Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007768.1 Hibiscus syriacus cultivar Beakdansim tig00110044_pilon, whole genome shotgun sequence
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: 2539099
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 11
Found at i:1909547 original size:20 final size:20
Alignment explanation
Indices: 1909522--1909560 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1909512 AAGAATAGTT
1909522 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAC
*
1909542 TTACTTTCGCAACGCGAAA
1 TTACTTTCGCAACACGAAA
1909561 ATAACTATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAC
Found at i:1909571 original size:20 final size:20
Alignment explanation
Indices: 1909528--1909600 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
1909518 AGTTTTACTT
* * * *
1909528 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATAACTA
1909548 TCGCAACGCGAAAATAACTA
1 TCGCAACGCGAAAATAACTA
* * **
1909568 TCGCAATGCGGAAATGGCTA
1 TCGCAACGCGAAAATAACTA
1909588 TCGCAACGCGAAA
1 TCGCAACGCGAAA
1909601 TGAAATCGCA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGAAAATAACTA
Found at i:1909627 original size:19 final size:18
Alignment explanation
Indices: 1909567--1909651 Score: 79
Period size: 18 Copynumber: 4.8 Consensus size: 18
1909557 GAAAATAACT
**
1909567 ATCGCAATGCGGAAATGGCT
1 ATCGCAATGC-GAAAT-GAA
*
1909587 ATCGCAACGCGAAATGAA
1 ATCGCAATGCGAAATGAA
1909605 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
*
1909624 ATCGCAA--CGACA--AA
1 ATCGCAATGCGAAATGAA
1909638 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
1909652 CACAAATCGC
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
14 9 0.16
16 4 0.07
17 4 0.07
18 16 0.29
19 14 0.25
20 9 0.16
ACGTcount: A:0.42, C:0.21, G:0.22, T:0.14
Consensus pattern (18 bp):
ATCGCAATGCGAAATGAA
Found at i:1909660 original size:19 final size:18
Alignment explanation
Indices: 1909587--1909668 Score: 73
Period size: 19 Copynumber: 4.7 Consensus size: 18
1909577 GGAAATGGCT
* **
1909587 ATCGCAACGCGAAATGAA
1 ATCGCAATGCGAAACAAA
*
1909605 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAA-CAAA
1909624 ATCGCAA--CG--ACAAA
1 ATCGCAATGCGAAACAAA
1909638 ATCGCAATGCGAAACACAA
1 ATCGCAATGCGAAACA-AA
*
1909657 ATCGCATTGCGA
1 ATCGCAATGCGA
1909669 TTTTCATTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 16 0.30
19 22 0.42
ACGTcount: A:0.44, C:0.23, G:0.20, T:0.13
Consensus pattern (18 bp):
ATCGCAATGCGAAACAAA
Found at i:1909680 original size:19 final size:18
Alignment explanation
Indices: 1909658--1909721 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
1909648 GAAACACAAA
1909658 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTT-ATT
* *
1909677 TCGCGTTGCGA-TTT-TG
1 TCGCATTGCGATTTTATT
1909693 TCG--TTGCGATTTTTATT
1 TCGCATTGCGA-TTTTATT
1909710 TCGCATTGCGAT
1 TCGCATTGCGAT
1909722 AGCCATTTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
14 6 0.16
16 7 0.19
17 4 0.11
18 4 0.11
19 16 0.43
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (18 bp):
TCGCATTGCGATTTTATT
Found at i:1909729 original size:19 final size:20
Alignment explanation
Indices: 1909707--1909749 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1909697 TGCGATTTTT
1909707 ATTT-CGCATTGCGATAGCC
1 ATTTCCGCATTGCGATAGCC
* *
1909726 ATTTCCGCGTTGCGATAGTC
1 ATTTCCGCATTGCGATAGCC
1909746 ATTT
1 ATTT
1909750 TCGTGTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (20 bp):
ATTTCCGCATTGCGATAGCC
Found at i:1911638 original size:20 final size:20
Alignment explanation
Indices: 1911613--1911650 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1911603 ACACGGAAAA
1911613 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATT
1911633 TGACTATCGCAACGCGAA
1 TGACTATCGCAACGCGAA
1911651 ACTAAATCGC
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:0.26, G:0.21, T:0.21
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATT
Found at i:1911928 original size:22 final size:22
Alignment explanation
Indices: 1911901--1911944 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1911891 GATGGAGATA
1911901 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1911923 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
1911945 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1912157 original size:20 final size:20
Alignment explanation
Indices: 1912129--1912222 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
1912119 GATTATGTAT
* *
1912129 TATCTCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
1912149 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
1912169 TATCGAGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
1912190 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
1912210 TATCGCATTGCGA
1 TATCGCGTTGCGA
1912223 TTTTCCCAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.05
20 43 0.70
21 13 0.21
22 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:1912194 original size:41 final size:41
Alignment explanation
Indices: 1912149--1912226 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
1912139 CGAAAGTAAG
1912149 TATCGCGTTGCGAAAGTCAGTATCG-AGTTGCGATTTTGTAT
1 TATCGCGTTGCGAAAGTCAGTATCGCA-TTGCGATTTTGTAT
*
1912190 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTT
1912227 CCCAATTTGC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
41 34 0.97
42 1 0.03
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.37
Consensus pattern (41 bp):
TATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTAT
Found at i:1912223 original size:20 final size:19
Alignment explanation
Indices: 1912109--1912223 Score: 70
Period size: 20 Copynumber: 5.7 Consensus size: 19
1912099 CGCTTTGAAA
*
1912109 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGA-TA-GTAGT
* * *
1912130 ATCTCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGT-AGT
* *
1912150 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGT-AGT
* *
1912170 ATCG-AGTTGCGATTTTGTATT
1 ATCGCA-TTGCGA--TAGTAGT
*
1912191 ATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATAGT-AGT
1912211 ATCGCATTGCGAT
1 ATCGCATTGCGAT
1912224 TTTCCCAATT
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
19 5 0.07
20 45 0.61
21 22 0.30
22 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (19 bp):
ATCGCATTGCGATAGTAGT
Found at i:1912239 original size:41 final size:41
Alignment explanation
Indices: 1912149--1912244 Score: 117
Period size: 41 Copynumber: 2.3 Consensus size: 41
1912139 CGAAAGTAAG
* **
1912149 TATCGCGTTGCGAAAGTCAGTATCGAGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTCAGTATCGAGTTGCGATTTTCAAT
1912190 TATCGCGTTGCGATAGTCAGTATCGCA-TTGCGATTTTCCCAAT
1 TATCGCGTTGCGATAGTCAGTATCG-AGTTGCGATTTT--CAAT
1912233 T-T-GCGTTGCGAT
1 TATCGCGTTGCGAT
1912245 TTACTTATTC
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
41 44 0.90
42 2 0.04
43 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTCAGTATCGAGTTGCGATTTTCAAT
Found at i:1917781 original size:48 final size:47
Alignment explanation
Indices: 1917726--1917821 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 47
1917716 TAACCTCATT
* *
1917726 TTATTTTATAATAATTTTAAATTCAAATTATTTCAAATTTAAATGGCA
1 TTATTTTATAATAATTTTAAATTCAAAATATTT-AAATATAAATGGCA
1917774 TTATTTTATAATAATTTTAAATTCAAAATATTTAAATATAAATGGCA
1 TTATTTTATAATAATTTTAAATTCAAAATATTTAAATATAAATGGCA
1917821 T
1 T
1917822 ATACTATATA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 14 0.30
48 32 0.70
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (47 bp):
TTATTTTATAATAATTTTAAATTCAAAATATTTAAATATAAATGGCA
Found at i:1917832 original size:48 final size:48
Alignment explanation
Indices: 1917732--1917832 Score: 150
Period size: 48 Copynumber: 2.1 Consensus size: 48
1917722 CATTTTATTT
* * * *
1917732 TATAATAATTTTAAATTCAAATTATTTCAAATTTAAATGGCATTATTT
1 TATAATAATTTTAAATTCAAAATATTTCAAATATAAATGGCATTACTA
1917780 TATAATAATTTTAAATTCAAAATATTT-AAATATAAATGGCATATACTA
1 TATAATAATTTTAAATTCAAAATATTTCAAATATAAATGGCAT-TACTA
1917828 TATAA
1 TATAA
1917833 AACTAAATTG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 14 0.29
48 34 0.71
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.44
Consensus pattern (48 bp):
TATAATAATTTTAAATTCAAAATATTTCAAATATAAATGGCATTACTA
Found at i:1930438 original size:60 final size:60
Alignment explanation
Indices: 1930327--1930440 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 60
1930317 GTCGGGTGAC
** **
1930327 CATTTTATAACTTTTAATAGTTGAGGGACTCAACAAAGCAATGCTCCATAGTCAAAGGAT
1 CATTTTATAACTTTTAATAGTTGAAAGACTCAACAAAGCAACACTCCATAGTCAAAGGAT
* * * *
1930387 CATTTTGTAACTTTTAATAGTTGAAAGACTTAATAAATCAACAC-CCTATAGTCA
1 CATTTTATAACTTTTAATAGTTGAAAGACTCAACAAAGCAACACTCC-ATAGTCA
1930441 GAAATCATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
59 2 0.04
60 43 0.96
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (60 bp):
CATTTTATAACTTTTAATAGTTGAAAGACTCAACAAAGCAACACTCCATAGTCAAAGGAT
Found at i:1931335 original size:14 final size:16
Alignment explanation
Indices: 1931302--1931333 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1931292 CAATATAAAA
1931302 TTTA-ATAAATATATT
1 TTTATATAAATATATT
1931317 TTTATATAAA-ATATT
1 TTTATATAAATATATT
1931332 TT
1 TT
1931334 ATTTGGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTATATAAATATATT
Found at i:1932356 original size:18 final size:18
Alignment explanation
Indices: 1932333--1932368 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1932323 GTCAAATACA
* *
1932333 ATTATTAAGTTTTTAAAT
1 ATTATTAAATGTTTAAAT
1932351 ATTATTAAATGTTTAAAT
1 ATTATTAAATGTTTAAAT
1932369 TAAAAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
ATTATTAAATGTTTAAAT
Found at i:1933236 original size:20 final size:20
Alignment explanation
Indices: 1933211--1933256 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
1933201 CAATCCTTTC
1933211 CATTTTCTCTGTTTCATTCA
1 CATTTTCTCTGTTTCATTCA
1933231 CATTTTCTCTGTTTCATTCA
1 CATTTTCTCTGTTTCATTCA
1933251 CATTTT
1 CATTTT
1933257 TTTTGCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.24, G:0.04, T:0.57
Consensus pattern (20 bp):
CATTTTCTCTGTTTCATTCA
Found at i:1939006 original size:21 final size:20
Alignment explanation
Indices: 1938981--1939027 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
1938971 TGCAGTCAAA
*
1938981 TTAACATACCTCTCCA-GTTT
1 TTAACAT-CCCCTCCATGTTT
1939001 TCTAACCATCCCCTCCATGTTT
1 T-TAA-CATCCCCTCCATGTTT
1939023 TTAAC
1 TTAAC
1939028 TAAAAACCGC
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
20 2 0.09
21 13 0.57
22 8 0.35
ACGTcount: A:0.23, C:0.34, G:0.04, T:0.38
Consensus pattern (20 bp):
TTAACATCCCCTCCATGTTT
Found at i:1939699 original size:13 final size:13
Alignment explanation
Indices: 1939681--1939705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1939671 TGCCGAGATT
1939681 AGAAAAGAAAAAA
1 AGAAAAGAAAAAA
1939694 AGAAAAGAAAAA
1 AGAAAAGAAAAA
1939706 CCCTAAACTT
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AGAAAAGAAAAAA
Found at i:1940890 original size:59 final size:59
Alignment explanation
Indices: 1940819--1940933 Score: 160
Period size: 59 Copynumber: 1.9 Consensus size: 59
1940809 TTGGGTGACC
** * *
1940819 ATTTTATAACTTTTAATAGTCGAGGGACTTAACAAAGCAACACTTTA-AGTCGGAGAATT
1 ATTTTATAACTTTTAATAGTC-AAAGACTTAACAAAACAACAATTTATAGTCGGAGAATT
* *
1940878 ATTTTATAACTTTTAATAGTCAAAGACTTAAGAAAACAATAATTTATAGTCGGAGA
1 ATTTTATAACTTTTAATAGTCAAAGACTTAACAAAACAACAATTTATAGTCGGAGA
1940934 CCATTTGTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
58 19 0.39
59 30 0.61
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (59 bp):
ATTTTATAACTTTTAATAGTCAAAGACTTAACAAAACAACAATTTATAGTCGGAGAATT
Found at i:1941415 original size:23 final size:23
Alignment explanation
Indices: 1941383--1941426 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1941373 ATTCAAAACT
* *
1941383 TTTTTCTTTTTAACAAATAAATA
1 TTTTTATTTTTAAAAAATAAATA
1941406 TTTTTATTTTTAAAAAATAAA
1 TTTTTATTTTTAAAAAATAAA
1941427 GCAAAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTTTATTTTTAAAAAATAAATA
Found at i:1943982 original size:6 final size:6
Alignment explanation
Indices: 1943971--1944064 Score: 125
Period size: 6 Copynumber: 15.7 Consensus size: 6
1943961 TCTTCCAAGG
* *
1943971 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA CATGTA CATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
* * * * *
1944019 CATGTA CATGTA TTTGTA TTTGTA TATGTA CATGTA TATGTA TATG
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATG
1944065 CATTAGATTG
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 82 1.00
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.47
Consensus pattern (6 bp):
TATGTA
Found at i:1954324 original size:4 final size:4
Alignment explanation
Indices: 1954315--1954342 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
1954305 TCTAGTGAAC
1954315 CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
1954343 ACTTATTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:1959279 original size:40 final size:41
Alignment explanation
Indices: 1959199--1959283 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
1959189 CAGGCTTATA
* * *
1959199 AGGCTTTTTAATAGGCCTAAGCCTGACCTGTTTAATTAAAT
1 AGGCTTTTAAAAAGGCCTAAGCCTGACCTGTTTAACTAAAT
* * *
1959240 AGGCTTTTAAAAAGGCCTGAGCCTGGCCT-TTTTACTAAAT
1 AGGCTTTTAAAAAGGCCTAAGCCTGACCTGTTTAACTAAAT
1959280 AGGC
1 AGGC
1959284 CAGACTTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
40 13 0.34
41 25 0.66
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (41 bp):
AGGCTTTTAAAAAGGCCTAAGCCTGACCTGTTTAACTAAAT
Found at i:1959595 original size:24 final size:24
Alignment explanation
Indices: 1959518--1959608 Score: 71
Period size: 24 Copynumber: 3.8 Consensus size: 24
1959508 ATAAACAAGC
* * *
1959518 TTATAAAAGAGCCGATAAATGATA
1 TTATAAATGAGTCGATAAATAATA
** * *
1959542 TTATAAGCGATTCGATAAACTAGTCA
1 TTATAAATGAGTCGATAAA-TAAT-A
1959568 --ATAAATGAGTCGATAAATAATA
1 TTATAAATGAGTCGATAAATAATA
1959590 TTATAAACT-AGTCGATAAA
1 TTATAAA-TGAGTCGATAAA
1959609 CAGATCGATA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
22 1 0.02
23 3 0.06
24 44 0.85
25 3 0.06
26 1 0.02
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (24 bp):
TTATAAATGAGTCGATAAATAATA
Found at i:1959607 original size:12 final size:12
Alignment explanation
Indices: 1959553--1959621 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
1959543 TATAAGCGAT
1959553 TCGATAAACTAG
1 TCGATAAACTAG
*
1959565 TCAATAAA-TGAG
1 TCGATAAACT-AG
*
1959577 TCGATAAA-TAA
1 TCGATAAACTAG
**
1959588 TATTATAAACTAG
1 T-CGATAAACTAG
1959601 TCGATAAAC-AG
1 TCGATAAACTAG
1959612 ATCGATAAAC
1 -TCGATAAAC
1959622 AATCTTATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
11 5 0.11
12 37 0.82
13 3 0.07
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (12 bp):
TCGATAAACTAG
Found at i:1959617 original size:36 final size:36
Alignment explanation
Indices: 1959556--1959629 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
1959546 AAGCGATTCG
* *
1959556 ATAAACTAGTCAATAAATGAGTCGATAAATAATATT
1 ATAAACTAGTCAATAAAAGAGTCGATAAACAATATT
* *
1959592 ATAAACTAGTCGATAAACAGA-TCGATAAACAATCTT
1 ATAAACTAGTCAATAAA-AGAGTCGATAAACAATATT
1959628 AT
1 AT
1959630 TTTTAACATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 31 0.94
37 2 0.06
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (36 bp):
ATAAACTAGTCAATAAAAGAGTCGATAAACAATATT
Found at i:1968324 original size:2 final size:2
Alignment explanation
Indices: 1968317--1968345 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1968307 CACTTTACCC
1968317 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1968346 CTGTTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1968444 original size:16 final size:16
Alignment explanation
Indices: 1968423--1968456 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1968413 AACTATAAAT
1968423 TATTTGAGTTGGACCA
1 TATTTGAGTTGGACCA
*
1968439 TATTTGAGTTGGCCCA
1 TATTTGAGTTGGACCA
1968455 TA
1 TA
1968457 AAGATGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (16 bp):
TATTTGAGTTGGACCA
Found at i:1968727 original size:127 final size:125
Alignment explanation
Indices: 1968572--1968812 Score: 421
Period size: 127 Copynumber: 1.9 Consensus size: 125
1968562 TTTTATCGGA
*
1968572 TCCACTGATGAATTAATTAATGAAACAAACATGTC-TTCTGTTTAAATAAGACAATAATTATACA
1 TCCACTGATGAATTAATTAATGAAACAAAAATG-CATTCTGTTTAAATAAGACAATAATTATACA
* *
1968636 ATTTGTCTATAAAAAAACTCTGCAATCTGTTAATATAATTAAGTTTAACTTGCTGATGGAAG
65 ATTTGTCTAT-AAAAAACTATGCAATCTGTTAACATAATTAAGTTTAACTTGCTGATGGAAG
1968698 TCCACTTGATGAATTAATTAATGAAACAAAAATGCATTCTGTTTAAATAAGACAATAATTATACA
1 TCCAC-TGATGAATTAATTAATGAAACAAAAATGCATTCTGTTTAAATAAGACAATAATTATACA
1968763 ATTTGTCTATAAAAAACTATGCAATCTGTTAACATAATTAAGTTTAACTT
65 ATTTGTCTATAAAAAACTATGCAATCTGTTAACATAATTAAGTTTAACTT
1968813 ATGGAAGTGG
Statistics
Matches: 110, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
126 44 0.40
127 66 0.60
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (125 bp):
TCCACTGATGAATTAATTAATGAAACAAAAATGCATTCTGTTTAAATAAGACAATAATTATACAA
TTTGTCTATAAAAAACTATGCAATCTGTTAACATAATTAAGTTTAACTTGCTGATGGAAG
Found at i:1971972 original size:60 final size:60
Alignment explanation
Indices: 1971887--1972000 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
1971877 CTATATGATA
*
1971887 TTGCTTTATTAAGTCCCTCAGCTATTAAAAATTATAAAATAGTC-CTCTGACTATCGAGTG
1 TTGCTTTATTAAGTCCCTCAGCTATTAAAAATTAAAAAATAGTCTCTCT-ACTATCGAGTG
* * * *
1971947 TTGCTTTGTTTAGTCCCTC-GACTATTAAAAGTTAAAAAATGGTCTCTCTACTAT
1 TTGCTTTATTAAGTCCCTCAG-CTATTAAAAATTAAAAAATAGTCTCTCTACTAT
1972001 TCATTATGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 1 0.02
60 42 0.89
61 4 0.09
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (60 bp):
TTGCTTTATTAAGTCCCTCAGCTATTAAAAATTAAAAAATAGTCTCTCTACTATCGAGTG
Found at i:1973070 original size:31 final size:31
Alignment explanation
Indices: 1973035--1973094 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
1973025 TCAACAATGA
*
1973035 TCACTTTTATTTTTATTTAATTAAGATATGG
1 TCACTTTCATTTTTATTTAATTAAGATATGG
1973066 TCACTTTCATTTTTATTTAATTAAGATAT
1 TCACTTTCATTTTTATTTAATTAAGATAT
1973095 AGTCCCCACG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.55
Consensus pattern (31 bp):
TCACTTTCATTTTTATTTAATTAAGATATGG
Found at i:1973169 original size:33 final size:33
Alignment explanation
Indices: 1973127--1973195 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
1973117 TTAACAGTTA
1973127 ACAAATTAGGTAA-GATGATATTTTGTTATAATC
1 ACAAATTAGGTAATG-TGATATTTTGTTATAATC
*
1973160 ACAAATTAGGTAATGTGTTATTTTGTTATAATC
1 ACAAATTAGGTAATGTGATATTTTGTTATAATC
1973193 ACA
1 ACA
1973196 TGTCGTGCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (33 bp):
ACAAATTAGGTAATGTGATATTTTGTTATAATC
Found at i:1973672 original size:22 final size:20
Alignment explanation
Indices: 1973640--1973684 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
1973630 GATCAGTTTA
1973640 TAACTCCTGTAATTAACTCTTG
1 TAACTCCTGTAATT-ACT-TTG
*
1973662 TAACTCTTGTAATTACTTTG
1 TAACTCCTGTAATTACTTTG
1973682 TAA
1 TAA
1973685 TTGGTATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 3 0.14
22 13 0.59
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (20 bp):
TAACTCCTGTAATTACTTTG
Found at i:1977280 original size:24 final size:24
Alignment explanation
Indices: 1977247--1977298 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
1977237 ACCCCGGTTA
* *
1977247 AACCGTTACTAGTGAACTGCAAGG
1 AACCGCTACTAGTGAACCGCAAGG
1977271 AACCGCTACTAGTGAACCGCAAGG
1 AACCGCTACTAGTGAACCGCAAGG
1977295 AACC
1 AACC
1977299 TCTGAACCGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (24 bp):
AACCGCTACTAGTGAACCGCAAGG
Found at i:1977379 original size:20 final size:21
Alignment explanation
Indices: 1977354--1977404 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
1977344 GGTTCAACCT
1977354 AATGTTTTTAG-TTTTTATTA
1 AATGTTTTTAGATTTTTATTA
* *
1977374 AATGTTTTTGGTATTTTTATTT
1 AATGTTTTTAG-ATTTTTATTA
1977396 AAT-TTTTTA
1 AATGTTTTTA
1977405 AATAATTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 10 0.38
21 5 0.19
22 11 0.42
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
AATGTTTTTAGATTTTTATTA
Found at i:1983325 original size:21 final size:22
Alignment explanation
Indices: 1983276--1983331 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
1983266 ATACCCCCAT
1983276 AAGGGAACTGATTCCCCCTTTG
1 AAGGGAACTGATTCCCCCTTTG
1983298 AATGGGAACTGATTCCCTCC-TTG
1 AA-GGGAACTGATTCCC-CCTTTG
*
1983321 -AGGGAATTGAT
1 AAGGGAACTGAT
1983332 ACCTCCAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 9 0.29
22 3 0.10
23 17 0.55
24 2 0.06
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (22 bp):
AAGGGAACTGATTCCCCCTTTG
Found at i:1991027 original size:11 final size:11
Alignment explanation
Indices: 1991011--1991035 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1991001 TTTTTTATTA
1991011 TTTATTTTAAT
1 TTTATTTTAAT
1991022 TTTATTTTAAT
1 TTTATTTTAAT
1991033 TTT
1 TTT
1991036 TCTATTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTTTAAT
Found at i:2001848 original size:2 final size:2
Alignment explanation
Indices: 2001841--2001872 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2001831 TGTACCCATG
2001841 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2001873 TTTGGTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:2002455 original size:29 final size:29
Alignment explanation
Indices: 2002414--2002510 Score: 70
Period size: 29 Copynumber: 3.3 Consensus size: 29
2002404 GAACACAGTG
* * *
2002414 AATAATCAGGTGATCATGTTGTAACTTTT
1 AATAGTCAAGTGATCATATTGTAACTTTT
* * **
2002443 AATAGTTAAGTGACTCAACAAAGTAACTTTGT
1 AATAGTCAAGTGA-TC-ATATTGTAACTTT-T
* * *
2002475 -ATAGTCAAATGATCATTTTATAACTTTT
1 AATAGTCAAGTGATCATATTGTAACTTTT
2002503 AATAGTCA
1 AATAGTCA
2002511 GGGACTTAAT
Statistics
Matches: 50, Mismatches: 14, Indels: 8
0.69 0.19 0.11
Matches are distributed among these distances:
28 1 0.02
29 25 0.50
30 4 0.08
31 19 0.38
32 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.38
Consensus pattern (29 bp):
AATAGTCAAGTGATCATATTGTAACTTTT
Found at i:2007240 original size:10 final size:10
Alignment explanation
Indices: 2007225--2007256 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
2007215 ATTATAAATG
2007225 TTAATATTTT
1 TTAATATTTT
2007235 TTAATATTTTT
1 TTAATA-TTTT
2007246 TTAATATTTT
1 TTAATATTTT
2007256 T
1 T
2007257 GGTAAAACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTAATATTTT
Found at i:2007247 original size:11 final size:11
Alignment explanation
Indices: 2007225--2007256 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
2007215 ATTATAAATG
2007225 TTAATA-TTTT
1 TTAATATTTTT
2007235 TTAATATTTTT
1 TTAATATTTTT
2007246 TTAATATTTTT
1 TTAATATTTTT
2007257 GGTAAAACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTAATATTTTT
Found at i:2007878 original size:21 final size:21
Alignment explanation
Indices: 2007852--2007901 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
2007842 TATTTTTTGT
2007852 TGATGTGACAGTTCACGGTGC
1 TGATGTGACAGTTCACGGTGC
2007873 TGATGTGACAGTTCACGGTGC
1 TGATGTGACAGTTCACGGTGC
*
2007894 TGACGTGA
1 TGATGTGA
2007902 TGATTCAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (21 bp):
TGATGTGACAGTTCACGGTGC
Found at i:2017857 original size:19 final size:20
Alignment explanation
Indices: 2017820--2017857 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
2017810 CACTCACTAT
**
2017820 TGTATTACTTGCATTGATTG
1 TGTATTACTTGCACAGATTG
2017840 TGTA-TACTTGCACAGATT
1 TGTATTACTTGCACAGATT
2017858 TTCGTGCCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (20 bp):
TGTATTACTTGCACAGATTG
Found at i:2019099 original size:21 final size:20
Alignment explanation
Indices: 2019060--2019100 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2019050 AACTAAAATT
*
2019060 TGAGAAAATTAAAAGTTTAA
1 TGAGAAAATTAAAAATTTAA
*
2019080 TGAGTAAATTAAAAAATTTAA
1 TGAGAAAATT-AAAAATTTAA
2019101 AACTTTAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (20 bp):
TGAGAAAATTAAAAATTTAA
Found at i:2019320 original size:58 final size:59
Alignment explanation
Indices: 2019222--2019352 Score: 151
Period size: 59 Copynumber: 2.2 Consensus size: 59
2019212 ATTAAAGGGT
*
2019222 AAAG-TATACAAATGGCCTCCGACTATAGGATATTAATTTGTTGAGTACAT-GATTATTA
1 AAAGTTATA-AAATGGCCTCCGACTATAGGATATTAATTTGTTGAGTACATCGATCATTA
* ** * * *
2019280 AAAGTTATAAAATGGTCCTCCGACTATA-GATGTTGCTTTGTTGAGTCCCTCTATCATTA
1 AAAGTTATAAAATGG-CCTCCGACTATAGGATATTAATTTGTTGAGTACATCGATCATTA
*
2019339 AAAGTTACAAAATG
1 AAAGTTATAAAATG
2019353 ATCATTAGAC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
58 27 0.44
59 35 0.56
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (59 bp):
AAAGTTATAAAATGGCCTCCGACTATAGGATATTAATTTGTTGAGTACATCGATCATTA
Found at i:2019684 original size:60 final size:60
Alignment explanation
Indices: 2019562--2019699 Score: 174
Period size: 60 Copynumber: 2.3 Consensus size: 60
2019552 AACATAATGA
* ***
2019562 ATAGTTG-GGTGACCATTCTGTAACTTTTAATAGTCAATGGACTCAACAAAGCAATGTTCT
1 ATAGTTGAGG-GACCATTTTGTAACTTTTAATAGTCAATGGACTCAACAAAGCAATACCCT
*
2019622 ATAGTTGAGGGACCATTTTGTAACTTTTAATAGTCGAAT-GACTCAACAGAA-TAATACCCT
1 ATAGTTGAGGGACCATTTTGTAACTTTTAATAGTC-AATGGACTCAACA-AAGCAATACCCT
*
2019682 ATAGTCGAGGGACCATTT
1 ATAGTTGAGGGACCATTT
2019700 ATATACTTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
60 62 0.90
61 7 0.10
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (60 bp):
ATAGTTGAGGGACCATTTTGTAACTTTTAATAGTCAATGGACTCAACAAAGCAATACCCT
Found at i:2022260 original size:60 final size:58
Alignment explanation
Indices: 2022184--2022329 Score: 170
Period size: 59 Copynumber: 2.4 Consensus size: 58
2022174 ATTTTAGGGT
* *
2022184 AAAG-TACATAAATGGTCTCTCGACTATAGGGTATTACTTTGTTAAGTTCC-TCGACTATTG
1 AAAGTTACA-AAATGGTC-CTCGACTATA-GATATTACTTTGTTAAG-TCCTTCGACTATTA
* * * *
2022244 AAAGTTACAAAATGGTCCTCTGACTACATATGTTGCTTTGTTAAGTCCTTCGACTATTA
1 AAAGTTACAAAATGGTCCTC-GACTATAGATATTACTTTGTTAAGTCCTTCGACTATTA
2022303 AAAGTTACAAAATGGTCACTCGACTAT
1 AAAGTTACAAAATGGTC-CTCGACTAT
2022330 TCATTATGTT
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
58 3 0.04
59 47 0.63
60 21 0.28
61 4 0.05
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (58 bp):
AAAGTTACAAAATGGTCCTCGACTATAGATATTACTTTGTTAAGTCCTTCGACTATTA
Found at i:2023421 original size:31 final size:31
Alignment explanation
Indices: 2023386--2023453 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
2023376 CGATTAATTT
*
2023386 TTAATGTGATTTC-TAAAATTTAGATAAAATA
1 TTAAT-TGAATTCTTAAAATTTAGATAAAATA
* * * *
2023417 TTAATTTAATTCTTAAATTTTGGATAAAATG
1 TTAATTGAATTCTTAAAATTTAGATAAAATA
2023448 TTAATT
1 TTAATT
2023454 TAATCCCTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (31 bp):
TTAATTGAATTCTTAAAATTTAGATAAAATA
Found at i:2023454 original size:31 final size:31
Alignment explanation
Indices: 2023399--2023457 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
2023389 ATGTGATTTC
2023399 TAAAATTTAGATAAAATATTAATTTAATTCT
1 TAAAATTTAGATAAAATATTAATTTAATTCT
* * *
2023430 TAAATTTTGGATAAAATGTTAATTTAAT
1 TAAAATTTAGATAAAATATTAATTTAAT
2023458 CCCTTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (31 bp):
TAAAATTTAGATAAAATATTAATTTAATTCT
Found at i:2023858 original size:60 final size:60
Alignment explanation
Indices: 2023754--2023891 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 60
2023744 GAGTTAATTA
* * * * * * *
2023754 TGAATATTCCAATTTTATCCTTAAATTTTGACTCTTATTGTAAATT-AGTCCTTAAACTTT
1 TGAATATTCTAATTTCATCCTTAAAATATGACCCTTATTCTAAATTGA-TCCCTAAACTTT
2023814 TGAATATTCTAATTTCATCCTTAAAATATGACCCTCT-TTCTAAATTGATCCCTAAACTTT
1 TGAATATTCTAATTTCATCCTTAAAATATGACCCT-TATTCTAAATTGATCCCTAAACTTT
*
2023874 TGAATATTCTAGTTTCAT
1 TGAATATTCTAATTTCAT
2023892 TCCCGAATTC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
60 66 0.97
61 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.46
Consensus pattern (60 bp):
TGAATATTCTAATTTCATCCTTAAAATATGACCCTTATTCTAAATTGATCCCTAAACTTT
Found at i:2024127 original size:61 final size:60
Alignment explanation
Indices: 2024047--2024207 Score: 154
Period size: 60 Copynumber: 2.7 Consensus size: 60
2024037 GAAAGTTCAA
* *
2024047 AAAAGTTTACGGAAC-AATTTAGAATGAAGGTCATAGTTTTGGGGATGAAATTGAAATGC-TC
1 AAAAGTTTA-AGAACTAATTTAGAATGAAGGTCATAGTTTTGGAGATGAAATTG-AA-GCTTC
* * * * *
2024108 AAAAGTTTGAGGACTAATTTAGAATGATA-GACATAG-TTTAGAGATGAAATTGAAGCTTTT
1 AAAAGTTTAAGAACTAATTTAGAATGA-AGGTCATAGTTTTGGAGATGAAATTGAAGC-TTC
*
2024168 AAAAGTTTAAGAACTAATTTAAAAT-AAGAGTCATA-TTTTG
1 AAAAGTTTAAGAACTAATTTAGAATGAAG-GTCATAGTTTTG
2024208 AGTATATATA
Statistics
Matches: 81, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
58 3 0.04
59 3 0.04
60 48 0.59
61 26 0.32
62 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.32
Consensus pattern (60 bp):
AAAAGTTTAAGAACTAATTTAGAATGAAGGTCATAGTTTTGGAGATGAAATTGAAGCTTC
Found at i:2029223 original size:23 final size:23
Alignment explanation
Indices: 2029196--2029244 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
2029186 GTTATTTTAA
2029196 AAAAGAGTAACTAAATTTTGGGT
1 AAAAGAGTAACTAAATTTTGGGT
*
2029219 AAAAGAGTAATTAAATTTTGGGT
1 AAAAGAGTAACTAAATTTTGGGT
2029242 AAA
1 AAA
2029245 TTATATAAAT
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:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (23 bp):
AAAAGAGTAACTAAATTTTGGGT
Found at i:2038715 original size:23 final size:23
Alignment explanation
Indices: 2038688--2038745 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
2038678 CAAACGAACG
*
2038688 AACATAAACAAACATAATAAATA
1 AACATAAACAAACACAATAAATA
** *
2038711 AACATAAATGAACACAATAAATG
1 AACATAAACAAACACAATAAATA
2038734 AACATAAACAAA
1 AACATAAACAAA
2038746 TAACACAAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.67, C:0.14, G:0.03, T:0.16
Consensus pattern (23 bp):
AACATAAACAAACACAATAAATA
Found at i:2038730 original size:13 final size:13
Alignment explanation
Indices: 2038698--2038737 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
2038688 AACATAAACA
*
2038698 AACATAATAAAT-
1 AACACAATAAATG
2038710 AA-AC-ATAAATG
1 AACACAATAAATG
2038721 AACACAATAAATG
1 AACACAATAAATG
2038734 AACA
1 AACA
2038738 TAAACAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
10 6 0.25
11 3 0.12
12 4 0.17
13 11 0.46
ACGTcount: A:0.65, C:0.12, G:0.05, T:0.17
Consensus pattern (13 bp):
AACACAATAAATG
Found at i:2038750 original size:13 final size:14
Alignment explanation
Indices: 2038716--2038758 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
2038706 AAATAAACAT
*
2038716 AAATGAACAC-AAT
1 AAATGAACACAAAC
*
2038729 AAATGAACATAAAC
1 AAATGAACACAAAC
2038743 AAAT-AACACAAAC
1 AAATGAACACAAAC
2038756 AAA
1 AAA
2038759 AAAACAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.67, C:0.16, G:0.05, T:0.12
Consensus pattern (14 bp):
AAATGAACACAAAC
Found at i:2038819 original size:54 final size:53
Alignment explanation
Indices: 2038719--2038823 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 53
2038709 TAAACATAAA
* *
2038719 TGAACACAATAAATGAACATAAACAAATAACACAAACAAAAAAACAAACTTATT
1 TGAACACAACAAATGAACATAAAAAAATAACACAAACAAAAAAAC-AACTTATT
** *
2038773 TGAACACAACAAATGAATGTAAAAAAAGTAA-AC-AACAAGAATAACAACTTA
1 TGAACACAACAAATGAACATAAAAAAA-TAACACAAACAA-AAAAACAACTTA
2038824 AAATTCATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
53 11 0.25
54 30 0.68
55 3 0.07
ACGTcount: A:0.62, C:0.15, G:0.07, T:0.16
Consensus pattern (53 bp):
TGAACACAACAAATGAACATAAAAAAATAACACAAACAAAAAAACAACTTATT
Found at i:2038962 original size:68 final size:68
Alignment explanation
Indices: 2038853--2039001 Score: 289
Period size: 68 Copynumber: 2.2 Consensus size: 68
2038843 GCAACTTTAT
2038853 AGTTAATTTGTTCGAATACAAACATACATCAATCATAAATAAGCTATATGAACATAATAAAGTCT
1 AGTTAATTTGTTCGAATACAAACATACATCAATCATAAATAAGCTATATGAACATAATAAAGTCT
2038918 TAA
66 TAA
*
2038921 AGTTAATTTGTTCGAATACAGACATACATCAATCATAAATAAGCTATATGAACATAATAAAGTCT
1 AGTTAATTTGTTCGAATACAAACATACATCAATCATAAATAAGCTATATGAACATAATAAAGTCT
2038986 TAA
66 TAA
2038989 AGTTAATTTGTTC
1 AGTTAATTTGTTC
2039002 AACAAAACAA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 80 1.00
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (68 bp):
AGTTAATTTGTTCGAATACAAACATACATCAATCATAAATAAGCTATATGAACATAATAAAGTCT
TAA
Found at i:2041300 original size:14 final size:14
Alignment explanation
Indices: 2041261--2041301 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
2041251 GATTGGGTTA
**
2041261 AACATAAATAAACG
1 AACATAAACGAACG
*
2041275 AACATAACCGAACG
1 AACATAAACGAACG
2041289 AACATAAACGAAC
1 AACATAAACGAAC
2041302 ATAACCGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.59, C:0.22, G:0.10, T:0.10
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:2041335 original size:14 final size:14
Alignment explanation
Indices: 2041261--2041336 Score: 53
Period size: 14 Copynumber: 5.3 Consensus size: 14
2041251 GATTGGGTTA
*
2041261 AACATAAATAAACG
1 AACATAAATGAACG
**
2041275 AACATAACCGAACG
1 AACATAAATGAACG
* *
2041289 AACATAAACGAACAT
1 AACATAAATGAAC-G
** **
2041304 AACCGAAAGTTCACG
1 AACATAAA-TGAACG
2041319 AACATAAATGAACG
1 AACATAAATGAACG
2041333 AACA
1 AACA
2041337 CGAAATCTTG
Statistics
Matches: 45, Mismatches: 15, Indels: 4
0.70 0.23 0.06
Matches are distributed among these distances:
14 31 0.69
15 12 0.27
16 2 0.04
ACGTcount: A:0.55, C:0.21, G:0.12, T:0.12
Consensus pattern (14 bp):
AACATAAATGAACG
Found at i:2047576 original size:19 final size:20
Alignment explanation
Indices: 2047552--2047596 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
2047542 CAAAATGTTT
*
2047552 TATGAATAGTATTG-TATTG
1 TATGAATAGTACTGATATTG
2047571 TATGAATAGTACTGATATTG
1 TATGAATAGTACTGATATTG
*
2047591 TGTGAA
1 TATGAA
2047597 CAGTGATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.42
Consensus pattern (20 bp):
TATGAATAGTACTGATATTG
Found at i:2048828 original size:20 final size:21
Alignment explanation
Indices: 2048782--2048829 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
2048772 TTGTTATTAA
* *
2048782 ATTTTACTAAATTATATTAAT
1 ATTTTATTAAATTATATAAAT
*
2048803 A-ATTATTAAATTATA-AAAT
1 ATTTTATTAAATTATATAAAT
2048822 ATTTTATT
1 ATTTTATT
2048830 TATTATAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 4 0.18
20 17 0.77
21 1 0.05
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTTATTAAATTATATAAAT
Found at i:2049151 original size:17 final size:17
Alignment explanation
Indices: 2049129--2049163 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2049119 TTTTATTATT
*
2049129 ATTTAATATAAAAAATA
1 ATTTAAAATAAAAAATA
*
2049146 ATTTAAAATATAAAATA
1 ATTTAAAATAAAAAATA
2049163 A
1 A
2049164 AAATAGAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTTAAAATAAAAAATA
Found at i:2050516 original size:229 final size:228
Alignment explanation
Indices: 2050105--2050554 Score: 785
Period size: 229 Copynumber: 2.0 Consensus size: 228
2050095 GTAAATTATC
* * *
2050105 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
2050170 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATAATT
*
2050235 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
131 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATT
2050300 GAAACATAAATTACATAACTTTCAAAAAAGTATA
196 GAAACATAAATTACATAACTTT-AAAAAAGTATA
*
2050334 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
2050399 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA-AAT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATAAT
* *
2050463 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAAT
130 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAAT
2050528 TGAAACATAAATTACATAACTTTAAAA
195 TGAAACATAAATTACATAACTTTAAAA
2050555 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
228 4 0.02
229 122 0.58
230 84 0.40
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (228 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATAATT
TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATT
GAAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:2050641 original size:20 final size:19
Alignment explanation
Indices: 2050618--2050664 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
2050608 CGATATACCA
2050618 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
2050638 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
2050658 GGTAAAA
1 GGTAAAA
2050665 TTAAAAGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:2050808 original size:20 final size:19
Alignment explanation
Indices: 2050785--2050831 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
2050775 CGATATAACA
*
2050785 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
2050805 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
2050825 GGTAAAA
1 GGTAAAA
2050832 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:2053175 original size:33 final size:33
Alignment explanation
Indices: 2053133--2053198 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2053123 AAATAGATGG
*
2053133 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
2053166 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
2053199 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:2055054 original size:19 final size:19
Alignment explanation
Indices: 2054991--2055053 Score: 110
Period size: 19 Copynumber: 3.4 Consensus size: 19
2054981 AATGTCGAGT
*
2054991 TAATTTTGTATAAGATTTA
1 TAATTTTGTATACGATTTA
2055010 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
2055029 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
2055048 T-ATTTT
1 TAATTTT
2055054 TTTATGTGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
18 5 0.12
19 38 0.88
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATACGATTTA
Found at i:2055668 original size:197 final size:198
Alignment explanation
Indices: 2055136--2056748 Score: 2869
Period size: 197 Copynumber: 8.1 Consensus size: 198
2055126 TTAAGGGTCA
* * * *** *
2055136 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCTAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCA
2055201 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
2055266 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
2055331 ATG
196 ATG
* *
2055334 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCACC
*
2055399 AATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
65 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
2055464 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
2055529 AATG
195 AATG
2055533 TGTCGACACT-A-ATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCACC
*
2055596 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
65 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
2055661 TAATATGTAATTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
2055725 AATG
195 AATG
*
2055729 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCA
2055794 ATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 ATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
2055859 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
2055924 AATG
195 AATG
* *** *
2055928 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCA
2055993 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2056058 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
2056123 ATG
196 ATG
2056126 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCACC
*
2056191 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
2056256 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
129 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
2056321 TAATG
194 TAATG
*** *
2056326 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCA
2056390 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2056455 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
2056520 ATG
196 ATG
2056523 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCACC
*
2056588 CATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
65 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* *
2056651 TAATATGTAATTTTTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
2056716 AATG
195 AATG
*
2056720 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
2056749 CTAATTTAAA
Statistics
Matches: 1367, Mismatches: 39, Indels: 19
0.96 0.03 0.01
Matches are distributed among these distances:
196 63 0.05
197 455 0.33
198 345 0.25
199 357 0.26
200 147 0.11
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (198 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAACAAGGTGCACCA
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
ATG
Found at i:2056173 original size:397 final size:397
Alignment explanation
Indices: 2055136--2056748 Score: 2988
Period size: 397 Copynumber: 4.1 Consensus size: 397
2055126 TTAAGGGTCA
* *
2055136 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCTAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
2055201 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
2055266 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
*
2055331 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
196 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
* * *
2055396 ATCAATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
261 ACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
2055461 ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTA
326 ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTA
2055526 AATAATG
391 AATAATG
* *** *
2055533 TGTCGACACT-A-ATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-TTTACAAGGTGCATC
*
2055596 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
65 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
2055661 TAATATGTAATTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
2055725 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTG
195 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTG
2055789 CACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
260 CACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
*
2055854 TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
324 TAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
2055919 TAAATAATG
389 TAAATAATG
2055928 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
2055993 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2056058 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
2056123 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
196 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
2056188 ACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
261 ACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
*
2056253 AATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
325 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
2056318 AAATAATG
390 AAATAATG
2056326 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
2056390 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2056455 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
2056520 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
196 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
2056585 ACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
261 ACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
* *
2056648 ATGTAATATGTAATTTTTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTA
326 ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTA
2056713 AATAATG
391 AATAATG
*
2056720 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
2056749 CTAATTTAAA
Statistics
Matches: 1187, Mismatches: 23, Indels: 15
0.97 0.02 0.01
Matches are distributed among these distances:
394 172 0.14
395 259 0.22
396 182 0.15
397 395 0.33
398 179 0.15
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (397 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
ACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTA
AATAATG
Found at i:2058233 original size:18 final size:18
Alignment explanation
Indices: 2058210--2058271 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
2058200 ATCGGTCGCA
* * *
2058210 GAAGATGAAGCTGACGAT
1 GAAGATGACGATGATGAT
2058228 GAAGATGACGATGATGAT
1 GAAGATGACGATGATGAT
*
2058246 GATGATGACGATGATGAT
1 GAAGATGACGATGATGAT
2058264 GAAGATGA
1 GAAGATGA
2058272 TGATCCAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (18 bp):
GAAGATGACGATGATGAT
Found at i:2058234 original size:6 final size:6
Alignment explanation
Indices: 2058210--2058271 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
2058200 ATCGGTCGCA
* * * * * *
2058210 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
*
2058258 GATGAT GAAGAT GA
1 GAAGAT GAAGAT GA
2058272 TGATCCAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:2058245 original size:3 final size:3
Alignment explanation
Indices: 2058225--2058275 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
2058215 TGAAGCTGAC
* * * *
2058225 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAT GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
2058273 GAT
1 GAT
2058276 CCAAACAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:2058272 original size:12 final size:12
Alignment explanation
Indices: 2058213--2058275 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
2058203 GGTCGCAGAA
* *
2058213 GATGAAGCTGAC
1 GATGAAGATGAT
*
2058225 GATGAAGATGAC
1 GATGAAGATGAT
*
2058237 GATGATGATGAT
1 GATGAAGATGAT
*
2058249 GATGACGATGAT
1 GATGAAGATGAT
2058261 GATGAAGATGAT
1 GATGAAGATGAT
2058273 GAT
1 GAT
2058276 CCAAACAAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:2060001 original size:184 final size:184
Alignment explanation
Indices: 2059640--2060679 Score: 1910
Period size: 184 Copynumber: 5.7 Consensus size: 184
2059630 CTTTCAACAT
**
2059640 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
2059705 GGTCTACAACCTACAACCTATCGACACTTTTTAAT-TTGTGTCGGTACTTTATGTCCATATTGGA
66 GGTCTACAACCT---A--TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGA
* *
2059769 AGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
126 AGAAAATTGTGTCGATATAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
2059828 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
2059893 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
2059958 ATTGTGTCGATATAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 ATTGTGTCGATATAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
2060012 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
2060077 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
2060142 ATTGTGTCGATATAATTTAAAAAAGTGTCAACATTTTACACATCGGAACCCATA
131 ATTGTGTCGATATAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
2060196 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
2060261 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
2060326 ATTGTGTCGATATAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 ATTGTGTCGATATAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
2060380 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
2060445 GGTCTAC-ACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* *
2060509 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 ATTGTGTCGATATAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* * *
2060563 ATTATAATGTAAT--ATAATTTTGTAATAT-ACCGGTATAAATATACCGATTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
2060625 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
2060680 CCATTTAAAA
Statistics
Matches: 839, Mismatches: 11, Indels: 11
0.97 0.01 0.01
Matches are distributed among these distances:
180 38 0.05
181 62 0.07
183 139 0.17
184 524 0.62
185 1 0.00
188 75 0.09
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
ATTGTGTCGATATAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:2063197 original size:23 final size:23
Alignment explanation
Indices: 2063170--2063227 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
2063160 ATTACATAAG
2063170 ATGTAATAGGTAGCCCTTATATA
1 ATGTAATAGGTAGCCCTTATATA
* **
2063193 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCCCTTATATA
2063216 ATGTAATAGGTA
1 ATGTAATAGGTA
2063228 ATGGTTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (23 bp):
ATGTAATAGGTAGCCCTTATATA
Found at i:2063235 original size:23 final size:23
Alignment explanation
Indices: 2063170--2063237 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
2063160 ATTACATAAG
* **
2063170 ATGTAATAGGTAGCCCTTATATA
1 ATGTAATAGGTATCGGTTATATA
*
2063193 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTATCGGTTATATA
2063216 ATGTAATAGGTAAT-GGTTATAT
1 ATGTAATAGGT-ATCGGTTATAT
2063238 TGTAAAGTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 38 0.95
24 2 0.05
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATGTAATAGGTATCGGTTATATA
Found at i:2063265 original size:20 final size:20
Alignment explanation
Indices: 2063240--2063278 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2063230 GGTTATATTG
* *
2063240 TAAAGTGTCTATCCTTTTTA
1 TAAAGTGTCCATACTTTTTA
2063260 TAAAGTGTCCATACTTTTT
1 TAAAGTGTCCATACTTTTT
2063279 TCACTGTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (20 bp):
TAAAGTGTCCATACTTTTTA
Found at i:2063623 original size:23 final size:23
Alignment explanation
Indices: 2063592--2063654 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2063582 ATAGGTAAAC
*
2063592 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2063615 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2063638 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
2063655 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2063662 original size:23 final size:23
Alignment explanation
Indices: 2063592--2063664 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2063582 ATAGGTAAAC
* * **
2063592 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
2063615 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
2063638 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
2063661 ATAT
1 ATAT
2063665 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:2064074 original size:431 final size:418
Alignment explanation
Indices: 2063163--2063934 Score: 1301
Period size: 428 Copynumber: 1.8 Consensus size: 418
2063153 AACATAAATT
* ** * * *
2063163 ACATAAGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTA
1 ACATATGATGTAATAAATAG-CCTAATATAACGTAATAGGTATCGATTATATAATGTAATAGGTA
2063228 ATGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAGTGTCCATACTTTTTTCACTGTGGAAAAC
65 ATGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAGTGTCCATACTTTTTTCACTGTGGAAAAC
2063293 ATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAAT
130 ATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAAT
2063358 GATTTATTTTTACGTTACGGTATATATTATTATTAAAAAAAATTCTAAATAATATTTTATAAAAT
195 GATTTATTTTTACGTTACGGTATATATTATTATTAAAAAAAATTCTAAATAATATTTTATAAAAT
2063423 ATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGTAGGTGGAAAAC
260 ATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGTAGGTGGAAAAC
2063488 ATGAAACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTT
325 ATGAAACACTGTT---AAAA-TG--ACATAAATTACAT-A-TTTTAAAAAAAGTATCGATCCTTT
* *
2063553 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAA
382 ATATAAAAAGTATGGACAATTTCAATATAATAGGTAA
** * * *
2063590 ACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTA
1 ACATATGATGTAATAAATAG-CCTAATATAACGTAATAGGTATCGATTATATAATGTAATAGGTA
2063655 ATGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAA
65 ATGGTTATATTGTAAAGTGTCTATCCTTTTTAT-AAAGTGTCCATACTTTTTTCACTGTGGAAAA
2063720 CATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAA
129 CATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAA
2063785 TGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATA
194 TGATTTA-TTTTTACGTTACGGTATATATTATTATTAAA--AAAAATTCTAAATAATATTTTATA
2063850 AAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGTAGGTGGA
256 AAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGTAGGTGGA
2063915 AAACATGAAACACTGTTAAA
321 AAACATGAAACACTGTTAAA
2063935 GTATCGATCC
Statistics
Matches: 340, Mismatches: 1, Indels: 7
0.98 0.00 0.02
Matches are distributed among these distances:
427 97 0.29
428 106 0.31
429 31 0.09
431 106 0.31
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (418 bp):
ACATATGATGTAATAAATAGCCTAATATAACGTAATAGGTATCGATTATATAATGTAATAGGTAA
TGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAGTGTCCATACTTTTTTCACTGTGGAAAACA
TTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATG
ATTTATTTTTACGTTACGGTATATATTATTATTAAAAAAAATTCTAAATAATATTTTATAAAATA
TCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGTAGGTGGAAAACA
TGAAACACTGTTAAAATGACATAAATTACATATTTTAAAAAAAGTATCGATCCTTTATATAAAAA
GTATGGACAATTTCAATATAATAGGTAA
Found at i:2066111 original size:6 final size:6
Alignment explanation
Indices: 2066100--2066134 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
2066090 CTGTTGATGG
* *
2066100 ATATAT ATATAT ATATTT ATATTT ATATTT ATATT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATT
2066135 GATGCCATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (6 bp):
ATATTT
Found at i:2070540 original size:29 final size:29
Alignment explanation
Indices: 2070479--2070565 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 29
2070469 TTTCTATGAA
**
2070479 AATTTTATTTTCATCCTCCTAAAATTTTAT
1 AATTTTAAATTCATCC-CCTAAAATTTTAT
* *
2070509 AATTTTAAGTTCATCCCTTAAAATTTTAT
1 AATTTTAAATTCATCCCCTAAAATTTTAT
*
2070538 AATTTTAAATTCGTCCCCTAAAATTTTA
1 AATTTTAAATTCATCCCCTAAAATTTTA
2070566 AAAATTAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 37 0.73
30 14 0.27
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.48
Consensus pattern (29 bp):
AATTTTAAATTCATCCCCTAAAATTTTAT
Found at i:2071608 original size:2 final size:2
Alignment explanation
Indices: 2071601--2071637 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2071591 TCCAAACATA
2071601 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2071638 CTACATATGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2071931 original size:23 final size:23
Alignment explanation
Indices: 2071900--2071958 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
2071890 AGTCTTTTAT
* * *
2071900 ACCGGAGTGCCACGTAGAATTGC
1 ACCGAAGTGCCACGCAGAAATGC
*
2071923 ACCGAAGTGCCGCGCAGAAATGC
1 ACCGAAGTGCCACGCAGAAATGC
*
2071946 ACCGTAGTGCCAC
1 ACCGAAGTGCCAC
2071959 ATAAGATGTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.27, C:0.31, G:0.29, T:0.14
Consensus pattern (23 bp):
ACCGAAGTGCCACGCAGAAATGC
Found at i:2072714 original size:2 final size:2
Alignment explanation
Indices: 2072707--2072762 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
2072697 ACTTATAAAC
*
2072707 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2072749 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
2072763 TACTTAATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2073547 original size:24 final size:20
Alignment explanation
Indices: 2073490--2073567 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
2073480 TTCCCTTTGA
*
2073490 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
2073510 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
*
2073533 ATGTGCATCGATGCACTCCT-T
1 A-GTGCATCGATGCA-TCCTAC
2073554 A-TGCATCGATGCAT
1 AGTGCATCGATGCAT
2073568 TAATTGCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
20 14 0.29
21 2 0.04
22 1 0.02
23 4 0.08
24 14 0.29
25 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:2077020 original size:11 final size:11
Alignment explanation
Indices: 2077000--2077038 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
2076990 ACATACCTAC
2077000 AAAA-TCAAGA
1 AAAATTCAAGA
2077010 AAAATTCAAGA
1 AAAATTCAAGA
2077021 ATTAAATTCAAGA
1 A--AAATTCAAGA
2077034 AAAAT
1 AAAAT
2077039 AAAATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 4 0.15
11 11 0.42
13 11 0.42
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.21
Consensus pattern (11 bp):
AAAATTCAAGA
Found at i:2077047 original size:24 final size:24
Alignment explanation
Indices: 2077004--2077050 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
2076994 ACCTACAAAA
**
2077004 TCAAGAAAAATTCAAGAATTAAAT
1 TCAAGAAAAATAAAAGAATTAAAT
*
2077028 TCAAGAAAAATAAAATAATTAAA
1 TCAAGAAAAATAAAAGAATTAAA
2077051 ATCGAAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.23
Consensus pattern (24 bp):
TCAAGAAAAATAAAAGAATTAAAT
Found at i:2078946 original size:14 final size:15
Alignment explanation
Indices: 2078927--2078955 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2078917 AATAAATCAA
2078927 ATAAAT-TTAAAAAT
1 ATAAATCTTAAAAAT
2078941 ATAAATCTTAAAAAT
1 ATAAATCTTAAAAAT
2078956 GTTTGAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAAATCTTAAAAAT
Found at i:2080387 original size:24 final size:24
Alignment explanation
Indices: 2080355--2080420 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
2080345 ATATACCTAC
2080355 AAAATCAAGAAAAATAAAATAATT
1 AAAATCAAGAAAAATAAAATAATT
* *
2080379 AAATTCAAGAAAAATTAAATAATT
1 AAAATCAAGAAAAATAAAATAATT
*
2080403 AAAATCGA-AAAAATAAAA
1 AAAATCAAGAAAAATAAAA
2080421 CTAAAATCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 9 0.24
24 28 0.76
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (24 bp):
AAAATCAAGAAAAATAAAATAATT
Found at i:2083805 original size:3 final size:3
Alignment explanation
Indices: 2083799--2083836 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
2083789 TTTTTAATAA
2083799 TAT TAT TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T
2083837 TGTTTTTCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2084468 original size:20 final size:19
Alignment explanation
Indices: 2084443--2084485 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
2084433 AAAAACCTGG
* *
2084443 AAAAAAATAGAAGAGGGAA
1 AAAAAAATAAAAGAAGGAA
2084462 TAAAAAAATAAAAGAAGGAA
1 -AAAAAAATAAAAGAAGGAA
2084482 AAAA
1 AAAA
2084486 TAGAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (19 bp):
AAAAAAATAAAAGAAGGAA
Found at i:2088229 original size:21 final size:21
Alignment explanation
Indices: 2088188--2088230 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2088178 AGACTGCCAT
* *
2088188 GTCAGCATCGTGAATTGCAAC
1 GTCAGCACCGTGAATGGCAAC
2088209 GTCAGCACCGT-AATGGTCAAC
1 GTCAGCACCGTGAATGG-CAAC
2088230 G
1 G
2088231 ACGAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.21
Consensus pattern (21 bp):
GTCAGCACCGTGAATGGCAAC
Found at i:2088958 original size:3 final size:3
Alignment explanation
Indices: 2088950--2088976 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2088940 AACATCTTTC
2088950 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
2088977 GTTGTTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2096332 original size:60 final size:61
Alignment explanation
Indices: 2096268--2096387 Score: 172
Period size: 60 Copynumber: 2.0 Consensus size: 61
2096258 TTTATTTCCT
*
2096268 AAACTATGA-CTATCATTCTAAATTAGTCCTCAAA-CTTTTGAATATTCCAATTCCATCCCC
1 AAACTATGACCT-TCATTCTAAATTAGTCCCCAAATCTTTTGAATATTCCAATTCCATCCCC
* * * *
2096328 AAACTATGACCTTCATTCTAAATTGGTCCCCAAATGTTTTGATTATTCCAATTTCATCCC
1 AAACTATGACCTTCATTCTAAATTAGTCCCCAAATCTTTTGAATATTCCAATTCCATCCC
2096388 AAGCTATACA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
60 29 0.55
61 24 0.45
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.37
Consensus pattern (61 bp):
AAACTATGACCTTCATTCTAAATTAGTCCCCAAATCTTTTGAATATTCCAATTCCATCCCC
Found at i:2096908 original size:58 final size:57
Alignment explanation
Indices: 2096839--2096954 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 57
2096829 ACTAAAAGAG
**
2096839 GGACATCAATCTCTATTAACCATGATCAATGATGGATTAAGGGTTCACACATTCTCAT
1 GGACATCAATCTCTACCAACCATGATCAATGATGGATTAA-GGTTCACACATTCTCAT
2096897 GGACATCAATCTCTACCAACCATGATCAATGATGGATTAAGGTTCACACATTCTCAT
1 GGACATCAATCTCTACCAACCATGATCAATGATGGATTAAGGTTCACACATTCTCAT
2096954 G
1 G
2096955 TAACTAGGGA
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 18 0.32
58 38 0.68
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (57 bp):
GGACATCAATCTCTACCAACCATGATCAATGATGGATTAAGGTTCACACATTCTCAT
Found at i:2100922 original size:30 final size:32
Alignment explanation
Indices: 2100883--2100942 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
2100873 TTCTTGGTCC
*
2100883 AATTAGATACTTAAATTTAATC-TTTGGTTTG
1 AATTAGATACATAAATTTAATCTTTTGGTTTG
* *
2100914 AATT-GATACATGAATTTATTCTTTTGGTT
1 AATTAGATACATAAATTTAATCTTTTGGTT
2100943 AAAAAGGTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (32 bp):
AATTAGATACATAAATTTAATCTTTTGGTTTG
Found at i:2101099 original size:23 final size:25
Alignment explanation
Indices: 2101073--2101126 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
2101063 GAAAAAAATG
*
2101073 AAGTTCCAAATTAAACCT-AAAAC-
1 AAGTTCCAAAGTAAACCTCAAAACA
* *
2101096 AAGTACTAAAGTAAACCTCAAAACA
1 AAGTTCCAAAGTAAACCTCAAAACA
2101121 AAGTTC
1 AAGTTC
2101127 AAGCACCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 15 0.60
24 5 0.20
25 5 0.20
ACGTcount: A:0.52, C:0.20, G:0.07, T:0.20
Consensus pattern (25 bp):
AAGTTCCAAAGTAAACCTCAAAACA
Found at i:2108842 original size:25 final size:26
Alignment explanation
Indices: 2108814--2108862 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
2108804 AAACTATCAA
* *
2108814 TTTTGATTTATTTT-AATACTTAAAC
1 TTTTAATTTATTTTCAAAACTTAAAC
*
2108839 TTTTAATTTTTTTTCAAAACTTAA
1 TTTTAATTTATTTTCAAAACTTAA
2108863 CGTTAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (26 bp):
TTTTAATTTATTTTCAAAACTTAAAC
Found at i:2114790 original size:30 final size:30
Alignment explanation
Indices: 2114754--2114817 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
2114744 GGGTAATTAT
*
2114754 TAATGCATATTCAAATATGAATACGAGTTA
1 TAATGCATATTCAAATACGAATACGAGTTA
** *
2114784 TAATGCATATTTGAATACGATTACGAGTTA
1 TAATGCATATTCAAATACGAATACGAGTTA
2114814 TAAT
1 TAAT
2114818 TTGATGTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (30 bp):
TAATGCATATTCAAATACGAATACGAGTTA
Found at i:2117258 original size:101 final size:103
Alignment explanation
Indices: 2117135--2117333 Score: 330
Period size: 101 Copynumber: 2.0 Consensus size: 103
2117125 GAAATTTCAC
* * *
2117135 CTAATGCGAAACTGGATCCAATTTTTAAGTTAAAATCTCACATTTAATCCGATACAATTATATAA
1 CTAATGCGAAACTGAATCCAATTTTTAAGTTAAAAACTCACATTTAATCCGACACAATTATATAA
*
2117200 AA-TTCATTTTTATTTGGTTAAATAAGAATTTAGTCGT
66 AATTTCATTTTTATTTGGTAAAATAAGAATTTAGTCGT
* *
2117237 CTAAT-CGAAACTGAATCCAATTTTTAAGTTAAAAACTCACATTTGATCTGACACAATTATATAA
1 CTAATGCGAAACTGAATCCAATTTTTAAGTTAAAAACTCACATTTAATCCGACACAATTATATAA
2117301 AATTTCATTTTTATTTGGTAAAATAAGAATTTA
66 AATTTCATTTTTATTTGGTAAAATAAGAATTTA
2117334 ATTGGAAAAA
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
101 56 0.62
102 34 0.38
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (103 bp):
CTAATGCGAAACTGAATCCAATTTTTAAGTTAAAAACTCACATTTAATCCGACACAATTATATAA
AATTTCATTTTTATTTGGTAAAATAAGAATTTAGTCGT
Found at i:2121760 original size:17 final size:17
Alignment explanation
Indices: 2121735--2121769 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2121725 AGTAGTTAAA
*
2121735 TTGAATGATGAATTATG
1 TTGAATGATGAATGATG
*
2121752 TTGAGTGATGAATGATG
1 TTGAATGATGAATGATG
2121769 T
1 T
2121770 AATTTACTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (17 bp):
TTGAATGATGAATGATG
Found at i:2124064 original size:23 final size:23
Alignment explanation
Indices: 2124034--2124078 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
2124024 GTCGAGGGTT
2124034 CTATGTGGTCATTCGGGACAAAA
1 CTATGTGGTCATTCGGGACAAAA
2124057 CTATGTGGTCATTCGGGACAAA
1 CTATGTGGTCATTCGGGACAAA
2124079 TATGAGGCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (23 bp):
CTATGTGGTCATTCGGGACAAAA
Found at i:2124092 original size:21 final size:23
Alignment explanation
Indices: 2124034--2124085 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
2124024 GTCGAGGGTT
*
2124034 CTATGTGGTCATTCGGGACAAAA
1 CTATGAGGTCATTCGGGACAAAA
*
2124057 CTATGTGGTCATTCGGGAC-AAA
1 CTATGAGGTCATTCGGGACAAAA
2124079 -TATGAGG
1 CTATGAGG
2124086 CACTTCGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 6 0.21
22 3 0.11
23 19 0.68
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (23 bp):
CTATGAGGTCATTCGGGACAAAA
Found at i:2128789 original size:23 final size:23
Alignment explanation
Indices: 2128753--2128831 Score: 115
Period size: 23 Copynumber: 3.4 Consensus size: 23
2128743 AGCTCAATGA
2128753 AGCTCAAATCTCAAGCTCGATTTTG
1 AGCTC-AAT-TCAAGCTCGATTTTG
2128778 AGCTCAATTCAAGCTCGATTTTG
1 AGCTCAATTCAAGCTCGATTTTG
* *
2128801 AGCTCAATTCAAGCTC-AATTTA
1 AGCTCAATTCAAGCTCGATTTTG
2128823 AGCTCAATT
1 AGCTCAATT
2128832 GCTAACCACG
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
22 13 0.25
23 31 0.60
24 3 0.06
25 5 0.10
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (23 bp):
AGCTCAATTCAAGCTCGATTTTG
Found at i:2128817 original size:11 final size:11
Alignment explanation
Indices: 2128740--2128831 Score: 69
Period size: 11 Copynumber: 8.1 Consensus size: 11
2128730 AACTCAAATC
2128740 TCAAGCTCAA-
1 TCAAGCTCAAT
*
2128750 TGAAGCTCAAAT
1 TCAAGCTC-AAT
*
2128762 CTCAAGCTCGATT
1 -TCAAGCTC-AAT
**
2128775 TTGAGCTCAAT
1 TCAAGCTCAAT
*
2128786 TCAAGCTCGATT
1 TCAAGCTC-AAT
**
2128798 TTGAGCTCAAT
1 TCAAGCTCAAT
2128809 TCAAGCTCAAT
1 TCAAGCTCAAT
*
2128820 TTAAGCTCAAT
1 TCAAGCTCAAT
2128831 T
1 T
2128832 GCTAACCACG
Statistics
Matches: 62, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
10 7 0.11
11 32 0.52
12 14 0.23
13 9 0.15
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (11 bp):
TCAAGCTCAAT
Found at i:2130659 original size:20 final size:20
Alignment explanation
Indices: 2130634--2130675 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2130624 TATCATATAA
* *
2130634 TTGGATTAAGGGTTTATGGT
1 TTGGATTAAGGGATTAGGGT
*
2130654 TTGGATTTAGGGATTAGGGT
1 TTGGATTAAGGGATTAGGGT
2130674 TT
1 TT
2130676 ATAATTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (20 bp):
TTGGATTAAGGGATTAGGGT
Found at i:2130704 original size:7 final size:7
Alignment explanation
Indices: 2130694--2130725 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
2130684 TAATTAAATA
2130694 GTTTAGG
1 GTTTAGG
2130701 GTTTAGG
1 GTTTAGG
2130708 G-TTA-G
1 GTTTAGG
2130713 GTTTAGG
1 GTTTAGG
2130720 GTTTAG
1 GTTTAG
2130726 AATGTAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
5 2 0.09
6 6 0.26
7 15 0.65
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:2132657 original size:24 final size:25
Alignment explanation
Indices: 2132625--2132674 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
2132615 TGCCGGATAC
2132625 ATACACATCC-ACACTCAAACCCGA
1 ATACACATCCGACACTCAAACCCGA
* *
2132649 ATACACATCCGACACTCGAACTCGA
1 ATACACATCCGACACTCAAACCCGA
2132674 A
1 A
2132675 AGCGCCCCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.40, C:0.38, G:0.08, T:0.14
Consensus pattern (25 bp):
ATACACATCCGACACTCAAACCCGA
Found at i:2132789 original size:43 final size:44
Alignment explanation
Indices: 2132649--2132806 Score: 221
Period size: 44 Copynumber: 3.6 Consensus size: 44
2132639 TCAAACCCGA
* *
2132649 ATACACATCCGACACTCGAACTCGAA-AGCGCCCCTGTTGGATAC
1 ATACACATCCGACACCCGAACCCGAATA-CGCCCCTGTTGGATAC
* * * *
2132693 ATACACATCTGATACTCGAACCCGAATACACCCCTGTTGGATAC
1 ATACACATCCGACACCCGAACCCGAATACGCCCCTGTTGGATAC
* *
2132737 ATACACATCCGACACCCAAACCCCAATACGCCCCTG-TGGATAC
1 ATACACATCCGACACCCGAACCCGAATACGCCCCTGTTGGATAC
2132780 ATACACATCCGACACCCGAACCCGAAT
1 ATACACATCCGACACCCGAACCCGAAT
2132807 TCGGATAACA
Statistics
Matches: 101, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
43 32 0.32
44 68 0.67
45 1 0.01
ACGTcount: A:0.32, C:0.37, G:0.14, T:0.17
Consensus pattern (44 bp):
ATACACATCCGACACCCGAACCCGAATACGCCCCTGTTGGATAC
Found at i:2153206 original size:45 final size:48
Alignment explanation
Indices: 2153139--2153236 Score: 157
Period size: 45 Copynumber: 2.1 Consensus size: 48
2153129 TTATTTTCGT
2153139 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCGGTTAGG-TTTA
1 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCGGTTAGGTTTTA
* *
2153186 TTTTTCGAA-CAA-GCATGCGAATTAGATATCATGCGGTTAGGTTTTA
1 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCGGTTAGGTTTTA
2153232 TTTTT
1 TTTTT
2153237 GTGAATAACA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
45 28 0.58
46 11 0.23
47 9 0.19
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (48 bp):
TTTTTCGAATAAATGCATGCGAACTAGATATCATGCGGTTAGGTTTTA
Found at i:2162891 original size:9 final size:9
Alignment explanation
Indices: 2162879--2163024 Score: 54
Period size: 9 Copynumber: 17.1 Consensus size: 9
2162869 AAGAAGAAAT
2162879 AAAAGAGAA
1 AAAAGAGAA
2162888 AAAAGA-AA
1 AAAAGAGAA
2162896 AAAA-ATG-A
1 AAAAGA-GAA
*
2162904 AAATGAG-A
1 AAAAGAGAA
*
2162912 AGAAGA-AA
1 AAAAGAGAA
2162920 AAGAAGA-AA
1 AA-AAGAGAA
2162929 AAAATGAGAA
1 AAAA-GAGAA
2162939 AAAAG-G-A
1 AAAAGAGAA
*
2162946 AAATGATGGAA
1 AAAAGA--GAA
2162957 AAAATGA-AA
1 AAAA-GAGAA
*
2162966 AGAA-A-AA
1 AAAAGAGAA
2162973 AAAAGAAGAA
1 AAAAG-AGAA
2162983 AAAATG-G--
1 AAAA-GAGAA
*
2162990 AAAA-TGAA
1 AAAAGAGAA
2162998 AAAAGAGAA
1 AAAAGAGAA
*
2163007 AAATGA-AA
1 AAAAGAGAA
2163015 AAAAGAGAA
1 AAAAGAGAA
2163024 A
1 A
2163025 TAAAAGGAGA
Statistics
Matches: 105, Mismatches: 11, Indels: 42
0.66 0.07 0.27
Matches are distributed among these distances:
6 1 0.01
7 16 0.15
8 32 0.30
9 36 0.34
10 13 0.12
11 5 0.05
12 2 0.02
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (9 bp):
AAAAGAGAA
Found at i:2162926 original size:12 final size:11
Alignment explanation
Indices: 2162886--2162986 Score: 50
Period size: 10 Copynumber: 9.3 Consensus size: 11
2162876 AATAAAAGAG
2162886 AAAA-AAGAAA
1 AAAAGAAGAAA
*
2162896 AAAA-ATGAAA
1 AAAAGAAGAAA
**
2162906 ATGAGAAGAAGA
1 AAAAGAAGAA-A
2162918 AAAAGAAGAAA
1 AAAAGAAGAAA
2162929 AAAATG-AGAAA
1 AAAA-GAAGAAA
* *
2162940 AAAGGAA-AAT
1 AAAAGAAGAAA
* ** *
2162950 GATGGAAAAAA
1 AAAAGAAGAAA
2162961 TGAAAAGAA-AAA
1 --AAAAGAAGAAA
2162973 AAAAGAAGAAA
1 AAAAGAAGAAA
2162984 AAA
1 AAA
2162987 TGGAAAATGA
Statistics
Matches: 69, Mismatches: 14, Indels: 15
0.70 0.14 0.15
Matches are distributed among these distances:
10 26 0.38
11 26 0.38
12 13 0.19
13 4 0.06
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (11 bp):
AAAAGAAGAAA
Found at i:2162932 original size:42 final size:41
Alignment explanation
Indices: 2162868--2163029 Score: 141
Period size: 42 Copynumber: 3.8 Consensus size: 41
2162858 TATTTCGCTT
*
2162868 GAAGAAGAAATAAAAGAGAAAAAAGAAAAAAAATGAAAATGA
1 GAAGAAGAAA-AAAAGAAAAAAAAGAAAAAAAATGAAAATGA
* * *
2162910 GAAGAAGAAAAAGAAGAAAAAAATGAGAAAAAAGGAAAATGA
1 GAAGAAGAAAAA-AAGAAAAAAAAGAAAAAAAATGAAAATGA
*
2162952 TGGAA-AA-AATGAAAAGAAAAAAAAAGAAGAAAAAATGGAAAATGA
1 --GAAGAAGAA-AAAAAG-AAAAAAAAGAA-AAAAAAT-GAAAATGA
* * *
2162997 -AAAAAGAGAAAAATGAAAAAAAGAGAAATAAAA
1 GAAGAAGA-AAAAAAGAAAAAAA-AGAAAAAAAA
2163030 GGAGAGTTCA
Statistics
Matches: 98, Mismatches: 11, Indels: 21
0.75 0.08 0.16
Matches are distributed among these distances:
41 2 0.02
42 42 0.43
43 27 0.28
44 18 0.18
45 9 0.09
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (41 bp):
GAAGAAGAAAAAAAGAAAAAAAAGAAAAAAAATGAAAATGA
Found at i:2162974 original size:26 final size:24
Alignment explanation
Indices: 2162888--2163015 Score: 72
Period size: 26 Copynumber: 5.2 Consensus size: 24
2162878 TAAAAGAGAA
*
2162888 AAAAGAAAAAAA-ATG--AAAATG
1 AAAAGAAAAAAAGAGGAAAAAATG
* *
2162909 AGAAGAAGAAAAAGAAGAAAAAAATG
1 AAAAGAA-AAAAAG-AGGAAAAAATG
2162935 AGAAA-AAAGGAAAATGATGGAAAAAATG
1 A-AAAGAAA--AAAA-GA-GGAAAAAATG
*
2162963 AAAAGAAAAAAAAAGAAGAAAAAATGG
1 AAAAG--AAAAAAAGAGGAAAAAAT-G
2162990 AAAATG-AAAAAAGA-G-AAAAATG
1 AAAA-GAAAAAAAGAGGAAAAAATG
2163012 AAAA
1 AAAA
2163016 AAAGAGAAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 29
0.71 0.05 0.24
Matches are distributed among these distances:
21 6 0.07
22 10 0.12
23 6 0.07
24 2 0.02
25 9 0.10
26 17 0.20
27 17 0.20
28 16 0.19
30 3 0.03
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (24 bp):
AAAAGAAAAAAAGAGGAAAAAATG
Found at i:2163006 original size:27 final size:26
Alignment explanation
Indices: 2162868--2163001 Score: 96
Period size: 28 Copynumber: 4.9 Consensus size: 26
2162858 TATTTCGCTT
* *
2162868 GAAGAAGAAAT-AAAAG-AGAAAAAA
1 GAAGAAAAAATGAAAAGAAAAAAAAA
2162892 GAA-AAAAAATGAAAATGAGAAGAAGAAAAA
1 GAAGAAAAAATG-AAA--AGAA-AA-AAAAA
* *
2162922 GAAGAAAAAAATGAGAAA-AAAGGAAAAT
1 GAAG-AAAAAATGA-AAAGAAA-AAAAAA
*
2162950 GATGGAAAAAATGAAAAGAAAAAAAAA
1 GA-AGAAAAAATGAAAAGAAAAAAAAA
2162977 GAAGAAAAAATGGAAAATGAAAAAA
1 GAAGAAAAAAT-GAAAA-GAAAAAA
2163002 GAGAAAAATG
Statistics
Matches: 87, Mismatches: 8, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
23 6 0.07
24 3 0.03
25 3 0.03
26 8 0.09
27 16 0.18
28 27 0.31
29 4 0.05
30 9 0.10
31 1 0.01
32 10 0.11
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (26 bp):
GAAGAAAAAATGAAAAGAAAAAAAAA
Found at i:2163015 original size:44 final size:42
Alignment explanation
Indices: 2162886--2163023 Score: 142
Period size: 44 Copynumber: 3.2 Consensus size: 42
2162876 AATAAAAGAG
* *
2162886 AAAAAAGAA-AAAAAAT-GAAAATGAGAAGAAGAAAAAGAAGA
1 AAAAAAGAAGAAAAAATGGAAAATGAAAAAAAGAAAAAGAA-A
2162927 AAAAAATG-AGAAAAAA-GGAAAATGATGGAAAAAATG-AAAAGAAA
1 AAAAAA-GAAGAAAAAATGGAAAATGA---AAAAAA-GAAAAAGAAA
2162971 AAAAAAGAAGAAAAAATGGAAAATGAAAAAAGAGAAAAATGAAA
1 AAAAAAGAAGAAAAAATGGAAAATGAAAAAA-AGAAAAA-GAAA
*
2163015 AAAAGAGAA
1 AAAAAAGAA
2163024 ATAAAAGGAG
Statistics
Matches: 82, Mismatches: 3, Indels: 21
0.77 0.03 0.20
Matches are distributed among these distances:
41 7 0.09
42 21 0.26
43 6 0.07
44 27 0.33
45 20 0.24
46 1 0.01
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.07
Consensus pattern (42 bp):
AAAAAAGAAGAAAAAATGGAAAATGAAAAAAAGAAAAAGAAA
Found at i:2164553 original size:55 final size:54
Alignment explanation
Indices: 2164362--2164720 Score: 401
Period size: 55 Copynumber: 6.7 Consensus size: 54
2164352 GTTGAAGATT
*
2164362 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA--TT-
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTTTC
*
2164413 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA--TT-
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTTTC
*
2164464 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATT-TTC
* * * *
2164519 GAGTTCTATACTCTCTGAAGGATTAGAGAGCGGACACGTT-TTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGT-TGAAGATT-TTC
* * ** **
2164574 GAGTTCTATACTCCCTGAACGAATAGGGAGCGGACTCGTTTATTGAAGATTTTCC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTTT-C
* ** ** *
2164629 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTT
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAG-TTCGTTGAAGATT-TTC
* * *
2164685 GAG-TCTTATACTCCCTGAATGAATAGGGAGCAGACA
1 GAGTTC-TATACTCTCTGAAGGAATAGGGAGCGGACA
2164721 CGCTTGCCAA
Statistics
Matches: 277, Mismatches: 21, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
51 100 0.36
54 5 0.02
55 128 0.46
56 42 0.15
57 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (54 bp):
GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTTTC
Done.