Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold71
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: 5741892
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.33
Warning! 121862 characters in sequence are not A, C, G, or T
File 2 of 33
Found at i:251790 original size:14 final size:14
Alignment explanation
Indices: 251764--251800 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
251754 AATACATAAA
251764 TTTTTTCTCTTTTTC
1 TTTTTTCT-TTTTTC
251779 TTTCTTTCTTTTTTC
1 TTT-TTTCTTTTTTC
251794 TTTTTTC
1 TTTTTTC
251801 ATAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.19
15 12 0.57
16 5 0.24
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTCTTTTTTC
Found at i:251793 original size:7 final size:7
Alignment explanation
Indices: 251764--251800 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
251754 AATACATAAA
251764 TTTTTTC
1 TTTTTTC
251771 TCTTTTTC
1 T-TTTTTC
251779 TTTCTTTC
1 TTT-TTTC
251787 TTTTTTC
1 TTTTTTC
251794 TTTTTTC
1 TTTTTTC
251801 ATAAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 14 0.50
8 14 0.50
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTTC
Found at i:252622 original size:33 final size:33
Alignment explanation
Indices: 252578--252646 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
252568 CACACCCAGA
*
252578 TATATCGATACAAATTACTAAGTATCGATACAC
1 TATATCAATACAAATTACTAAGTATCGATACAC
**
252611 TATATCAATACAAATTACTTTGTATCGATACAC
1 TATATCAATACAAATTACTAAGTATCGATACAC
252644 TAT
1 TAT
252647 GAAATTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (33 bp):
TATATCAATACAAATTACTAAGTATCGATACAC
Found at i:252739 original size:21 final size:19
Alignment explanation
Indices: 252706--252763 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
252696 CAATACAACC
*
252706 TTATGATTATATCGATACA
1 TTATGATTGTATCGATACA
*
252725 TGTTTAGATTGTATCGATACA
1 T-TAT-GATTGTATCGATACA
252746 TTATGAGTTGTATCGATA
1 TTATGA-TTGTATCGATA
252764 TATTTAGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 3 0.09
20 15 0.45
21 15 0.45
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (19 bp):
TTATGATTGTATCGATACA
Found at i:252758 original size:20 final size:20
Alignment explanation
Indices: 252706--252763 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
252696 CAATACAACC
*
252706 TTATGA-TTATATCGATACA
1 TTATGAGTTGTATCGATACA
*
252725 TGT-TTAGATTGTATCGATACA
1 T-TATGAG-TTGTATCGATACA
252746 TTATGAGTTGTATCGATA
1 TTATGAGTTGTATCGATA
252764 TATTTAGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 3 0.09
20 13 0.41
21 16 0.50
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (20 bp):
TTATGAGTTGTATCGATACA
Found at i:253752 original size:18 final size:18
Alignment explanation
Indices: 253729--253763 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
253719 TGCAAAAAAA
253729 ATTTTAAA-AAAATATAAT
1 ATTTTAAATAAAA-ATAAT
253747 ATTTTAAATAAAAATAA
1 ATTTTAAATAAAAATAA
253764 CATAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTTTAAATAAAAATAAT
Found at i:253797 original size:8 final size:8
Alignment explanation
Indices: 253784--253847 Score: 76
Period size: 8 Copynumber: 7.9 Consensus size: 8
253774 AATACATCAT
253784 TTTTTTTC
1 TTTTTTTC
253792 TTTTTTTC
1 TTTTTTTC
253800 TCTTTCTTT-
1 T-TTT-TTTC
253809 TTTTTTTC
1 TTTTTTTC
*
253817 CTTTTTTC
1 TTTTTTTC
*
253825 TTTCTTTC
1 TTTTTTTC
*
253833 TTTCTTTC
1 TTTTTTTC
253841 TTTTTTT
1 TTTTTTT
253848 TCAAGCTGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
7 3 0.06
8 39 0.80
9 4 0.08
10 3 0.06
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTC
Found at i:253807 original size:4 final size:4
Alignment explanation
Indices: 253788--253843 Score: 57
Period size: 4 Copynumber: 14.8 Consensus size: 4
253778 CATCATTTTT
* *
253788 TTTC TTT- TTT- TCTC TTTC TTT- TTTT TTTCC TTT- TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT-C TTTC TTTC TTTC TTTC
253833 TTTC TTTC TTT
1 TTTC TTTC TTT
253844 TTTTTCAAGC
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
3 11 0.24
4 31 0.69
5 3 0.07
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (4 bp):
TTTC
Found at i:253809 original size:12 final size:11
Alignment explanation
Indices: 253785--253846 Score: 81
Period size: 12 Copynumber: 5.5 Consensus size: 11
253775 ATACATCATT
253785 TTTTTTCTTT-
1 TTTTTTCTTTC
*
253795 TTTTCTCTTTC
1 TTTTTTCTTTC
*
253806 TTTTTTTTTTCC
1 TTTTTTCTTT-C
253818 TTTTTTCTTTC
1 TTTTTTCTTTC
253829 TTTCTTTCTTTC
1 TTT-TTTCTTTC
253841 TTTTTT
1 TTTTTT
253847 TTCAAGCTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
10 9 0.20
11 15 0.33
12 21 0.47
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:253849 original size:33 final size:32
Alignment explanation
Indices: 253785--253848 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 32
253775 ATACATCATT
253785 TTTTTTCTTTTTTTCTCTTTCTTTTTTTTTTCC
1 TTTTTTCTTTTTTTCTCTTTC-TTTTTTTTTCC
*
253818 TTTTTTCTTTCTTTCTTTCTTTCTTTTTTTT
1 TTTTTTCTTT-TTT-TCTCTTTCTTTTTTTT
253849 CAAGCTGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 10 0.36
34 11 0.39
35 7 0.25
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (32 bp):
TTTTTTCTTTTTTTCTCTTTCTTTTTTTTTCC
Found at i:254717 original size:21 final size:20
Alignment explanation
Indices: 254679--254746 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
254669 AACATATATT
**
254679 TTATTAT-AAATTTTTTTTA
1 TTATTATAAAATTAATTTTA
254698 TTATTATAATAATTAATTTTAA
1 TTATTATAA-AATTAATTTT-A
* *
254720 TT-TTATCAAATTAATTTAA
1 TTATTATAAAATTAATTTTA
254739 TTACTTAT
1 TTA-TTAT
254747 CTAAATAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 10 0.25
20 10 0.25
21 17 0.43
22 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATTATAAAATTAATTTTA
Found at i:255689 original size:14 final size:14
Alignment explanation
Indices: 255670--255699 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
255660 TTGAAGGTGG
255670 TTTTTTTCTTTTTT
1 TTTTTTTCTTTTTT
255684 TTTTTTTCTTTTTT
1 TTTTTTTCTTTTTT
255698 TT
1 TT
255700 GTCTTCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (14 bp):
TTTTTTTCTTTTTT
Found at i:256452 original size:14 final size:14
Alignment explanation
Indices: 256421--256460 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
256411 TATATATTTT
*
256421 TTATATATAAAA-A
1 TTATATAAAAAATA
*
256434 TTATATACAAAATA
1 TTATATAAAAAATA
256448 TTATATAAAAAAT
1 TTATATAAAAAAT
256461 GATCAGTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
TTATATAAAAAATA
Found at i:260409 original size:13 final size:13
Alignment explanation
Indices: 260391--260417 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
260381 ACATCATGCT
260391 TTGTATCGATACA
1 TTGTATCGATACA
260404 TTGTATCGATACA
1 TTGTATCGATACA
260417 T
1 T
260418 GCTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:260447 original size:20 final size:19
Alignment explanation
Indices: 260401--260457 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
260391 TTGTATCGAT
260401 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* *
260420 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
260439 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
260458 AGATTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:269204 original size:20 final size:20
Alignment explanation
Indices: 269161--269234 Score: 123
Period size: 20 Copynumber: 3.8 Consensus size: 20
269151 ACATTATGGT
**
269161 TTGTATCGATACATGCTC-A
1 TTGTATCGATACATGGACAA
269180 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGACAA
269200 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGACAA
269220 TTGTATCGATACATG
1 TTGTATCGATACATG
269235 AGATTGCAGT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
19 16 0.31
20 36 0.69
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:269301 original size:13 final size:13
Alignment explanation
Indices: 269283--269308 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
269273 CATGGGACAA
269283 TGTATCGATACAT
1 TGTATCGATACAT
269296 TGTATCGATACAT
1 TGTATCGATACAT
269309 GATAAAATGG
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:269304 original size:33 final size:34
Alignment explanation
Indices: 269262--269331 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
269252 TTACCACTAT
* *
269262 TTGTATCGATACATGGGACAAT-GTATCGATACA
1 TTGTATCGATACATGAGAAAATGGTATCGATACA
*
269295 TTGTATCGATACATGATAAAATGGTATCGATACA
1 TTGTATCGATACATGAGAAAATGGTATCGATACA
269329 TTG
1 TTG
269332 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 19 0.58
34 14 0.42
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (34 bp):
TTGTATCGATACATGAGAAAATGGTATCGATACA
Found at i:273757 original size:79 final size:80
Alignment explanation
Indices: 273554--273758 Score: 197
Period size: 79 Copynumber: 2.6 Consensus size: 80
273544 ACAACGGGGC
* * * * * * * * *
273554 TGGATTATCCCTGATTATGGAAAATCAGTGTTCTAGAAATAAAAATCGGGGCTGGAGTATCCCTT
1 TGGAGTATCCCCGATTATAGAAAATCAATATTTTAGAAATAAAAATCGGGACTGAAGTATCCCTG
*
273619 CAGAAATAATAAGGT
66 CAAAAATAATAAGGT
* * *
273634 TGGAGTATCCCCGATTATAGAAAATCGATGTTTT-GAAA-ATAAAATCGGGATTGAAGTATCTCC
1 TGGAGTATCCCCGATTATAGAAAATCAATATTTTAGAAATA-AAAATCGGGACTGAAGTATC-CC
*
273697 -GCAAAAATAAT-CGAGT
64 TGCAAAAATAATAAG-GT
*
273713 TGGAGTATCCCC-ATTGT-GAGAAATCAATATTTTAGAAATAAAAATC
1 TGGAGTATCCCCGATTATAGA-AAATCAATATTTTAGAAATAAAAATC
273759 CCTCAGAAAT
Statistics
Matches: 104, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
77 2 0.02
78 17 0.16
79 54 0.52
80 31 0.30
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (80 bp):
TGGAGTATCCCCGATTATAGAAAATCAATATTTTAGAAATAAAAATCGGGACTGAAGTATCCCTG
CAAAAATAATAAGGT
Found at i:273786 original size:27 final size:29
Alignment explanation
Indices: 273756--273816 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
273746 AGAAATAAAA
*
273756 ATCCCTC-A-GAAATAACGGGGTTGGAGT
1 ATCCCTCGATGAAATAACGGGGTTGAAGT
273783 ATCCC-CGATGAAATAACGGGGTTGAAGT
1 ATCCCTCGATGAAATAACGGGGTTGAAGT
273811 ATCCCT
1 ATCCCT
273817 GATTGTGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 1 0.03
27 6 0.20
28 23 0.77
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (29 bp):
ATCCCTCGATGAAATAACGGGGTTGAAGT
Found at i:273866 original size:51 final size:51
Alignment explanation
Indices: 273803--273914 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 51
273793 AAATAACGGG
* *
273803 GTTGAAGTATCCCTGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGA
1 GTTGAAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGA
* * * *
273854 GTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAATTGGG
1 GTTGAAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGA
*
273905 GTTAAAGTAT
1 GTTGAAGTAT
273915 TCCCTTGGGA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.34
Consensus pattern (51 bp):
GTTGAAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGA
Found at i:273998 original size:51 final size:51
Alignment explanation
Indices: 273938--274047 Score: 148
Period size: 51 Copynumber: 2.2 Consensus size: 51
273928 ACAAGGTTAG
* * * *
273938 AGTATCCCTGATGGTGGAAAATCAATGTTTTGGAAATAAAACCGGGGTTTA
1 AGTATCCCTGATGGTGAAAAATCAATGTCTTAGAAATAAAACCGGGGTTGA
* ** *
273989 AGTATCCCTGATTGTGAAAAATTGATGTCTTAGAAATAAAACCGGGGTTGG
1 AGTATCCCTGATGGTGAAAAATCAATGTCTTAGAAATAAAACCGGGGTTGA
274040 AGTATCCC
1 AGTATCCC
274048 CTCAGAAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
AGTATCCCTGATGGTGAAAAATCAATGTCTTAGAAATAAAACCGGGGTTGA
Found at i:274010 original size:130 final size:130
Alignment explanation
Indices: 273792--274127 Score: 413
Period size: 130 Copynumber: 2.6 Consensus size: 130
273782 TATCCCCGAT
** * *
273792 GAAATAACGGGGTTGAAGTATCCCTGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTT
1 GAAATAACAAGGTTGAAGTATCCCTGATTGTGAAAAATTGATGTTTTGGAAATAAAACCGGGGTT
* * * ** * **
273857 GGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAATTGGGGTTAAAGTATTCCCTTG
66 GGAGTATCCCTGATTGTGAAAAATTGATGTCTTAGAAATAAAACCGGGGTTAAAGTATCCCCTCA
* * * **
273922 GGAATAACAAGGTT-AGAGTATCCCTGATGGTGGAAAATCAATGTTTTGGAAATAAAACCGGGGT
1 GAAATAACAAGGTTGA-AGTATCCCTGATTGTGAAAAATTGATGTTTTGGAAATAAAACCGGGGT
** **
273986 TTAAGTATCCCTGATTGTGAAAAATTGATGTCTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC
65 TGGAGTATCCCTGATTGTGAAAAATTGATGTCTTAGAAATAAAACCGGGGTTAAAGTATCCCCTC
274051 A
130 A
* * * * * *
274052 GAAATAACAGGGTTGAAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAACTGGGGTT
1 GAAATAACAAGGTTGAAGTATCCCTGATTGTGAAAAATTGATGTTTTGGAAATAAAACCGGGGTT
274117 GGAGTATCCCT
66 GGAGTATCCCT
274128 TCGAAAATAA
Statistics
Matches: 170, Mismatches: 34, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
129 1 0.01
130 168 0.99
131 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (130 bp):
GAAATAACAAGGTTGAAGTATCCCTGATTGTGAAAAATTGATGTTTTGGAAATAAAACCGGGGTT
GGAGTATCCCTGATTGTGAAAAATTGATGTCTTAGAAATAAAACCGGGGTTAAAGTATCCCCTCA
Found at i:274065 original size:79 final size:78
Alignment explanation
Indices: 273982--274187 Score: 254
Period size: 79 Copynumber: 2.6 Consensus size: 78
273972 AATAAAACCG
* *
273982 GGGTTTAAGTATCCCTGATTGTGAAAAATTGATGTCTTAGAAATAAAACCGGGGTTGGAGTATCC
1 GGGTTGAAGTATCCCTGATTGTGAAAAATTGGTGT-TTAGAAATAAAACCGGGGTTGGAGTATCC
274047 CCTC-AGAAATAACA
65 CCTCGA-AAATAACA
* * * *
274061 GGGTTGAAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAACTGGGGTTGGAGTATCC
1 GGGTTGAAGTATCCCTGATTGTGAAAAATTGGTGTTTAG-AAATAAAACCGGGGTTGGAGTATCC
* *
274126 CTTCGAAAATAACG
65 CCTCGAAAATAACA
* * *
274140 GGGTTGGAGTAT-CCTCGATTGTAAAAAATTGGTGTTTTGGAAATAAAA
1 GGGTTGAAGTATCCCT-GATTGTGAAAAATTGGTG-TTTAGAAATAAAA
274188 ACATGAATGA
Statistics
Matches: 110, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 5 0.05
79 100 0.91
80 5 0.05
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (78 bp):
GGGTTGAAGTATCCCTGATTGTGAAAAATTGGTGTTTAGAAATAAAACCGGGGTTGGAGTATCCC
CTCGAAAATAACA
Found at i:281434 original size:20 final size:19
Alignment explanation
Indices: 281411--281463 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
281401 CACACCCAGA
*
281411 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
*
281431 TGTATCAATACATGTTCAT
1 TGTATCGATACATGTTCAT
281450 TGTATCGATACATG
1 TGTATCGATACATG
281464 AAACTGGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 15 0.52
20 13 0.45
21 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:286843 original size:23 final size:20
Alignment explanation
Indices: 286785--286825 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
286775 TCAAAAACCC
*
286785 AGAA-TGTATCGATATAATG
1 AGAAGTGTATCGATACAATG
286804 AGAAGTGTATCGATACAATG
1 AGAAGTGTATCGATACAATG
286824 AG
1 AG
286826 GAAGCATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.27
Consensus pattern (20 bp):
AGAAGTGTATCGATACAATG
Found at i:288821 original size:19 final size:20
Alignment explanation
Indices: 288785--288832 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
288775 TCTCTTTTTG
288785 TATGAGAGTTTCTCTCTCTC
1 TATGAGAGTTTCTCTCTCTC
* *
288805 TATGAGA-TTTCTTTCTCTT
1 TATGAGAGTTTCTCTCTCTC
*
288824 TTTGAGAGT
1 TATGAGAGT
288833 CAGTTATGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (20 bp):
TATGAGAGTTTCTCTCTCTC
Found at i:302866 original size:32 final size:34
Alignment explanation
Indices: 302841--302905 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
302831 TAAATATGTC
*
302841 AAAATTTATAT-AGCAT-ATATTATAAATATAAA
1 AAAATTTATATAAACATAATATTATAAATATAAA
*
302873 AAAATTTATATAAATATAATATTATAAATATAA
1 AAAATTTATATAAACATAATATTATAAATATAA
302906 TTATAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 11 0.38
33 3 0.10
34 15 0.52
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (34 bp):
AAAATTTATATAAACATAATATTATAAATATAAA
Found at i:302903 original size:20 final size:20
Alignment explanation
Indices: 302857--302911 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
302847 TATATAGCAT
302857 ATATTATAAATATAAA-A-A
1 ATATTATAAATATAAATATA
302875 A-ATT-T--ATATAAATATA
1 ATATTATAAATATAAATATA
*
302891 ATATTATAAATATAATTATA
1 ATATTATAAATATAAATATA
302911 A
1 A
302912 AAAATATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
14 7 0.23
15 1 0.03
16 3 0.10
17 6 0.20
18 2 0.07
20 11 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATTATAAATATAAATATA
Found at i:302922 original size:14 final size:14
Alignment explanation
Indices: 302867--302923 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 14
302857 ATATTATAAA
302867 TATAAAAAA-AT-T
1 TATAAAAAATATAT
*
302879 TATATAAATATAATAT
1 TATA-AAAAAT-ATAT
*
302895 TAT-AAATATA-AT
1 TATAAAAAATATAT
302907 TATAAAAAATATAT
1 TATAAAAAATATAT
302921 TAT
1 TAT
302924 GAATACGAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 9 0.24
13 11 0.30
14 11 0.30
15 2 0.05
16 4 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TATAAAAAATATAT
Found at i:303664 original size:22 final size:23
Alignment explanation
Indices: 303620--303666 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
303610 ATCCTATTCT
*
303620 AATATATTTAATAAACTCATAAA
1 AATATATTTAATAAAATCATAAA
*
303643 AATA-ATTTAATAAAAT-ATTAA
1 AATATATTTAATAAAATCATAAA
303664 AAT
1 AAT
303667 CCTAAATCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (23 bp):
AATATATTTAATAAAATCATAAA
Found at i:312411 original size:20 final size:21
Alignment explanation
Indices: 312386--312434 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
312376 ATAACTGGTT
*
312386 AATGTATCGATACA-TAAGTG
1 AATGTATCGACACATTAAGTG
312406 AATGTATCGACACATTAAGTG
1 AATGTATCGACACATTAAGTG
312427 AATGTATC
1 AATGTATC
312435 AAAACTAGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (21 bp):
AATGTATCGACACATTAAGTG
Found at i:324807 original size:29 final size:29
Alignment explanation
Indices: 324761--324846 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
324751 AAAGCTAAGA
* *
324761 AATTAAAAGTCAATTAAAGCACAAAAAGG
1 AATTAAAAGTCAACTAAAACACAAAAAGG
* *
324790 AGTTAAAAG-CAAACTAAAACATAGAAAA-G
1 AATTAAAAGTC-AACTAAAACACA-AAAAGG
*
324819 AATTAAAAGTCAACTAAAATACAAAAAG
1 AATTAAAAGTCAACTAAAACACAAAAAG
324847 CAAACTAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
28 5 0.11
29 36 0.78
30 5 0.11
ACGTcount: A:0.62, C:0.10, G:0.12, T:0.16
Consensus pattern (29 bp):
AATTAAAAGTCAACTAAAACACAAAAAGG
Found at i:325977 original size:26 final size:24
Alignment explanation
Indices: 325914--325978 Score: 58
Period size: 26 Copynumber: 2.6 Consensus size: 24
325904 TTATTTCACA
*
325914 AAATATTAGAAAAAATAAAAAATAT
1 AAATATTAG-AAAAATAAAAAATAC
* ** *
325939 AAACATTTCAAAATTAAATCAAATAC
1 AAATATTAGAAAAATAAA--AAATAC
325965 AAATATTAGAAAAA
1 AAATATTAGAAAAA
325979 ATTAATCAAC
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
24 8 0.28
25 6 0.21
26 15 0.52
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (24 bp):
AAATATTAGAAAAATAAAAAATAC
Found at i:326593 original size:185 final size:186
Alignment explanation
Indices: 326275--326645 Score: 500
Period size: 185 Copynumber: 2.0 Consensus size: 186
326265 AATAATTAAA
** ** * *
326275 TTTAGAATAAAAATAAATATTTGTGATAATTTGCAATTTTGACTTCAATTAACATAGAAGGAAAT
1 TTTAGAATAAAAATAAATATTCATGATAATTTAAAATTTTAACTTCAATCAACATAGAAGGAAAT
* * *
326340 TAAACCTAAAAGTGATTAAAGATAACCCAAAATAAAGATTACTTATATAGTTTTGAACTTAAAAT
66 TAAACCTAAAAGTAATTAAAGATAACCAAAAATAAAGATTACATATATAGTTTTGAACTTAAAAT
*
326405 AGTTG-AAAAAA-AAATTCAAAGCAATAT-TGGATAAAATTCAGAGAAAATATTAAGT
131 AGTTGAAAAAAATAAATTCAAAGCAATATAT--ATAAAATTCAAAGAAAATATTAAGT
* *
326460 TTTAGAATAAAAAATGAATATTCATGATAA-TTAAAATTTTAACTTCAATCAACATAGAAGGAAG
1 TTTAGAAT-AAAAATAAATATTCATGATAATTTAAAATTTTAACTTCAATCAACATAGAAGGAAA
* * * *
326524 TTAAGCCT-ATAGTAATTAAAGATAACCAAAAATAAAGATTACATATATAGTTTTGAATTTTATA
65 TTAAACCTAAAAGTAATTAAAGATAACCAAAAATAAAGATTACATATATAGTTTTGAA-CTTAAA
* *
326588 ATAGTTGAAAAAAATTAAATTCAAAGTAATATATATAGAATTCAAAGAAAATATTAAG
129 ATAGTTGAAAAAAA-TAAATTCAAAGCAATATATATAAAATTCAAAGAAAATATTAAG
326646 ATTATGAAAA
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
184 45 0.28
185 55 0.34
186 24 0.15
187 22 0.14
188 15 0.09
189 1 0.01
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (186 bp):
TTTAGAATAAAAATAAATATTCATGATAATTTAAAATTTTAACTTCAATCAACATAGAAGGAAAT
TAAACCTAAAAGTAATTAAAGATAACCAAAAATAAAGATTACATATATAGTTTTGAACTTAAAAT
AGTTGAAAAAAATAAATTCAAAGCAATATATATAAAATTCAAAGAAAATATTAAGT
Found at i:326891 original size:162 final size:161
Alignment explanation
Indices: 326709--327032 Score: 567
Period size: 161 Copynumber: 2.0 Consensus size: 161
326699 ATTTAAATTA
326709 ATTATTATTCATTAAAATGAGTACACATGTAAAAAATCTAAGCAGTCCACATGTCAAAAAGTCAG
1 ATTATTATTCATTAAAATGAGTACACATGTAAAAAATCTAAGCAGTCCACATGTCAAAAAGTCAG
* * *
326774 GGGATTCATGTAAGAAGAATTATTTTTTTTATAAAAAGCTTTGACTTTCAAATATTTATATAATA
66 GAGATTCATGT-AGAACAATTAATTTTTTTATAAAAAGCTTTGACTTTCAAATATTTATATAATA
*
326839 TATAGGTAAGATAGAGTATATAGAGGACTTTT
130 TATAAGTAAGATAGAGTATATAGAGGACTTTT
* **
326871 ATTATTATTCATTGAAATGAGTACACATGTCGAAAATCTAAGCAGTCCACATGTCAAAAAGTCAG
1 ATTATTATTCATTAAAATGAGTACACATGTAAAAAATCTAAGCAGTCCACATGTCAAAAAGTCAG
*
326936 GAGATTCATGTAGGACAATTAATTTTTTTATAAAAAGCTTTGACTTTCAAATATTTATATAATAT
66 GAGATTCATGTAGAACAATTAATTTTTTTATAAAAAGCTTTGACTTTCAAATATTTATATAATAT
327001 ATAAGTAAGATAGAGTATATAGAGGACTTTT
131 ATAAGTAAGATAGAGTATATAGAGGACTTTT
327032 A
1 A
327033 GTGTAGGGAT
Statistics
Matches: 154, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
161 82 0.53
162 72 0.47
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (161 bp):
ATTATTATTCATTAAAATGAGTACACATGTAAAAAATCTAAGCAGTCCACATGTCAAAAAGTCAG
GAGATTCATGTAGAACAATTAATTTTTTTATAAAAAGCTTTGACTTTCAAATATTTATATAATAT
ATAAGTAAGATAGAGTATATAGAGGACTTTT
Found at i:333438 original size:54 final size:55
Alignment explanation
Indices: 333380--333583 Score: 256
Period size: 54 Copynumber: 3.8 Consensus size: 55
333370 TTATGGCAAA
*
333380 CAAAATTTGAA-AAGAGTGACTTGGTGTCACTAATAATGATGCCCTAGTGGTGAT
1 CAAAATTTGAATAAGAGTGACTTGGTGTCACTAACAATGATGCCCTAGTGGTGAT
* * * * * *
333434 CAAAA-TTCAATAGGAATGACTTTGTGTCACTAA-AGATGATGCCCTGGTGGCGAT
1 CAAAATTTGAATAAGAGTGACTTGGTGTCACTAACA-ATGATGCCCTAGTGGTGAT
* * * *
333488 CAAAATTCG-ATAAGAGTGACTTGGTATCACTAACAATGATGCTCAAGTGGTGAT
1 CAAAATTTGAATAAGAGTGACTTGGTGTCACTAACAATGATGCCCTAGTGGTGAT
*
333542 CAAAATTT-AATAAGAGTGACTCGGTGTCACTAACAATGATGC
1 CAAAATTTGAATAAGAGTGACTTGGTGTCACTAACAATGATGC
333584 TCAGGTGGCG
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
53 5 0.04
54 119 0.94
55 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (55 bp):
CAAAATTTGAATAAGAGTGACTTGGTGTCACTAACAATGATGCCCTAGTGGTGAT
Found at i:333503 original size:108 final size:108
Alignment explanation
Indices: 333380--333597 Score: 303
Period size: 108 Copynumber: 2.0 Consensus size: 108
333370 TTATGGCAAA
* * * *
333380 CAAAATTTGAAAAGAGTGACTTGGTGTCACTAATAATGATGCCCTAGTGGTGATCAAAATTCAAT
1 CAAAATTCGAAAAGAGTGACTTGGTATCACTAACAATGATGCCCAAGTGGTGATCAAAATTCAAT
* ** *
333445 AGGAATGACTTTGTGTCACTAA-AGATGATGCCCTGGTGGCGAT
66 AAGAATGACTCGGTGTCACTAACA-ATGATGCCCAGGTGGCGAT
* * *
333488 CAAAATTCGATAAGAGTGACTTGGTATCACTAACAATGATGCTCAAGTGGTGATCAAAATTTAAT
1 CAAAATTCGAAAAGAGTGACTTGGTATCACTAACAATGATGCCCAAGTGGTGATCAAAATTCAAT
* *
333553 AAGAGTGACTCGGTGTCACTAACAATGATGCTCAGGTGGCGAT
66 AAGAATGACTCGGTGTCACTAACAATGATGCCCAGGTGGCGAT
333596 CA
1 CA
333598 GAGTTGTGGA
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
108 95 0.99
109 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (108 bp):
CAAAATTCGAAAAGAGTGACTTGGTATCACTAACAATGATGCCCAAGTGGTGATCAAAATTCAAT
AAGAATGACTCGGTGTCACTAACAATGATGCCCAGGTGGCGAT
Found at i:338971 original size:25 final size:25
Alignment explanation
Indices: 338920--338971 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
338910 TCAAGCAACA
*
338920 TGATTCAGGCGATCAGCATACTATC
1 TGATTCAGGCGATCAGCATACGATC
*
338945 TGATT-AGGCGATCAGCCTACGAGTC
1 TGATTCAGGCGATCAGCATACGA-TC
338970 TG
1 TG
338972 TAAGCTGAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (25 bp):
TGATTCAGGCGATCAGCATACGATC
Found at i:341497 original size:10 final size:10
Alignment explanation
Indices: 341482--341512 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
341472 TGATTTGAAA
341482 TTATAGCCAT
1 TTATAGCCAT
*
341492 TTATAGCCGT
1 TTATAGCCAT
341502 TTATAGCCAT
1 TTATAGCCAT
341512 T
1 T
341513 ACAAGCTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (10 bp):
TTATAGCCAT
Found at i:341658 original size:19 final size:19
Alignment explanation
Indices: 341614--341669 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
341604 CTGCCAGTTT
**
341614 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
341634 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
341653 CATGTATCGATACAATG
1 CATGTATCGATACAATG
341670 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:341672 original size:13 final size:13
Alignment explanation
Indices: 341654--341680 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
341644 TACAATGAAC
341654 ATGTATCGATACA
1 ATGTATCGATACA
341667 ATGTATCGATACA
1 ATGTATCGATACA
341680 A
1 A
341681 AGCAAGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:341696 original size:33 final size:32
Alignment explanation
Indices: 341635--341699 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
341625 ACAATTGTCC
*
341635 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
341667 ATGTATCGATACAAAGCAAGATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
341700 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:342251 original size:17 final size:18
Alignment explanation
Indices: 342231--342264 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
342221 AAAAGATTTC
342231 TTCCCCTA-AAAAAAAAT
1 TTCCCCTATAAAAAAAAT
*
342248 TTCCCTTATAAAAAAAA
1 TTCCCCTATAAAAAAAA
342265 ATTCTCCCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (18 bp):
TTCCCCTATAAAAAAAAT
Found at i:342279 original size:20 final size:19
Alignment explanation
Indices: 342217--342279 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
342207 TTTTTTTTCC
342217 AAAAAAAAGATTTCTTCCCC-T
1 AAAAAAAA-A-TTC-TCCCCTT
*
342238 AAAAAAAAATT-TCCCTTAT
1 AAAAAAAAATTCTCCCCT-T
342257 AAAAAAAAATTCTCCCCCTT
1 AAAAAAAAATTCT-CCCCTT
342277 AAA
1 AAA
342280 CGATTATCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 4 0.11
19 14 0.39
20 6 0.17
21 12 0.33
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAAAAAATTCTCCCCTT
Found at i:344343 original size:31 final size:29
Alignment explanation
Indices: 344305--344366 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 29
344295 GACCCTAATT
*
344305 CATAACAAACATGCATAATTCAATCACACAA
1 CATAACAAACAT-CAAAATTCAATCA-ACAA
*
344336 CATAACAAACATCAAAATTCATTCAACAA
1 CATAACAAACATCAAAATTCAATCAACAA
344365 CA
1 CA
344367 AAGCATGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 6 0.21
30 11 0.38
31 12 0.41
ACGTcount: A:0.53, C:0.26, G:0.02, T:0.19
Consensus pattern (29 bp):
CATAACAAACATCAAAATTCAATCAACAA
Found at i:348737 original size:3 final size:3
Alignment explanation
Indices: 348729--348768 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
348719 TCCGAGTCAC
348729 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
348769 TTCCTCTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:350387 original size:33 final size:33
Alignment explanation
Indices: 350345--350408 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
350335 ATAAGCTATG
350345 TATCGATACATT-T-CTTCATGTATCGATACAATC
1 TATCGATACATTATAC--CATGTATCGATACAATC
350378 TATCGATACATTATACCATGTATCGATACAA
1 TATCGATACATTATACCATGTATCGATACAA
350409 ATAGTAATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (33 bp):
TATCGATACATTATACCATGTATCGATACAATC
Found at i:350393 original size:20 final size:20
Alignment explanation
Indices: 350370--350407 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
350360 TCATGTATCG
350370 ATACAATCTATCGATACATT
1 ATACAATCTATCGATACATT
* *
350390 ATACCATGTATCGATACA
1 ATACAATCTATCGATACA
350408 AATAGTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (20 bp):
ATACAATCTATCGATACATT
Found at i:351016 original size:30 final size:30
Alignment explanation
Indices: 350980--351041 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
350970 CCCAACTAAC
350980 ATCCATGGCTCCTCAGTAAGAGATTATTGG
1 ATCCATGGCTCCTCAGTAAGAGATTATTGG
*
351010 ATCCATGGCTCCTCAGTAAGAGATTGTTGG
1 ATCCATGGCTCCTCAGTAAGAGATTATTGG
351040 AT
1 AT
351042 GTTCTCCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (30 bp):
ATCCATGGCTCCTCAGTAAGAGATTATTGG
Found at i:351820 original size:31 final size:31
Alignment explanation
Indices: 351785--351846 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
351775 TTTAGTCAGG
*
351785 TTTAGCATCCTTGACCTCTTGGTAGTTCTTT
1 TTTAGCATCCTTGACCTCTTGGTAATTCTTT
*
351816 TTTAGCATCCTTGATCTCTTGGTAATTCTTT
1 TTTAGCATCCTTGACCTCTTGGTAATTCTTT
351847 GTTCTTCCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.50
Consensus pattern (31 bp):
TTTAGCATCCTTGACCTCTTGGTAATTCTTT
Found at i:353178 original size:20 final size:20
Alignment explanation
Indices: 353155--353209 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
353145 ATTTACCCAG
353155 ATGTATCGATACATGATTCA
1 ATGTATCGATACATGATTCA
*
353175 ATGTATCGATACATCATTCA
1 ATGTATCGATACATGATTCA
353195 ATGTATCGATACATG
1 ATGTATCGATACATG
353210 TAGGCAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATGATTCA
Found at i:356789 original size:22 final size:24
Alignment explanation
Indices: 356764--356811 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
356754 ATTAAAACAT
*
356764 ATAAAAAATAA-AATTT-GTATAA
1 ATAAAAAATAATAATTTAATATAA
*
356786 ATAAATAATAATAATTTAATATAA
1 ATAAAAAATAATAATTTAATATAA
356810 AT
1 AT
356812 TAATTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
23 5 0.23
24 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
ATAAAAAATAATAATTTAATATAA
Found at i:357620 original size:18 final size:20
Alignment explanation
Indices: 357597--357635 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
357587 TATACGAAAC
357597 TATCTAT-TGAAA-AAATAA
1 TATCTATATGAAATAAATAA
*
357615 TATCTATATTAAATAAATAA
1 TATCTATATGAAATAAATAA
357635 T
1 T
357636 TAATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (20 bp):
TATCTATATGAAATAAATAA
Found at i:360675 original size:42 final size:40
Alignment explanation
Indices: 360624--360724 Score: 139
Period size: 42 Copynumber: 2.5 Consensus size: 40
360614 ATTTTAGTGG
*
360624 TTATATATTTACATTTTATTTAATTGTATTTTATTTATTT
1 TTATATATTTACATTTTATTTAATTATATTTTATTTATTT
* * * *
360664 TTAATATTATTTACATTCTAGTTGATTATATTTTATTTGTTT
1 TT-ATA-TATTTACATTTTATTTAATTATATTTTATTTATTT
360706 TTATATATTTACATTTTAT
1 TTATATATTTACATTTTAT
360725 ATATTTATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 14 0.27
41 6 0.12
42 32 0.62
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (40 bp):
TTATATATTTACATTTTATTTAATTATATTTTATTTATTT
Found at i:362347 original size:25 final size:25
Alignment explanation
Indices: 362319--362371 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
362309 TTAAATTAAA
*
362319 AAATACTAAATA-AATATTTTAAATT
1 AAAT-CTAAATATAAAATTTTAAATT
* *
362344 AAATTTAAATATAAAATTTTAATTT
1 AAATCTAAATATAAAATTTTAAATT
362369 AAA
1 AAA
362372 ATTTAATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATCTAAATATAAAATTTTAAATT
Found at i:362399 original size:12 final size:12
Alignment explanation
Indices: 362334--362400 Score: 59
Period size: 12 Copynumber: 5.7 Consensus size: 12
362324 CTAAATAAAT
362334 ATTTTAAATTAA
1 ATTTTAAATTAA
362346 A-TTTAAATATAAA
1 ATTTTAAAT-T-AA
*
362359 ATTTTAATTTAA
1 ATTTTAAATTAA
* * *
362371 AATTTAATTTGA
1 ATTTTAAATTAA
362383 A--TTAAATTAA
1 ATTTTAAATTAA
362393 ATTTTAAA
1 ATTTTAAA
362401 AAATAATTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
10 8 0.18
11 7 0.16
12 20 0.44
13 4 0.09
14 6 0.13
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (12 bp):
ATTTTAAATTAA
Found at i:362517 original size:3 final size:3
Alignment explanation
Indices: 362509--362543 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
362499 GTTAGAAATA
*
362509 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
362544 ACAGCCAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:363043 original size:2 final size:2
Alignment explanation
Indices: 363036--363068 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
363026 TCTAATCCAT
363036 TA TA TA TA 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 TA TA TA TA T
363069 GAAAGAGGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:363356 original size:2 final size:2
Alignment explanation
Indices: 363349--363373 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
363339 AATATCCTTC
363349 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
363374 AACGGGTTCC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:364413 original size:9 final size:9
Alignment explanation
Indices: 364369--364414 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
364359 AAAGATAAAA
364369 TATATTTTT
1 TATATTTTT
*
364378 TATATGTTT
1 TATATTTTT
*
364387 GATATTTTT
1 TATATTTTT
*
364396 TATTCTTTTT
1 TA-TATTTTT
364406 TATATTTTT
1 TATATTTTT
364415 CTTTAACCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
9 22 0.73
10 8 0.27
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (9 bp):
TATATTTTT
Found at i:364755 original size:27 final size:27
Alignment explanation
Indices: 364724--364777 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
364714 AAATTAGTGA
*
364724 ATATTTTTTA-AATATTAAAAAATAAAT
1 ATATTTTTTATAAAATTAAAAAA-AAAT
364751 ATATTTTTTATAAAATTAAAAAAAAAT
1 ATATTTTTTATAAAATTAAAAAAAAAT
364778 CTTTCACCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
ATATTTTTTATAAAATTAAAAAAAAAT
Found at i:365701 original size:3 final size:3
Alignment explanation
Indices: 365693--365739 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
365683 TATGAAGGTT
* * *
365693 TTA TTA TTA TTA TTA TTA TTA TAA TTA TAA TTA TTA TTG TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
365740 GATATTTTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:365958 original size:21 final size:21
Alignment explanation
Indices: 365934--366025 Score: 71
Period size: 21 Copynumber: 4.3 Consensus size: 21
365924 ATTAATTTTG
365934 ATAAAATTAAAAATAATAATAATA
1 ATAAAATT--AAAT-ATAATAATA
* * *
365958 ATAAAATTAAATTTTATAATG
1 ATAAAATTAAATATAATAATA
* * *
365979 ATAAAATTAAATATCATAGTC
1 ATAAAATTAAATATAATAATA
* *
366000 ATAAAATTAACTAT--TAGTA
1 ATAAAATTAAATATAATAATA
366019 ATAAAAT
1 ATAAAAT
366026 ATATGTTTAG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
19 11 0.19
21 36 0.61
22 4 0.07
24 8 0.14
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
ATAAAATTAAATATAATAATA
Found at i:366146 original size:19 final size:21
Alignment explanation
Indices: 366122--366174 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
366112 AATTATTTAT
366122 ATAATTATTT-TTT-AAAATA
1 ATAATTATTTATTTAAAAATA
366141 ATAATTATTATATTTAAAAATA
1 ATAATTATT-TATTTAAAAATA
366163 ATAATATATTTA
1 ATAAT-TATTTA
366175 CACATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.30
20 1 0.03
21 3 0.10
22 13 0.43
23 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAATTATTTATTTAAAAATA
Found at i:366886 original size:23 final size:22
Alignment explanation
Indices: 366841--366889 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
366831 TATCATTAAA
**
366841 TTTTTAAAAATAATTTTTTTAT
1 TTTTTAAAAATAATTTTGATAT
366863 TTTTTAAAAATAATTATTGATAT
1 TTTTTAAAAATAATT-TTGATAT
366886 TTTT
1 TTTT
366890 AATTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTTTAAAAATAATTTTGATAT
Found at i:374301 original size:78 final size:79
Alignment explanation
Indices: 374219--374406 Score: 222
Period size: 79 Copynumber: 2.4 Consensus size: 79
374209 AAATTTAATA
*
374219 TTTTGGAGATAAAGA-CGGGGTTGGAGTATCCCCTCAG-AATAACGA-GGCTAGAGTATCCCCGA
1 TTTTGGAAATAAA-ACCGGGGTTGGAGTATCCCCTCAGAAATAA-GAGGGCTAGAGTATCCCCGA
**
374281 TTGTGGAAAATC-AGTG
64 TTACGGAAAATCGA-TG
*** * * *
374297 TTTTGGAAATAAAACCGGGGTTGGAGTATCTTTTCAGAAATAATAGGGTTGGAGTATCCCCGATT
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAAGAGGGCTAGAGTATCCCCGATT
374362 ACGGAAAATCGATG
66 ACGGAAAATCGATG
* *
374376 TTTTGGAAATAAAATCAGGGTTGGAGTATCC
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCC
374407 TCGATTGTGG
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
77 1 0.01
78 32 0.34
79 60 0.64
80 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (79 bp):
TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAAGAGGGCTAGAGTATCCCCGATT
ACGGAAAATCGATG
Found at i:374406 original size:51 final size:51
Alignment explanation
Indices: 374341--374459 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 51
374331 CAGAAATAAT
374341 AGGGTTGGAGTATCCCCGATTACGGAAAATCGATGTTTTGGAAATAAAATC
1 AGGGTTGGAGTATCCCCGATTACGGAAAATCGATGTTTTGGAAATAAAATC
* ** * *
374392 AGGGTTGGAGTATCCTCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATC
1 AGGGTTGGAGTATCCCCGATTACGGAAAATCGATGTTTTGGAAATAAAATC
* *
374443 -GAGGTTAGAATATCCCC
1 AG-GGTTGGAGTATCCCC
374460 TCAGAAATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
50 1 0.02
51 58 0.98
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
AGGGTTGGAGTATCCCCGATTACGGAAAATCGATGTTTTGGAAATAAAATC
Found at i:374430 original size:130 final size:130
Alignment explanation
Indices: 374269--374518 Score: 356
Period size: 130 Copynumber: 1.9 Consensus size: 130
374259 AACGAGGCTA
* * * ***
374269 GAGTATCCCCGATTGTGGAAAATCAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCTTTTCAG
1 GAGTATCCCCGATTGTGGAAAATCAGTGTTTTGGAAATAAAACCGAGGTTAGAATATCCCCTCAG
* *
374334 AAATAATAGGGTTGGAGTATCCCCGATTACGGAAAATCGATGTTTTGGAAATAAAATCAGGGTTG
66 AAATAATAGGGTTGGAGTATCCCCGATTACGGAAAATCGATATTTTAGAAATAAAATCAGGGTTG
* ** *
374399 GAGTATCCTCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGAGGTTAGAATATCCCCTCAG
1 GAGTATCCCCGATTGTGGAAAATCAGTGTTTTGGAAATAAAACCGAGGTTAGAATATCCCCTCAG
* ** *
374464 AAATAATAGGGTTGGAGTATCCCTGATTGTGGAGAATCGATATTTTAGAAATAAA
66 AAATAATAGGGTTGGAGTATCCCCGATTACGGAAAATCGATATTTTAGAAATAAA
374519 CACATGAATG
Statistics
Matches: 104, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
130 104 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (130 bp):
GAGTATCCCCGATTGTGGAAAATCAGTGTTTTGGAAATAAAACCGAGGTTAGAATATCCCCTCAG
AAATAATAGGGTTGGAGTATCCCCGATTACGGAAAATCGATATTTTAGAAATAAAATCAGGGTTG
Found at i:376933 original size:50 final size:50
Alignment explanation
Indices: 376862--376976 Score: 176
Period size: 50 Copynumber: 2.3 Consensus size: 50
376852 AAAAATGCCT
* * *
376862 GAATGTATCGATACATCTGGGTAAAACCCAGAATGTATCGATATAATGAA
1 GAATATATCGATACATCTGGGTAAAACCCAAAATGTATCGATACAATGAA
* *
376912 TAATATATCGATACATCTGGGTTAAACCCAAAATGTATCGATACAATGAA
1 GAATATATCGATACATCTGGGTAAAACCCAAAATGTATCGATACAATGAA
*
376962 GAATGTATCGATACA
1 GAATATATCGATACA
376977 AATTGTGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (50 bp):
GAATATATCGATACATCTGGGTAAAACCCAAAATGTATCGATACAATGAA
Found at i:380644 original size:35 final size:34
Alignment explanation
Indices: 380594--380659 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 34
380584 TAAGTGATTG
*
380594 AGAGGTTCTAGCTTAGCTTTTGTAAAAGATAGAGA
1 AGAGGTTCTAGCTTAGCTTTCG-AAAAGATAGAGA
* *
380629 AGAGGTTTTATCTTAGCTTTCGAAAAGATAG
1 AGAGGTTCTAGCTTAGCTTTCGAAAAGATAG
380660 TGTTGCAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 9 0.32
35 19 0.68
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.33
Consensus pattern (34 bp):
AGAGGTTCTAGCTTAGCTTTCGAAAAGATAGAGA
Found at i:383495 original size:28 final size:29
Alignment explanation
Indices: 383464--383544 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
383454 CATTATAAGT
383464 TTATTTATATAAAAATAAAA-TTAAAAAC
1 TTATTTATATAAAAATAAAAGTTAAAAAC
* * *
383492 TTATTTGAGTA-CAAATTAAAAGTTAAAAAT
1 TTATTT-A-TATAAAAATAAAAGTTAAAAAC
* * *
383522 TTATTTGTATATAAATTAAAGTT
1 TTATTTATATAAAAATAAAAGTT
383545 TAAAGATTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
28 8 0.20
29 18 0.44
30 15 0.37
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (29 bp):
TTATTTATATAAAAATAAAAGTTAAAAAC
Found at i:383520 original size:30 final size:30
Alignment explanation
Indices: 383479--383586 Score: 89
Period size: 30 Copynumber: 3.6 Consensus size: 30
383469 TATATAAAAA
383479 TAAAA-TTAAAAACTTATTTGAGTACAAAT
1 TAAAAGTTAAAAACTTATTTGAGTACAAAT
* *
383508 TAAAAGTTAAAAATTTATTTGTA-TATAAAT
1 TAAAAGTTAAAAACTTATTTG-AGTACAAAT
* * *
383538 T-AAAGTTTAAAGATTTATTTTG-GTGCAAAT
1 TAAAAG-TTAAAAACTTA-TTTGAGTACAAAT
* * *
383568 TGAAGGTTAACAACTTATT
1 TAAAAGTTAAAAACTTATT
383587 AGGATTCAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
29 11 0.17
30 45 0.70
31 8 0.12
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (30 bp):
TAAAAGTTAAAAACTTATTTGAGTACAAAT
Found at i:383543 original size:29 final size:28
Alignment explanation
Indices: 383463--383557 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 28
383453 ACATTATAAG
* * *
383463 TTTATTTATATAAAAATAAAATTAAAAA
1 TTTATTTGTATAAAATTAAAGTTAAAAA
*
383491 CTTATTTG-AGTACAAATTAAAAGTTAAAAA
1 TTTATTTGTA-TA-AAATT-AAAGTTAAAAA
*
383521 TTTATTTGTATATAAATTAAAGTTTAAAGA
1 TTTATTTGTATA-AAATTAAAG-TTAAAAA
383551 TTTATTT
1 TTTATTT
383558 TGGTGCAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
27 1 0.02
28 8 0.15
29 8 0.15
30 37 0.67
31 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.43
Consensus pattern (28 bp):
TTTATTTGTATAAAATTAAAGTTAAAAA
Found at i:387122 original size:50 final size:50
Alignment explanation
Indices: 387042--387176 Score: 180
Period size: 50 Copynumber: 2.7 Consensus size: 50
387032 TTTCACAATT
* * * *
387042 TGTATCGATACATTCTTCATTGTATCGATACATTTCGGGTTTTACCCATA
1 TGTATCGATACATTTTTCATTGTATCGATACATTCCGAGTTTTACCCAGA
* * *
387092 TGTATTGATACATTTTTCATTATATTGATACATTCCGAGTTTTACCCAGA
1 TGTATCGATACATTTTTCATTGTATCGATACATTCCGAGTTTTACCCAGA
* * *
387142 TGTATCAATACATTTCTCAATGTATCGATACATTC
1 TGTATCGATACATTTTTCATTGTATCGATACATTC
387177 AAGCATTTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (50 bp):
TGTATCGATACATTTTTCATTGTATCGATACATTCCGAGTTTTACCCAGA
Found at i:389668 original size:79 final size:79
Alignment explanation
Indices: 389533--390015 Score: 510
Period size: 79 Copynumber: 6.1 Consensus size: 79
389523 TTTCATTGAT
* * * * * * *
389533 ATTTCTATTTCTAAAACATCGACTCTCCACCATCGGGGATACTCCAACCCCATTATTTCCGAAGG
1 ATTTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTTCGAAGG
* * **
389598 AATACTTCAACCTT
66 GATACTCCAACCCC
* * * *
389612 ATTTTTATTTCTAAAACATCGATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTTTGAGGG
1 ATTTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTTCGAAGG
389677 GATACTCCAACCCC
66 GATACTCCAACCCC
* ** *
389691 GA-TTTTATTTCTAAAACATTGATTTTCCATTATCGGGGATACTCCAACCCCGTTATTTTCGAA-
1 -ATTTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTTCGAAG
* *
389754 GGACATTCCAACCCC
65 GGATACTCCAACCCC
* ** * * *
389769 AATTTTTTTTTTCTAAAACATTAATTTTCTACAATCGAGAATACTCCAACCCCGTTATTTTCGAG
1 -A-TTTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTTCGAA
*
389834 GGGATACTCTAACCCC
64 GGGATACTCCAACCCC
*** * * * *
389850 GGCTTTATTTCTAAAACATCAATTTTTCACAATC-AGGGATACTCCAACCCCATTATTTTCGAGG
1 ATTTTTATTTCTAAAACATCGATTTTCCACAATCGA-GGATACTCCAACCCCGTTATTTTCGAAG
*
389914 GGATACTCCAACCTCG
65 GGATACTCCAACC-CC
* *
389930 A-TTTTATTT-TCAAAACATCGATTTTCCACCATC-AGGGATACTCCAACCCCGTTATTTTTGAA
1 ATTTTTATTTCT-AAAACATCGATTTTCCACAATCGA-GGATACTCCAACCCCGTTATTTTCGAA
*
389992 GGGATACTTCAACCCC
64 GGGATACTCCAACCCC
390008 ATTTTTAT
1 ATTTTTAT
390016 CTCCAAAATA
Statistics
Matches: 338, Mismatches: 58, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
78 18 0.05
79 253 0.75
80 55 0.16
81 12 0.04
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (79 bp):
ATTTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTTCGAAGG
GATACTCCAACCCC
Found at i:389837 original size:159 final size:157
Alignment explanation
Indices: 389533--390012 Score: 556
Period size: 159 Copynumber: 3.0 Consensus size: 157
389523 TTTCATTGAT
* * * *
389533 ATTTCTATTTCTAAAACATCGACTCTCCACCATCGGGGATACTCCAACCCCATTATTTCCGAAGG
1 ATTT-TATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCATTATTTTCGAAGG
* ** *
389598 AATACTTCAA-CCTTATTTTTATTTCTAAAACATCGATTTT-TCACAATCGAGGATACTCCAACC
65 AAT--TCCAACCCCAATTTTTTTTTCTAAAACATCGATTTTCT-ACAATCGAGGATACTCCAACC
*
389661 TCGTTATTTTTGAGGGGATACTCCAACCCCG
127 CCGTTATTTTTGAGGGGATACTCCAACCCCG
* ** *
389692 ATTTTATTTCTAAAACATTGATTTTCCATTATCGGGGATACTCCAACCCCGTTATTTTCGAAGGA
1 ATTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCATTATTTTCGAAGGA
** *
389757 CATTCCAACCCCAATTTTTTTTTTCTAAAACATTAATTTTCTACAATCGAGAATACTCCAACCCC
66 -ATTCCAACCCCAA-TTTTTTTTTCTAAAACATCGATTTTCTACAATCGAGGATACTCCAACCCC
* *
389822 GTTATTTTCGAGGGGATACTCTAACCCCG
129 GTTATTTTTGAGGGGATACTCCAACCCCG
** * * * *
389851 GCTTTATTTCTAAAACATCAATTTTTCACAATCAGGGATACTCCAACCCCATTATTTTCGAGGGG
1 ATTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCATTATTTTCGA-AGG
* * * * * *
389916 ATACTCCAACCTCGATTTTATTTTC-AAAACATCGATTTTCCACCATC-AGGGATACTCCAACCC
65 A-ATTCCAACCCCAATTTTTTTTTCTAAAACATCGATTTTCTACAATCGA-GGATACTCCAACCC
* *
389979 CGTTATTTTTGAAGGGATACTTCAACCCC-
128 CGTTATTTTTGAGGGGATACTCCAACCCCG
390008 ATTTT
1 ATTTT
390013 TATCTCCAAA
Statistics
Matches: 272, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
157 8 0.03
158 113 0.42
159 137 0.50
160 14 0.05
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (157 bp):
ATTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCATTATTTTCGAAGGA
ATTCCAACCCCAATTTTTTTTTCTAAAACATCGATTTTCTACAATCGAGGATACTCCAACCCCGT
TATTTTTGAGGGGATACTCCAACCCCG
Found at i:392064 original size:4 final size:4
Alignment explanation
Indices: 392055--392080 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
392045 ATTGAGGTGC
392055 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
392081 TGTTTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:403272 original size:61 final size:60
Alignment explanation
Indices: 403175--403591 Score: 455
Period size: 61 Copynumber: 6.9 Consensus size: 60
403165 AACCATTTAT
* * *
403175 CCTTTTAGTCTTCAAAGAGCATGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCA-GACGCCTTTCCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * ** * * * *
403236 CCTTTTAGTCCTCAAAGAGTAGCACGTCTTTCCCTTTTGAAGCTCATATAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAG-ACGCCTTTCCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
403297 CTTTTTAGTCCTTAAAGAGTAGAAC-ACTTT-CCTTTCAAAGCCCACACAAGTTGATGGCA
1 CCTTTTAGTCCTCAAAGAGCAG-ACGCCTTTCCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
403356 CCTTTTAGTCCTCAAAGAGCAGGATGTCTTTCCCTTTTAAAACCCACACAAGTTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGCA-GACGCCTTTCCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
403417 CCTTTTAGTCCTCAAAGAGCAGAACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAG-ACGCCTTTCCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
403478 CCTTTCAGTCCTAAAAGAGTAAGAC-ACTTT-CCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAG-CAGACGCCTTTCCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
403537 CCTTTTAGTCCTTAAAGAGCAGGACGACCTTTCCTTTTCAAAGCCCACATAAGTT
1 CCTTTTAGTCCTCAAAGAGCA-GACG-CCTTTCCCTTTCAAAGCCCACACAAGTT
403592 TGTTAGGATC
Statistics
Matches: 297, Mismatches: 49, Indels: 19
0.81 0.13 0.05
Matches are distributed among these distances:
58 1 0.00
59 88 0.30
60 15 0.05
61 171 0.58
62 22 0.07
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (60 bp):
CCTTTTAGTCCTCAAAGAGCAGACGCCTTTCCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:403423 original size:120 final size:120
Alignment explanation
Indices: 403204--403591 Score: 501
Period size: 120 Copynumber: 3.2 Consensus size: 120
403194 CATGATGCCT
*
403204 TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGCACGTCTTTCC
1 TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGA-GTCTTTCC
* * * * * * *
403269 CTTTTGAAGCTCATATAAGCTGGTGGCACTTTTTAGTCCTTAAAGAGTAGAAC-AC
65 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAGAACGAC
* *
403324 TTTCCTTTCAAAGCCCACACAAGTTGATGGCACCTTTTAGTCCTCAAAGAGCAGGATGTCTTTCC
1 TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGA-GTCTTTCC
* * * *
403389 CTTTTAAAACCCACACAAGTTGGTGGTACCTTTTAGTCCTCAAAGAGCAGAACGCC
65 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAGAACGAC
* * * * * **
403445 TTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCTTTCAGTCCTAAAAGAGTAAGACACTTT-C
1 -TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAGTCTTTCC
* *
403509 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAGGACGACC
65 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAGAACGA-C
*
403566 TTTCCTTTTCAAAGCCCACATAAGTT
1 TTTCC-TTTCAAAGCCCACACAAGTT
403592 TGTTAGGATC
Statistics
Matches: 233, Mismatches: 31, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
120 159 0.68
121 25 0.11
122 49 0.21
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (120 bp):
TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAGTCTTTCCC
TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAGAACGAC
Found at i:403497 original size:181 final size:180
Alignment explanation
Indices: 403175--403591 Score: 593
Period size: 181 Copynumber: 2.3 Consensus size: 180
403165 AACCATTTAT
* * *
403175 CCTTTTAGTCTTCAAAGAGCATGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 CCTTTTAGTCCTCAAAGAGCAGGATGCC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * * * * * *
403240 TTAGTCCTCAAAGAGTAGCACGTCTTTCCCTTTTGAAGCTCATATAAGCTGGTGGCACTTTTTAG
65 TTAGTCCTCAAAGAGCAGAACGCCTTTCCCTTTTAAAGCCCACATAAGCTGGTGGCACCTTTCAG
*
403305 TCCTTAAAGAGT-AGAACACTTTCCTTTCAAAGCCCACACAAGTTGATGGCA
130 TCCTAAAAGAGTAAG-ACACTTTCCTTTCAAAGCCCACACAAGTTGATGGCA
* * *
403356 CCTTTTAGTCCTCAAAGAGCAGGATGTCTTTCCCTTTTAAAACCCACACAAGTTGGTGGTACCTT
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTT-CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* *
403421 TTAGTCCTCAAAGAGCAGAACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCTTTCAG
65 TTAGTCCTCAAAGAGCAGAACGCCTTTCCCTTTTAAAGCCCACATAAGCTGGTGGCACCTTTCAG
*
403486 TCCTAAAAGAGTAAGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
130 TCCTAAAAGAGTAAGACACTTTCCTTTCAAAGCCCACACAAGTTGATGGCA
* * *
403537 CCTTTTAGTCCTTAAAGAGCAGGACGACCTTTCCTTTTCAAAGCCCACATAAGTT
1 CCTTTTAGTCCTCAAAGAGCAGGATG-CCTTTCCTTTT-AAAGCCCACACAAGTT
403592 TGTTAGGATC
Statistics
Matches: 209, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
180 3 0.01
181 186 0.89
182 20 0.10
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (180 bp):
CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
TAGTCCTCAAAGAGCAGAACGCCTTTCCCTTTTAAAGCCCACATAAGCTGGTGGCACCTTTCAGT
CCTAAAAGAGTAAGACACTTTCCTTTCAAAGCCCACACAAGTTGATGGCA
Found at i:403915 original size:19 final size:20
Alignment explanation
Indices: 403872--403916 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
403862 ATCGATACAA
* *
403872 TGTATCGATGCATTATGCTT
1 TGTATCGATACATTATGCAT
*
403892 TGTATCGATACA-TATTCAT
1 TGTATCGATACATTATGCAT
403911 TGTATC
1 TGTATC
403917 AATATATGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTATGCAT
Found at i:404007 original size:13 final size:13
Alignment explanation
Indices: 403989--404018 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
403979 CGATACATGG
403989 TACAATGTATCGA
1 TACAATGTATCGA
404002 TACAATGTATCGA
1 TACAATGTATCGA
404015 TACA
1 TACA
404019 TGATGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:404033 original size:33 final size:33
Alignment explanation
Indices: 403974--404038 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
403964 TACCACTGTT
* *
403974 TGTATCGATACATGGTACAATGTATCGATACAA
1 TGTATCGATACATGATACAATATATCGATACAA
*
404007 TGTATCGATACATGATGA-ATTATATCGATACA
1 TGTATCGATACATGAT-ACAATATATCGATACA
404039 TTGCTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGATACAATATATCGATACAA
Found at i:410293 original size:21 final size:22
Alignment explanation
Indices: 410269--410318 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
410259 ATCAAATCTT
* *
410269 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
410290 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
410312 --TCAAAAT
1 CTTCAAAAT
410319 CATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:411442 original size:21 final size:23
Alignment explanation
Indices: 411398--411443 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
411388 TTTTAACCGA
*
411398 TTATCAAGGGGGAGAAATTCTTT
1 TTATCAAGAGGGAGAAATTCTTT
*
411421 TTATCAA-AGGGA-AAATTTTTT
1 TTATCAAGAGGGAGAAATTCTTT
411442 TT
1 TT
411444 TGAGAGCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 4 0.19
23 7 0.33
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.41
Consensus pattern (23 bp):
TTATCAAGAGGGAGAAATTCTTT
Found at i:412140 original size:13 final size:13
Alignment explanation
Indices: 412119--412148 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
412109 CGATACATGG
*
412119 TACATTGTATCGA
1 TACAATGTATCGA
412132 TACAATGTATCGA
1 TACAATGTATCGA
412145 TACA
1 TACA
412149 TGATGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:412141 original size:33 final size:33
Alignment explanation
Indices: 412104--412168 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
412094 TACCACTATT
* *
412104 TGTATCGATACATGGT-ACATTGTATCGATACAA
1 TGTATCGATACATGATGA-ATTATATCGATACAA
412137 TGTATCGATACATGATGAATTATATCGATACA
1 TGTATCGATACATGATGAATTATATCGATACA
412169 TTGCTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTATATCGATACAA
Found at i:413064 original size:61 final size:63
Alignment explanation
Indices: 412927--413076 Score: 207
Period size: 61 Copynumber: 2.4 Consensus size: 63
412917 GATGACACCC
* * *
412927 TTTAGTCCTCAAAGAGCAGGAAGCCTTTTTCTTTTCAAAGCCCACACGAGGTGGTGGCATCCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACCAAGTGGTGGCATCCT
* * *
412990 TTT-GTCCTCAAAGAGCAGGATGCCTTTTTC-TTTCAAAGCTCACACCAATTGGTGGTA-CCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACCAAGTGGTGGCATCCT
* *
413050 TTTAGTCTTTAAAGAGCAGGATGCCTT
1 TTTAGTCCTCAAAGAGCAGGATGCCTT
413077 CTCCTTTTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
60 6 0.08
61 43 0.55
62 26 0.33
63 3 0.04
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (63 bp):
TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACCAAGTGGTGGCATCCT
Found at i:413189 original size:42 final size:42
Alignment explanation
Indices: 413075--413433 Score: 225
Period size: 42 Copynumber: 8.7 Consensus size: 42
413065 GCAGGATGCC
* * *
413075 TTCTCCTTTTTTCCTTTTTCCTCAAAGAGTAGGATGCACTTTATTTCC
1 TTCT-CTTTTTTCCTTTGTCCTCAAAGAGCAGGA--CAC---ATTTCA
* *
413123 TT-TCTTTTTT--GTTGTCCTCAAAGAGCAGGACACATTTCG
1 TTCTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* *
413162 TTCTCTTTTTTCCGTTATCCTCAAAGAGCAAGG-CACATTTCA
1 TTCTCTTTTTTCCTTTGTCCTCAAAGAGC-AGGACACATTTCA
* *
413204 TT-TCCTTCTTTTCCTTTTGTCCTCAAAGAGCAAGACGCACTTT-A
1 TTCT-CTT-TTTTCC-TTTGTCCTCAAAGAGCAGGACACA-TTTCA
* * *
413248 TT-TCCTTTTCTCTTTTGTCCTCAAAGAGCAGGGGCAC--TTCA
1 TTCT-CTTTTTTCCTTTGTCCTCAAAGAGCA-GGACACATTTCA
* * *
413289 TT-TCCTTTTTTCCTTTGTCCTCGAAGAGTAGG----ATGTC-
1 TTCT-CTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* * *
413326 --CTCTTTTTCCCTTTGTCCTCAAGGAGCAGGACAC-TTTCC
1 TTCTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* * * * *
413365 TTGT-TTTTTTCCTTTATCCTCAAGGAGCAAGACCCATTTCA
1 TTCTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* * *
413406 TTTTCCTTTTTCCTTTGTCCTCGAAGAG
1 TTCTCTTTTTTCCTTTGTCCTCAAAGAG
413434 TACGACGTAC
Statistics
Matches: 252, Mismatches: 36, Indels: 52
0.74 0.11 0.15
Matches are distributed among these distances:
35 24 0.10
36 1 0.00
38 5 0.02
39 7 0.03
40 39 0.15
41 36 0.14
42 67 0.27
43 18 0.07
44 42 0.17
45 3 0.01
46 7 0.03
47 1 0.00
48 2 0.01
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.42
Consensus pattern (42 bp):
TTCTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
Found at i:413207 original size:86 final size:86
Alignment explanation
Indices: 413075--413321 Score: 247
Period size: 86 Copynumber: 2.9 Consensus size: 86
413065 GCAGGATGCC
* * *
413075 TTCTCCTTTTTTCCTTTTTCCTCAAAGAGTAGGATGCACTTT-ATTTCCTTTCTTTTTTGTTGTC
1 TTCT-CTTTTTTCCTTTATCCTCAAAGAGCA-GAGGCACTTTCATTTCCTTTCTTTTTT-TTGTC
*
413139 CTCAAAGAGCAGGACACA-TTTCG
63 CTCAAAGAGCAGGACACACTTTAG
*
413162 TTCTCTTTTTTCCGTTATCCTCAAAGAGCA-AGGCACATTTCATTTCC-TTCTTTTCCTTTTGTC
1 TTCTCTTTTTTCCTTTATCCTCAAAGAGCAGAGGCAC-TTTCATTTCCTTTCTTTT--TTTTGTC
* * *
413225 CTCAAAGAGCAAGACGCACTTTAT
63 CTCAAAGAGCAGGACACACTTTAG
* * * * **
413249 TTC-CTTTTCTCTTTTGTCCTCAAAGAGCAGGGGCAC-TTCATTTCCTTT-TTTCCTTTGTCCTC
1 TTCTCTTTTTTCCTTTATCCTCAAAGAGCAGAGGCACTTTCATTTCCTTTCTTTTTTTTGTCCTC
* *
413311 GAAGAGTAGGA
66 AAAGAGCAGGA
413322 TGTCCTCTTT
Statistics
Matches: 135, Mismatches: 18, Indels: 18
0.79 0.11 0.11
Matches are distributed among these distances:
83 17 0.13
84 5 0.04
85 22 0.16
86 74 0.55
87 17 0.13
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (86 bp):
TTCTCTTTTTTCCTTTATCCTCAAAGAGCAGAGGCACTTTCATTTCCTTTCTTTTTTTTGTCCTC
AAAGAGCAGGACACACTTTAG
Found at i:414178 original size:50 final size:50
Alignment explanation
Indices: 414049--414162 Score: 192
Period size: 50 Copynumber: 2.3 Consensus size: 50
414039 TTTCACAATT
* *
414049 TGTATCGATACATTCTTCATTGTATCGATGCATTCTGGGTTTTACCCAGA
1 TGTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAAA
*
414099 TGTATCGATACATTCTTCATTGTGTCGATACATTCTGGGTTTTACCCAAA
1 TGTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAAA
*
414149 TGTATCAATACATT
1 TGTATCGATACATT
414163 TCTCAATATA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (50 bp):
TGTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAAA
Found at i:416646 original size:51 final size:50
Alignment explanation
Indices: 416539--416655 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 50
416529 TATTTTAGAG
* * * *
416539 GGGATACTCCAATCCCGGTTTTATTTCTAAAACATCGATTGTCCATAGTTA
1 GGGATACTCCAA-CCCAGTTTTATTTCTAAAACACCAATTGTCCACAGTTA
* *
416590 GGGATACTCCAACCCTAGTTTTATTTTTAAAACACCAATTTTCCACCA-TT-
1 GGGATACTCCAACCC-AGTTTTATTTCTAAAACACCAATTGTCCA-CAGTTA
416640 GAGGATACTCCAACCC
1 G-GGATACTCCAACCC
416656 CGTGATTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
50 4 0.07
51 52 0.91
52 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (50 bp):
GGGATACTCCAACCCAGTTTTATTTCTAAAACACCAATTGTCCACAGTTA
Found at i:416690 original size:79 final size:79
Alignment explanation
Indices: 416590--417084 Score: 478
Period size: 79 Copynumber: 6.3 Consensus size: 79
416580 TCCATAGTTA
* * * * * * * *
416590 GGGATACTCCAA-CCCTAGTTTTATTTTTAAAACACCAATTTTCCACCATTGAGGATACTCCAAC
1 GGGATACTTCAACCCCGA-TTTTATTTTTAAAACATCGATTTTTCACAATCGGGGATACTCCAAC
* *
416654 CCCGTGATTTTTGAG
65 CCCGTTATTTTCGAG
* * * * *
416669 GGGACACTTCAACCCCGGTTTTATTTTTAAAATA-CTTATTTTTCACAATTGGGGATACTCCAAC
1 GGGATACTTCAACCCCGATTTTATTTTTAAAACATC-GATTTTTCACAATCGGGGATACTCCAAC
* *
416733 GCCATTATTTTCGAG
65 CCCGTTATTTTCGAG
* * ****
416748 GGGATACTTCAACCCCGATTTTATTTATAAAACATCAATTTTTCATC-ATCAACAATACTCCAAC
1 GGGATACTTCAACCCCGATTTTATTTTTAAAACATCGATTTTTCA-CAATCGGGGATACTCCAAC
* *
416812 CCCATTATTTTTGAG
65 CCCGTTATTTTCGAG
* * * * * *
416827 GAGACA-TTCCAACCCCGATTTCATTTCTAAAACATTGATTTTTCACAATCGGGGATACTCTAAC
1 GGGATACTT-CAACCCCGATTTTATTTTTAAAACATCGATTTTTCACAATCGGGGATACTCCAAC
416891 CCCGTTATTTTCGAG
65 CCCGTTATTTTCGAG
* * * * *
416906 GGGATACTTCAACCCTGAGTTTATTTCTAATACATCGTTTTTTCACAATCGGGGATACTCCAACC
1 GGGATACTTCAACCCCGATTTTATTTTTAAAACATCGATTTTTCACAATCGGGGATACTCCAACC
* *
416971 TCGTTATTTTTGAG
66 CCGTTATTTTCGAG
* * ** * * * *
416985 GAGATACTCCAACCTTGATTTTATTTTCAAAACATTGATTTTCCACCATCGGGGATACTCCAACC
1 GGGATACTTCAACCCCGATTTTATTTTTAAAACATCGATTTTTCACAATCGGGGATACTCCAACC
*
417050 ACGTTATTTTCGAG
66 CCGTTATTTTCGAG
* *
417064 GGGATACTCCAATCCC-ATTTT
1 GGGATACTTCAACCCCGATTTT
417085 TATCTCCAAA
Statistics
Matches: 343, Mismatches: 66, Indels: 15
0.81 0.16 0.04
Matches are distributed among these distances:
78 9 0.03
79 327 0.95
80 7 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (79 bp):
GGGATACTTCAACCCCGATTTTATTTTTAAAACATCGATTTTTCACAATCGGGGATACTCCAACC
CCGTTATTTTCGAG
Found at i:416806 original size:158 final size:156
Alignment explanation
Indices: 416590--417084 Score: 557
Period size: 158 Copynumber: 3.1 Consensus size: 156
416580 TCCATAGTTA
* * * * *
416590 GGGATACTCCAA-CCCTAGTTTTATTTTTAAAACACCAATTTTCCACCATTGAGGATACTCCAAC
1 GGGATACTCCAACCCCGA-TTTTATTTATAAAACATCAATTTTTCA-CATCGAGGATACTCCAAC
* * * *
416654 CCCGTGATTTTTGAGGGGACACTTCAACCCCGGTTTTATTTTTAAAATACTT-ATTTTTCACAAT
64 CCCGTTATTTTTGAGGAGACACTTCAACCCCGATTTTATTTTTAAAACA-TTGATTTTTCACAAT
* *
416718 TGGGGATACTCCAACGCCATTATTTTCGAG
128 CGGGGATACTCCAAC-CCGTTATTTTCGAG
* * **
416748 GGGATACTTCAACCCCGATTTTATTTATAAAACATCAATTTTTCATCATCAACAATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTATAAAACATCAATTTTTCA-CATCGAGGATACTCCAACC
* * *
416813 CCATTATTTTTGAGGAGACA-TTCCAACCCCGATTTCATTTCTAAAACATTGATTTTTCACAATC
65 CCGTTATTTTTGAGGAGACACTT-CAACCCCGATTTTATTTTTAAAACATTGATTTTTCACAATC
*
416877 GGGGATACTCTAACCCCGTTATTTTCGAG
129 GGGGATACTCCAA-CCCGTTATTTTCGAG
* * * * * ** *
416906 GGGATACTTCAACCCTGAGTTTATTTCTAATACATCGTTTTTTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTATAAAACATCAATTTTTCAC-ATCGAGGATACTCCAACC
* * * ** * * *
416971 TCGTTATTTTTGAGGAGATACTCCAACCTTGATTTTATTTTCAAAACATTGATTTTCCACCATCG
65 CCGTTATTTTTGAGGAGACACTTCAACCCCGATTTTATTTTTAAAACATTGATTTTTCACAATCG
417036 GGGATACTCCAACCACGTTATTTTCGAG
130 GGGATACTCCAACC-CGTTATTTTCGAG
*
417064 GGGATACTCCAATCCC-ATTTT
1 GGGATACTCCAACCCCGATTTT
417085 TATCTCCAAA
Statistics
Matches: 284, Mismatches: 46, Indels: 15
0.82 0.13 0.04
Matches are distributed among these distances:
157 11 0.04
158 267 0.94
159 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (156 bp):
GGGATACTCCAACCCCGATTTTATTTATAAAACATCAATTTTTCACATCGAGGATACTCCAACCC
CGTTATTTTTGAGGAGACACTTCAACCCCGATTTTATTTTTAAAACATTGATTTTTCACAATCGG
GGATACTCCAACCCGTTATTTTCGAG
Found at i:420397 original size:20 final size:20
Alignment explanation
Indices: 420372--420424 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
420362 GTTGGGCTCA
* *
420372 ATGTATCGATACATTTCACC
1 ATGTATCGATACAATCCACC
**
420392 ATGTATCGATACAATCCTTC
1 ATGTATCGATACAATCCACC
420412 ATGTATCGATACA
1 ATGTATCGATACA
420425 GTGTATCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATCCACC
Found at i:420431 original size:13 final size:13
Alignment explanation
Indices: 420413--420437 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
420403 CAATCCTTCA
420413 TGTATCGATACAG
1 TGTATCGATACAG
420426 TGTATCGATACA
1 TGTATCGATACA
420438 ATGTGAGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:420509 original size:19 final size:20
Alignment explanation
Indices: 420485--420535 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
420475 ATATTTTAGT
*
420485 ATGTATCGATACAATG-AAC
1 ATGTATCGATACAAAGCAAC
*
420504 ATGTATCGATACAAAGCAAT
1 ATGTATCGATACAAAGCAAC
420524 ATGTATCGATAC
1 ATGTATCGATAC
420536 TTTAAAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (20 bp):
ATGTATCGATACAAAGCAAC
Found at i:422731 original size:20 final size:20
Alignment explanation
Indices: 422706--422745 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
422696 GTTAGGCATA
*
422706 ATGTATCGATACATTTTATT
1 ATGTATCGATACATTATATT
422726 ATGTATCGATACATTATATT
1 ATGTATCGATACATTATATT
422746 GATACAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (20 bp):
ATGTATCGATACATTATATT
Found at i:422801 original size:20 final size:20
Alignment explanation
Indices: 422776--422813 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
422766 AGCTACCAGT
422776 TTCATGTATCGATACAATTC
1 TTCATGTATCGATACAATTC
422796 TTCATGTATCGATACAAT
1 TTCATGTATCGATACAAT
422814 GAACATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
TTCATGTATCGATACAATTC
Found at i:422822 original size:19 final size:19
Alignment explanation
Indices: 422778--422833 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
422768 CTACCAGTTT
***
422778 CATGTATCGATACAATTCTT
1 CATGTATCGATACAA-TGAA
422798 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
422817 CATGTATCGATATAATG
1 CATGTATCGATACAATG
422834 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:422840 original size:32 final size:33
Alignment explanation
Indices: 422799--422861 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
422789 ACAATTCTTC
*
422799 ATGTATCGATACAATG-AACATGTATCGATATA
1 ATGTATCGATACAAAGCAACATGTATCGATATA
*
422831 ATGTATCGATACAAAGCAATATGTATCGATA
1 ATGTATCGATACAAAGCAACATGTATCGATA
422862 CTTTCTAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGTATCGATATA
Found at i:431768 original size:21 final size:21
Alignment explanation
Indices: 431742--431818 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
431732 AAATTATCCA
431742 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
431763 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
431784 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
431805 AATGTATCGATACA
1 AATGTATCGATACA
431819 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:431879 original size:19 final size:18
Alignment explanation
Indices: 431853--431921 Score: 76
Period size: 19 Copynumber: 4.0 Consensus size: 18
431843 AATTTCAGCG
431853 ATTTGTATCGATACATAA
1 ATTTGTATCGATACATAA
431871 ATGTTGTATCGATAC---A
1 AT-TTGTATCGATACATAA
431887 A--TGTATCGATACATAA
1 ATTTGTATCGATACATAA
*
431903 GTATTGTATCGATACATAA
1 AT-TTGTATCGATACATAA
431922 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
16 3 0.07
18 2 0.05
19 27 0.63
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
ATTTGTATCGATACATAA
Found at i:431892 original size:32 final size:32
Alignment explanation
Indices: 431856--431918 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
431846 TTCAGCGATT
*
431856 TGTATCGATACATAAATGTTGTATCGATACAA
1 TGTATCGATACATAAATATTGTATCGATACAA
*
431888 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAATATTGTATCGATACA
431919 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAATATTGTATCGATACAA
Found at i:431893 original size:13 final size:13
Alignment explanation
Indices: 431875--431899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
431865 ACATAAATGT
431875 TGTATCGATACAA
1 TGTATCGATACAA
431888 TGTATCGATACA
1 TGTATCGATACA
431900 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:431979 original size:13 final size:13
Alignment explanation
Indices: 431961--431986 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
431951 CATTTTTCTG
431961 TGTATCGATACAT
1 TGTATCGATACAT
431974 TGTATCGATACAT
1 TGTATCGATACAT
431987 CTATTCTTTG
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:432004 original size:34 final size:33
Alignment explanation
Indices: 431944--432007 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
431934 AAGGGAATGC
*
431944 ATCGATACATTTTTCTGTGTATCGATACATTGT
1 ATCGATACATTATTCTGTGTATCGATACATTGT
*
431977 ATCGATACATCTATTCTTTGTATCGATACAT
1 ATCGATACAT-TATTCTGTGTATCGATACAT
432008 CTAGGAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 10 0.36
34 18 0.64
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (33 bp):
ATCGATACATTATTCTGTGTATCGATACATTGT
Found at i:434445 original size:54 final size:51
Alignment explanation
Indices: 434313--434710 Score: 197
Period size: 51 Copynumber: 7.6 Consensus size: 51
434303 TTGAGTTTCT
* * *
434313 CAATTCTCTGCAATCGGGGATA-TCCCAACTCCGATTTTATTTTCAAAACAC
1 CAATTTTCTACAATCGGGGATACT-CCAACTCCGATTTTATTTCCAAAACAC
** * *
434364 TGATTTTCTATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAAGCAC
1 CAATTTTCTACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAA-CAC
* * * *
434417 CAA-TTTCTTCACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTC-TAAC-C
1 CAATTTTC-T-ACAATCGGGGATACTCCAACTCCGATT--TTAT------TTC-CAAAACAC
** * * * * * *
434475 CCGTTATT-TCCGA--GGGGATACTCCAACCCCGACTTTATTTCCAAAATAT
1 CAATT-TTCTACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
** * * * *
434524 TGATTTT-TCATAATCGGGGATACTCCAAC-CCTGGTTTTATTGCTAAAACAC
1 CAATTTTCT-ACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAACAC
* * * * *
434575 TAATTTTTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
1 CAA--TTTTCT-ACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
** *
434629 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAT
1 CAATTTT-CTACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACAC
* *
434682 CAATTTT-TCACCATCGAGGATACTCCAAC
1 CAATTTTCT-ACAATCGGGGATACTCCAAC
434711 CTCATTATTT
Statistics
Matches: 263, Mismatches: 54, Indels: 59
0.70 0.14 0.16
Matches are distributed among these distances:
47 1 0.00
48 7 0.03
49 3 0.01
50 2 0.01
51 65 0.25
52 59 0.22
53 25 0.10
54 63 0.24
55 23 0.09
56 1 0.00
57 2 0.01
58 3 0.01
59 2 0.01
60 4 0.02
61 2 0.01
62 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (51 bp):
CAATTTTCTACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
Found at i:434460 original size:27 final size:28
Alignment explanation
Indices: 434430--434505 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
434420 TTTCTTCACA
434430 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
* *
434457 ATCGGGGATACTCTAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
434485 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
434506 ACTTTATTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:434703 original size:52 final size:51
Alignment explanation
Indices: 434323--434711 Score: 231
Period size: 54 Copynumber: 7.4 Consensus size: 51
434313 CAATTCTCTG
* * *
434323 CAATCGGGGATA-TCCCAACTCCGATTTTATTTTCAAAACA-CTGA-TTTTCTA
1 CAATCGGGGATACT-CCAACCCCGATTTTATTTCCAAAACATC-AATTTTTC-A
* * * *
434374 TAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAAGCACCAATTTCTTCA
1 CAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAA-CATCAATTT-TTCA
* * ** *
434428 CAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATAC-TCTAACCCCGTTATTTC-
1 CAATCGGGGATACTCCAACCCCGATTTTAT-TTC--CAAAACATC-AA-----TT-TTTCA
* * * **
434485 CGA--GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCA
1 CAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCA
* * * * *
434534 TAATCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACA-CTAATTTTTTTTCA
1 CAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACATC-AA---TTTTTCA
* * * * *
434588 CAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
1 CAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTC-A
* *
434640 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACATCAATTTTTCA
1 CAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACATCAATTTTTCA
* *
434692 CCATCGAGGATACTCCAACC
1 CAATCGGGGATACTCCAACC
434712 TCATTATTTC
Statistics
Matches: 259, Mismatches: 50, Indels: 57
0.71 0.14 0.16
Matches are distributed among these distances:
48 4 0.02
49 3 0.01
51 64 0.25
52 56 0.22
53 22 0.08
54 73 0.28
55 23 0.09
56 2 0.01
57 6 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (51 bp):
CAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCA
Found at i:434730 original size:28 final size:28
Alignment explanation
Indices: 434693--434767 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
434683 AATTTTTCAC
* *
434693 CATCGAGGATACTCCAACCTCATTATTT
1 CATCGGGGATACTCCAACCTCATTACTT
*
434721 CATCGGGGATACTCCAACCTCGTTACTT
1 CATCGGGGATACTCCAACCTCATTACTT
***
434749 CCGAGGGGATACTCCAACC
1 CATCGGGGATACTCCAACC
434768 CCGGCTTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.25
Consensus pattern (28 bp):
CATCGGGGATACTCCAACCTCATTACTT
Found at i:434802 original size:265 final size:265
Alignment explanation
Indices: 434323--434819 Score: 768
Period size: 265 Copynumber: 1.9 Consensus size: 265
434313 CAATTCTCTG
* **
434323 CAATCGGGGATATCCCAACTCCGATTTTATTTTCAAAACACTGATTTTCTATAATCGGGGATACT
1 CAATCGGGGATATCCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
* * *
434388 CCAACTCTGATTTTATTTCCAAAAAGCACCAATTTCTTCACAATCGGGGATACTCCAACCCCGTT
66 CCAACTCCGATTTTATTTCCAAAAAGCACCAATTTCTTCACAATCGAGGATACTCCAACCCCATT
* *
434453 AATCATCGGGGATACTCTAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCA
131 AATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCA
*
434518 AAATATTGATTTTTCATAATCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAATTTTT
196 AAATATTGATTTCTCATAATCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAATTTTT
434583 TTTCA
261 TTTCA
* *
434588 CAATCGGGGATA-CTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
1 CAATCGGGGATATC-CCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATA
* * *
434652 CTCCAACTCCGATTTTATTTCCAAAAA-CATCAATTT-TTCACCATCGAGGATACTCCAACCTCA
64 CTCCAACTCCGATTTTATTTCCAAAAAGCACCAATTTCTTCACAATCGAGGATACTCCAACCCCA
* * *
434715 TTATTTCATCGGGGATACTCCAACCTCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTA-TT
129 TTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTT
*
434779 CCTAAAATATTGATTTCTCATAATTGGGGATACTCCAACCC
193 CC-AAAATATTGATTTCTCATAATCGGGGATACTCCAACCC
434820 CGTTATTTTC
Statistics
Matches: 210, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
264 31 0.15
265 139 0.66
266 40 0.19
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (265 bp):
CAATCGGGGATATCCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
CCAACTCCGATTTTATTTCCAAAAAGCACCAATTTCTTCACAATCGAGGATACTCCAACCCCATT
AATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCA
AAATATTGATTTCTCATAATCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAATTTTT
TTTCA
Found at i:434899 original size:78 final size:78
Alignment explanation
Indices: 434724--434927 Score: 248
Period size: 78 Copynumber: 2.6 Consensus size: 78
434714 ATTATTTCAT
* * * *
434724 CGGGGATACTCCAACCTCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCT-AAATAT
* *
434789 TGATTTCTCATAAT
65 TGATTTCTCACAAC
* * * * *
434803 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTCT-AATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCTAAAT-AT
434867 TGATTTCTCACAAC
65 TGATTTCTCACAAC
* * * *
434881 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
434928 TTATTATCTC
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
77 3 0.03
78 55 0.51
79 49 0.46
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCTAAATATT
GATTTCTCACAAC
Found at i:436997 original size:4 final size:4
Alignment explanation
Indices: 436988--437012 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
436978 TTTTGAGGTG
436988 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
437013 CTGTTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:448492 original size:119 final size:118
Alignment explanation
Indices: 448345--449003 Score: 857
Period size: 119 Copynumber: 5.6 Consensus size: 118
448335 GCTTTTTAGC
**
448345 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCA
*
448410 AAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
65 AAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* *
448464 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGTCCTCAA
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAA
* * * *
448529 AAAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGT
66 AGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGT
*
448584 CCCCAAAGAGCAGGAC-CC----CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTC
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCCTC
* * **
448643 AAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
64 AAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGT
448700 CCTCAAAGAGC-GAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
1 CCTCAAAGAGCAG-GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
* * *
448764 AAGAGCGGGATGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGT
65 AAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * *
448818 CCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCC
1 CCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTC
* **
448883 AAAGAGCAGGAC-CC----CTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGT
64 AAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGT
* *
448934 CCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCA
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCA
*
448994 AAGAGTAGGA
65 AAGAGCAGGA
449004 GACCTTTCAA
Statistics
Matches: 479, Mismatches: 43, Indels: 45
0.84 0.08 0.08
Matches are distributed among these distances:
110 43 0.09
111 2 0.00
113 2 0.00
114 3 0.01
115 57 0.12
116 81 0.17
117 8 0.02
118 56 0.12
119 136 0.28
120 59 0.12
121 29 0.06
122 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (118 bp):
CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAA
AGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
Found at i:448493 original size:59 final size:59
Alignment explanation
Indices: 448345--449003 Score: 857
Period size: 59 Copynumber: 11.3 Consensus size: 59
448335 GCTTTTTAGC
**
448345 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGT
*
448405 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* *
448464 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * * *
448523 CCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGT
*
448584 CCCCAAAGAGCAGGAC-CC----CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C-AGT
* * **
448639 CCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGT
448700 CCTCAAAGAGC-GAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAG-GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * *
448759 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* *
448818 CCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGT
* * **
448879 CCCCAAAGAGCAGGAC-CC----CTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGT
* *
448934 CCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACTTTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGT
*
448989 CCTCAAAGAGTAGGA
1 CCTCAAAGAGCAGGA
449004 GACCTTTCAA
Statistics
Matches: 543, Mismatches: 37, Indels: 43
0.87 0.06 0.07
Matches are distributed among these distances:
53 2 0.00
54 2 0.00
55 128 0.24
56 13 0.02
57 1 0.00
59 171 0.31
60 134 0.25
61 88 0.16
62 4 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (59 bp):
CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
Found at i:448646 original size:55 final size:55
Alignment explanation
Indices: 448345--449055 Score: 626
Period size: 55 Copynumber: 12.2 Consensus size: 55
448335 GCTTTTTAGC
* **
448345 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACTCC----CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGT
* *
448405 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACTCC----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * *
448464 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACTCC----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* ** *
448523 CCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGT
1 CCTCAAAGAGCAGGA--C--TCCCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGT
*
448584 CCCCAAAGAGCAGGAC-CCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGT
1 CCTCAAAGAGCAGGACTCCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C-AGT
* **
448639 CCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGC-AG--GAC-TC-CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGT
*
448700 CCTCAAAGAGC-GAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAG-GACTCC----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* *
448759 CCTCAAAGAGCGGGA-TGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACT-CC----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
**
448818 CCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGA--C--TCCCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGT
* * **
448879 CCCCAAAGAGCAGGAC-CCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGT
1 CCTCAAAGAGCAGGACTCCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGT
* * *
448934 CCTCAAAGAGCAGGAC-ACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGT
1 CCTCAAAGAGCAGGACTCCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGT
* ** * ** * **
448989 CCTCAAAGAGTAGGA-GACCTTTCAAAGCCCACACGTGTTGGTGGCACTTTTTGGT
1 CCTCAAAGAGCAGGACTCCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGT
449044 CCTCAAAGAGCA
1 CCTCAAAGAGCA
449056 AGATACACTT
Statistics
Matches: 571, Mismatches: 49, Indels: 67
0.83 0.07 0.10
Matches are distributed among these distances:
53 2 0.00
54 2 0.00
55 171 0.30
56 12 0.02
57 1 0.00
58 4 0.01
59 160 0.28
60 132 0.23
61 82 0.14
62 4 0.01
64 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (55 bp):
CCTCAAAGAGCAGGACTCCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
Found at i:448898 original size:295 final size:294
Alignment explanation
Indices: 448345--448998 Score: 1142
Period size: 295 Copynumber: 2.2 Consensus size: 294
448335 GCTTTTTAGC
*
448345 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
1 CCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
*
448410 AAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGC
66 AAGAGCGAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGC
448475 GGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGTCCTCAAAAAGCAGGATG
131 GGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGTCCTCAAAAAGCAGGATG
*
448540 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGTCCCCAAAGAGCAGGACCCCTT
196 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCTT
*
448605 TTAAAGCCCACACAAGTTGGTGGCACTTCCT-AGT
261 TCAAAGCCCACACAAGTTGGTGGCA-TTCCTCAGT
*
448639 CCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 CCTCAAAGAGCAGGACGCCTTCT-CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
448704 AAAGAGCGAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAG
65 AAAGAGCGAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAG
* *
448769 CGGGATGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGAT
130 CGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGTCCTCAAAAAGCAGGAT
448834 GCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCT
195 GCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCT
**
448899 TTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGT
260 TTCAAAGCCCACACAAGTTGGTGGCATTCCTCAGT
*
448934 CCTCAAAGAGCAGGAC-AC--CTC--TTAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTC
1 CCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTC
448993 AAAGAG
65 AAAGAG
448999 TAGGAGACCT
Statistics
Matches: 346, Mismatches: 11, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
289 39 0.11
290 4 0.01
291 1 0.00
292 2 0.01
294 25 0.07
295 275 0.79
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (294 bp):
CCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
AAGAGCGAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGC
GGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGTCCTCAAAAAGCAGGATG
CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCTT
TCAAAGCCCACACAAGTTGGTGGCATTCCTCAGT
Found at i:449839 original size:21 final size:21
Alignment explanation
Indices: 449813--449889 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
449803 AAATTATCCA
*
449813 AATGTATCAATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
449834 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
449855 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
449876 AATGTATCGATACA
1 AATGTATCGATACA
449890 GGGTCCCAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
20 3 0.06
21 47 0.94
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Done.