCCATTTTCACTTT
2120782 T-CATTTTCACTTT
1 TCCATTTTCACTTT
*
2120795 TTCATTTTC
1 TCCATTTTC
2120804 CATCTCGTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.59
Consensus pattern (14 bp):
TCCATTTTCACTTT
Found at i:2123260 original size:27 final size:27
Alignment explanation
Indices: 2123219--2123270 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
2123209 TAGTATTGGC
2123219 GCCTATCTGGAAGGCGCCAATGGTGGT
1 GCCTATCTGGAAGGCGCCAATGGTGGT
* *
2123246 GCCTATTTGGGAGGCGCCAATGGTG
1 GCCTATCTGGAAGGCGCCAATGGTG
2123271 NNNNNNNNNN
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.17, C:0.21, G:0.38, T:0.23
Consensus pattern (27 bp):
GCCTATCTGGAAGGCGCCAATGGTGGT
Found at i:2124713 original size:19 final size:19
Alignment explanation
Indices: 2124673--2124714 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
2124663 GAGGTGTTTG
* *
2124673 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
2124692 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
2124711 ATGC
1 ATGC
2124715 GAAAAGAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:2128915 original size:3 final size:3
Alignment explanation
Indices: 2128907--2128950 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
2128897 ATTGAGACCC
*
2128907 TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2128951 TGGTTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2130359 original size:196 final size:196
Alignment explanation
Indices: 2130025--2130417 Score: 786
Period size: 196 Copynumber: 2.0 Consensus size: 196
2130015 CATCGTAGAT
2130025 AAGGAGAACTTGAAATCTTGGGAATTCTTCCTCACTAACCTGTGGAGGTATGTTATTAGCAACGA
1 AAGGAGAACTTGAAATCTTGGGAATTCTTCCTCACTAACCTGTGGAGGTATGTTATTAGCAACGA
2130090 TAACATTTGCATCATCTCCGATAGAGGGAAAGGTTTAATTGTAGCAATTAGGCGTTTAGGTGTGC
66 TAACATTTGCATCATCTCCGATAGAGGGAAAGGTTTAATTGTAGCAATTAGGCGTTTAGGTGTGC
2130155 CATAGAGATCCATTTACGGCATCCATCACATTGCGTCCAACTTCCATAAAGATTATAAGAATGCA
131 CATAGAGATCCATTTACGGCATCCATCACATTGCGTCCAACTTCCATAAAGATTATAAGAATGCA
2130220 G
196 G
2130221 AAGGAGAACTTGAAATCTTGGGAATTCTTCCTCACTAACCTGTGGAGGTATGTTATTAGCAACGA
1 AAGGAGAACTTGAAATCTTGGGAATTCTTCCTCACTAACCTGTGGAGGTATGTTATTAGCAACGA
2130286 TAACATTTGCATCATCTCCGATAGAGGGAAAGGTTTAATTGTAGCAATTAGGCGTTTAGGTGTGC
66 TAACATTTGCATCATCTCCGATAGAGGGAAAGGTTTAATTGTAGCAATTAGGCGTTTAGGTGTGC
2130351 CATAGAGATCCATTTACGGCATCCATCACATTGCGTCCAACTTCCATAAAGATTATAAGAATGCA
131 CATAGAGATCCATTTACGGCATCCATCACATTGCGTCCAACTTCCATAAAGATTATAAGAATGCA
2130416 G
196 G
2130417 A
1 A
2130418 CTGGAAGAGA
Statistics
Matches: 197, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
196 197 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (196 bp):
AAGGAGAACTTGAAATCTTGGGAATTCTTCCTCACTAACCTGTGGAGGTATGTTATTAGCAACGA
TAACATTTGCATCATCTCCGATAGAGGGAAAGGTTTAATTGTAGCAATTAGGCGTTTAGGTGTGC
CATAGAGATCCATTTACGGCATCCATCACATTGCGTCCAACTTCCATAAAGATTATAAGAATGCA
G
Found at i:2130694 original size:9 final size:9
Alignment explanation
Indices: 2130677--2130714 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
2130667 TGAATTTTCG
2130677 AATTCGAAT
1 AATTCGAAT
*
2130686 AACTCGAAT
1 AATTCGAAT
2130695 AATTCGAAT
1 AATTCGAAT
2130704 AATTCGAAT
1 AATTCGAAT
2130713 AA
1 AA
2130715 AAACTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (9 bp):
AATTCGAAT
Found at i:2130759 original size:29 final size:29
Alignment explanation
Indices: 2130719--2130777 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
2130709 GAATAAAAAC
*
2130719 TATATTTTTTATTTTTAAAATATACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
2130748 TATATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
2130777 T
1 T
2130778 TTAAAACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAATACACTACA
Found at i:2136653 original size:77 final size:76
Alignment explanation
Indices: 2136526--2136674 Score: 253
Period size: 77 Copynumber: 1.9 Consensus size: 76
2136516 AAAAAGTATA
2136526 ATTCATTTGGAATAATTAAAATTATTCAACTTATACTTATGCTTAAATTGTATCCAAATTAAGGT
1 ATTCATTTGGAATAATTAAAATTATTCAACTTATACTTATGCTTAAATTGTATCCAAATTAAGGT
2136591 ATTAAAAACATG
66 A-TAAAAACATG
* * * *
2136603 ATTCATTTGGAATAATTAAAATTATTCAGCTTATGCTTATGCTTAAATTGTATCCAATTTAAGTT
1 ATTCATTTGGAATAATTAAAATTATTCAACTTATACTTATGCTTAAATTGTATCCAAATTAAGGT
2136668 ATAAAAA
66 ATAAAAA
2136675 GTGTAATAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
76 6 0.09
77 62 0.91
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (76 bp):
ATTCATTTGGAATAATTAAAATTATTCAACTTATACTTATGCTTAAATTGTATCCAAATTAAGGT
ATAAAAACATG
Found at i:2137577 original size:13 final size:13
Alignment explanation
Indices: 2137539--2137582 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
2137529 TCGGGCGACG
2137539 ATATGGCATCCAT
1 ATATGGCATCCAT
2137552 ATAAACT-GCATCCAT
1 AT--A-TGGCATCCAT
2137567 ATATGGCATCCAT
1 ATATGGCATCCAT
2137580 ATA
1 ATA
2137583 AATTTAACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 14 0.52
15 11 0.41
16 1 0.04
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (13 bp):
ATATGGCATCCAT
Found at i:2138892 original size:152 final size:151
Alignment explanation
Indices: 2138708--2139918 Score: 1371
Period size: 152 Copynumber: 8.0 Consensus size: 151
2138698 AAAAAATTAG
* * *
2138708 TAAAAGAA-CCTTATTTCGGCCATTTGTTCGTATTTTTTCCCGAATTTTGTTACTTT-AAAAAAT
1 TAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTTAAAAAAAT
2138771 ATCATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAAATAAAT
66 ATCATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT--ATAAAT
2138836 TTAGTGTGTTTTTTAAATAAATT
129 TTAGTGTGTTTTTTAAATAAATT
* *
2138859 TAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTGCTCGAACTTTATTACTTTAAAAAAA
1 TAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTT-CCCGAATTTTATTACTTT-AAAAAA
2138924 ATATCATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAAATAA
64 ATATCATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT--ATAA
2138989 ATTTAGTGTGTTTTTTAAATAAATT
127 ATTTAGTGTGTTTTTTAAATAAATT
* * * * *
2139014 TAAAAAAAACCGTTATTTTGGCCCTTTGCTCGGAACTTTTTCCCGAATTTTATTACTTTAAATAA
1 T-AAAAAAACCCTTATTTCGGCCCTTTGTTC-GTATTTTTTCCCGAATTTTATTACTTT-AA-AA
* * * * *
2139079 AAATAT-ATTATTTT-TGTATTTTATTATTTTACTTTATCTTAGTACATTATGTTTTAAATGTAT
62 AAATATCA-TATTTTCT-AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAT
* * * *
2139142 TAA-TTAAT-TCTTTTTTAAAAAAATT
125 AAATTTAGTGTGTTTTTTAAATAAATT
* *
2139167 TAGTAAAAAATCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTGATTACTTTAAAAA
1 TA--AAAAAACCCTTATTTCGGCCCTTTGTTCGTA-TTTTTTCCCGAATTTTATTACTTTAAAAA
* * * *
2139232 AATATTATATTTTATAATTTTATTATTTTATATTATTTTAGTACATTATGTTTTAAATTTAAATA
63 AATATCATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT--ATA
*
2139297 AATTTAGTGTGTTTCTTAAATAAA-T
126 AATTTAGTGTGTTTTTTAAATAAATT
* * *
2139322 T-AAAAAACCCTTATTTCGGCCCTTTGCTCATATTTTTTCCCGATTTTTATTACTTTCAATAAAA
1 TAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTT-AA-AAAA
* * * *
2139386 ATAT-ATTATTTTC-ATATTTTATTATTTTA-ATTTATCTTAGTACATTATGCTTGAAATGTATT
64 ATATCA-TATTTTCTA-ATTTTATTATTTTACA-TTATTTTAGTACATTATGTTTGAAATTTATA
* *
2139448 AA-TTA-TTTCTTTTTT---T-AATT
126 AATTTAGTGTGTTTTTTAAATAAATT
** *
2139468 TAATAAAAAACCCTTATTTTAGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTT-AAAAT
1 T-A-AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTTAAAAAA
*
2139532 ATATCATATTTTCTAATTTTATTATTTTAAATTATTTTAGTACATTATGTTTGAAATTTAAATAA
64 ATATCATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT--ATAA
*
2139597 ATTTAATGTG-TTTTTAAATAAATT
127 ATTTAGTGTGTTTTTTAAATAAATT
* * * * *
2139621 TAAAAAAAACCTTATTTCGGCCATTTGCTCGTATTTTTTTTCCC-TA-TTT-TTACTTTTAATAA
1 TAAAAAAACCCTTATTTCGGCCCTTTGTTCGTA--TTTTTTCCCGAATTTTATTAC-TTTAAAAA
* * *
2139683 AATAT-ATTATTTT-TGTATTTTATT-TTTTACATTATTTTAGTACATTATGTTTGAAATGTATT
63 AATATCA-TATTTTCT-AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATA
** * * **
2139745 AATTTTTTTTTTATTTTTTTA-AAATT
126 AATTTAGTGTGT-TTTTTAAATAAATT
* * **
2139771 TAGTAAAAAACCCCTACTTCGGCCCTTTGTTCGTATTTTTCTCCCGTGTTTTATTACTTT-AAAA
1 TA--AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTT-TCCCGAATTTTATTACTTTAAAAA
* *
2139835 AA-ATCATATTTTTTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAA
63 AATATCATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATAAA
2139899 TTTAGTGTGTTTTTTAAATA
128 TTTAGTGTGTTTTTTAAATA
2139919 TACAATTTTT
Statistics
Matches: 907, Mismatches: 97, Indels: 111
0.81 0.09 0.10
Matches are distributed among these distances:
145 2 0.00
146 56 0.06
147 4 0.00
148 4 0.00
149 74 0.08
150 21 0.02
151 132 0.15
152 221 0.24
153 109 0.12
154 58 0.06
155 106 0.12
156 59 0.07
157 61 0.07
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.51
Consensus pattern (151 bp):
TAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTTAAAAAAAT
ATCATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATAAATTT
AGTGTGTTTTTTAAATAAATT
Found at i:2139255 original size:18 final size:18
Alignment explanation
Indices: 2139234--2139271 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2139224 TTTAAAAAAA
2139234 TATTATATTT-TATAATTT
1 TATTAT-TTTATATAATTT
*
2139252 TATTATTTTATATTATTT
1 TATTATTTTATATAATTT
2139270 TA
1 TA
2139272 GTACATTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTTTATATAATTT
Found at i:2140297 original size:22 final size:23
Alignment explanation
Indices: 2140269--2140329 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 23
2140259 TTCCCTCTTC
*
2140269 TTCTTCTCCTTT-TTTTTTTTCT
1 TTCTTCTCCTTTCTTTTCTTTCT
2140291 TTCTTCTCCTTTCCTTTTCTTTCT
1 TTCTTCTCCTTT-CTTTTCTTTCT
* *
2140315 TTCTTTTTCTTTCTT
1 TTCTTCTCCTTTCTT
2140330 CCACTACACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 12 0.35
23 3 0.09
24 19 0.56
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (23 bp):
TTCTTCTCCTTTCTTTTCTTTCT
Found at i:2140327 original size:34 final size:33
Alignment explanation
Indices: 2140231--2140331 Score: 100
Period size: 34 Copynumber: 2.9 Consensus size: 33
2140221 ATTACCTTTA
*
2140231 CTTCTTTT-TTTCCTTTCTTTTTCCTTCCTTCCCT
1 CTTCTTTTCTTT-CTTTCTTTTT-CTTTCTTCCCT
*
2140265 CTTCTTCTTCTCCTT-TTTTTTTTTCTTTCTTCTCCT
1 CTTCTT-TTCT--TTCTTTCTTTTTCTTTCTTC-CCT
2140301 -TTCCTTTTCTTTCTTTCTTTTTCTTTCTTCC
1 CTT-CTTTTCTTTCTTTCTTTTTCTTTCTTCC
2140332 ACTACACCAA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
33 3 0.05
34 22 0.39
35 15 0.26
36 15 0.26
38 2 0.04
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (33 bp):
CTTCTTTTCTTTCTTTCTTTTTCTTTCTTCCCT
Found at i:2140331 original size:27 final size:27
Alignment explanation
Indices: 2140264--2140324 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
2140254 CTTCCTTCCC
* *
2140264 TCTTCTTCTTCTCCTTTTTTTTTTTCTT
1 TCTTCTCCTT-TCCTTTTTTTCTTTCTT
2140292 TCTTCTCCTTTCCTTTTCTTTCTTTCTT
1 TCTTCTCCTTTCCTTTT-TTTCTTTCTT
2140320 T-TTCT
1 TCTTCT
2140325 TTCTTCCACT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (27 bp):
TCTTCTCCTTTCCTTTTTTTCTTTCTT
Found at i:2148678 original size:44 final size:44
Alignment explanation
Indices: 2148593--2148680 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
2148583 GAAAAACATT
* *
2148593 TTTGCGGCGTTTTAAGCAAAGCGCCATAAAATATAGGTCAAAAC
1 TTTGCGGCGTTTTAAACAAAGCGCCATAAAATATAGCTCAAAAC
*
2148637 TTTGCGGCGTTTTAAACTAAGCGCCACTAACAATA-A-CTCAAAAC
1 TTTGCGGCGTTTTAAACAAAGCGCCA-TAA-AATATAGCTCAAAAC
2148681 GCGGTCGCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
44 31 0.79
45 4 0.10
46 4 0.10
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (44 bp):
TTTGCGGCGTTTTAAACAAAGCGCCATAAAATATAGCTCAAAAC
Found at i:2150107 original size:18 final size:18
Alignment explanation
Indices: 2150084--2150119 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
2150074 ATTGAATTTT
2150084 AATT-AATATAAATAAACA
1 AATTAAATATAAA-AAACA
2150102 AATTAAATATAAAAAACA
1 AATTAAATATAAAAAACA
2150120 TATAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AATTAAATATAAAAAACA
Found at i:2150127 original size:18 final size:19
Alignment explanation
Indices: 2150088--2150127 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
2150078 AATTTTAATT
*
2150088 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
2150107 AATATAAA-AAACATATAA
1 AATATAAATAAACAAATAA
2150125 AAT
1 AAT
2150128 GATTTTGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:2152114 original size:25 final size:26
Alignment explanation
Indices: 2152076--2152129 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
2152066 TTGATTTGAT
*
2152076 TTCTACTTTCCTTTTTTTAATA-TAA
1 TTCTACTTTCCTTTATTTAATAGTAA
*
2152101 TTCTCACTTT-CTTTATTTGATAGTAA
1 TTCT-ACTTTCCTTTATTTAATAGTAA
2152127 TTC
1 TTC
2152130 ACGATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.22, C:0.17, G:0.04, T:0.57
Consensus pattern (26 bp):
TTCTACTTTCCTTTATTTAATAGTAA
Found at i:2162805 original size:15 final size:14
Alignment explanation
Indices: 2162784--2162819 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
2162774 ATAATCCTTA
*
2162784 ATAATTATCTTAAT
1 ATAATTATCCTAAT
2162798 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
2162813 ATAATTA
1 ATAATTA
2162820 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:2175867 original size:7 final size:7
Alignment explanation
Indices: 2175855--2175879 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2175845 TTTAAATAAA
2175855 AAAATAT
1 AAAATAT
2175862 AAAATAT
1 AAAATAT
2175869 AAAATAT
1 AAAATAT
2175876 AAAA
1 AAAA
2175880 GTACTGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:2176900 original size:20 final size:19
Alignment explanation
Indices: 2176874--2176930 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
2176864 TATACAAGCC
2176874 TATTAATTATAATTTATTA
1 TATTAATTATAATTTATTA
**
2176893 TGATTAATTAT-ATTGCTTA
1 T-ATTAATTATAATTTATTA
* *
2176912 TATGAATTCTAATTTATTA
1 TATTAATTATAATTTATTA
2176931 AATAAAAATG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 7 0.23
19 14 0.47
20 9 0.30
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (19 bp):
TATTAATTATAATTTATTA
Found at i:2177307 original size:25 final size:26
Alignment explanation
Indices: 2177269--2177322 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
2177259 TTGATTTGAT
*
2177269 TTCTACTTTCCTTTTTTTAATA-TAA
1 TTCTACTTTCCTTTATTTAATAGTAA
*
2177294 TTCTCACTTT-CTTTATTTGATAGTAA
1 TTCT-ACTTTCCTTTATTTAATAGTAA
2177320 TTC
1 TTC
2177323 ACGATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.22, C:0.17, G:0.04, T:0.57
Consensus pattern (26 bp):
TTCTACTTTCCTTTATTTAATAGTAA
Found at i:2184687 original size:22 final size:23
Alignment explanation
Indices: 2184662--2184716 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
2184652 GATTTTTAGG
2184662 GAATCTGTTAAAATTTT-TTTCA
1 GAATCTGTTAAAATTTTATTTCA
*
2184684 GAATCTGTTTAAATTTTATTTCA
1 GAATCTGTTAAAATTTTATTTCA
* *
2184707 AAATCGGTTA
1 GAATCTGTTA
2184717 TATTTCTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (23 bp):
GAATCTGTTAAAATTTTATTTCA
Found at i:2185104 original size:46 final size:46
Alignment explanation
Indices: 2185051--2185145 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
2185041 TGAAACAAAG
2185051 TTTAAATGGCATTCGACGCAAGTCGGAAGTAATTCATATGGAATCA
1 TTTAAATGGCATTCGACGCAAGTCGGAAGTAATTCATATGGAATCA
*
2185097 TTTAAATGGCATTCGACGCAAGTCGGAAGTAATTCTTATGGAATCA
1 TTTAAATGGCATTCGACGCAAGTCGGAAGTAATTCATATGGAATCA
2185143 TTT
1 TTT
2185146 GACAGTTCTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.32
Consensus pattern (46 bp):
TTTAAATGGCATTCGACGCAAGTCGGAAGTAATTCATATGGAATCA
Found at i:2186331 original size:20 final size:20
Alignment explanation
Indices: 2186306--2186346 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2186296 GTGGTAGTGC
*
2186306 CTAGGTTGTGTGGAGGTCTA
1 CTAGGTCGTGTGGAGGTCTA
*
2186326 CTAGGTCGTGTGGTGGTCTA
1 CTAGGTCGTGTGGAGGTCTA
2186346 C
1 C
2186347 ACGCCCGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.15, G:0.39, T:0.34
Consensus pattern (20 bp):
CTAGGTCGTGTGGAGGTCTA
Found at i:2187947 original size:3 final size:3
Alignment explanation
Indices: 2187939--2187989 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
2187929 TAAGCTTGTC
2187939 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2187987 TAT
1 TAT
2187990 ATAGTAAGGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2189970 original size:3 final size:3
Alignment explanation
Indices: 2189962--2190012 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
2189952 TAAGCTTGTC
2189962 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2190010 TAT
1 TAT
2190013 ATAGTAAGGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2191683 original size:188 final size:189
Alignment explanation
Indices: 2191355--2191727 Score: 685
Period size: 188 Copynumber: 2.0 Consensus size: 189
2191345 GTTCGTGTAA
2191355 AGAATTAACCATAATTCACATTGCTAAAACCATTGTTGCTCGAGTAATCTGTTACCATACCTTTC
1 AGAATTAACCATAATTCACATTGCTAAAACCATTGTTGCTCGAGTAATCTGTTACCATACCTTTC
* *
2191420 TTTTTTCTTGCTAAGCGGAACACTCTAGGAAATTCTTTTTTTTTTGTGGTTGATTACAACACCAA
66 TTTTTTCTTGCTAAGCGAAAAACTCTAGGAAATTCTTTTTTTTTTGTGGTTGATTACAACACCAA
2191485 ATATCCTCTCAAAACATCG-CATCCTTCCATTCCCAACCATCCATCTAAAAGCTTCGTT
131 ATATCCTCTCAAAACATCGCCATCCTTCCATTCCCAACCATCCATCTAAAAGCTTCGTT
* * * *
2191543 AGAATTCACCGTAATTCATATTGCTGAAACCATTGTTGCTCGAGTAATCTGTTACCATACCTTTC
1 AGAATTAACCATAATTCACATTGCTAAAACCATTGTTGCTCGAGTAATCTGTTACCATACCTTTC
2191608 TTTTTTCTTGCTAAGCGAAAAACTCTAGGAAATTCTTTTTTTTTTGTGGTTGATTACAACACCAA
66 TTTTTTCTTGCTAAGCGAAAAACTCTAGGAAATTCTTTTTTTTTTGTGGTTGATTACAACACCAA
2191673 ATATCCTCTCAAAACATCGCCATCCTTCCATTCCCAACCATCCATCTAAAAGCTT
131 ATATCCTCTCAAAACATCGCCATCCTTCCATTCCCAACCATCCATCTAAAAGCTT
2191728 TGTTCCCCAC
Statistics
Matches: 178, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
188 143 0.80
189 35 0.20
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.36
Consensus pattern (189 bp):
AGAATTAACCATAATTCACATTGCTAAAACCATTGTTGCTCGAGTAATCTGTTACCATACCTTTC
TTTTTTCTTGCTAAGCGAAAAACTCTAGGAAATTCTTTTTTTTTTGTGGTTGATTACAACACCAA
ATATCCTCTCAAAACATCGCCATCCTTCCATTCCCAACCATCCATCTAAAAGCTTCGTT
Found at i:2193237 original size:21 final size:20
Alignment explanation
Indices: 2193213--2193275 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
2193203 CGTTTAGCTC
2193213 TTTGAGCTTTAGTATAACCCT
1 TTTGAGCTTTAGT-TAACCCT
* * *
2193234 TTTGAGTTTTAGTTCAGCTCT
1 TTTGAGCTTTAGTT-AACCCT
*
2193255 TTTGAGCTTCAGTTTAACCCT
1 TTTGAGCTTTAG-TTAACCCT
2193276 CATGGGTTTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
20 1 0.03
21 30 0.91
22 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (20 bp):
TTTGAGCTTTAGTTAACCCT
Found at i:2193295 original size:42 final size:42
Alignment explanation
Indices: 2193183--2193335 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 42
2193173 ACAAGTTACC
* *
2193183 GTTTAA-CCTTAATGGGTTTCCGTTTAGCTC-TTTGAGCTTTA
1 GTTTAACCCTT-ATGGGTTTCAGTTTAGCTCTTTTGAGCTTCA
* * * * *
2193224 GTATAACCCTTTTGAGTTTTAGTTCAGCTCTTTTGAGCTTCA
1 GTTTAACCCTTATGGGTTTCAGTTTAGCTCTTTTGAGCTTCA
* *
2193266 GTTTAACCCTCATGGGTTTCCA-TTTAGCTCTTATGAGCTTTC-
1 GTTTAACCCTTATGGGTTT-CAGTTTAGCTCTTTTGAGC-TTCA
* *
2193308 GTTCAACCCTTATAGGTTTCAGTTTAGC
1 GTTTAACCCTTATGGGTTTCAGTTTAGC
2193336 ACTTATGTTC
Statistics
Matches: 90, Mismatches: 17, Indels: 9
0.78 0.15 0.08
Matches are distributed among these distances:
41 21 0.23
42 65 0.72
43 4 0.04
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (42 bp):
GTTTAACCCTTATGGGTTTCAGTTTAGCTCTTTTGAGCTTCA
Found at i:2193341 original size:42 final size:42
Alignment explanation
Indices: 2193197--2193357 Score: 134
Period size: 42 Copynumber: 3.9 Consensus size: 42
2193187 AACCTTAATG
* * *
2193197 GGTTTCCGTTTAGCTCTT-TGAGCTTTAGTAT-AACCCTT-TT
1 GGTTTCAGTTTAGCTCTTATGAGCTTTCGT-TCAACCCTTATA
* * * * * *
2193237 GAGTTTTAGTTCAGCTCTTTTGAGC-TTCAGTTTAACCCTCATG
1 G-GTTTCAGTTTAGCTCTTATGAGCTTTC-GTTCAACCCTTATA
2193280 GGTTTCCA-TTTAGCTCTTATGAGCTTTCGTTCAACCCTTATA
1 GGTTT-CAGTTTAGCTCTTATGAGCTTTCGTTCAACCCTTATA
* ** *
2193322 GGTTTCAGTTTAGCACTTATGTTCTTTCGTGCAACC
1 GGTTTCAGTTTAGCTCTTATGAGCTTTCGTTCAACC
2193358 TTTGGGCTTT
Statistics
Matches: 97, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
40 1 0.01
41 19 0.20
42 71 0.73
43 6 0.06
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.43
Consensus pattern (42 bp):
GGTTTCAGTTTAGCTCTTATGAGCTTTCGTTCAACCCTTATA
Found at i:2205538 original size:57 final size:57
Alignment explanation
Indices: 2205444--2205558 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
2205434 GTGATAGTCA
* **
2205444 CTAAATTATTTATATCTTGTGCTACAGAACTTTAAATTAAGATCCACTTGATTTTAC
1 CTAAATTATTTATATCTTGCGCTACAGAACTCCAAATTAAGATCCACTTGATTTTAC
2205501 CTAAATTATTTATATCTTGCGCTACAGAACTCCAAATTAAGATCCACTTGATTTTAC
1 CTAAATTATTTATATCTTGCGCTACAGAACTCCAAATTAAGATCCACTTGATTTTAC
2205558 C
1 C
2205559 AAAACTAGAC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (57 bp):
CTAAATTATTTATATCTTGCGCTACAGAACTCCAAATTAAGATCCACTTGATTTTAC
Found at i:2206461 original size:43 final size:42
Alignment explanation
Indices: 2206413--2206546 Score: 144
Period size: 42 Copynumber: 3.1 Consensus size: 42
2206403 TATCGTACAA
* *
2206413 ATGCCATGTCCCAGACATGGTCTTACATGGAAATCTCATATCG
1 ATGCCATATCCCAGACATGGTCTTACA-CGAAATCTCATATCG
* * *
2206456 ATGCCAATATCCCAG-CTATGGTATTACACGAAGTCTCATAACG
1 ATGCC-ATATCCCAGAC-ATGGTCTTACACGAAATCTCATATCG
* * * * *
2206499 ATGCTATATCCCAGATATGGTCTTATACGAAATCTCAAATCA
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATATCG
2206541 ATGCCA
1 ATGCCA
2206547 GTGCCATCTC
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
42 34 0.46
43 22 0.30
44 18 0.24
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATATCG
Found at i:2206689 original size:48 final size:48
Alignment explanation
Indices: 2206497--2206669 Score: 240
Period size: 48 Copynumber: 3.6 Consensus size: 48
2206487 AGTCTCATAA
* **
2206497 CGATGCTATATCCCAGATATGGTCTTATACGAAATCTCAAATCAATGC
1 CGATGCCATATCCCAGATATGGTCTTATACGGGATCTCAAATCAATGC
* * * * *
2206545 C-AGTGCCATCTCCCAGATATGGTCTTATATGGGATCTCGAATCGATGT
1 CGA-TGCCATATCCCAGATATGGTCTTATACGGGATCTCAAATCAATGC
* *
2206593 CGATGTCATATCCCAGATATGGTCTTATACGGGATCTTAAATCAATGC
1 CGATGCCATATCCCAGATATGGTCTTATACGGGATCTCAAATCAATGC
2206641 CGATGCCATATCCCAGATATGGTCTTATA
1 CGATGCCATATCCCAGATATGGTCTTATA
2206670 GATTTTCTCA
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
47 1 0.01
48 105 0.98
49 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (48 bp):
CGATGCCATATCCCAGATATGGTCTTATACGGGATCTCAAATCAATGC
Found at i:2206878 original size:32 final size:30
Alignment explanation
Indices: 2206837--2206920 Score: 114
Period size: 32 Copynumber: 2.7 Consensus size: 30
2206827 ATCCAATGCT
2206837 CAAATCAATTCGGCAATATATATATACATAGA
1 CAAATCAATTCGGCAATATATATATACAT--A
*
2206869 CAAATCAATTCGACAATGTATATATATACATA
1 CAAATCAATTCGGCAA--TATATATATACATA
*
2206901 TAAATCAATTCGGCAATATA
1 CAAATCAATTCGGCAATATA
2206921 CAAAACATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
30 4 0.09
32 30 0.64
34 13 0.28
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.30
Consensus pattern (30 bp):
CAAATCAATTCGGCAATATATATATACATA
Found at i:2210598 original size:44 final size:44
Alignment explanation
Indices: 2210535--2210624 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
2210525 AAAGTTGAAT
*
2210535 TGGCTTGGGTGATTGTGATATGTTTAGATGATGAATGCAAGAAA
1 TGGCTTGGATGATTGTGATATGTTTAGATGATGAATGCAAGAAA
*
2210579 TGGCTTGGATGATTGTGATATGTTTAGATGATGAATGCATGAAA
1 TGGCTTGGATGATTGTGATATGTTTAGATGATGAATGCAAGAAA
2210623 TG
1 TG
2210625 TTTAAGGGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
TGGCTTGGATGATTGTGATATGTTTAGATGATGAATGCAAGAAA
Found at i:2210611 original size:22 final size:22
Alignment explanation
Indices: 2210544--2210612 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
2210534 TTGGCTTGGG
2210544 TGATTGTGATATGTTTAGATGA
1 TGATTGTGATATGTTTAGATGA
* * * *
2210566 TGAATGCAAGAAATGGCTT-G--GA
1 TGATTG--TGATAT-GTTTAGATGA
2210588 TGATTGTGATATGTTTAGATGA
1 TGATTGTGATATGTTTAGATGA
2210610 TGA
1 TGA
2210613 ATGCATGAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
22 17 0.52
24 5 0.15
25 3 0.09
ACGTcount: A:0.30, C:0.03, G:0.29, T:0.38
Consensus pattern (22 bp):
TGATTGTGATATGTTTAGATGA
Found at i:2210626 original size:24 final size:24
Alignment explanation
Indices: 2210554--2210628 Score: 70
Period size: 22 Copynumber: 3.3 Consensus size: 24
2210544 TGATTGTGAT
*
2210554 ATGTTTAGATGATGAATGCAAGAA
1 ATGTTTAGATGATGAATGCATGAA
* * *
2210578 ATGGCTT-G--GATGATTG--TGAT
1 AT-GTTTAGATGATGAATGCATGAA
2210598 ATGTTTAGATGATGAATGCATGAA
1 ATGTTTAGATGATGAATGCATGAA
2210622 ATGTTTA
1 ATGTTTA
2210629 AGGGCAAGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
19 3 0.08
20 5 0.13
22 14 0.37
24 13 0.34
25 3 0.08
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (24 bp):
ATGTTTAGATGATGAATGCATGAA
Found at i:2210970 original size:3 final size:3
Alignment explanation
Indices: 2210962--2210997 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2210952 TAAGCTTGTC
2210962 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2210998 ATAGTAAGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2227425 original size:13 final size:13
Alignment explanation
Indices: 2227409--2227433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2227399 TATAAAAATA
2227409 TAAATGAATTAAT
1 TAAATGAATTAAT
2227422 TAAATGAATTAA
1 TAAATGAATTAA
2227434 CATATTTATT
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
TAAATGAATTAAT
Found at i:2239417 original size:13 final size:13
Alignment explanation
Indices: 2239399--2239424 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2239389 TACCGGATCG
2239399 AGACTTTCACACT
1 AGACTTTCACACT
2239412 AGACTTTCACACT
1 AGACTTTCACACT
2239425 TAGTCTGCAA
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:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (13 bp):
AGACTTTCACACT
Found at i:2244852 original size:106 final size:106
Alignment explanation
Indices: 2244667--2244867 Score: 393
Period size: 106 Copynumber: 1.9 Consensus size: 106
2244657 AAGCTTTAAG
2244667 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
2244732 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
*
2244773 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
2244838 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
2244868 GAAAAACTTT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 94 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Done.