Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 215 of 310
Found at i:70488655 original size:35 final size:34
Alignment explanation
Indices: 70488616--70488723 Score: 83
Period size: 35 Copynumber: 3.1 Consensus size: 34
70488606 TTACCTCACC
*
70488616 AGTGCTGGGCATACCTATTGTCGGTTTATGTGACT
1 AGTGCTGGGCAAACCTATTGTCGGTTTAT-TGACT
* * *
70488651 AGTGCTAGGCGCAAAAC-ATTGTCAGTTTACTTGGCT
1 AGTGCT-GG-GCAAACCTATTGTCGGTTTA-TTGACT
* * * * *
70488687 AGTGCTAGGTACACCTATTTTCGATTTATTTGACT
1 AGTGCTGGGCAAACCTATTGTCGGTTTA-TTGACT
70488722 AG
1 AG
70488724 CGTTGGGTGC
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
34 4 0.07
35 23 0.41
36 23 0.41
37 6 0.11
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (34 bp):
AGTGCTGGGCAAACCTATTGTCGGTTTATTGACT
Found at i:70498124 original size:18 final size:18
Alignment explanation
Indices: 70498101--70498236 Score: 137
Period size: 18 Copynumber: 7.6 Consensus size: 18
70498091 AAAACAAAGG
* *
70498101 TACTGAATAACTGACTGC
1 TACTGAATAAATGACTGT
* * *
70498119 TACTGAATAATTGATTAT
1 TACTGAATAAATGACTGT
* *
70498137 GACTGAATAAATGGCTGT
1 TACTGAATAAATGACTGT
* * *
70498155 TACTGAATAACTGATTAT
1 TACTGAATAAATGACTGT
*
70498173 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTGT
* *
70498191 GACTAAATAAATGACTGT
1 TACTGAATAAATGACTGT
* *
70498209 TACTGAATAAATGATTAT
1 TACTGAATAAATGACTGT
70498227 TACTGAATAA
1 TACTGAATAA
70498237 CTGATTAATA
Statistics
Matches: 94, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 94 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:70498159 original size:36 final size:36
Alignment explanation
Indices: 70498101--70498248 Score: 170
Period size: 36 Copynumber: 4.1 Consensus size: 36
70498091 AAAACAAAGG
* * *
70498101 TACTGAATAACTGACTGCTACTGAATAATTGATTAT
1 TACTGAATAAATGACTGTTACTGAATAACTGATTAT
* *
70498137 GACTGAATAAATGGCTGTTACTGAATAACTGATTAT
1 TACTGAATAAATGACTGTTACTGAATAACTGATTAT
* * * * * *
70498173 TACTGAATAATTGACTGTGACTAAATAAATGACTGT
1 TACTGAATAAATGACTGTTACTGAATAACTGATTAT
* * *
70498209 TACTGAATAAATGATTATTACTGAATAACTGATTAA
1 TACTGAATAAATGACTGTTACTGAATAACTGATTAT
70498245 TACT
1 TACT
70498249 AATGACTGAC
Statistics
Matches: 90, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 90 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (36 bp):
TACTGAATAAATGACTGTTACTGAATAACTGATTAT
Found at i:70498241 original size:18 final size:18
Alignment explanation
Indices: 70498101--70498258 Score: 129
Period size: 18 Copynumber: 8.8 Consensus size: 18
70498091 AAAACAAAGG
**
70498101 TACTGAATAACTGACTGC
1 TACTGAATAACTGACTAT
* *
70498119 TACTGAATAATTGATTAT
1 TACTGAATAACTGACTAT
* * * *
70498137 GACTGAATAAATGGCTGT
1 TACTGAATAACTGACTAT
*
70498155 TACTGAATAACTGATTAT
1 TACTGAATAACTGACTAT
* *
70498173 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTAT
* * * *
70498191 GACTAAATAAATGACTGT
1 TACTGAATAACTGACTAT
* *
70498209 TACTGAATAAATGATTAT
1 TACTGAATAACTGACTAT
* *
70498227 TACTGAATAACTGATTAA
1 TACTGAATAACTGACTAT
*
70498245 TACT-AATGACTGAC
1 TACTGAATAACTGAC
70498259 CGATAATGAA
Statistics
Matches: 112, Mismatches: 28, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
17 8 0.07
18 104 0.93
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (18 bp):
TACTGAATAACTGACTAT
Found at i:70498250 original size:54 final size:54
Alignment explanation
Indices: 70498101--70498243 Score: 205
Period size: 54 Copynumber: 2.6 Consensus size: 54
70498091 AAAACAAAGG
* ** * *
70498101 TACTGAATAACTGACTGCTACTGAATAATTGATTATGACTGAATAAATGGCTGT
1 TACTGAATAACTGATTATTACTGAATAATTGATTATGACTAAATAAATGACTGT
* *
70498155 TACTGAATAACTGATTATTACTGAATAATTGACTGTGACTAAATAAATGACTGT
1 TACTGAATAACTGATTATTACTGAATAATTGATTATGACTAAATAAATGACTGT
* *
70498209 TACTGAATAAATGATTATTACTGAATAACTGATTA
1 TACTGAATAACTGATTATTACTGAATAATTGATTA
70498244 ATACTAATGA
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (54 bp):
TACTGAATAACTGATTATTACTGAATAATTGATTATGACTAAATAAATGACTGT
Found at i:70498442 original size:28 final size:28
Alignment explanation
Indices: 70498411--70498464 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
70498401 ATCAAAGAAT
** *
70498411 AATTGATTGTTATTGAACGATATTGATA
1 AATTGATTGACATTGAAAGATATTGATA
70498439 AATTGATTGACATTGAAAGATATTGA
1 AATTGATTGACATTGAAAGATATTGA
70498465 CTGATATAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39
Consensus pattern (28 bp):
AATTGATTGACATTGAAAGATATTGATA
Found at i:70505604 original size:17 final size:17
Alignment explanation
Indices: 70505582--70505615 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
70505572 AGAATAATTC
70505582 ATAAACTTAACCATGCT
1 ATAAACTTAACCATGCT
70505599 ATAAACTTAACCATGCT
1 ATAAACTTAACCATGCT
70505616 CCTTTGTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (17 bp):
ATAAACTTAACCATGCT
Found at i:70505876 original size:43 final size:43
Alignment explanation
Indices: 70505818--70505966 Score: 135
Period size: 42 Copynumber: 3.5 Consensus size: 43
70505808 CAATGCCGAC
* * *
70505818 GTCCCAGACATGGTCTTACATGTAATTCGATATCGATGCCTTT
1 GTCCCAGACAAGGTCTTACACGTAATTCGATATCGATGCCTAT
* *
70505861 GTCCCAGACAAGGTCTTACACG-AAATCAGATA-CGATGCCGAT
1 GTCCCAGACAAGGTCTTACACGTAATTC-GATATCGATGCCTAT
* * * * * *
70505903 GTCCCAGACATGGTCTTATACGTAAATCTC-AAATCAAAGCCTGT
1 GTCCCAGACAAGGTCTTACACGT-AAT-TCGATATCGATGCCTAT
70505947 GTCCCAGACACA-GTCTTACA
1 GTCCCAGACA-AGGTCTTACA
70505967 TGATATTTCA
Statistics
Matches: 85, Mismatches: 15, Indels: 11
0.77 0.14 0.10
Matches are distributed among these distances:
42 32 0.38
43 26 0.31
44 25 0.29
45 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
GTCCCAGACAAGGTCTTACACGTAATTCGATATCGATGCCTAT
Found at i:70505910 original size:42 final size:43
Alignment explanation
Indices: 70505810--70505930 Score: 156
Period size: 43 Copynumber: 2.8 Consensus size: 43
70505800 AACAAGTACA
* * *
70505810 ATGCCGACGTCCCAGACATGGTCTTACATGTAATTCGATATCG
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCGATATCG
** *
70505853 ATGCCTTTGTCCCAGACAAGGTCTTACACG-AAATCAGATA-CG
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATC-GATATCG
*
70505895 ATGCCGATGTCCCAGACATGGTCTTATACGTAAATC
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATC
70505931 TCAAATCAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCGATATCG
Found at i:70507699 original size:8 final size:8
Alignment explanation
Indices: 70507686--70507713 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
70507676 GGTTTATGAT
70507686 ATGATTTC
1 ATGATTTC
70507694 ATGATTTC
1 ATGATTTC
70507702 ATGATTTC
1 ATGATTTC
70507710 ATGA
1 ATGA
70507714 AAATTTCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (8 bp):
ATGATTTC
Found at i:70511301 original size:28 final size:27
Alignment explanation
Indices: 70510918--70511567 Score: 196
Period size: 27 Copynumber: 24.0 Consensus size: 27
70510908 TTAGTTTACC
* *
70510918 AAATTACTGAAATACCCTTGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
70510945 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
70510972 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
70510999 AAATTACCAAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
*
70511026 AAATTACTGAAATACCTTCGATTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTGTA
**
70511054 AAATTACTGAAATACTCCT-G-TAAGATA
1 AAATTACTGAAATAC-CCTCGATTTG-TA
* * **
70511081 GAATTAC-CATTTTACCCTCGA-TTGATA
1 AAATTACTGA-AATACCCTCGATTTG-TA
* *** *
70511108 GAATTACTGTTTTACCCTCGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
* * ** *
70511135 GAATTAC-CATTTCACCCTCGATTTTTA
1 AAATTACTGAAAT-ACCCTCGATTTGTA
* * *** ** **
70511162 GAATTACCGTCTTACCCTTAATTTACA
1 AAATTACTGAAATACCCTCGATTTGTA
* * ** **
70511189 GAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTGA-AATACCCTCGATTTGTA
* * *
70511216 AAATTATTGAAATACCCTTGGTTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
70511243 AAATTACTAAAATACCCCCTAATTTGTA
1 AAATTACTGAAATACCCTC-GATTTGTA
*
70511271 AAATTACTGAAATACCCTCGACTTGTAA
1 AAATTACTGAAATACCCTCGATTTGT-A
* * ** *
70511299 AAATTAC-CAAAGTACTCTTAATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* *** **
70511326 GAATTACTGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGATTTGTA
*** ** **
70511353 AAATTACTGTTTTACCCTTAATTTACA
1 AAATTACTGAAATACCCTCGATTTGTA
* *** *
70511380 AAATTACCGTTTTACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* **
70511406 AAATTACTGAAATACCC-CTATAGGGTA
1 AAATTACTGAAATACCCTCGAT-TTGTA
* ** * * *
70511433 GAATTACCAAAACACCC-CTAGTTTGTG
1 AAATTACTGAAATACCCTCGA-TTTGTA
** * *
70511460 AAATTACCAAAATACCACTTG-TTTGTG
1 AAATTACTGAAATACC-CTCGATTTGTA
* *
70511487 AAATTACTGAAATACCTTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** **
70511514 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACTGAAATACCCTC-GATTTGTA
*
70511541 AAATTA-TAGAAATACCCTTGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
70511568 GATTTACCAA
Statistics
Matches: 471, Mismatches: 124, Indels: 56
0.72 0.19 0.09
Matches are distributed among these distances:
25 2 0.00
26 30 0.06
27 364 0.77
28 73 0.15
29 2 0.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:70511545 original size:54 final size:53
Alignment explanation
Indices: 70511454--70511584 Score: 131
Period size: 54 Copynumber: 2.4 Consensus size: 53
70511444 ACACCCCTAG
* * ***
70511454 TTTGTGAAATTACCAAAATACCACTTGTTTGTGAAATTACT-GAAATA-CCTTCAA
1 TTTGTAAAATTACCAAAATACC-CCTGTTTACAAAATTA-TAGAAATACCCTT-AA
*
70511508 TTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTATAGAAATACCCTTGA
1 TTTGTAAAATTACCAAAATACCCCTG-TTTACAAAATTATAGAAATACCCTTAA
* * *
70511562 TTTGTAGATTTACCAAAACACCC
1 TTTGTAAAATTACCAAAATACCC
70511585 TTATAGGATG
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
53 4 0.06
54 57 0.88
55 4 0.06
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (53 bp):
TTTGTAAAATTACCAAAATACCCCTGTTTACAAAATTATAGAAATACCCTTAA
Found at i:70511625 original size:27 final size:27
Alignment explanation
Indices: 70511573--70511627 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
70511563 TTGTAGATTT
* *
70511573 ACCAAAACACCCTTATAGGATGAAAAG
1 ACCAAAACACCCTAATAGGATAAAAAG
*
70511600 ACCAAAATACCCCTAATAGG-TAAAAAG
1 ACCAAAACA-CCCTAATAGGATAAAAAG
70511627 A
1 A
70511628 TTGTAAAGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.51, C:0.22, G:0.13, T:0.15
Consensus pattern (27 bp):
ACCAAAACACCCTAATAGGATAAAAAG
Found at i:70512526 original size:25 final size:24
Alignment explanation
Indices: 70512492--70512561 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 24
70512482 AGGAAGTGCT
70512492 AAAAGGGCTTTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
70512516 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
70512541 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
70512562 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
24 1 0.02
25 42 0.98
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:70512766 original size:42 final size:42
Alignment explanation
Indices: 70512707--70512798 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
70512697 TAGTCTCCCC
* ** *
70512707 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
70512749 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
70512791 AAATGGGC
1 AAATGGGC
70512799 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:70516642 original size:36 final size:36
Alignment explanation
Indices: 70516602--70516674 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
70516592 TTGAAGAGAT
70516602 AGAAAAAGTAGAAGGAATCAAATCTAATGATGGGTG
1 AGAAAAAGTAGAAGGAATCAAATCTAATGATGGGTG
70516638 AGAAAAAGTAGAAGGAATCAAATCTAATGATGGGTG
1 AGAAAAAGTAGAAGGAATCAAATCTAATGATGGGTG
70516674 A
1 A
70516675 TTAGCTTGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.48, C:0.05, G:0.27, T:0.19
Consensus pattern (36 bp):
AGAAAAAGTAGAAGGAATCAAATCTAATGATGGGTG
Found at i:70525276 original size:50 final size:50
Alignment explanation
Indices: 70525157--70525450 Score: 329
Period size: 50 Copynumber: 5.8 Consensus size: 50
70525147 GTTGTGAGAA
* * ** *
70525157 CACATGTCTAGTACTATGTGCAGGCTACTATGTGTTTAAGACGGTT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--TACCA-GATTGTTAGGT
*
70525209 CACATGTGTAGTACTAAGTGCAGGCTTCTATGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
* * * * * * *
70525259 CGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAGATTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-TTAGGT
* * * * *
70525310 CACGTGTGTAGTACTAAATGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
* * *
70525360 CACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAAATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
* **
70525410 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
70525451 GAGCTTCGGT
Statistics
Matches: 203, Mismatches: 37, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
49 3 0.01
50 130 0.64
51 39 0.19
52 31 0.15
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
Found at i:70525345 original size:101 final size:100
Alignment explanation
Indices: 70525203--70525439 Score: 321
Period size: 101 Copynumber: 2.4 Consensus size: 100
70525193 TAAGACGGTT
* * * * *
70525203 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTTCTATGTGTACCAGATTGTTAGGTCGCATGTGT
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGT
* **
70525268 AGTACTAAGTGTAGGCTACTATGCGTACCCGATAG
66 AGTACTAAGTGTAGGCTACTACGCGTACCAAATAG
* * * *
70525303 ATTCGATCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTG
1 -TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTG
* *
70525368 TAGTACTAAGTGTAGGCTACTACGTGTACCAAATTG
65 TAGTACTAAGTGTAGGCTACTACGCGTACCAAATAG
* *
70525404 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTA
70525440 TGCATACCAG
Statistics
Matches: 117, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
100 31 0.26
101 86 0.74
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (100 bp):
TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGT
AGTACTAAGTGTAGGCTACTACGCGTACCAAATAG
Found at i:70525485 original size:151 final size:151
Alignment explanation
Indices: 70525203--70525485 Score: 404
Period size: 151 Copynumber: 1.9 Consensus size: 151
70525193 TAAGACGGTT
* * *
70525203 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTTCTATGTGTACCAGATTGTTAGGTCGCATGTGT
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTTAGGTCGCATGTGT
* * * * ** * * *
70525268 AGTACTAAGTGTAGGCTACTATGCGTACCCGATAGATTCGATCACGTGTGTAGTACTAAATGCAG
66 AGTACTAAGTGCAGGCTACTATGCATACCAGAGAGATTCGATCACAAGGGTAGTAATAAATACAG
70525333 GCTACTACGTGTATCAGATGG
131 GCTACTACGTGTATCAGATGG
*
70525354 TTAGGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAAATTGTTAGGTCGCATGTGT
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTTAGGTCGCATGTGT
* * * * *
70525419 AGTACTAAGTGCAGGCTACTATGCATACCAGAGAGCTTCGGTTACAAGGGTGGTAATATATACAG
66 AGTACTAAGTGCAGGCTACTATGCATACCAGAGAGATTCGATCACAAGGGTAGTAATAAATACAG
70525484 GC
131 GC
70525486 CACCGGGTAT
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
151 114 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (151 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTTAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTATGCATACCAGAGAGATTCGATCACAAGGGTAGTAATAAATACAG
GCTACTACGTGTATCAGATGG
Found at i:70528496 original size:25 final size:25
Alignment explanation
Indices: 70528448--70528496 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
70528438 TGATAATATG
* * * *
70528448 AAAAATGACTATTTTTCCCTTAGGT
1 AAAAATGACCATTATACCCCTAGGT
70528473 AAAAATGACCATTATACCCCTAGG
1 AAAAATGACCATTATACCCCTAGG
70528497 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (25 bp):
AAAAATGACCATTATACCCCTAGGT
Found at i:70528559 original size:11 final size:10
Alignment explanation
Indices: 70528527--70528582 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 10
70528517 CACGAGATTT
70528527 TGATAT-ACA
1 TGATATGACA
*
70528536 TGATTTGACA
1 TGATATGACA
70528546 TGATATGCACA
1 TGATATG-ACA
*
70528557 TGATATG-TA
1 TGATATGACA
*
70528566 TGAAATGCACA
1 TGATATG-ACA
70528577 TGATAT
1 TGATAT
70528583 ATTCATATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 12 0.32
10 9 0.24
11 16 0.43
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (10 bp):
TGATATGACA
Found at i:70528573 original size:20 final size:20
Alignment explanation
Indices: 70528545--70528582 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
70528535 ATGATTTGAC
*
70528545 ATGATATGCACATGATATGT
1 ATGAAATGCACATGATATGT
70528565 ATGAAATGCACATGATAT
1 ATGAAATGCACATGATAT
70528583 ATTCATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
ATGAAATGCACATGATATGT
Found at i:70528685 original size:24 final size:25
Alignment explanation
Indices: 70528628--70528696 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
70528618 GAGGAAGTGA
*
70528628 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
70528653 AAAAGGGCTTTGCCCCAGTTTACC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
70528677 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
70528697 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
24 20 0.47
25 23 0.53
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:70530424 original size:40 final size:39
Alignment explanation
Indices: 70530387--70530564 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
70530377 ATATCCGGAC
70530387 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
70530427 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
70530467 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
70530507 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
70530546 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
70530565 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:70530477 original size:80 final size:79
Alignment explanation
Indices: 70530393--70530564 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 79
70530383 GGACTAAGAT
*
70530393 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
70530457 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
70530473 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
70530538 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
70530552 CCGAAGGCATTTG
1 CCGAAGGCATTTG
70530565 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 38 0.47
80 39 0.49
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:70530582 original size:79 final size:80
Alignment explanation
Indices: 70530420--70530597 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
70530410 AGATACAAAT
* * * *
70530420 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
70530485 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
70530500 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
70530564 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
70530579 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
70530598 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:70531968 original size:54 final size:54
Alignment explanation
Indices: 70531886--70531997 Score: 188
Period size: 54 Copynumber: 2.1 Consensus size: 54
70531876 GTAAACGCAT
* *
70531886 GGGCAGAGACACGACCGTGTGTCCCAGCCGTGTGAAGGACACGGCCTAGAACAC
1 GGGCAGAGACACGACCATGTGTCCCAGCCATGTGAAGGACACGGCCTAGAACAC
* *
70531940 GGGCAGAGACACGACCATGTGTCTCAGCCATGTGAAGGACACGGCCTAGCACAC
1 GGGCAGAGACACGACCATGTGTCCCAGCCATGTGAAGGACACGGCCTAGAACAC
70531994 GGGC
1 GGGC
70531998 TTGTGCCTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.26, C:0.29, G:0.33, T:0.12
Consensus pattern (54 bp):
GGGCAGAGACACGACCATGTGTCCCAGCCATGTGAAGGACACGGCCTAGAACAC
Found at i:70532689 original size:20 final size:20
Alignment explanation
Indices: 70532666--70532719 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
70532656 AAACCCCTTT
*
70532666 CATTTACTTACTTTTCATTG
1 CATTTACTTACTTTCCATTG
70532686 CATTTACTTACTTTCCATTG
1 CATTTACTTACTTTCCATTG
*
70532706 CATTTACTTTCTTT
1 CATTTACTTACTTT
70532720 AACTCAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.22, G:0.04, T:0.56
Consensus pattern (20 bp):
CATTTACTTACTTTCCATTG
Found at i:70538817 original size:20 final size:20
Alignment explanation
Indices: 70538793--70538866 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
70538783 GAACCCCTTT
*
70538793 CATTTACTTACTTTTCATTG
1 CATTTACTTACTTTCCATTG
* *
70538813 TATTTACTTACTGTCCATTG
1 CATTTACTTACTTTCCATTG
* *
70538833 CATTTACATACTTGCCATTG
1 CATTTACTTACTTTCCATTG
*
70538853 CATTTACTTTCTTT
1 CATTTACTTACTTT
70538867 ATCTCAAATA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.20, C:0.22, G:0.07, T:0.51
Consensus pattern (20 bp):
CATTTACTTACTTTCCATTG
Found at i:70549124 original size:40 final size:42
Alignment explanation
Indices: 70549046--70549124 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
70549036 ACAGGGGTTT
70549046 TCACACGGCCTGACACATGCTCGTGTCTATAGCCTGTGTCCC
1 TCACACGGCCTGACACATGCTCGTGTCTATAGCCTGTGTCCC
* *
70549088 TCACACGGCCATGACACGT-C-CGTGTC-CTAGCCTGTGT
1 TCACACGGCC-TGACACATGCTCGTGTCTATAGCCTGTGT
70549125 ATAAAAACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 10 0.29
41 6 0.18
42 11 0.32
43 7 0.21
ACGTcount: A:0.16, C:0.35, G:0.23, T:0.25
Consensus pattern (42 bp):
TCACACGGCCTGACACATGCTCGTGTCTATAGCCTGTGTCCC
Found at i:70569127 original size:16 final size:16
Alignment explanation
Indices: 70569106--70569137 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
70569096 TCAGTTAAAA
70569106 AAAGTAGAGAGTTGGT
1 AAAGTAGAGAGTTGGT
70569122 AAAGTAGAGAGTTGGT
1 AAAGTAGAGAGTTGGT
70569138 GGACTCTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.25
Consensus pattern (16 bp):
AAAGTAGAGAGTTGGT
Found at i:70570319 original size:27 final size:27
Alignment explanation
Indices: 70570281--70570340 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
70570271 TCAGAGTCAG
*
70570281 TAAACATGGGATAGTCCA-CTGAGACGA
1 TAAACATGGGATAATCCATC-GAGACGA
*
70570308 TAAACATGGGATAATCCATCGAGACGG
1 TAAACATGGGATAATCCATCGAGACGA
70570335 TAAACA
1 TAAACA
70570341 CAGGAGAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.18
Consensus pattern (27 bp):
TAAACATGGGATAATCCATCGAGACGA
Found at i:70578820 original size:24 final size:23
Alignment explanation
Indices: 70578786--70578831 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
70578776 TCGACAGCCT
*
70578786 ACTTTTCAGCTTTTTGGCTTTTCG
1 ACTTTTCAGCTTTTCGG-TTTTCG
*
70578810 ACTTTTTAGCTTTTCGGTTTTC
1 ACTTTTCAGCTTTTCGGTTTTC
70578832 AGCTTTTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.09, C:0.20, G:0.15, T:0.57
Consensus pattern (23 bp):
ACTTTTCAGCTTTTCGGTTTTCG
Found at i:70578830 original size:15 final size:16
Alignment explanation
Indices: 70578795--70578838 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
70578785 TACTTTTCAG
*
70578795 CTTTTTGGCTTTTCGA
1 CTTTTTAGCTTTTCGA
70578811 CTTTTTAGCTTTTCG-
1 CTTTTTAGCTTTTCGA
* *
70578826 GTTTTCAGCTTTT
1 CTTTTTAGCTTTT
70578839 GCTATTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.07, C:0.18, G:0.16, T:0.59
Consensus pattern (16 bp):
CTTTTTAGCTTTTCGA
Found at i:70586003 original size:17 final size:17
Alignment explanation
Indices: 70585981--70586016 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
70585971 TAATTAATTT
*
70585981 ATCCTTTAAAGTATTAA
1 ATCCTTTAAAGTACTAA
70585998 ATCCTTTAAAGTACTAA
1 ATCCTTTAAAGTACTAA
70586015 AT
1 AT
70586017 GCTTCTGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.39
Consensus pattern (17 bp):
ATCCTTTAAAGTACTAA
Found at i:70596840 original size:24 final size:24
Alignment explanation
Indices: 70596804--70596869 Score: 123
Period size: 24 Copynumber: 2.7 Consensus size: 24
70596794 CCTACCCAAT
70596804 CCAACCTCTACACACCATCTCCGTA
1 CCAACC-CTACACACCATCTCCGTA
70596829 CCAACCCTACACACCATCTCCGTA
1 CCAACCCTACACACCATCTCCGTA
70596853 CCAACCCTACACACCAT
1 CCAACCCTACACACCAT
70596870 GTGGGGATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 35 0.85
25 6 0.15
ACGTcount: A:0.30, C:0.50, G:0.03, T:0.17
Consensus pattern (24 bp):
CCAACCCTACACACCATCTCCGTA
Found at i:70605905 original size:19 final size:19
Alignment explanation
Indices: 70605881--70605922 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
70605871 AAAAACTCAG
70605881 AATAATAAGATAATAAA-AT
1 AATAATAA-ATAATAAATAT
*
70605900 AATAATAACTAATAAATAT
1 AATAATAAATAATAAATAT
70605919 AATA
1 AATA
70605923 TTGGGCTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AATAATAAATAATAAATAT
Found at i:70625783 original size:22 final size:22
Alignment explanation
Indices: 70625713--70625770 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
70625703 CCTGAGCTAA
**
70625713 TGAATAGTAAGCTCTATTGAGC
1 TGAATAGTAAGCTCTATCAAGC
* *
70625735 TAAAACAGTAAGCTCTATCAAGC
1 T-GAATAGTAAGCTCTATCAAGC
70625758 TGAATAGTAAGCT
1 TGAATAGTAAGCT
70625771 TATGCGAGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (22 bp):
TGAATAGTAAGCTCTATCAAGC
Found at i:70628400 original size:45 final size:44
Alignment explanation
Indices: 70628316--70628400 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 44
70628306 ATGTAATCTG
* *
70628316 AACTCATTGAGTTGTGTCTAAGTTCATGATATATGTGACATCCA
1 AACTCATTGAGTTGTGTCTAAGTTCATGACATATATGACATCCA
* * *
70628360 AACTTATTGAGTTGTGGTCTGAGTTCATGACATGTATGACA
1 AACTCATTGAGTTGT-GTCTAAGTTCATGACATATATGACA
70628401 CATGTTTTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 14 0.40
45 21 0.60
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.36
Consensus pattern (44 bp):
AACTCATTGAGTTGTGTCTAAGTTCATGACATATATGACATCCA
Found at i:70630584 original size:20 final size:21
Alignment explanation
Indices: 70630559--70630600 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
70630549 TAAACCAGGC
*
70630559 TTTGTA-TTTTTTTTCATCAA
1 TTTGTACTTATTTTTCATCAA
70630579 TTTGTACTTATTTTTCATCAA
1 TTTGTACTTATTTTTCATCAA
70630600 T
1 T
70630601 GAAGTATGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTGTACTTATTTTTCATCAA
Found at i:70634640 original size:39 final size:40
Alignment explanation
Indices: 70634545--70634806 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
70634535 TTGAATGATG
*
70634545 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
70634583 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
70634624 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
70634663 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
70634702 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
70634741 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
70634780 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
70634807 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:70639881 original size:39 final size:40
Alignment explanation
Indices: 70639763--70639947 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
70639753 GCTACTCGTT
* *
70639763 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTATCTCGCA
*
70639803 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ATCTCGCA
* *
70639843 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * * * *
70639882 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ATC-TCGCA
70639923 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
70639948 CATCATTCGA
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
38 4 0.03
39 30 0.25
40 73 0.60
41 15 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:70639931 original size:79 final size:81
Alignment explanation
Indices: 70639763--70639947 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
70639753 GCTACTCGTT
* *
70639763 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
70639827 GATTTAGTAATTCGCAC
65 GATATAGTAATTAGCAC
* * ** *
70639844 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCTG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
70639906 GATATGGTCACTTAGCA-
65 GATATAGT-AATTAGCAC
70639923 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
70639948 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 27 0.31
81 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAATTAGCAC
Found at i:70641138 original size:56 final size:56
Alignment explanation
Indices: 70641078--70641290 Score: 408
Period size: 56 Copynumber: 3.8 Consensus size: 56
70641068 TATTAGTTTA
* *
70641078 TTGCCCATGCTTTTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
70641134 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
70641190 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
70641246 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTT
70641291 TGCCCCTCAT
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 155 1.00
ACGTcount: A:0.23, C:0.22, G:0.08, T:0.47
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:70660326 original size:56 final size:57
Alignment explanation
Indices: 70660240--70660473 Score: 427
Period size: 57 Copynumber: 4.1 Consensus size: 57
70660230 TATTAGTTTA
*
70660240 TTGCCCATGCTTCTTATTTTA-TTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTTCCATTAACACAACATGTTTCATGACATGTT
70660296 TTGCCCATGCTTCTTATTTTA-TTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTTCCATTAACACAACATGTTTCATGACATGTT
*
70660352 TTGCCCAAGCTTCTTATTTTATTTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTTCCATTAACACAACATGTTTCATGACATGTT
*
70660409 TTGCCCAAGCTTCTTATTTTATTTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTTCCATTAACACAACATGTTTCATGACATGTT
70660466 TTGCCCAT
1 TTGCCCAT
70660474 CATCCCTTGT
Statistics
Matches: 174, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
56 75 0.43
57 99 0.57
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (57 bp):
TTGCCCATGCTTCTTATTTTATTTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:70660403 original size:113 final size:113
Alignment explanation
Indices: 70660240--70660472 Score: 423
Period size: 113 Copynumber: 2.1 Consensus size: 113
70660230 TATTAGTTTA
* *
70660240 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
1 TTGCCCAAGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCAAG
70660305 CTTCTTATTTTA-TTTTTCCATTAACACAACATGTTTCATGACATGTT
66 CTTCTTATTTTATTTTTTCCATTAACACAACATGTTTCATGACATGTT
*
70660352 TTGCCCAAGCTTCTTATTTTATTTTTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCAA
1 TTGCCCAAGCTTCTTATTTTA-TTCTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCAA
70660417 GCTTCTTATTTTATTTTTTCCATTAACACAACATGTTTCATGACATGTT
65 GCTTCTTATTTTATTTTTTCCATTAACACAACATGTTTCATGACATGTT
70660466 TTGCCCA
1 TTGCCCA
70660473 TCATCCCTTG
Statistics
Matches: 116, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
112 20 0.17
113 54 0.47
114 42 0.36
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (113 bp):
TTGCCCAAGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCAAG
CTTCTTATTTTATTTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:70664577 original size:184 final size:184
Alignment explanation
Indices: 70664268--70664820 Score: 1034
Period size: 184 Copynumber: 3.0 Consensus size: 184
70664258 TTCTCTCTGT
70664268 GCACTCTTAGTTTAGTAATTAGTTTAGATAACCAAATCCCTTAATTTTTAGGCTAGACAATAAAA
1 GCACTCTTAGTTTAGTAATTAGTTTAGATAACCAAATCCCTTAATTTTTAGGCTAGACAATAAAA
70664333 AGAAGGTAATTACTAGTACTCTTGGTTCCTTTGGGTTCAACAATTCGGTCATGCTAAAGCTATAC
66 AGAAGGTAATTACTAGTACTCTTGGTTCCTTTGGGTTCAACAATTCGGTCATGCTAAAGCTATAC
70664398 TACTATTTGATAGGTACACTTGCCTTCATCATGATAATAGTTAGTTTCAAGAAC
131 TACTATTTGATAGGTACACTTGCCTTCATCATGATAATAGTTAGTTTCAAGAAC
70664452 GCACTCTTAGTTTAGTAATTAGTTTAGATAACCAAATCCCTTAATTTTTAGGCTAGACAATAAAA
1 GCACTCTTAGTTTAGTAATTAGTTTAGATAACCAAATCCCTTAATTTTTAGGCTAGACAATAAAA
70664517 AGAAGGTAATTACTAGTACTCTTGGTTCCTTTGGGTTCAACAATTCGGTCATGCTAAAGCTATAC
66 AGAAGGTAATTACTAGTACTCTTGGTTCCTTTGGGTTCAACAATTCGGTCATGCTAAAGCTATAC
70664582 TACTATTTGATAGGTACACTTGCCTTCATCATGATAATAGTTAGTTTCAAGAAC
131 TACTATTTGATAGGTACACTTGCCTTCATCATGATAATAGTTAGTTTCAAGAAC
70664636 GCACTCTTAGTTTAGTAATTAGTTTAGATAACCAAATCCCTTAATTTTTAGGCTAGACAATAAAA
1 GCACTCTTAGTTTAGTAATTAGTTTAGATAACCAAATCCCTTAATTTTTAGGCTAGACAATAAAA
* * *
70664701 AGAAGGTAATTACTAGTACTCTTGGTTCCTTTGGGTTCAACAATCCGATCTTGCTAAAGCTATAC
66 AGAAGGTAATTACTAGTACTCTTGGTTCCTTTGGGTTCAACAATTCGGTCATGCTAAAGCTATAC
** * * *
70664766 TACTATTCAATAGGTGCACTTTCCTTCATCAGGATAATAGTTAGTTTCAAGAAC
131 TACTATTTGATAGGTACACTTGCCTTCATCATGATAATAGTTAGTTTCAAGAAC
70664820 G
1 G
70664821 ATTAATTATA
Statistics
Matches: 361, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 361 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (184 bp):
GCACTCTTAGTTTAGTAATTAGTTTAGATAACCAAATCCCTTAATTTTTAGGCTAGACAATAAAA
AGAAGGTAATTACTAGTACTCTTGGTTCCTTTGGGTTCAACAATTCGGTCATGCTAAAGCTATAC
TACTATTTGATAGGTACACTTGCCTTCATCATGATAATAGTTAGTTTCAAGAAC
Found at i:70677704 original size:29 final size:29
Alignment explanation
Indices: 70677670--70677729 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
70677660 CTGAGATTGT
70677670 TTCTAAAGTACTTTTAGGGCCACGAGTGC
1 TTCTAAAGTACTTTTAGGGCCACGAGTGC
70677699 TTCTAAAGTACTTTTAGGGCCACGAGTGC
1 TTCTAAAGTACTTTTAGGGCCACGAGTGC
70677728 TT
1 TT
70677730 GATTAAAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (29 bp):
TTCTAAAGTACTTTTAGGGCCACGAGTGC
Found at i:70687511 original size:27 final size:27
Alignment explanation
Indices: 70687474--70687528 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
70687464 TTTCTGAGAT
70687474 AGAAGACTGCTAGAATGGAGGTATAAA
1 AGAAGACTGCTAGAATGGAGGTATAAA
70687501 AGAAGACTGCTAGAATGGAGGTATAAA
1 AGAAGACTGCTAGAATGGAGGTATAAA
70687528 A
1 A
70687529 TATACTTCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.07, G:0.29, T:0.18
Consensus pattern (27 bp):
AGAAGACTGCTAGAATGGAGGTATAAA
Found at i:70688189 original size:301 final size:301
Alignment explanation
Indices: 70687647--70688725 Score: 1816
Period size: 301 Copynumber: 3.6 Consensus size: 301
70687637 GTGTGATAAC
70687647 TCTTGAAAAAAGTTATATTTCTAGCCTCTAAACTTGATTAAATGTATGTACTTAAATAGATATAT
1 TCTTGAAAAAAGTTATATTTCTAGCCTCTAAACTTGATTAAATGTATGTACTTAAATAGATATAT
*
70687712 TTTCATTTTTAGGTTAATTTTAGAACATTGCATAATAACACTTAGATTATGTCTTGAATGTAATT
66 TTGCATTTTTAGGTTAATTTTAGAACATTGCATAATAACACTTAGATTATGTCTTGAATGTAATT
70687777 TTATGTTAGTTTTCCTGTTGGGAGAAAGAGAACTGGTTGTTGTATGCAGCAGGTGCAGAAAAGAT
131 TTATGTTAGTTTTCCTGTTGGGAGAAAGAGAACTGGTTGTTGTATGCAGCAGGTGCAGAAAAGAT
70687842 AAAGAAAATGAGAAAAAGAATAAAAGAAGTGAAATATTGCCATGGCTAAAGGTTGGATGGATTGC
196 AAAGAAAATGAGAAAAAGAATAAAAGAAGTGAAATATTGCCATGGCTAAAGGTTGGATGGATTGC
70687907 CAACATAAATGTCATGGCAATTCCAGGATAATGCTGAGAAA
261 CAACATAAATGTCATGGCAATTCCAGGATAATGCTGAGAAA
*
70687948 TCTTGAAAAGAGTTATATTTCTAGCCTCTAAACTTGATTAAATGTATGTACTTAAATAGATATAT
1 TCTTGAAAAAAGTTATATTTCTAGCCTCTAAACTTGATTAAATGTATGTACTTAAATAGATATAT
*
70688013 TTTCATTTTTAGGTTAATTTTAGAACATTGCATAATAACACTTAGATTATGTCTTGAATGTAATT
66 TTGCATTTTTAGGTTAATTTTAGAACATTGCATAATAACACTTAGATTATGTCTTGAATGTAATT
70688078 TTATGTTAGTTTTCCTGTTGGGAGAAAGAGAACTGGTTGTTGTATGCAGCAGGTGCAGAAAAGAT
131 TTATGTTAGTTTTCCTGTTGGGAGAAAGAGAACTGGTTGTTGTATGCAGCAGGTGCAGAAAAGAT
70688143 AAAGAAAATGAGAAAAAGAATAAAAGAAGTGAAATATTGCCATGGCTAAAGGTTGGATGGATTGC
196 AAAGAAAATGAGAAAAAGAATAAAAGAAGTGAAATATTGCCATGGCTAAAGGTTGGATGGATTGC
70688208 CAACATAAATGTCATGGCAATTCCAGGATAATGCTGAGAAA
261 CAACATAAATGTCATGGCAATTCCAGGATAATGCTGAGAAA
* ** *
70688249 TCTTGAAAAGAGTTATATTTCTAGCCTCTAAACTTGATTAAATGTACATACTTAAGTAGATATAT
1 TCTTGAAAAAAGTTATATTTCTAGCCTCTAAACTTGATTAAATGTATGTACTTAAATAGATATAT
*
70688314 TTGCATTTTTAGGTTAATTTTAGAACATTGCATAATAACACTTAGATTGTGTCTTGAATGTAATT
66 TTGCATTTTTAGGTTAATTTTAGAACATTGCATAATAACACTTAGATTATGTCTTGAATGTAATT
* * * ** *
70688379 TTATGTTATTTTTCCTATTGGGAGAAAGAGAATTGGTTGTTGTATGCAATAAGTGCAGAAAAGAT
131 TTATGTTAGTTTTCCTGTTGGGAGAAAGAGAACTGGTTGTTGTATGCAGCAGGTGCAGAAAAGAT
* * * * ** * * *
70688444 GAAGAAAATGAGAAAGAGAATAAAGGAAGTGAAATATTACCACAGCAAAAGGTTGAATGGATTGT
196 AAAGAAAATGAGAAAAAGAATAAAAGAAGTGAAATATTGCCATGGCTAAAGGTTGGATGGATTGC
* * * *
70688509 CAACATAAATGCCAAGGCAATTCCAGGATAATGCTGATAAC
261 CAACATAAATGTCATGGCAATTCCAGGATAATGCTGAGAAA
* *
70688550 TCTTGAAAAAAGTTATATTTATAGCCTCTAAACTTGATTAAATGTATGTACTTAAGTAGATATAT
1 TCTTGAAAAAAGTTATATTTCTAGCCTCTAAACTTGATTAAATGTATGTACTTAAATAGATATAT
* * * * *
70688615 TTGCATTTTTAAGTTACTTTTAGAACATTGCATGATAACACTTAGATTTTATCTTGAATGTAATT
66 TTGCATTTTTAGGTTAATTTTAGAACATTGCATAATAACACTTAGATTATGTCTTGAATGTAA-T
* * *
70688680 TTTATGTTATTTTTCCTGTTCGGAGAAAGAGAATTGGTTGTTGTAT
130 TTTATGTTAGTTTTCCTGTTGGGAGAAAGAGAACTGGTTGTTGTAT
70688726 TGTAACAGCT
Statistics
Matches: 741, Mismatches: 36, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
301 696 0.94
302 45 0.06
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (301 bp):
TCTTGAAAAAAGTTATATTTCTAGCCTCTAAACTTGATTAAATGTATGTACTTAAATAGATATAT
TTGCATTTTTAGGTTAATTTTAGAACATTGCATAATAACACTTAGATTATGTCTTGAATGTAATT
TTATGTTAGTTTTCCTGTTGGGAGAAAGAGAACTGGTTGTTGTATGCAGCAGGTGCAGAAAAGAT
AAAGAAAATGAGAAAAAGAATAAAAGAAGTGAAATATTGCCATGGCTAAAGGTTGGATGGATTGC
CAACATAAATGTCATGGCAATTCCAGGATAATGCTGAGAAA
Found at i:70688840 original size:13 final size:13
Alignment explanation
Indices: 70688822--70688846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70688812 TATGGTCTAC
70688822 GATTTCATGAAAT
1 GATTTCATGAAAT
70688835 GATTTCATGAAA
1 GATTTCATGAAA
70688847 ATTTCATTTG
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
GATTTCATGAAAT
Found at i:70689995 original size:49 final size:50
Alignment explanation
Indices: 70689913--70690088 Score: 205
Period size: 52 Copynumber: 3.5 Consensus size: 50
70689903 CTAGTGACTC
* *
70689913 AGTGCGGTACCATGTGAAGGCCACTTTGA-GAAG-AGATAGCTTGGTCACA
1 AGTGTGGTACTATGTGAAGGCCACTTT-ATGAAGAAGATAGCTTGGTCACA
*
70689962 AGTGTGGTACTATGTGAAGGCCACTTTATGAAGAAAAATAGCTTTGGTCACA
1 AGTGTGGTACTATGTGAAGGCCACTTTATGAAG-AAGATAGC-TTGGTCACA
* * * * *
70690014 AGTGTGGTACTATGTGGAGGCCACTTTGTGAAGAAGGTAGCTTTGACTACA
1 AGTGTGGTACTATGTGAAGGCCACTTTATGAAGAAGATAGCTTGGTC-ACA
*
70690065 A-TGGTGGTACTATGTGCAGGCCAC
1 AGT-GTGGTACTATGTGAAGGCCAC
70690089 CGGGTATCCG
Statistics
Matches: 111, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
48 1 0.01
49 29 0.26
50 5 0.05
51 36 0.32
52 40 0.36
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (50 bp):
AGTGTGGTACTATGTGAAGGCCACTTTATGAAGAAGATAGCTTGGTCACA
Found at i:70691033 original size:10 final size:10
Alignment explanation
Indices: 70691018--70691043 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
70691008 AGCTTAGGTT
70691018 GGAGATCGTC
1 GGAGATCGTC
70691028 GGAGATCGTC
1 GGAGATCGTC
70691038 GGAGAT
1 GGAGAT
70691044 TCTATCACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.15, G:0.42, T:0.19
Consensus pattern (10 bp):
GGAGATCGTC
Found at i:70700702 original size:18 final size:16
Alignment explanation
Indices: 70700628--70700715 Score: 65
Period size: 16 Copynumber: 5.4 Consensus size: 16
70700618 TTATAAATTA
*
70700628 AAAATAAATAATATAT
1 AAAATAAATAATATTT
70700644 AATATATACAAT-ATATTT
1 AA-A-ATA-AATAATATTT
** *
70700662 AATGTAAGTAATATTT
1 AAAATAAATAATATTT
70700678 AAAATAAATAATATTTT
1 AAAATAAATAATA-TTT
*
70700695 ATAAATAAA-AAT-TTG
1 A-AAATAAATAATATTT
70700710 AAAATA
1 AAAATA
70700716 GTATAGAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
14 5 0.09
15 5 0.09
16 20 0.34
17 8 0.14
18 17 0.29
19 3 0.05
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (16 bp):
AAAATAAATAATATTT
Found at i:70701329 original size:20 final size:21
Alignment explanation
Indices: 70701306--70701345 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
70701296 TAGGCCCACC
* *
70701306 GATATTTTTTTATT-TTTTAA
1 GATATATTTATATTGTTTTAA
70701326 GATATATTTATATTGTTTTA
1 GATATATTTATATTGTTTTA
70701346 TTTTAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (21 bp):
GATATATTTATATTGTTTTAA
Found at i:70708322 original size:17 final size:17
Alignment explanation
Indices: 70708297--70708330 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
70708287 TGAATTTTGC
70708297 ATTTCGAATAACTCGAA
1 ATTTCGAATAACTCGAA
* *
70708314 ATTTTGAATAATTCGAA
1 ATTTCGAATAACTCGAA
70708331 TAACAAATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
ATTTCGAATAACTCGAA
Found at i:70721770 original size:26 final size:26
Alignment explanation
Indices: 70721740--70721791 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
70721730 AGCATGGCCG
70721740 AACCCTAGCTTCAATAATGGCTTCTT
1 AACCCTAGCTTCAATAATGGCTTCTT
70721766 AACCCTAGCTTCAATAATGGCTTCTT
1 AACCCTAGCTTCAATAATGGCTTCTT
70721792 TCTCTTCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
AACCCTAGCTTCAATAATGGCTTCTT
Found at i:70726273 original size:24 final size:24
Alignment explanation
Indices: 70726131--70726272 Score: 275
Period size: 24 Copynumber: 5.9 Consensus size: 24
70726121 GCCTCTTTTA
70726131 ATAACTGGGGCATAAGCCCTTTGG
1 ATAACTGGGGCATAAGCCCTTTGG
70726155 ATAACTGGGGCATAAGCCCTTTGG
1 ATAACTGGGGCATAAGCCCTTTGG
70726179 ATAACTGGGGCATAAGCCCTTTGG
1 ATAACTGGGGCATAAGCCCTTTGG
70726203 ATAACTGGGGCATAAGCCCTTTGG
1 ATAACTGGGGCATAAGCCCTTTGG
*
70726227 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTGG
70726251 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
70726273 TTCACTTCCT
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 117 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTGG
Found at i:70726349 original size:20 final size:20
Alignment explanation
Indices: 70726324--70726388 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
70726314 ATGAATACAG
70726324 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
70726344 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
70726364 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
70726384 CATGT
1 CATGT
70726389 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:70726355 original size:11 final size:11
Alignment explanation
Indices: 70726324--70726377 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
70726314 ATGAATACAG
70726324 CATGTGCATAT
1 CATGTGCATAT
*
70726335 CA--TACATAT
1 CATGTGCATAT
70726344 CATGTGCATAT
1 CATGTGCATAT
* *
70726355 CA--TACATGT
1 CATGTGCATAT
70726364 CATGTGCATAT
1 CATGTGCATAT
70726375 CAT
1 CAT
70726378 ACATACCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:70731965 original size:35 final size:35
Alignment explanation
Indices: 70731925--70732089 Score: 206
Period size: 35 Copynumber: 4.7 Consensus size: 35
70731915 TCCATGGCAA
*
70731925 AGTTGTGAAACGTAGGTATGGTATCATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
* * *
70731960 AGTTGTGAAACCTAAGTATGGTATTAACCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
*
70731995 AGTTGTAAAACGTAGGTATGGTATTATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
** * *
70732030 AGTTAAGAAACGTAGGTATGGCATT-TCCCATACCG
1 AGTTGTGAAACGTAGGTATGGTATTAT-CCATACTG
* * *
70732065 AGTTGTAAAATGTAGGTAAGGTATT
1 AGTTGTGAAACGTAGGTATGGTATT
70732090 TCAATGAGAA
Statistics
Matches: 110, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
34 1 0.01
35 109 0.99
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (35 bp):
AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
Found at i:70734515 original size:36 final size:38
Alignment explanation
Indices: 70734436--70734516 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 38
70734426 ATAAAAAAAT
**
70734436 AAGAAAGCCATGCATTTGTACCTTGTTGTTGCCAAAATAA
1 AAGAAAGCCATGCATTCATACC-T-TTGTTGCCAAAATAA
70734476 AAGAAAGCCATGCATTCATACC-TTGTTG-CAAAATAA
1 AAGAAAGCCATGCATTCATACCTTTGTTGCCAAAATAA
70734512 AAGAA
1 AAGAA
70734517 GAAAGAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
36 13 0.33
37 6 0.15
40 20 0.51
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (38 bp):
AAGAAAGCCATGCATTCATACCTTTGTTGCCAAAATAA
Found at i:70737258 original size:16 final size:16
Alignment explanation
Indices: 70737236--70737303 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
70737226 TTTGGTTCGC
*
70737236 TGTATTGGATTAGACG
1 TGTATTGGATTAGAGG
* *
70737252 CGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
70737268 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
70737284 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
70737300 TGTA
1 TGTA
70737304 ATAGCAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.26, C:0.03, G:0.34, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:70737560 original size:18 final size:17
Alignment explanation
Indices: 70737539--70737573 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
70737529 TTATTATTAA
*
70737539 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
70737557 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
70737574 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:70737627 original size:157 final size:156
Alignment explanation
Indices: 70737433--70737741 Score: 573
Period size: 157 Copynumber: 2.0 Consensus size: 156
70737423 CCCTTAACAT
*
70737433 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
70737498 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
70737563 TTTAATAAAATTCTTAATAATTAGCAG
131 -TTAATAAAATTCTTAATAATTAGCAG
*
70737590 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
70737655 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
70737720 TTAATAAAATTCTTAATAATTA
131 TTAATAAAATTCTTAATAATTA
70737742 ATATTCTTAT
Statistics
Matches: 148, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
156 22 0.15
157 126 0.85
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (156 bp):
AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
TTAATAAAATTCTTAATAATTAGCAG
Found at i:70737713 original size:16 final size:16
Alignment explanation
Indices: 70737676--70737717 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
70737666 TTAATCATAT
*
70737676 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
70737692 TT-AAATATATTATAA
1 TTAAAATATATTATAA
70737707 TTAAAATATAT
1 TTAAAATATAT
70737718 AATTAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:70737720 original size:13 final size:15
Alignment explanation
Indices: 70737685--70737723 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
70737675 TTTAAACATA
*
70737685 ATTATTATTAAATAT
1 ATTATAATTAAATAT
70737700 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
70737714 A-TATAATTAA
1 ATTATAATTAA
70737724 TAAAATTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.39
14 3 0.13
15 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:70737843 original size:14 final size:15
Alignment explanation
Indices: 70737794--70737845 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
70737784 ATAAAATATA
70737794 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
70737809 TATTAAATATATTAT
1 AATTAAATATATTAT
70737824 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
70737837 AATTTAATA
1 AATTAAATA
70737846 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:70737891 original size:120 final size:121
Alignment explanation
Indices: 70737674--70737969 Score: 496
Period size: 120 Copynumber: 2.5 Consensus size: 121
70737664 ATTTAATCAT
*
70737674 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA-TTAATAAAATTCTTAATA
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
70737738 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
70737795 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
70737858 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
70737914 ATTTCAA-ATAATTAATATTAAATATGATT-TAATT-AAATATATGATTTAATAAAATT
1 ATTTCAACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATT
70737970 TAAAATAATT
Statistics
Matches: 168, Mismatches: 3, Indels: 10
0.93 0.02 0.06
Matches are distributed among these distances:
119 65 0.39
120 97 0.58
121 6 0.04
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (121 bp):
ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:70737950 original size:15 final size:15
Alignment explanation
Indices: 70737930--70737968 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
70737920 AATAATTAAT
70737930 ATTAAATATGATTTA
1 ATTAAATATGATTTA
70737945 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
70737962 ATAAAAT
1 ATTAAAT
70737969 TTAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:70737955 original size:17 final size:17
Alignment explanation
Indices: 70737935--70737968 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
70737925 TTAATATTAA
*
70737935 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
70737952 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
70737969 TTAAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:70742042 original size:16 final size:16
Alignment explanation
Indices: 70742017--70742047 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
70742007 TATTGATTTC
70742017 ATATTATTCTATGTAA
1 ATATTATTCTATGTAA
*
70742033 ATATTTTTCTATGTA
1 ATATTATTCTATGTA
70742048 TGTATATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (16 bp):
ATATTATTCTATGTAA
Found at i:70742181 original size:17 final size:17
Alignment explanation
Indices: 70742152--70742184 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
70742142 TTTCATATAT
*
70742152 TATTATCTTTATGTATG
1 TATTATCTATATGTATG
70742169 TATTATCTATATGTAT
1 TATTATCTATATGTAT
70742185 CATTAATCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (17 bp):
TATTATCTATATGTATG
Found at i:70742522 original size:12 final size:12
Alignment explanation
Indices: 70742505--70742547 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
70742495 TTCTTAGGAT
70742505 TATATTTTATTA
1 TATATTTTATTA
**
70742517 TATATTTT-TGC
1 TATATTTTATTA
70742528 TATATTTTATTA
1 TATATTTTATTA
*
70742540 TGTATTTT
1 TATATTTT
70742548 TGCTATCCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:70742531 original size:23 final size:23
Alignment explanation
Indices: 70742505--70742553 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
70742495 TTCTTAGGAT
70742505 TATATTTTATTATATATTTTTGC
1 TATATTTTATTATATATTTTTGC
*
70742528 TATATTTTATTATGTATTTTTGC
1 TATATTTTATTATATATTTTTGC
70742551 TAT
1 TAT
70742554 CCTTTCATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.65
Consensus pattern (23 bp):
TATATTTTATTATATATTTTTGC
Found at i:70743992 original size:24 final size:24
Alignment explanation
Indices: 70743960--70744009 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
70743950 ACCAATAATT
70743960 AATTAAATGTCCTGTTATAGTCCA
1 AATTAAATGTCCTGTTATAGTCCA
70743984 AATTAAATGTCCTGTTATAGTCCA
1 AATTAAATGTCCTGTTATAGTCCA
70744008 AA
1 AA
70744010 GCCCAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (24 bp):
AATTAAATGTCCTGTTATAGTCCA
Found at i:70746881 original size:131 final size:128
Alignment explanation
Indices: 70746698--70747084 Score: 427
Period size: 131 Copynumber: 2.9 Consensus size: 128
70746688 TTCACAATTA
* * *
70746698 TTTAAGAATTCTTTAAAATGAAGGCGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAAC
1 TTTAAAAATTCTTT-AAACGAAGGCGATATTCGATATTTGGCAATTC-CGGAATCGTGCCCTATC
* *
70746763 ATGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCATGT
64 GTGTTGGGTTGCAATTTCTCGTTTG-TCAAAATAATCGAAGGTCCCTTTAGAATTTCACCCATGT
70746828 CT
128 -T
* *
70746830 TTTAATAATTCTTTAAACGAAGGCGATGTTCGATATTTGGCAATTCACGGAATCGTGCCCTATCG
1 TTTAAAAATTCTTTAAACGAAGGCGATATTCGATATTTGGCAATTC-CGGAATCGTGCCCTATCG
* * * * **
70746895 TGCTGGGTTGCAATTTCTCATTTGTTCAAAATAATCAAAGGTCCCTTTTGAATTTCACTTATGTT
65 TGTTGGGTTGCAATTTCTCGTTTG-TCAAAATAATCGAAGGTCCCTTTAGAATTTCACCCATGTT
* * * ** * *
70746960 TTCTAAAAACTCTTCAAAACAAAGGTAATATTCGATGTTTGGCAATTCGGAGAATCGTGCCCTAT
1 TT-TAAAAATTCTT-TAAACGAAGGCGATATTCGATATTTGGCAATTCCG-GAATCGTGCCCTAT
* * * * *
70747025 CGT-TCTGGGTTTCGATTTC-CTGTTTGTCCAAAATGATCGAAGATTCCTTTAGAATTTCAC
63 CGTGT-TGGGTTGCAATTTCTC-GTTTGT-CAAAATAATCGAAGGTCCCTTTAGAATTTCAC
70747085 TCATACTCTC
Statistics
Matches: 217, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
130 3 0.01
131 114 0.53
132 100 0.46
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (128 bp):
TTTAAAAATTCTTTAAACGAAGGCGATATTCGATATTTGGCAATTCCGGAATCGTGCCCTATCGT
GTTGGGTTGCAATTTCTCGTTTGTCAAAATAATCGAAGGTCCCTTTAGAATTTCACCCATGTT
Found at i:70755810 original size:64 final size:64
Alignment explanation
Indices: 70755701--70755821 Score: 152
Period size: 64 Copynumber: 1.9 Consensus size: 64
70755691 ATCATTCATT
* * * * * *
70755701 TAGTTAGGAGCACTTGATTCACTTCGATCATGGCATTCTAATTATTTGACATAAGCACCACATC
1 TAGTTAGAAGCACTTGACTCACTTCGAGCATGACATCCTAATTATTTGACACAAGCACCACATC
* * * *
70755765 TAGTTAGAAGCATTTGACTCATTTTGAGCATGACATCCTAATTATTTGGCACAAGCA
1 TAGTTAGAAGCACTTGACTCACTTCGAGCATGACATCCTAATTATTTGACACAAGCA
70755822 TAGATACGGA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
64 47 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.33
Consensus pattern (64 bp):
TAGTTAGAAGCACTTGACTCACTTCGAGCATGACATCCTAATTATTTGACACAAGCACCACATC
Found at i:70759473 original size:130 final size:130
Alignment explanation
Indices: 70759222--70759607 Score: 443
Period size: 131 Copynumber: 2.9 Consensus size: 130
70759212 TTCACTATTA
* * * *
70759222 TTTAAGAATTCTTTAAAACGAAGGCGATATTCGATATTTGGCAATTCGCA-ACATCGTGCCCTAA
1 TTTAAAAATTCTTT-AAACGAAGGCGATATTCGATATTTGGCAATTCACAGA-ATCGTGACCTAT
* * *
70759286 CGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGTATTTCACCCATG
64 CGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCACCCATG
70759351 TCT
129 T-T
* * *
70759354 TTTAATAATTGTTTAAACGAAGGCGATGTTCGATATTTGGCAATTCACAGAATCGTG-CCTATCG
1 TTTAAAAATTCTTTAAACGAAGGCGATATTCGATATTTGGCAATTCACAGAATCGTGACCTATCG
* * * **
70759418 TTTTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCAAAGGTCCCTTTTGAATTTCACTTATGTT
66 TGTTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCACCCATGTT
* * ** * * *
70759483 TTCTAAAAACTCTTCAAAACGAAGGTAATATTCGATGTTTGGCAATTCAGAGAATCGTGAGCTAT
1 TT-TAAAAATTCTT-TAAACGAAGGCGATATTCGATATTTGGCAATTCACAGAATCGTGACCTAT
* * * * * * * *
70759548 CGTGCTGGGTTGCGATTTCTTGCTTGTCCAAAATGATCGAAGATTCCTTTAGAATTTCAC
64 CGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCAC
70759608 TCATACTCTC
Statistics
Matches: 216, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
129 3 0.01
130 70 0.32
131 77 0.36
132 66 0.31
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (130 bp):
TTTAAAAATTCTTTAAACGAAGGCGATATTCGATATTTGGCAATTCACAGAATCGTGACCTATCG
TGTTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCACCCATGTT
Found at i:70763537 original size:179 final size:179
Alignment explanation
Indices: 70763237--70763597 Score: 704
Period size: 179 Copynumber: 2.0 Consensus size: 179
70763227 ATTCCAACTT
70763237 CAACTCAGATTCTTTACTACTCAACACGAAAGCAAGGTAGGCTTCATATCCTTTTCTCATATACC
1 CAACTCAGATTCTTTACTACTCAACACGAAAGCAAGGTAGGCTTCATATCCTTTTCTCATATACC
70763302 TTTGAGCCATCATTGAGGTAATCACAACCGACGGAGTATTCAACTCACTTGAATCAATCCGGAGA
66 TTTGAGCCATCATTGAGGTAATCACAACCGACGGAGTATTCAACTCACTTGAATCAATCCGGAGA
70763367 ATCTCACCATCTGAGAATTTCAATTCGATATACTTGCTACCACAATTTA
131 ATCTCACCATCTGAGAATTTCAATTCGATATACTTGCTACCACAATTTA
70763416 CAACTCAGATTCTTTACTACTCAACACGAAAGCAAGGTAGGCTTCATATCCTTTTCTCATATACC
1 CAACTCAGATTCTTTACTACTCAACACGAAAGCAAGGTAGGCTTCATATCCTTTTCTCATATACC
*
70763481 TTTGAGCCATCATTGAGGTAATCACAACTGACGGAGTATTCAACTCACTTGAATCAATCCGGAGA
66 TTTGAGCCATCATTGAGGTAATCACAACCGACGGAGTATTCAACTCACTTGAATCAATCCGGAGA
*
70763546 ATCTCACCATCTGAGCATTTCAATTCGATATACTTGCTACCACAATTTA
131 ATCTCACCATCTGAGAATTTCAATTCGATATACTTGCTACCACAATTTA
70763595 CAA
1 CAA
70763598 TCACATCATG
Statistics
Matches: 180, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
179 180 1.00
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (179 bp):
CAACTCAGATTCTTTACTACTCAACACGAAAGCAAGGTAGGCTTCATATCCTTTTCTCATATACC
TTTGAGCCATCATTGAGGTAATCACAACCGACGGAGTATTCAACTCACTTGAATCAATCCGGAGA
ATCTCACCATCTGAGAATTTCAATTCGATATACTTGCTACCACAATTTA
Found at i:70769424 original size:22 final size:21
Alignment explanation
Indices: 70769383--70769426 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
70769373 TTACAAAAAA
*
70769383 TATCGATACCATTTTAGTAGG
1 TATCGATACCATTCTAGTAGG
70769404 TATCGATACTCATTGCT-GTAGG
1 TATCGATAC-CATT-CTAGTAGG
70769426 T
1 T
70769427 GAAGTTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 10 0.50
23 1 0.05
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (21 bp):
TATCGATACCATTCTAGTAGG
Found at i:70773388 original size:48 final size:47
Alignment explanation
Indices: 70773344--70773472 Score: 195
Period size: 48 Copynumber: 2.7 Consensus size: 47
70773334 CTCATATCGG
*
70773344 TGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
* *
70773391 TCGCCGAAGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC-A
* *
70773440 CGCCGATACCATGTCCCAGACATGGTCTTACAC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACAC
70773473 GTTATCTCAT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 1 0.01
48 72 0.97
49 1 0.01
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
Found at i:70777068 original size:15 final size:15
Alignment explanation
Indices: 70777045--70777074 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
70777035 TTATCTTTCA
70777045 CATACACATAACTCC
1 CATACACATAACTCC
*
70777060 CATATACATAACTCC
1 CATACACATAACTCC
70777075 TAACTAGGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (15 bp):
CATACACATAACTCC
Found at i:70785028 original size:17 final size:18
Alignment explanation
Indices: 70784992--70785026 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
70784982 CCGGCGCCCC
70784992 CTCTCTCCTTTCCTTTTT
1 CTCTCTCCTTTCCTTTTT
*
70785010 CTCTCTCTTTTCCTTTT
1 CTCTCTCCTTTCCTTTT
70785027 CTTTTCTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (18 bp):
CTCTCTCCTTTCCTTTTT
Found at i:70785796 original size:23 final size:21
Alignment explanation
Indices: 70785761--70785832 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 21
70785751 TTAATTTTAA
*
70785761 AAAATTTGAAATATATATTTG
1 AAAATTTTAAATATATATTTG
* * *
70785782 AAATGTTTTATAATATATTTTTT
1 AAA-ATTTTA-AATATATATTTG
*
70785805 AAAATTTTAAATATATATTCTT
1 AAAATTTTAAATATATATT-TG
70785827 AAAATT
1 AAAATT
70785833 ATTTTTTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
21 12 0.29
22 17 0.40
23 13 0.31
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (21 bp):
AAAATTTTAAATATATATTTG
Found at i:70785817 original size:21 final size:21
Alignment explanation
Indices: 70785761--70785884 Score: 93
Period size: 21 Copynumber: 6.1 Consensus size: 21
70785751 TTAATTTTAA
* * *
70785761 AAAATTTGAAATATATATTTG
1 AAAATTTTAAATATATTTTTT
*
70785782 AAATGTTTTATAATATATTTTTT
1 AAA-ATTTTA-AATATATTTTTT
*
70785805 AAAATTTTAAATATATATTCTT
1 AAAATTTTAAATATAT-TTTTT
70785827 AAAA--TT--AT-T-TTTTTT
1 AAAATTTTAAATATATTTTTT
70785842 -AAATTTTAAATAT-TATTTTT
1 AAAATTTTAAATATAT-TTTTT
* *
70785862 GAAATTTTAAATATATTGTTT
1 AAAATTTTAAATATATTTTTT
70785883 AA
1 AA
70785885 TAATATAAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
14 3 0.04
15 4 0.05
16 3 0.04
17 1 0.01
18 4 0.05
19 2 0.02
20 7 0.08
21 28 0.34
22 18 0.22
23 13 0.16
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (21 bp):
AAAATTTTAAATATATTTTTT
Found at i:70785867 original size:35 final size:36
Alignment explanation
Indices: 70785799--70785867 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
70785789 TTATAATATA
70785799 TTTTTTAAAATTTTAAATATATATTCTTAAAATTAT
1 TTTTTTAAAATTTTAAATATATATTCTTAAAATTAT
* * *
70785835 TTTTTTTAAATTTTAAATAT-TATTTTTGAAATT
1 TTTTTTAAAATTTTAAATATATATTCTTAAAATT
70785868 TTAAATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 11 0.37
36 19 0.63
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (36 bp):
TTTTTTAAAATTTTAAATATATATTCTTAAAATTAT
Found at i:70786002 original size:10 final size:9
Alignment explanation
Indices: 70785939--70785998 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 9
70785929 TTATTATTAG
70785939 TTTTATAATA
1 TTTTA-AATA
70785949 TTTTAAATA
1 TTTTAAATA
70785958 --TTAAATA
1 TTTTAAATA
* *
70785965 TTTTTAATTTG
1 -TTTTAA-ATA
70785976 TTTTATAATA
1 TTTTA-AATA
70785986 TTTTAAATA
1 TTTTAAATA
70785995 TTTT
1 TTTT
70785999 TAAAATATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
7 7 0.17
9 12 0.29
10 20 0.49
11 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTAAATA
Found at i:70786100 original size:30 final size:29
Alignment explanation
Indices: 70786048--70786136 Score: 74
Period size: 30 Copynumber: 2.9 Consensus size: 29
70786038 ATTTTTTTTA
** *
70786048 TAATATTTTAAATGCATATTTTAAATATTTT
1 TAAT-TTTTAAATTAAT-TTTTAAATATTAT
70786079 CTAA-TTTTAAATATAATTTTTATAA-ATTAT
1 -TAATTTTTAAAT-TAATTTTTA-AATATTAT
*
70786109 TAATTTTTAAATTAATTTTAAAGATATT
1 TAATTTTTAAATTAATTTTTAA-ATATT
70786137 CAAAAGTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
28 1 0.02
29 12 0.25
30 28 0.58
31 4 0.08
32 3 0.06
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (29 bp):
TAATTTTTAAATTAATTTTTAAATATTAT
Found at i:70787552 original size:13 final size:14
Alignment explanation
Indices: 70787510--70787554 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
70787500 AATAAATGAT
70787510 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
70787525 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
70787538 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
70787551 TAAA
1 TAAA
70787555 ACAAATAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:70787617 original size:12 final size:12
Alignment explanation
Indices: 70787599--70787632 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
70787589 GAGCAGGGAA
70787599 AGAAAGAAAAAG
1 AGAAAGAAAAAG
*
70787611 GGAAAGAAAAAG
1 AGAAAGAAAAAG
*
70787623 AAAAAGAAAA
1 AGAAAGAAAA
70787633 TTTAGGGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:70789785 original size:31 final size:30
Alignment explanation
Indices: 70789747--70789805 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
70789737 CACCCTTAAA
* * *
70789747 ATATTTACACTATTACTCCTTCAACTTTTTC
1 ATATTTACACT-TTAATCCCTCAAATTTTTC
70789778 ATATTTACACTTTAATCCCTCAAATTTT
1 ATATTTACACTTTAATCCCTCAAATTTT
70789806 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (30 bp):
ATATTTACACTTTAATCCCTCAAATTTTTC
Found at i:70789815 original size:30 final size:31
Alignment explanation
Indices: 70789747--70789815 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
70789737 CACCCTTAAA
* * *
70789747 ATATTTACACTATTACTCCTTCAACTTTTTC
1 ATATTTACACTATTAATCCCTCAACATTTTC
*
70789778 ATATTTACACT-TTAATCCCTCAA-ATTTTG
1 ATATTTACACTATTAATCCCTCAACATTTTC
70789807 AGTATTTAC
1 A-TATTTAC
70789816 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 17 0.52
31 11 0.33
ACGTcount: A:0.29, C:0.22, G:0.03, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAACATTTTC
Found at i:70790039 original size:18 final size:19
Alignment explanation
Indices: 70790016--70790054 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
70790006 TGGAATTAAG
*
70790016 AATTGAAATGTGA-ATTGA
1 AATTGAAATATGAGATTGA
*
70790034 AATTGAGATATGAGATTGA
1 AATTGAAATATGAGATTGA
70790053 AA
1 AA
70790055 GCTTGAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (19 bp):
AATTGAAATATGAGATTGA
Found at i:70791561 original size:23 final size:23
Alignment explanation
Indices: 70791535--70791584 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 23
70791525 TGATGTTGGT
70791535 GATATTTTATAATTATTTAATTA
1 GATATTTTATAATTATTTAATTA
*
70791558 GATA----ATAATTATTTATTTA
1 GATATTTTATAATTATTTAATTA
70791577 -ATATTTTA
1 GATATTTTA
70791585 ATAAGATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 9
0.69 0.03 0.28
Matches are distributed among these distances:
18 3 0.14
19 14 0.64
22 1 0.05
23 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
GATATTTTATAATTATTTAATTA
Found at i:70792188 original size:12 final size:12
Alignment explanation
Indices: 70792173--70792198 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
70792163 AATTAGAGAA
70792173 TAAATAAAATAT
1 TAAATAAAATAT
70792185 TAAATAAAATAT
1 TAAATAAAATAT
70792197 TA
1 TA
70792199 TTAAGTCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:70795628 original size:22 final size:22
Alignment explanation
Indices: 70795598--70795639 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
70795588 GTACCTGATG
70795598 TTTGCATTTTATGATCTTTTAT
1 TTTGCATTTTATGATCTTTTAT
* *
70795620 TTTGTATTTTATGGTCTTTT
1 TTTGCATTTTATGATCTTTT
70795640 GGAAATAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.07, G:0.12, T:0.67
Consensus pattern (22 bp):
TTTGCATTTTATGATCTTTTAT
Found at i:70796041 original size:30 final size:30
Alignment explanation
Indices: 70795999--70796098 Score: 105
Period size: 30 Copynumber: 3.3 Consensus size: 30
70795989 GGTTGCTCTG
* *
70795999 GGTGAAATGAACTCGAACTG-CCTATGTTC-
1 GGTGATATGAACTCGAACTGTCC-ATGTCCA
70796028 GAGTGATATGAACTCGAACTGTCCATGTCCA
1 G-GTGATATGAACTCGAACTGTCCATGTCCA
** * * *
70796059 GGTGATATGAACTTAAACCGCCCATGTCTA
1 GGTGATATGAACTCGAACTGTCCATGTCCA
70796089 GGTGATATGA
1 GGTGATATGA
70796099 CCTGCTCTGC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
29 1 0.02
30 57 0.93
31 3 0.05
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (30 bp):
GGTGATATGAACTCGAACTGTCCATGTCCA
Found at i:70799068 original size:22 final size:21
Alignment explanation
Indices: 70799041--70799092 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
70799031 AAATATTTAA
*
70799041 ATATTTTATATTATTAAAAAAT
1 ATATTTTAAATT-TTAAAAAAT
*
70799063 ATATTTAAAATTTTAAAAAAT
1 ATATTTTAAATTTTAAAAAAT
70799084 A-ATTTTAAA
1 ATATTTTAAA
70799093 AATATATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 7 0.26
21 10 0.37
22 10 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATTTTAAATTTTAAAAAAT
Found at i:70799078 original size:21 final size:21
Alignment explanation
Indices: 70799054--70799127 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
70799044 TTTTATATTA
70799054 TTAAAAAATATATTTAAAATT
1 TTAAAAAATATATTTAAAATT
70799075 TTAAAAAATA-A--T----TT
1 TTAAAAAATATATTTAAAATT
* *
70799089 TAAAAATATATATTTAAAATT
1 TTAAAAAATATATTTAAAATT
70799110 TT-AAAAATATATTATAAA
1 TTAAAAAATATATT-TAAA
70799128 GCATTTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
14 10 0.24
15 1 0.02
17 1 0.02
18 1 0.02
20 11 0.27
21 17 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAAAATATATTTAAAATT
Found at i:70799133 original size:23 final size:22
Alignment explanation
Indices: 70799084--70799141 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
70799074 TTTAAAAAAT
*
70799084 AATTTTAAAAATATATATTTAA
1 AATTTTAAAAATATATATATAA
70799106 AATTTTAAAAATATAT-TATAA
1 AATTTTAAAAATATATATATAA
*
70799127 AGCATTTCAAAAATA
1 A--ATTTTAAAAATA
70799142 AATTTCAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 5 0.16
22 16 0.50
23 11 0.34
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (22 bp):
AATTTTAAAAATATATATATAA
Found at i:70800987 original size:27 final size:26
Alignment explanation
Indices: 70800950--70801043 Score: 125
Period size: 27 Copynumber: 3.5 Consensus size: 26
70800940 AGCATGGCTG
* *
70800950 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
70800976 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGAT-ATTGTGGCAGAGCCA
70801004 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATAT-TGTGGCAGAGCCA
*
70801031 CCAGATCAGATAT
1 CCAGAACAGATAT
70801044 NNNNNNNNNN
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
26 7 0.12
27 36 0.60
28 17 0.28
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:70807478 original size:26 final size:26
Alignment explanation
Indices: 70807440--70807523 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
70807430 CATGAAATTC
* *
70807440 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
70807466 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
70807492 TTATCATTGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
70807518 TTATCA
1 TTATCA
70807524 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:70808502 original size:11 final size:11
Alignment explanation
Indices: 70808486--70808534 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
70808476 AAAAAACTAT
70808486 TTTTCTTACTG
1 TTTTCTTACTG
70808497 TTTTCTTACT-
1 TTTTCTTACTG
*
70808507 TTTT-TTATTG
1 TTTTCTTACTG
* *
70808517 TTTTCTTGCTA
1 TTTTCTTACTG
70808528 TTTTCTT
1 TTTTCTT
70808535 GTTATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 4 0.12
10 8 0.25
11 20 0.62
ACGTcount: A:0.08, C:0.14, G:0.06, T:0.71
Consensus pattern (11 bp):
TTTTCTTACTG
Found at i:70808518 original size:20 final size:21
Alignment explanation
Indices: 70808485--70808534 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
70808475 AAAAAAACTA
70808485 TTTTTCTTACTGTTTTCTTAC
1 TTTTTCTTACTGTTTTCTTAC
* *
70808506 TTTTT-TTATTGTTTTCTTGC
1 TTTTTCTTACTGTTTTCTTAC
70808526 TATTTTCTT
1 T-TTTTCTT
70808535 GTTATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 14 0.56
21 9 0.36
22 2 0.08
ACGTcount: A:0.08, C:0.14, G:0.06, T:0.72
Consensus pattern (21 bp):
TTTTTCTTACTGTTTTCTTAC
Found at i:70808536 original size:19 final size:20
Alignment explanation
Indices: 70808495--70808537 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
70808485 TTTTTCTTAC
*
70808495 TGTTTTCTTACTTTTTTTAT
1 TGTTTTCTTACTTATTTTAT
* *
70808515 TGTTTTCTTGC-TATTTTCT
1 TGTTTTCTTACTTATTTTAT
70808534 TGTT
1 TGTT
70808538 ATTTTTTACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.07, C:0.12, G:0.09, T:0.72
Consensus pattern (20 bp):
TGTTTTCTTACTTATTTTAT
Found at i:70825704 original size:20 final size:19
Alignment explanation
Indices: 70825681--70825720 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
70825671 TTAGTTTTAA
70825681 TTAATCTTAATTAATTAAGT
1 TTAATCTTAA-TAATTAAGT
* *
70825701 TTAATTTTAATAATTTAGT
1 TTAATCTTAATAATTAAGT
70825720 T
1 T
70825721 ATTAATTAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
TTAATCTTAATAATTAAGT
Found at i:70826432 original size:5 final size:5
Alignment explanation
Indices: 70826413--70826450 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
70826403 ATAAATAAGA
70826413 ATATT AT-TAT ATATT ATATT ATATT ATA-T ATATT ATAT
1 ATATT ATAT-T ATATT ATATT ATATT ATATT ATATT ATAT
70826451 AAATAGGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 5 0.17
5 24 0.80
6 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:70829510 original size:12 final size:13
Alignment explanation
Indices: 70829489--70829525 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
70829479 ATAAATAAGA
70829489 ATAT-TATTATAT
1 ATATATATTATAT
70829501 AT-TATATTATAT
1 ATATATATTATAT
70829513 -TATATATTATAT
1 ATATATATTATAT
70829525 A
1 A
70829526 AATAGGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.09
12 20 0.91
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATATATATTATAT
Found at i:70840461 original size:22 final size:22
Alignment explanation
Indices: 70840435--70840498 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 22
70840425 GAAATACTAC
70840435 ATATACATGTAAATATATCTCA
1 ATATACATGTAAATATATCTCA
70840457 ATATACATGTAAATATATCTCA
1 ATATACATGTAAATATATCTCA
*
70840479 ATTATATCTATATAAATATA
1 A-TATA-C-ATGTAAATATA
70840499 AGTTTTAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
22 23 0.61
23 4 0.11
24 1 0.03
25 10 0.26
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (22 bp):
ATATACATGTAAATATATCTCA
Found at i:70842210 original size:19 final size:19
Alignment explanation
Indices: 70842165--70842211 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
70842155 ATGAATAGTA
70842165 AATTTA-ATATTTTAAAAT
1 AATTTATATATTTTAAAAT
*
70842183 -ATTTAATATTTTTTAAAAT
1 AATTT-ATATATTTTAAAAT
70842202 AATTTATATA
1 AATTTATATA
70842212 AAAATTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 4 0.17
18 1 0.04
19 15 0.62
20 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTTATATATTTTAAAAT
Found at i:70842913 original size:10 final size:10
Alignment explanation
Indices: 70842900--70842995 Score: 60
Period size: 10 Copynumber: 9.9 Consensus size: 10
70842890 AAAAAATTTC
70842900 TATAATTTTT
1 TATAATTTTT
*
70842910 TATAATGTTT
1 TATAATTTTT
*
70842920 T-TAACTTTT
1 TATAATTTTT
70842929 TA-AATAATTTT
1 TATAAT--TTTT
*
70842940 TATAA--TTG
1 TATAATTTTT
*
70842948 TAT-ATTTTA
1 TATAATTTTT
*
70842957 TATAA-ATTT
1 TATAATTTTT
*
70842966 TATACTTTTT
1 TATAATTTTT
70842976 TATAATTTTT
1 TATAATTTTT
*
70842986 AATACATTTT
1 TATA-ATTTT
70842996 ATTTCATTTC
Statistics
Matches: 65, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
7 1 0.02
8 5 0.08
9 20 0.31
10 26 0.40
11 11 0.17
12 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (10 bp):
TATAATTTTT
Found at i:70842944 original size:9 final size:9
Alignment explanation
Indices: 70842894--70842986 Score: 66
Period size: 9 Copynumber: 9.9 Consensus size: 9
70842884 AATAATAAAA
*
70842894 AATTTCTAT
1 AATTTTTAT
70842903 AATTTTTTAT
1 AA-TTTTTAT
70842913 AATGTTTT-T
1 AAT-TTTTAT
70842922 AACTTTTTAAAT
1 AA-TTTTT--AT
70842934 AATTTTTAT
1 AATTTTTAT
*
70842943 AA-TTGTAT
1 AATTTTTAT
70842951 -ATTTTATAT
1 AATTTT-TAT
*
70842960 AAATTTTAT
1 AATTTTTAT
*
70842969 ACTTTTTTAT
1 A-ATTTTTAT
70842979 AATTTTTA
1 AATTTTTA
70842987 ATACATTTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 20
0.71 0.07 0.21
Matches are distributed among these distances:
7 1 0.01
8 7 0.10
9 27 0.40
10 24 0.36
11 5 0.07
12 3 0.04
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:70842969 original size:18 final size:17
Alignment explanation
Indices: 70842935--70842986 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
70842925 TTTTTAAATA
*
70842935 ATTTTTAT-AATTGTAT
1 ATTTTTATAAATTTTAT
70842951 ATTTTATATAAATTTTAT
1 ATTTT-TATAAATTTTAT
*
70842969 ACTTTTTTATAATTTTTA
1 A--TTTTTATAAATTTTA
70842987 ATACATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 5 0.17
17 3 0.10
18 8 0.27
19 10 0.33
20 4 0.13
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTTTTATAAATTTTAT
Found at i:70843073 original size:10 final size:10
Alignment explanation
Indices: 70843058--70843091 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
70843048 TAACATATAA
70843058 ATAATATGTT
1 ATAATATGTT
70843068 ATAATATGTT
1 ATAATATGTT
70843078 ATAATAT-TT
1 ATAATATGTT
70843087 ATAAT
1 ATAAT
70843092 TTTTCTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (10 bp):
ATAATATGTT
Found at i:70847972 original size:23 final size:23
Alignment explanation
Indices: 70847945--70847989 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
70847935 GCTAGATTTT
70847945 TCCTAAACATTATCACTAAATAA
1 TCCTAAACATTATCACTAAATAA
*
70847968 TCCTAAATATTATCACTAAATA
1 TCCTAAACATTATCACTAAATA
70847990 TTATCATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (23 bp):
TCCTAAACATTATCACTAAATAA
Found at i:70847988 original size:13 final size:13
Alignment explanation
Indices: 70847947--70848000 Score: 69
Period size: 13 Copynumber: 4.4 Consensus size: 13
70847937 TAGATTTTTC
*
70847947 CTAAACATTATCA
1 CTAAATATTATCA
70847960 CTAAATA--ATC-
1 CTAAATATTATCA
70847970 CTAAATATTATCA
1 CTAAATATTATCA
70847983 CTAAATATTATCA
1 CTAAATATTATCA
*
70847996 TTAAA
1 CTAAA
70848001 CAATTCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
10 7 0.19
11 3 0.08
12 3 0.08
13 23 0.64
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:70848580 original size:14 final size:14
Alignment explanation
Indices: 70848561--70848587 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
70848551 AATATATACT
70848561 TTTATTTATTTTTA
1 TTTATTTATTTTTA
70848575 TTTATTTATTTTT
1 TTTATTTATTTTT
70848588 TCAAACGTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTATTTTTA
Found at i:70855076 original size:55 final size:55
Alignment explanation
Indices: 70854955--70855082 Score: 141
Period size: 55 Copynumber: 2.3 Consensus size: 55
70854945 TGTGACATGG
* ** *
70854955 CCGTGGTCGAACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGTGGAAGAA
1 CCGTGGTTGAACCTGTTAAAACAACACGGGCGTGCGACACGCCCGTGTGCAAGAA
* * * * * *
70855010 CCGTGGGTGAACCTGTTAAAACAGCACGGGCGTGTGACACGCTCGTGT-CTAGCAC
1 CCGTGGTTGAACCTGTTAAAACAACACGGGCGTGCGACACGCCCGTGTGCAAG-AA
*
70855065 CCGTGGTTGAACTTGTTA
1 CCGTGGTTGAACCTGTTA
70855083 GATTGACACG
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 2 0.03
55 58 0.97
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.19
Consensus pattern (55 bp):
CCGTGGTTGAACCTGTTAAAACAACACGGGCGTGCGACACGCCCGTGTGCAAGAA
Found at i:70859735 original size:96 final size:96
Alignment explanation
Indices: 70859569--70859749 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 96
70859559 GTGTCCGAGG
** * * * *
70859569 AAGTCTGTCATCGATTGGAACGATAGAGCAGATACGGAGCCCAAGAAGCTTAGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATAGAACAGACAAGGAGCCCAAGAAGCTTAGTTAGAGCAAGGG
70859634 GAAAGCCGAAGCCAAGAGGGAAAAGATAAGC
66 GAAAGCCGAAGCCAAGAGGGAAAAGATAAGC
* * * *
70859665 AAGTCTGTCATCGAAGGGAACGATGGAACAGACAATGAGCCTAAGAAGCTTGGTTAGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATAGAACAGACAAGGAGCCCAAGAAGCTTAGTTAGAGCAAGGG
*
70859730 TAAAGCCGAAGCCAAGAGGG
66 GAAAGCCGAAGCCAAGAGGG
70859750 CTAAGAGGAG
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.37, C:0.17, G:0.32, T:0.14
Consensus pattern (96 bp):
AAGTCTGTCATCGAAGGGAACGATAGAACAGACAAGGAGCCCAAGAAGCTTAGTTAGAGCAAGGG
GAAAGCCGAAGCCAAGAGGGAAAAGATAAGC
Done.