Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 146 of 175
Found at i:44669266 original size:104 final size:104
Alignment explanation
Indices: 44669154--44669362 Score: 409
Period size: 104 Copynumber: 2.0 Consensus size: 104
44669144 TACAGGTTCG
44669154 ACTCATTTCATATTTGGGTCATTTTGAATATGTATCCTTTCAAGTTGTTTTTTAAGTCATTTTAA
1 ACTCATTTCATATTTGGGTCATTTTGAATATGTATCCTTTCAAGTTGTTTTTTAAGTCATTTTAA
44669219 ATTTAGATTAGATCAATGAGTTAATTCAATTTGGTAAAA
66 ATTTAGATTAGATCAATGAGTTAATTCAATTTGGTAAAA
*
44669258 ACTCATTTCATATTTGGGTCATTTTGAATTTGTATCCTTTCAAGTTGTTTTTTAAGTCATTTTAA
1 ACTCATTTCATATTTGGGTCATTTTGAATATGTATCCTTTCAAGTTGTTTTTTAAGTCATTTTAA
44669323 ATTTAGATTAGATCAATGAGTTAATTCAATTTGGTAAAA
66 ATTTAGATTAGATCAATGAGTTAATTCAATTTGGTAAAA
44669362 A
1 A
44669363 AAAGACCAGT
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (104 bp):
ACTCATTTCATATTTGGGTCATTTTGAATATGTATCCTTTCAAGTTGTTTTTTAAGTCATTTTAA
ATTTAGATTAGATCAATGAGTTAATTCAATTTGGTAAAA
Found at i:44682700 original size:14 final size:13
Alignment explanation
Indices: 44682661--44682703 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 13
44682651 TTCATATTTG
44682661 ATTTTTTTTAAATTA
1 ATTTTTTTTAAA--A
44682676 ATTTTTATTTAAAA
1 ATTTTT-TTTAAAA
44682690 ATATTTTTTTAAAA
1 AT-TTTTTTTAAAA
44682704 TATAACACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.38
15 10 0.38
16 6 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTTTTTAAAA
Found at i:44682818 original size:42 final size:38
Alignment explanation
Indices: 44682767--44682848 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
44682757 TAAAAAGTAT
* *
44682767 TTATATTAAAAAAACATTACCATAAGTATAATAAATGTTTTA
1 TTATATTAAAAAAACA--A--ATAAATATAATAAATATTTTA
*
44682809 TTATATTAAAAACACAAATAAATATAATAAATATTTTA
1 TTATATTAAAAAAACAAATAAATATAATAAATATTTTA
44682847 TT
1 TT
44682849 GTGTTAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 21 0.57
40 1 0.03
42 15 0.41
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.39
Consensus pattern (38 bp):
TTATATTAAAAAAACAAATAAATATAATAAATATTTTA
Found at i:44682967 original size:6 final size:6
Alignment explanation
Indices: 44682956--44682983 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
44682946 TTAGTGATTT
44682956 AATATA AATATA AATATA AATATA AATA
1 AATATA AATATA AATATA AATATA AATA
44682984 ATTTAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:44686412 original size:23 final size:23
Alignment explanation
Indices: 44686386--44686443 Score: 98
Period size: 24 Copynumber: 2.5 Consensus size: 23
44686376 TTTAATTTGT
44686386 ATAAAATATATATTTGATTAAAA
1 ATAAAATATATATTTGATTAAAA
44686409 ATAAAAATATATATTTGATTAAAA
1 AT-AAAATATATATTTGATTAAAA
*
44686433 ATAATATATAT
1 ATAAAATATAT
44686444 TTAATATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 10 0.30
24 23 0.70
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (23 bp):
ATAAAATATATATTTGATTAAAA
Found at i:44686739 original size:28 final size:28
Alignment explanation
Indices: 44686701--44686759 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
44686691 ATTAACAAAG
44686701 TAAAAAAAAAATTCAATTATATATTTAT
1 TAAAAAAAAAATTCAATTATATATTTAT
44686729 TAAAAAAAAAATTCAATTATATATTTAT
1 TAAAAAAAAAATTCAATTATATATTTAT
44686757 TAA
1 TAA
44686760 CAATTAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (28 bp):
TAAAAAAAAAATTCAATTATATATTTAT
Found at i:44689461 original size:17 final size:17
Alignment explanation
Indices: 44689435--44689471 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
44689425 TGATAAACTG
*
44689435 AAAAATTAAGTGTCGAA
1 AAAAAATAAGTGTCGAA
*
44689452 AAAAAATAAGTGTTGAA
1 AAAAAATAAGTGTCGAA
44689469 AAA
1 AAA
44689472 TTAAATATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.16, T:0.22
Consensus pattern (17 bp):
AAAAAATAAGTGTCGAA
Found at i:44689485 original size:14 final size:15
Alignment explanation
Indices: 44689464--44689498 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
44689454 AAAATAAGTG
*
44689464 TTGAAAAATTAAATA
1 TTGAAAATTTAAATA
*
44689479 TTGAAAATTTAAGTA
1 TTGAAAATTTAAATA
44689494 TTGAA
1 TTGAA
44689499 TTTAAGTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (15 bp):
TTGAAAATTTAAATA
Found at i:44689614 original size:22 final size:21
Alignment explanation
Indices: 44689589--44689632 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
44689579 AAATTATAAA
**
44689589 AATTATTCTATATTTTATCCTT
1 AATTATTAAATATTTT-TCCTT
*
44689611 AATTTTTAAATATTTTTCCTT
1 AATTATTAAATATTTTTCCTT
44689632 A
1 A
44689633 TTCTAAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (21 bp):
AATTATTAAATATTTTTCCTT
Found at i:44697736 original size:27 final size:27
Alignment explanation
Indices: 44697705--44697774 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
44697695 CGATTACAGA
*
44697705 CTCTTCGTGAGCTTCCTGTTAAATTGG
1 CTCTTTGTGAGCTTCCTGTTAAATTGG
*
44697732 CTCTTTGTGAGCTTCATGTTAAATTGG
1 CTCTTTGTGAGCTTCCTGTTAAATTGG
44697759 CTCTTTGTGAGCTTCC
1 CTCTTTGTGAGCTTCC
44697775 CGATAGTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (27 bp):
CTCTTTGTGAGCTTCCTGTTAAATTGG
Found at i:44697903 original size:25 final size:24
Alignment explanation
Indices: 44697827--44697900 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
44697817 GCTCCCGTTA
* *
44697827 TATGGCTCTTCGTGAGCTTCTCGA-
1 TATGGCTCTT-ATGAGCTTCTCTAT
* *
44697851 TATGGTTCTTTATGAACTTACT-TAT
1 TATGGCTC-TTATGAGCTT-CTCTAT
44697876 TATGGCTCTTATGAGCTTCTCTAT
1 TATGGCTCTTATGAGCTTCTCTAT
44697900 T
1 T
44697901 TATATATCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
23 2 0.05
24 27 0.68
25 11 0.28
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.46
Consensus pattern (24 bp):
TATGGCTCTTATGAGCTTCTCTAT
Found at i:44720753 original size:46 final size:46
Alignment explanation
Indices: 44720700--44720793 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
44720690 ACAATGCTAT
* *
44720700 AACTCAGTATGGTTTCCTTCATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
*
44720746 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
44720792 AA
1 AA
44720794 TTTTCCATGG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:44721561 original size:17 final size:17
Alignment explanation
Indices: 44721539--44721575 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
44721529 AAATTCTTTT
44721539 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
*
44721556 TAAATCACAGAATTCAC
1 TAAATCACAAAATTCAC
44721573 TAA
1 TAA
44721576 TTTAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.22, G:0.03, T:0.24
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:44721847 original size:42 final size:42
Alignment explanation
Indices: 44721722--44721871 Score: 130
Period size: 42 Copynumber: 3.6 Consensus size: 42
44721712 TCGAAAGCTG
* ** * *
44721722 AACAGAAGCTCATGAGAGCTAAACAAAAAC-CTATAAGGGTTG
1 AACAGAAGCTCGTGAGAGCTAAACGGAAACTC-ATAAGAGTTA
* * * *
44721764 AAC-GTAAGCTCGTAAGAGTTGAAA--AAAACTCATAAGGGTTA
1 AACAG-AAGCTCGTGAGAGCT-AAACGGAAACTCATAAGAGTTA
* *
44721805 AACAGAAGCTCGAT-AGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCG-TGAGAGCTAAACGGAAACTCATAAGAGTTA
44721847 AACAGAAGCTCGTGAGAGCTAAACG
1 AACAGAAGCTCGTGAGAGCTAAACG
44721872 AAAAGTAAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 16
0.78 0.09 0.14
Matches are distributed among these distances:
40 2 0.02
41 31 0.34
42 54 0.60
43 3 0.03
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (42 bp):
AACAGAAGCTCGTGAGAGCTAAACGGAAACTCATAAGAGTTA
Found at i:44721869 original size:21 final size:20
Alignment explanation
Indices: 44721803--44721870 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
44721793 TCATAAGGGT
44721803 TAAACAGAAGCTCGATAGAGC
1 TAAACAGAAGCTCG-TAGAGC
* * * * *
44721824 TGAACGGAAACTCATATGAGT
1 TAAACAGAAGCTCGTA-GAGC
44721845 TAAACAGAAGCTCGTGAGAGC
1 TAAACAGAAGCTCGT-AGAGC
44721866 TAAAC
1 TAAAC
44721871 GAAAAGTAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
20 2 0.06
21 32 0.91
22 1 0.03
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TAAACAGAAGCTCGTAGAGC
Found at i:44731599 original size:30 final size:31
Alignment explanation
Indices: 44731563--44731697 Score: 102
Period size: 30 Copynumber: 4.5 Consensus size: 31
44731553 TTAAAAAAAT
44731563 AAAAATTACATTTTAGCCCCTAA-ACTTTTC
1 AAAAATTACATTTTAGCCCCTAATACTTTTC
**
44731593 AAAAATTACATTTT-GACCCCTAATTTTTTTTC
1 AAAAATTACATTTTAG-CCCCTAA-TACTTTTC
* * * *
44731625 TAAATTTACATCTTAACCCCTAATA-TTTT-
1 AAAAATTACATTTTAGCCCCTAATACTTTTC
** **
44731654 GTAAATTACATTTGGGCCCCTAA-AC-TTTC
1 AAAAATTACATTTTAGCCCCTAATACTTTTC
*
44731683 TAGAAATTACATTTT
1 -AAAAATTACATTTT
44731698 GACCCCATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 14
0.72 0.15 0.12
Matches are distributed among these distances:
28 4 0.05
29 17 0.21
30 36 0.44
31 1 0.01
32 23 0.28
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.41
Consensus pattern (31 bp):
AAAAATTACATTTTAGCCCCTAATACTTTTC
Found at i:44731634 original size:32 final size:32
Alignment explanation
Indices: 44731563--44731653 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 32
44731553 TTAAAAAAAT
* * *
44731563 AAAAATTACATTTTAGCCCCTAA-A-CTTTTC
1 AAAAATTACATCTTAACCCCTAATATTTTTTC
* * *
44731593 AAAAATTACATTTTGACCCCTAATTTTTTTTC
1 AAAAATTACATCTTAACCCCTAATATTTTTTC
* *
44731625 TAAATTTACATCTTAACCCCTAATATTTT
1 AAAAATTACATCTTAACCCCTAATATTTT
44731654 GTAAATTACA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
30 21 0.42
32 29 0.58
ACGTcount: A:0.34, C:0.21, G:0.02, T:0.43
Consensus pattern (32 bp):
AAAAATTACATCTTAACCCCTAATATTTTTTC
Found at i:44732223 original size:4 final size:4
Alignment explanation
Indices: 44732207--44732262 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
44732197 CTGAACGGGG
* * * *
44732207 AAGA AAGA CAGA AAGAA AAAA AAGA AAGA AAGA AGGGA AA-A AAGA AAAA
1 AAGA AAGA AAGA AAG-A AAGA AAGA AAGA AAGA A-AGA AAGA AAGA AAGA
44732256 AAGA AAG
1 AAGA AAG
44732263 GGGGAAGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
3 3 0.07
4 32 0.78
5 6 0.15
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:44732233 original size:21 final size:21
Alignment explanation
Indices: 44732207--44732262 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
44732197 CTGAACGGGG
*
44732207 AAGAAAGACAGAAAGAAAAAA
1 AAGAAAGAAAGAAAGAAAAAA
**
44732228 AAGAAAGAAAG-AAGGGAAAA
1 AAGAAAGAAAGAAAGAAAAAA
*
44732248 AAGAAAAAAAGAAAG
1 AAGAAAGAAAGAAAG
44732263 GGGGAAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (21 bp):
AAGAAAGAAAGAAAGAAAAAA
Found at i:44732258 original size:24 final size:23
Alignment explanation
Indices: 44732207--44732284 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 23
44732197 CTGAACGGGG
** *
44732207 AAGAAAGACAGAAAGAAAAAAAAGA
1 AAGAAAGAGGGAAA-AAAGAAAA-A
44732232 AAGAAAGAAGGGAAAAAAGAAAAA
1 AAGAAAG-AGGGAAAAAAGAAAAA
* *
44732256 AAGAAAGGGGGAAGAAAGGGAAAAA
1 AAGAAAGAGGGAA-AAA-AGAAAAA
44732281 AAGA
1 AAGA
44732285 GAAAAAAAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 5 0.11
24 11 0.24
25 24 0.53
26 5 0.11
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.00
Consensus pattern (23 bp):
AAGAAAGAGGGAAAAAAGAAAAA
Found at i:44732377 original size:18 final size:18
Alignment explanation
Indices: 44732336--44732377 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
44732326 CTAGCAACCC
* *
44732336 GACCCGCAACACCCAGCA
1 GACCCACAACACCCAACA
44732354 GACCCACAACACCCAACA
1 GACCCACAACACCCAACA
*
44732372 GGCCCA
1 GACCCA
44732378 GTAGATTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.50, G:0.14, T:0.00
Consensus pattern (18 bp):
GACCCACAACACCCAACA
Found at i:44732588 original size:15 final size:15
Alignment explanation
Indices: 44732568--44732602 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
44732558 CCAATCTGAA
44732568 AAAAAAAGAAAAAAC
1 AAAAAAAGAAAAAAC
*
44732583 AAAAAAAGAGAAAAC
1 AAAAAAAGAAAAAAC
44732598 AAAAA
1 AAAAA
44732603 CAAAAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.86, C:0.06, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAC
Found at i:44733088 original size:18 final size:18
Alignment explanation
Indices: 44733051--44733403 Score: 226
Period size: 18 Copynumber: 19.9 Consensus size: 18
44733041 GAAAAAATCA
*
44733051 AAAAATTCTCGTG-TTT-
1 AAAAATTTTCGTGTTTTC
44733067 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
44733085 AAAAAATGTTCGTG-TTT-
1 -AAAAATTTTCGTGTTTTC
*
44733102 AAAAATTTTTGTG-TTTC
1 AAAAATTTTCGTGTTTTC
****
44733119 AAAAATCCAAGTGTTTTCC
1 AAAAATTTTCGTGTTTT-C
* * **
44733138 AAAAAAATTTCCGTGATTAA
1 --AAAAATTTTCGTGTTTTC
*
44733158 AAATAATTCTCGTGTTTTC
1 AAA-AATTTTCGTGTTTTC
* *
44733177 CAAAA-TTTC-TGTGTTTA
1 AAAAATTTTCGTGT-TTTC
*
44733194 AAAAATTTTCATGTTTTC
1 AAAAATTTTCGTGTTTTC
*
44733212 AAAAATTGTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
44733230 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* * *
44733248 AACAATTCTCGCG-TTTC
1 AAAAATTTTCGTGTTTTC
* *
44733265 ACAAATTTTCGTATTTT-
1 AAAAATTTTCGTGTTTTC
*** * * *
44733282 AATTTTTTTTGTTTTTTAA
1 AAAAATTTTCGTGTTTT-C
*
44733301 AAAAATTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* * *
44733318 AAAAATTGTCATGTTTTA
1 AAAAATTTTCGTGTTTTC
*
44733336 AAAAAATTTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
*
44733353 TAAAATTTTCGTGTTTT-
1 AAAAATTTTCGTGTTTTC
* * *
44733370 AACAATTCTAGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
44733388 AAAAATTCTCGTGTTT
1 AAAAATTTTCGTGTTT
44733404 AAAAAACTTT
Statistics
Matches: 255, Mismatches: 64, Indels: 34
0.72 0.18 0.10
Matches are distributed among these distances:
16 29 0.11
17 83 0.33
18 97 0.38
19 35 0.14
21 11 0.04
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:44733098 original size:35 final size:35
Alignment explanation
Indices: 44733048--44733403 Score: 205
Period size: 35 Copynumber: 10.0 Consensus size: 35
44733038 TAAGAAAAAA
44733048 TCAAAAAATTCTCGTGTTT-AAAAATTTTCGTGTTT
1 TCAAAAAATT-TCGTGTTTCAAAAATTTTCGTGTTT
*
44733083 TCAAAAAATGTTCGTGTTT-AAAAATTTTTGTG-TT
1 TCAAAAAAT-TTCGTGTTTCAAAAATTTTCGTGTTT
* * *
44733117 TC-AAAAA-TCCAAGTGTTTTCCAAAAAAATTTCCGTG-AT
1 TCAAAAAATTTC--GTG-TTT-C--AAAAATTTTCGTGTTT
* *
44733155 TAAAAATAATTCTCGTGTTTTCCAAAA-TTTC-TGTGTT
1 TCAAAA-AATT-TCGTG-TTTCAAAAATTTTCGTGT-TT
* *
44733192 T-AAAAAATTTTCATGTTTTCAAAAATTGTCGTGTTT
1 TCAAAAAA-TTTCGTG-TTTCAAAAATTTTCGTGTTT
* * * *
44733228 TCAAAAATTTTCGTGTTTTCAACAATTCTCGCG-TT
1 TCAAAAAATTTCGTG-TTTCAAAAATTTTCGTGTTT
* * * * *** * *
44733263 TCACAAATTTTCGTATTTTAATTTTTTTTGTTTTT
1 TCAAAAAATTTCGTGTTTCAAAAATTTTCGTGTTT
* * *
44733298 TAAAAAAATTCTCGTGTTTCAAAAATTGTCATGTTT
1 TCAAAAAATT-TCGTGTTTCAAAAATTTTCGTGTTT
* *
44733334 TAAAAAAATTTCGTGTTTCTAAAATTTTCGTGTTT
1 TCAAAAAATTTCGTGTTTCAAAAATTTTCGTGTTT
* * *
44733369 T--AACAATTCTAGTGTTTTCAAAAATTCTCGTGTTT
1 TCAAAAAATT-TCGTG-TTTCAAAAATTTTCGTGTTT
44733404 AAAAAACTTT
Statistics
Matches: 252, Mismatches: 47, Indels: 44
0.73 0.14 0.13
Matches are distributed among these distances:
31 2 0.01
33 14 0.06
34 20 0.08
35 111 0.44
36 63 0.25
37 14 0.06
38 13 0.05
39 4 0.02
40 9 0.04
41 1 0.00
42 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (35 bp):
TCAAAAAATTTCGTGTTTCAAAAATTTTCGTGTTT
Found at i:44733385 original size:52 final size:52
Alignment explanation
Indices: 44733302--44733403 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 52
44733292 GTTTTTTAAA
*
44733302 AAAATTCTCGTGTTTCAAAAATTGTCATGTTTTAAAAAAATT-TCGTGTTTCT
1 AAAATTCTCGTGTTTCAAAAATTCTCATGTTTT-AAAAAATTCTCGTGTTTCT
* * * *
44733354 AAAATTTTCGTGTTTTAACAATTCT-AGTGTTTTCAAAAATTCTCGTGTTT
1 AAAATTCTCGTGTTTCAAAAATTCTCA-TGTTTTAAAAAATTCTCGTGTTT
44733404 AAAAAACTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
51 8 0.19
52 35 0.81
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (52 bp):
AAAATTCTCGTGTTTCAAAAATTCTCATGTTTTAAAAAATTCTCGTGTTTCT
Found at i:44733409 original size:18 final size:17
Alignment explanation
Indices: 44733050--44733461 Score: 140
Period size: 18 Copynumber: 23.4 Consensus size: 17
44733040 AGAAAAAATC
44733050 AAAAAATTCTCGTGTTT
1 AAAAAATTCTCGTGTTT
*
44733067 -AAAAATTTTCGTGTTTT
1 AAAAAATTCTCGTG-TTT
44733084 CAAAAAATGT-TCGTGTTT
1 -AAAAAAT-TCTCGTGTTT
* *
44733102 -AAAAATTTTTGTGTTT
1 AAAAAATTCTCGTGTTT
* * **
44733118 CAAAAATCCAAGTGTTTT
1 AAAAAATTCTCGTG-TTT
*
44733136 CCAAAAAAATT-TCCGTGATTA
1 ---AAAAAATTCT-CGTG-TTT
44733157 AAAATAATTCTCGTGTTTT
1 AAAA-AATTCTCGTG-TTT
**
44733176 CCAAAATT-TCTGTGTTT
1 AAAAAATTCTC-GTGTTT
* *
44733193 AAAAAATTTTCATGTTTT
1 AAAAAATTCTCGTG-TTT
* *
44733211 CAAAAATTGTCGTGTTTT
1 AAAAAATTCTCGTG-TTT
* *
44733229 CAAAAATTTTCGTGTTTT
1 AAAAAATTCTCGTG-TTT
* * *
44733247 CAACAATTCTCGCGTTT
1 AAAAAATTCTCGTGTTT
* * * *
44733264 CACAAATTTTCGTATTT
1 AAAAAATTCTCGTGTTT
* *** * * *
44733281 TAATTTTTTTTGTTTTTT
1 AAAAAATTCTCG-TGTTT
44733299 AAAAAAATTCTCGTGTTT
1 -AAAAAATTCTCGTGTTT
* * *
44733317 CAAAAATTGTCATGTTTT
1 AAAAAATTCTCGTG-TTT
44733335 AAAAAAATT-TCGTGTTT
1 -AAAAAATTCTCGTGTTT
** *
44733352 CTAAAATTTTCGTGTTT
1 AAAAAATTCTCGTGTTT
* * *
44733369 TAACAATTCTAGTGTTTT
1 AAAAAATTCTCGTG-TTT
*
44733387 CAAAAATTCTCGTGTTT
1 AAAAAATTCTCGTGTTT
* *
44733404 AAAAAACTT-TCATTTTTTT
1 AAAAAA-TTCTC--GTGTTT
* *
44733423 TAAAAATTC-CGTGCTT
1 AAAAAATTCTCGTGTTT
*
44733439 -CAAAATTCTCGTGTTTT
1 AAAAAATTCTCGTG-TTT
44733456 AAAAAA
1 AAAAAA
44733462 AATCCTCGTG
Statistics
Matches: 296, Mismatches: 70, Indels: 57
0.70 0.17 0.13
Matches are distributed among these distances:
15 8 0.03
16 38 0.13
17 89 0.30
18 103 0.35
19 45 0.15
20 2 0.01
21 11 0.04
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.45
Consensus pattern (17 bp):
AAAAAATTCTCGTGTTT
Found at i:44741807 original size:18 final size:18
Alignment explanation
Indices: 44741784--44741819 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
44741774 CTCGGGAAGA
44741784 AAGAGAGCATGTTGGGAG
1 AAGAGAGCATGTTGGGAG
44741802 AAGAGAGCATGTTGGGAG
1 AAGAGAGCATGTTGGGAG
44741820 TCTGAGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.44, T:0.17
Consensus pattern (18 bp):
AAGAGAGCATGTTGGGAG
Found at i:44744408 original size:15 final size:15
Alignment explanation
Indices: 44744388--44744455 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
44744378 TATTATGCCT
44744388 AAAAAAACAAAACAA
1 AAAAAAACAAAACAA
*
44744403 AAAAAAACAAGA-AA
1 AAAAAAACAAAACAA
* **
44744417 CAAAAATGAAAACAA
1 AAAAAAACAAAACAA
* *
44744432 AAAAGAAAGAAAAGAA
1 AAAA-AAACAAAACAA
44744448 AAAGAAAA
1 AAA-AAAA
44744456 ATCAAGATGA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
14 10 0.24
15 16 0.38
16 15 0.36
17 1 0.02
ACGTcount: A:0.82, C:0.07, G:0.09, T:0.01
Consensus pattern (15 bp):
AAAAAAACAAAACAA
Found at i:44744420 original size:22 final size:21
Alignment explanation
Indices: 44744388--44744456 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 21
44744378 TATTATGCCT
44744388 AAAA-AAACAAAACAAAAA-AA
1 AAAAGAAACAAAA-AAAAACAA
44744408 AACAAGAAACAAAAATGAAAACAA
1 AA-AAGAAACAAAAA--AAAACAA
* *
44744432 AAAAGAAAGAAAAGAAAAAGAA
1 AAAAGAAACAAAA-AAAAACAA
44744454 AAA
1 AAA
44744457 TCAAGATGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
20 2 0.05
21 3 0.07
22 17 0.41
23 14 0.34
24 5 0.12
ACGTcount: A:0.83, C:0.07, G:0.09, T:0.01
Consensus pattern (21 bp):
AAAAGAAACAAAAAAAAACAA
Found at i:44744429 original size:12 final size:12
Alignment explanation
Indices: 44744391--44744439 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
44744381 TATGCCTAAA
44744391 AAAACAAAACAA-
1 AAAACAAAA-AAG
*
44744403 AAAA-AAACAAG
1 AAAACAAAAAAG
*
44744414 -AAACAAAAATG
1 AAAACAAAAAAG
44744425 AAAACAAAAAAG
1 AAAACAAAAAAG
44744437 AAA
1 AAA
44744440 GAAAAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
10 5 0.17
11 8 0.27
12 17 0.57
ACGTcount: A:0.82, C:0.10, G:0.06, T:0.02
Consensus pattern (12 bp):
AAAACAAAAAAG
Found at i:44744449 original size:27 final size:29
Alignment explanation
Indices: 44744389--44744455 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 29
44744379 ATTATGCCTA
*
44744389 AAAAAACAAAACAAAAAAAAACAAGAAAC
1 AAAAAAGAAAACAAAAAAAAACAAGAAAC
* *
44744418 AAAAATGAAAAC-AAAAAAGA-AAGAAA-
1 AAAAAAGAAAACAAAAAAAAACAAGAAAC
44744444 AGAAAAAGAAAA
1 A-AAAAAGAAAA
44744456 ATCAAGATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 1 0.03
27 15 0.45
28 7 0.21
29 10 0.30
ACGTcount: A:0.82, C:0.07, G:0.09, T:0.01
Consensus pattern (29 bp):
AAAAAAGAAAACAAAAAAAAACAAGAAAC
Found at i:44745431 original size:75 final size:73
Alignment explanation
Indices: 44745306--44745967 Score: 560
Period size: 75 Copynumber: 8.7 Consensus size: 73
44745296 CAAGAAATAT
** * * *
44745306 TTTTCAATTTCTGTTTTAAAAAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTTGGGCAA
1 TTTTCAATTTCTGTTTT--TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGC-C
* **
44745371 ATGCCAAGGTA
63 ACGCTGAGGTA
* * * *
44745382 TTTCTCAATTTCTGTTTTTCAAAAATTAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGCCAC
1 TTT-TCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCCAC
44745447 GCTGAGGTA
65 GCTGAGGTA
* * *
44745456 TTTTCAATTTCTGCTTTTCAAAAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGTTTTTC-AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCCA
44745521 CGCTGAGGTA
64 CGCTGAGGTA
** * * *
44745531 -TTTCAATTTCAATTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCT
1 TTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGGC-
*
44745595 CATGCTGAGGTA
62 CACGCTGAGGTA
* * * * *
44745607 TATTTTAATTTCTATTTTCCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGA-CTCTTGGATC
1 T-TTTCAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC-CTTGG-GC
* *
44745671 ACACACTGAGGTTTTTTT
62 -CACGCTGAGG-----TA
* *
44745689 TTCTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCTG
1 TT-TTCAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGC--
* *
44745754 CACACCGAGGTA
62 CACGCTGAGGTA
*** * *
44745766 TCTTT-AATTTCT-TTTTTTTTAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGCTAT
1 T-TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGC--C
*
44745829 ACACTGAGGTA
63 ACGCTGAGGTA
* * * * *
44745840 TTTTTAATTTATGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGTCTTGGGTCATA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGG-C-CA
*
44745905 TGCTGAGGTA
64 CGCTGAGGTA
* * ** * *
44745915 TTTTTCAATTTATATTTTTCAAAGCTCAACTCATAATT-TGAGAAGTGAGTTGA
1 -TTTTCAATTTCTGTTTTTCAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGA
44745968 ACTTTGGATT
Statistics
Matches: 494, Mismatches: 68, Indels: 48
0.81 0.11 0.08
Matches are distributed among these distances:
73 18 0.04
74 118 0.24
75 148 0.30
76 65 0.13
77 65 0.13
78 16 0.03
81 2 0.00
82 61 0.12
83 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCCACG
CTGAGGTA
Found at i:44753051 original size:27 final size:25
Alignment explanation
Indices: 44752980--44753072 Score: 80
Period size: 25 Copynumber: 3.6 Consensus size: 25
44752970 GCACACCATA
* * *
44752980 GCTCTTATGAGCGTCCCGA-TATATG
1 GCTCTTTTGAGCTTCCCGATTA-AAG
* **
44753005 GCTCTTTGGAGCTTTTCGATTAAAG
1 GCTCTTTTGAGCTTCCCGATTAAAG
* *
44753030 GCTTTTTCATGAGCTTCCCGATTAATG
1 GCTCTTT--TGAGCTTCCCGATTAAAG
44753057 GCTCTTTTGAGCTTCC
1 GCTCTTTTGAGCTTCC
44753073 TAATATTTGG
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
25 31 0.58
26 2 0.04
27 20 0.38
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (25 bp):
GCTCTTTTGAGCTTCCCGATTAAAG
Found at i:44760879 original size:3 final size:3
Alignment explanation
Indices: 44760865--44760930 Score: 87
Period size: 3 Copynumber: 22.0 Consensus size: 3
44760855 TACAAAGCGG
* * * *
44760865 TAA TAG TAA TAA TAA TAA CAA TAG TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
44760913 TAA TAC TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
44760931 AATTTAAATA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:44760894 original size:15 final size:15
Alignment explanation
Indices: 44760874--44760957 Score: 100
Period size: 15 Copynumber: 5.7 Consensus size: 15
44760864 GTAATAGTAA
*
44760874 TAATAATAACAATAG
1 TAATAATAATAATAG
44760889 TAATAATAATAATAG
1 TAATAATAATAATAG
*
44760904 TAATAATAATAATAC
1 TAATAATAATAATAG
* *
44760919 TAATAATAATAAAAT
1 TAATAATAATAATAG
* *
44760934 TTA-AAT-ATAATGG
1 TAATAATAATAATAG
44760947 TAATAATAATA
1 TAATAATAATA
44760958 GTAACAAAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
13 6 0.10
14 6 0.10
15 46 0.79
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (15 bp):
TAATAATAATAATAG
Found at i:44762940 original size:131 final size:131
Alignment explanation
Indices: 44762770--44763222 Score: 719
Period size: 131 Copynumber: 3.5 Consensus size: 131
44762760 AACTTCAGGG
** * * * * *
44762770 AGATAAGATTTTCCCTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAATATCTGCAATTTCCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAATTTCCA
*
44762835 ACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTAGGG
66 ACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGG
44762900 A
131 A
*
44762901 AGATAAGATTCGTCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAATTTCCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAATTTCCA
* *
44762966 ACCTATTCCACTACTGGTCAGGAACATAGGACTTGTGGCTTAAATCTGTTTCCCT-CTTCCTGGG
66 ACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTAC-TCCTGGG
44763030 GA
130 GA
*
44763032 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTCAGGGAGATAAGATCTGCAATTTCCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAATTTCCA
*
44763097 ACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCTTGGGG
66 ACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGG
44763162 A
131 A
* * * * * *
44763163 AGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCCTAAGGAGATAAGATCTACAAT
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAAT
44763223 ATTCACTGAT
Statistics
Matches: 297, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
130 1 0.00
131 295 0.99
132 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (131 bp):
AGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAATTTCCA
ACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGG
A
Found at i:44764467 original size:6 final size:7
Alignment explanation
Indices: 44764451--44764484 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
44764441 CCGTCATTAC
44764451 TTTTCAT
1 TTTTCAT
44764458 TTTTCA-
1 TTTTCAT
44764464 TTTTCAT
1 TTTTCAT
44764471 TTTTCAT
1 TTTTCAT
44764478 TTTTCAT
1 TTTTCAT
44764485 CCCTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:44764469 original size:13 final size:13
Alignment explanation
Indices: 44764451--44764480 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
44764441 CCGTCATTAC
44764451 TTTTCATTTTTCA
1 TTTTCATTTTTCA
44764464 TTTTCATTTTTCA
1 TTTTCATTTTTCA
44764477 TTTT
1 TTTT
44764481 TCATCCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:44770734 original size:3 final size:3
Alignment explanation
Indices: 44770720--44770797 Score: 88
Period size: 3 Copynumber: 26.7 Consensus size: 3
44770710 TACAAAACGG
* *
44770720 TAA TAG TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
44770768 TGA -AA T-T TAA TTA TAA TGA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
44770798 GTAACAAAAC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:44772720 original size:13 final size:13
Alignment explanation
Indices: 44772700--44772731 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
44772690 GATAATATTA
44772700 ATTTTTTTATTTTT
1 ATTTTTTTA-TTTT
44772714 ATTTTTTTATTTT
1 ATTTTTTTATTTT
44772727 ATTTT
1 ATTTT
44772732 GAATAATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTTTATTTT
Found at i:44772999 original size:18 final size:18
Alignment explanation
Indices: 44772976--44773020 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
44772966 ATAAAGTCAT
44772976 TAAAAATTATAAAAT-TA
1 TAAAAATTATAAAATATA
* *
44772993 TAGAAAATCATAAGATATA
1 TA-AAAATTATAAAATATA
44773012 TAAAAATTA
1 TAAAAATTA
44773021 GGCTTAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 2 0.09
18 17 0.74
19 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
TAAAAATTATAAAATATA
Found at i:44773313 original size:20 final size:20
Alignment explanation
Indices: 44773284--44773327 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
44773274 AATTTTTTAA
* *
44773284 AAAATGTTTTTCAA-AAAAT
1 AAAATCTTTTTTAACAAAAT
*
44773303 AAAATCTTTTTTAACTAAAT
1 AAAATCTTTTTTAACAAAAT
44773323 AAAAT
1 AAAAT
44773328 GTGCATGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAATCTTTTTTAACAAAAT
Found at i:44773421 original size:27 final size:27
Alignment explanation
Indices: 44773391--44773446 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
44773381 CTAAAAAAAT
44773391 ATTAAAATTTATTTAAAAAATTCTACA
1 ATTAAAATTTATTTAAAAAATTCTACA
44773418 ATTAAAATTTATTTAAAAAATTCTACA
1 ATTAAAATTTATTTAAAAAATTCTACA
44773445 AT
1 AT
44773447 ATATATAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (27 bp):
ATTAAAATTTATTTAAAAAATTCTACA
Found at i:44773488 original size:16 final size:17
Alignment explanation
Indices: 44773457--44773491 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
44773447 ATATATAGAT
44773457 TTCAAATGTAAAAAAAC
1 TTCAAATGTAAAAAAAC
44773474 TTCAAATGTAAAAAAAC
1 TTCAAATGTAAAAAAAC
44773491 T
1 T
44773492 CTAATCTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (17 bp):
TTCAAATGTAAAAAAAC
Found at i:44776356 original size:3 final size:3
Alignment explanation
Indices: 44776348--44776389 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
44776338 ATTCCCACTC
*
44776348 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44776390 CTTACCTCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:44777154 original size:14 final size:14
Alignment explanation
Indices: 44777117--44777169 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
44777107 CTTCTATTCT
* *
44777117 TTTATTTTAACTTAC
1 TTTATTTT-ATTTCC
*
44777132 TTTACTTTATTTCC
1 TTTATTTTATTTCC
*
44777146 TTTATTTTATTTCT
1 TTTATTTTATTTCC
44777160 TTTATGTTTA
1 TTTAT-TTTA
44777170 ATTAATTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTATTTTATTTCC
Found at i:44777482 original size:14 final size:13
Alignment explanation
Indices: 44777447--44777483 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
44777437 TCTTTTAATT
44777447 TAATAATAACTAA
1 TAATAATAACTAA
44777460 TAACTAATAACTAA
1 TAA-TAATAACTAA
44777474 TAATGAATAA
1 TAAT-AATAA
44777484 TAAATATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (13 bp):
TAATAATAACTAA
Found at i:44777489 original size:7 final size:7
Alignment explanation
Indices: 44777450--44777476 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
44777440 TTTAATTTAA
44777450 TAATAAC
1 TAATAAC
44777457 TAATAAC
1 TAATAAC
44777464 TAATAAC
1 TAATAAC
44777471 TAATAA
1 TAATAA
44777477 TGAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (7 bp):
TAATAAC
Found at i:44778846 original size:18 final size:17
Alignment explanation
Indices: 44778823--44778857 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44778813 AAACAAATAT
*
44778823 TTTAAAATATATAATAAA
1 TTTAAAAAATAT-ATAAA
44778841 TTTAAAAAATATATAAA
1 TTTAAAAAATATATAAA
44778858 AAAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TTTAAAAAATATATAAA
Found at i:44778859 original size:44 final size:45
Alignment explanation
Indices: 44778800--44778893 Score: 122
Period size: 47 Copynumber: 2.1 Consensus size: 45
44778790 CCTAATTCTA
44778800 AAAAAATATAAAAAAACAAATATTTT-AAAA-TAT-ATAATAAATTT
1 AAAAAATAT-AAAAAA-AAATATTTTAAAAATTATAATAATAAATTT
*
44778844 AAAAAATATATAAAAAAATATTTTGAAAAAATTATAATAATAAATTT
1 AAAAAATATAAAAAAAAATATTTT--AAAAATTATAATAATAAATTT
44778891 AAA
1 AAA
44778894 TTTTATATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
42 9 0.20
43 5 0.11
44 9 0.20
45 4 0.09
46 3 0.07
47 14 0.32
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (45 bp):
AAAAAATATAAAAAAAAATATTTTAAAAATTATAATAATAAATTT
Found at i:44778890 original size:24 final size:23
Alignment explanation
Indices: 44778826--44778890 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
44778816 CAAATATTTT
44778826 AAAA-TAT-ATAATAAA-TTTAA
1 AAAATTATAATAATAAATTTTAA
*
44778846 AAAATATATAA-AAAAATATTTTGAA
1 AAAAT-TATAATAATAA-ATTTT-AA
44778871 AAAATTATAATAATAAATTT
1 AAAATTATAATAATAAATTT
44778891 AAATTTTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
20 4 0.11
22 7 0.19
23 2 0.06
24 12 0.33
25 11 0.31
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
AAAATTATAATAATAAATTTTAA
Found at i:44778907 original size:6 final size:6
Alignment explanation
Indices: 44778898--44778925 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
44778888 TTTAAATTTT
44778898 ATATTA ATATTA ATATTA ATATTA ATAT
1 ATATTA ATATTA ATATTA ATATTA ATAT
44778926 AAAATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:44783713 original size:156 final size:156
Alignment explanation
Indices: 44783495--44784417 Score: 1419
Period size: 156 Copynumber: 5.9 Consensus size: 156
44783485 TACATTGTTT
44783495 AGTGAAGAACAACACGAGGCAATAATGTTACACTGA-ATGCAACTATGTATTGCAAAGTGTTTCA
1 AGTGAAGAACAACACGAGGCAATAATGTTACACT-ACATGCAACTATGTATTGCAAAGTGTTTCA
44783559 CTTTTGCCAAGTGATAAGAGAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCA
65 CTTTTGCCAAGTGATAAGAGAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCA
44783624 ATTTTATAGAAAATATCGTCGTCTTTC
130 ATTTTATAGAAAATATCGTCGTCTTTC
*
44783651 AGTGAAGAACAACACGAGGCAATAATGTTACACTACATGCAACTATGTATTACAAAGTGTTTCAC
1 AGTGAAGAACAACACGAGGCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTCAC
* * * * **
44783716 TTTTTCCAAGTGATTAGAGATATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGAATCGCTGA
66 TTTTGCCAAGTGATAAGAGAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAA
44783781 TTTTATAGAAAATA---TCGTCTTTC
131 TTTTATAGAAAATATCGTCGTCTTTC
*
44783804 AGTGAAGAACAACACGAGGCAATAATGTTACACAACATGCAACTATGTATTGCAAAGTGTTTCAC
1 AGTGAAGAACAACACGAGGCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTCAC
* * **
44783869 TTTTTCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCATCAA
66 TTTTGCCAAGTGATAAGAGAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAA
*
44783934 TTTTATAGAAAATATTGTCGTCTTTC
131 TTTTATAGAAAATATCGTCGTCTTTC
* * * *
44783960 AATGAAGAACAACGCGAGGCAATAATGTTACATTACATGCAACTATTTATTGCAAAGTGTTTCAC
1 AGTGAAGAACAACACGAGGCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTCAC
* * *
44784025 TTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGA
66 TTTTGCCAAGTGATAAGAGAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAA
* *
44784090 TTTTATAGAGAATATCGCCGTCTTTC
131 TTTTATAGAAAATATCGTCGTCTTTC
* * * *
44784116 AATGTAA-AACAACACGAGGCAATAATGTTACATTGCATGTAACTATGTATTGCAAAGTGTTTCA
1 AGTG-AAGAACAACACGAGGCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTCA
* *
44784180 CTTTTGCCAAGTGATAA-AAAAATTTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCC
65 CTTTTGCCAAGTGATAAGAGAAA-TTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCC
*
44784244 AATTTTATAGAAAATATCGTTGTCTTTC
129 AATTTTATAGAAAATATCGTCGTCTTTC
* * * *
44784272 AGTGAAGAACAACGCGAGGTAATAATGTTACACTACATACAACTATGTATTGCAAGGTGTTTCAC
1 AGTGAAGAACAACACGAGGCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTCAC
* ***
44784337 TTTTGCCAAGTGATAAAAG-AATTTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGTTG
66 TTTTGCCAAGTGATAAGAGAAATTT-CAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCA
*
44784401 ATTTTACAGAAAATATC
130 ATTTTATAGAAAATATC
44784418 ATCTTTCTGC
Statistics
Matches: 702, Mismatches: 56, Indels: 18
0.90 0.07 0.02
Matches are distributed among these distances:
153 143 0.20
155 10 0.01
156 546 0.78
157 3 0.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (156 bp):
AGTGAAGAACAACACGAGGCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTCAC
TTTTGCCAAGTGATAAGAGAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAA
TTTTATAGAAAATATCGTCGTCTTTC
Found at i:44784478 original size:134 final size:134
Alignment explanation
Indices: 44784296--44784551 Score: 386
Period size: 134 Copynumber: 1.9 Consensus size: 134
44784286 CGAGGTAATA
* * * *
44784296 ATGTTACACTACATACAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTT
1 ATGTTACACTACATACAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAATAATAAAAGAAATT
* **
44784361 CCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGTTGATTTTACAGAAAATATCATCTTTCT
66 CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTACAGAAAATATCATCTTTCT
44784426 GCAC
131 GCAC
* * * * *
44784430 ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATT
1 ATGTTACACTACATACAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAATAATAAAAGAAATT
* *
44784495 CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAGAGAATATC
66 CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTACAGAAAATATC
44784552 GCCGTCTTTC
Statistics
Matches: 108, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
134 108 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.34
Consensus pattern (134 bp):
ATGTTACACTACATACAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAATAATAAAAGAAATT
CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTACAGAAAATATCATCTTTCT
GCAC
Found at i:44784660 original size:156 final size:156
Alignment explanation
Indices: 44784430--44784863 Score: 638
Period size: 156 Copynumber: 2.8 Consensus size: 156
44784420 CTTTCTGCAC
* * * * *
44784430 ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATT
1 ATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAAAAAATT
* * *
44784495 CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAGAGAATATCGCCGTCTT
66 TCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTATAGAAAATATCGCCGTCTT
44784560 TCAATGTAA-AACAACACGAGGCAATA
131 TCAATG-AAGAACAACACGAGGCAATA
*
44784586 ATGTTACATTGCATGTAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAAAAAATT
1 ATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAAAAAATT
* * **
44784651 TCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAATTTTATAGAAAATATCGTTGTCTT
66 TCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTATAGAAAATATCGCCGTCTT
* *
44784716 TCAATGAAGAACAACGCGAGGTAATA
131 TCAATGAAGAACAACACGAGGCAATA
* * * * *
44784742 ATGTTACACTACATACAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGAT-AAAAGAATT
1 ATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAAAAAATT
* *
44784806 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCTGATTTTACAGAAAATATC
66 T-CAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTATAGAAAATATC
44784864 ATCTTTCTGC
Statistics
Matches: 251, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
155 11 0.04
156 240 0.96
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (156 bp):
ATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAAAAAATT
TCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTATAGAAAATATCGCCGTCTT
TCAATGAAGAACAACACGAGGCAATA
Found at i:44784660 original size:290 final size:296
Alignment explanation
Indices: 44784139--44785735 Score: 1668
Period size: 290 Copynumber: 5.3 Consensus size: 296
44784129 ACGAGGCAAT
* *
44784139 AATGTTACATTGCATGTAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAA-AAAAAT
1 AATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAA-
* * * **
44784203 TTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAATTTTATAGAAAATATCGTTGTC
65 TTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTATAGAAAATATCGCCGTC
* * * * * *
44784268 TTTCAGTGAAGAACAACGCGAGGTAATAATGTTACACTACATACAACTATGTATTGCAAGGTGTT
130 TTTCAATGAA-AACAACACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTT
*
44784333 TCACTTTTGCCAAGTGAT-AAAAGAATTTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTC
194 TCACTTTTGCCAAGTGATAAAAAAAATTT-CAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTC
**
44784397 GTTGATTTTACAGAAAATATC-ATCTTTC-T-G-C-A-C
258 GCCGATTTTACAGAAAATATCGATCTTTCATAGACAAGC
* * *
44784430 -ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAAT
1 AATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAAT
* *
44784494 TCCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAGAGAATATCGCCGTCT
66 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTATAGAAAATATCGCCGTCT
* *
44784559 TTCAATGTAAAACAACACGAGGCAATAATGTTACATTGCATGTAACTATGTATTGCAAAGTGTTT
131 TTCAATG-AAAACAACACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTT
*
44784624 CACTTTTGCCAAGTGATAAAAAAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGC
195 CACTTTTGCCAAGTGATAAAAAAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGC
* * *
44784689 CAATTTTATAGAAAATATCGTTGTCTTTCAATGAAGAACAACGC
260 CGATTTTACAGAAAATATCG--ATCTTTC-AT--AG-ACAA-GC
* * * *
44784733 GAGGTAATAATGTTACACTACATACAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATA
1 --------AATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATA
* * * *
44784798 AAAGAATTTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCTGATTTTACAGAAAATAT
58 AGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTATAGAAAATAT
* * *
44784863 ---CATCTTTC--TG---------C-A--C----ATGTTACATTGCATGCAACTATGTGTTGCAA
123 CGCCGTCTTTCAATGAAAACAACACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAA
* * * * * *
44784907 AGTGTTTCACTTTTGCCAAATAATAAGAGAAATTCCAAAAGAAAAATCTAATATCTTTAAAAGTA
188 AGTGTTTCACTTTTGCCAAGTGATAAAAAAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTA
* * *
44784972 GATTCGCCGATTTTATAAAAAATATCGCGGTCTTTCAATGCAGAGCAACACAAGTC
253 GATTCGCCGATTTTACAGAAAATAT--CGATCTTTC-AT----AG----ACAAG-C
* *
44785028 AATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAAGTGATAAAGAG
1 ---AATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGAT-AAGAG
* * * * **
44785093 AAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAAAAAATATCGTT
62 AAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTATAGAAAATATCGCC
* * *
44785158 GTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGCAAGGT
127 GTCTTTCAATGAA-AACAACACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGT
*
44785223 GTTTCACTTTTGCCAAGTGAT-AAAAGAATTTCCAAAAGAAAAATCTAATGTCTTTAAAAAGTAG
191 GTTTCACTTTTGCCAAGTGATAAAAAAAATTT-CAAAAGAAAAATCTAATGTCTTT-AAAAGTAG
*
44785287 ATTCGCTGATTTTACAGAAAATATC-ATCTTTC-T-G-C-A-C
254 ATTCGCCGATTTTACAGAAAATATCGATCTTTCATAGACAAGC
* * *
44785324 -ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAAT
1 AATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAAT
* * * *
44785388 TTCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCT
66 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTATAGAAAATATCGCCGTCT
* * * * *
44785453 TTCAATGCAGAGCAACACAAGTCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTT
131 TTCAATG-AAAACAACACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTT
* * *
44785518 CGCTTTTGCCAAGTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCG
195 CACTTTTGCCAAGTGATAAA-AAAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCG
* * * *
44785583 CGGGTTTTACAAAAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGAC
259 CCGATTTTACAGAAAATATCG--ATCTTTCA-T--AG----ACA--AG-C
* * *
44785633 AATAATGTTACACTGCATGCAACTATGTATTGCAAGGTGTTTCACTTTTTCCAAGTGATAAGAGA
1 ---AATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGA
* * *
44785698 AATTTCAAAAAAAAAATCTAATGTCTTTAAAAATAGAT
63 AATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGAT
44785736 GTAATGGCCC
Statistics
Matches: 1107, Mismatches: 116, Indels: 144
0.81 0.08 0.11
Matches are distributed among these distances:
290 409 0.37
291 245 0.22
292 80 0.07
293 11 0.01
294 14 0.01
295 6 0.01
296 5 0.00
297 1 0.00
298 2 0.00
299 2 0.00
300 1 0.00
301 1 0.00
303 1 0.00
304 2 0.00
306 1 0.00
307 4 0.00
309 10 0.01
311 6 0.01
312 115 0.10
313 162 0.15
314 29 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (296 bp):
AATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAAT
TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTATAGAAAATATCGCCGTCT
TTCAATGAAAACAACACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTC
ACTTTTGCCAAGTGATAAAAAAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCC
GATTTTACAGAAAATATCGATCTTTCATAGACAAGC
Found at i:44784817 original size:446 final size:447
Alignment explanation
Indices: 44783984--44785735 Score: 2907
Period size: 446 Copynumber: 3.9 Consensus size: 447
44783974 CGAGGCAATA
* * * * *
44783984 ATGTTACATTACATGCAACTATTTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATT
1 ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATT
* *
44784049 CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAGAGAATATCGCCGTCTT
66 CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCCGTCTT
* * * *
44784114 TCAATGTAAAACAACACGAGGCAATAATGTTACATTGCATGTAACTATGTATTGCAAAGTGTTTC
131 TCAATGCAAAACAACACAAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTC
* * *
44784179 ACTTTTGCCAAGTGATAAA-AAAATTTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGC
196 ACTTTTGCCAAGTGATAAAGAAAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGC
* * * **
44784243 CAATTTTATAGAAAATATCGTTGTCTTTCAGTGAAGAACAACGCGAGGTAATAATGTTACACTAC
261 CAATTTTACAAAAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTAC
44784308 ATACAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAA
326 ATACAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAA
*
44784373 TCTAATGTCTTTAAAAGTAGATTCGTTGATTTTACAGAAAATATCATCTTTCTGCAC
391 TCTAATGTCTTTAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCAC
44784430 ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATT
1 ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATT
* *
44784495 CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAGAGAATATCGCCGTCTT
66 CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCCGTCTT
* * * *
44784560 TCAATGTAAAACAACACGAGGCAATAATGTTACATTGCATGTAACTATGTATTGCAAAGTGTTTC
131 TCAATGCAAAACAACACAAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTC
* *
44784625 ACTTTTGCCAAGTGATAAA-AAAAATTTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGC
196 ACTTTTGCCAAGTGATAAAGAAAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGC
* * * * **
44784689 CAATTTTATAGAAAATATCGTTGTCTTTCAATGAAGAACAACGCGAGGTAATAATGTTACACTAC
261 CAATTTTACAAAAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTAC
44784754 ATACAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAA
326 ATACAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAA
44784819 TCTAATGTCTTTAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCAC
391 TCTAATGTCTTTAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCAC
44784876 ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATT
1 ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATT
*
44784941 CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTT
66 CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCCGTCTT
* * *
44785006 TCAATGCAGAGCAACACAAGTCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTC
131 TCAATGCAAAACAACACAAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTC
* *
44785071 GCTTTTGCCAAGTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGC
196 ACTTTTGCCAAGTGATAAAGAAAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGC
*** *
44785136 GGGTTTTACAAAAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGC
261 CAATTTTACAAAAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTAC
*
44785201 ATGCAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAA
326 ATACAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAA
44785266 TCTAATGTCTTTAAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCAC
391 TCTAATGTCTTT-AAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCAC
44785324 ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATT
1 ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATT
* *
44785389 TCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTT
66 CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCCGTCTT
* * * *
44785454 TCAATGCAGAGCAACACAAGTCAATAATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTC
131 TCAATGCAAAACAACACAAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTC
* *
44785519 GCTTTTGCCAAGTGATAAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGC
196 ACTTTTGCCAAGTGATAAAGAAAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGC
*** *
44785584 GGGTTTTACAAAAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTGC
261 CAATTTTACAAAAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTAC
* * * *
44785649 ATGCAACTATGTATTGCAAGGTGTTTCACTTTTTCCAAGTGATAAGAGAAATTT-CAAAAAAAAA
326 ATACAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAG-AATTTCCAAAAGAAAA
*
44785713 ATCTAATGTCTTTAAAAATAGAT
390 ATCTAATGTCTTTAAAAGTAGAT
44785736 GTAATGGCCC
Statistics
Matches: 1264, Mismatches: 39, Indels: 5
0.97 0.03 0.00
Matches are distributed among these distances:
446 641 0.51
447 182 0.14
448 436 0.34
449 5 0.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (447 bp):
ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATT
CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCCGTCTT
TCAATGCAAAACAACACAAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTC
ACTTTTGCCAAGTGATAAAGAAAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGC
CAATTTTACAAAAAATATCGTTGTCTTTCAGTGAAGAACAACACGAGACAATAATGTTACACTAC
ATACAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTTCCAAAAGAAAAA
TCTAATGTCTTTAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCTGCAC
Found at i:44784943 original size:134 final size:134
Alignment explanation
Indices: 44784742--44784997 Score: 395
Period size: 134 Copynumber: 1.9 Consensus size: 134
44784732 CGAGGTAATA
* * * *
44784742 ATGTTACACTACATACAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAAAGAATTT
1 ATGTTACACTACATACAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAATAATAAAAGAAATT
* * *
44784807 CCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCTGATTTTACAGAAAATATCATCTTTCT
66 CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCATCTTTCT
44784872 GCAC
131 GCAC
* * * * *
44784876 ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATT
1 ATGTTACACTACATACAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAATAATAAAAGAAATT
*
44784941 CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATC
66 CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATC
44784998 GCGGTCTTTC
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
134 109 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (134 bp):
ATGTTACACTACATACAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAATAATAAAAGAAATT
CCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCATCTTTCT
GCAC
Found at i:44785130 original size:157 final size:157
Alignment explanation
Indices: 44784876--44785311 Score: 669
Period size: 157 Copynumber: 2.8 Consensus size: 157
44784866 CTTTCTGCAC
* * * *
44784876 ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAAT-AAGAGAAAT
1 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAGAGAAAT
* *
44784940 TCCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCT
66 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCGCGGTCT
* * *
44785005 TTCAATGCAGAGCAACACAAGTCAATA
131 TTCAATGAAGAACAACACAAGACAATA
*
44785032 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAAGTGATAAAGAGAAAT
1 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAGAGAAAT
* * **
44785097 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAAAAAATATCGTTGTCT
66 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCGCGGTCT
* *
44785162 TTCAGTGAAGAACAACACGAGACAATA
131 TTCAATGAAGAACAACACAAGACAATA
* *
44785189 ATGTTACACTGCATGCAACTATGTATTGCAAGGTGTTTCACTTTTGCCAAGTGATAAA-AGAATT
1 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAGAGAAAT
* *
44785253 TCCAAAAGAAAAATCTAATGTCTTTAAAAAGTAGATTCGCTGATTTTACAGAAAATATC
66 TCCAAAAGAAAAATCTAATGTCTTT-AAAAGTAGATTCGCCGATTTTACAAAAAATATC
44785312 ATCTTTCTGC
Statistics
Matches: 256, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
156 80 0.31
157 176 0.69
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (157 bp):
ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAAGAGAAAT
TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCGCGGTCT
TTCAATGAAGAACAACACAAGACAATA
Found at i:44785610 original size:157 final size:156
Alignment explanation
Indices: 44785324--44785735 Score: 617
Period size: 157 Copynumber: 2.6 Consensus size: 156
44785314 CTTTCTGCAC
* * * *
44785324 ATGTTACATTGCATGCAACTATGTGTTGCAAAGTGTTTCACTTTTGCCAAATAATAAGAGAAATT
1 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATT
* *
44785389 TCAAAAGAAAAATCTAATATCTTTAAAAGTAGATTCGCCGATTTTATAAAAAATATCGCGGTCTT
66 TCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCGCGGTCTT
* * *
44785454 TCAATGCAGAGCAACACAAGTCAATA
131 TCAATGAAGAACAACACAAGACAATA
* *
44785480 ATGTTACACTACATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAAGTGATAAAGAGAAAT
1 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGAT-AAGAGAAAT
* * * **
44785545 TCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCGGGTTTTACAAAAAATATCGTTGTCT
65 TTCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCGCGGTCT
* *
44785610 TTCAGTGAAGAACAACACGAGACAATA
130 TTCAATGAAGAACAACACAAGACAATA
* *
44785637 ATGTTACACTGCATGCAACTATGTATTGCAAGGTGTTTCACTTTTTCCAAGTGATAAGAGAAATT
1 ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATT
* *
44785702 TCAAAAAAAAAATCTAATGTCTTTAAAAATAGAT
66 TCAAAAGAAAAATCTAATGTCTTTAAAAGTAGAT
44785736 GTAATGGCCC
Statistics
Matches: 230, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
156 90 0.39
157 140 0.61
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (156 bp):
ATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATT
TCAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCGATTTTACAAAAAATATCGCGGTCTT
TCAATGAAGAACAACACAAGACAATA
Found at i:44788463 original size:156 final size:156
Alignment explanation
Indices: 44788162--44788946 Score: 1101
Period size: 156 Copynumber: 5.0 Consensus size: 156
44788152 GTGTCAACAA
* * * *
44788162 TAGATTCGCCAAATTTATAGAAAATATCG-CTGTCTTTCAGTGCAGAACAACACGAGGCAATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTC-GTTTTTCAGTGAAGAACAACACGAGACAATAAT
* *
44788226 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTTCCAAGTGATAAGAGATATTCC
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* * * *
44788291 AAAAGAAAATTTTAATGTCATTAAAAT
130 AAAAGAAAAATCTAATGTCTTTAAAAG
* * *** * * * *
44788318 TAAAATCGTTGATTTTATAGAGAATATCGCCGTCTTTCAGTGAAGAACAACACGAGTCAATAATG
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGACAATAATG
* *
44788383 TTACACCGCATGCAACTATGTATTGCAAAGAGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
66 TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
*
44788448 AACGAAAAATCTAATGTCTTTAAAAG
131 AAAGAAAAATCTAATGTCTTTAAAAG
* *
44788474 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGT-ACATAACAACACGAGGCAATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGA-AGAACAACACGAGACAATAAT
** * * *
44788538 GTTACACAACATGCAACTATGTATTGTAAAGTGTTTCACTTTTTCCAAGTGATAAGAGAAATTCT
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
*
44788603 AAAAGAAAAATATAATGTCTTTAAAAG
130 AAAAGAAAAATCTAATGTCTTTAAAAG
* *
44788630 TAGATTCGCCAATTTTATAGAAAATATCG-CAGTTTTTCAGCGAAGAACAACAC-AAAGCAATAA
1 TAGATTCGCCAATTTTATAGAAAATATCGTC-GTTTTTCAGTGAAGAACAACACGAGA-CAATAA
* * *
44788693 TGTTACACTGCATGCAACTATGTATTGCAAATTGTTTCACTTTTGTCAAGTGATAAGAGGAATTC
64 TGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTC
44788758 CAAAAGAAAAATCTAATGTCTTTAAAAG
129 CAAAAGAAAAATCTAATGTCTTTAAAAG
* * * * *
44788786 TAGATTCCCCAGTTTTATAGAAAATATCATTGTTTTTCAGTGAAGAAGAACACGAGACAATAATG
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGACAATAATG
* * *
44788851 TTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTGGCCAACTGATAAGAGAAATTCCA
66 TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
* *
44788916 AAAGAAAAACCTAATATCTTTAAAAG
131 AAAGAAAAATCTAATGTCTTTAAAAG
44788942 TAGAT
1 TAGAT
44788947 CCAATGTCTT
Statistics
Matches: 558, Mismatches: 64, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
155 3 0.01
156 551 0.99
157 4 0.01
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (156 bp):
TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGACAATAATG
TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
AAAGAAAAATCTAATGTCTTTAAAAG
Found at i:44788732 original size:312 final size:313
Alignment explanation
Indices: 44788162--44790238 Score: 2832
Period size: 312 Copynumber: 6.6 Consensus size: 313
44788152 GTGTCAACAA
* * *
44788162 TAGATTCGCCAAATTTATAGAAAATATCG-CTGTCTTTCAGTGCAGAACAACACGAGGCAATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTC-GTTTTTCAGTGAAGAACAACACGAGGCAATAAT
* *
44788226 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTTCCAAGTGATAAGAGATATTCC
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* * * * * * *** * *
44788291 AAAAGAAAATTTTAATGTCATTAAAATTAAAATCGTTGATTTTATAGAGAATATCG-CCGTCTTT
130 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATCGTCAGTCTTT
* *
44788355 CAGTGAAGAACAACACG-AGTCAATAATGTTACACCGCATGCAACTATGTATTGCAAAGAGTTTC
195 CAGTGAAGAACAACACGAAG-CAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTC
*
44788419 ACTTTTGCCAAGTGATAAGAGAAATTCCAAACGAAAAATCTAATGTCTTTAAAAG
259 ACTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
*
44788474 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGT-ACATAACAACACGAGGCAATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGA-AGAACAACACGAGGCAATAAT
** * * *
44788538 GTTACACAACATGCAACTATGTATTGTAAAGTGTTTCACTTTTTCCAAGTGATAAGAGAAATTCT
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* *
44788603 AAAAGAAAAATATAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATCG-CAGTTTTT
130 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATCGTCAGTCTTT
* * *
44788667 CAGCGAAGAACAACACAAAGCAATAATGTTACACTGCATGCAACTATGTATTGCAAATTGTTTCA
195 CAGTGAAGAACAACACGAAGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCA
* *
44788732 CTTTTGTCAAGTGATAAGAGGAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
260 CTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
* * * * * *
44788786 TAGATTCCCCAGTTTTATAGAAAATATCATTGTTTTTCAGTGAAGAAGAACACGAGACAATAATG
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGGCAATAATG
* * *
44788851 TTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTGGCCAACTGATAAGAGAAATTCCA
66 TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
* *
44788916 AAAGAAAAACCTAATATCTTTAAAAGTAGATCCAATGTCTTTAAAAGTAGATTCACCGATTTTAT
131 AAAG---AA---AA-ATC------------T--AATGTCTTTAAAAGTAGATTCGCCAATTTTAT
* * * *
44788981 AGAAAATATCGTC-GTCTTTCAATGAAGAACAACACGAGGCAATAATGCTACACTGAATGCAACT
175 AGAAAATATCGTCAGTCTTTCAGTGAAGAACAACACGAAGCAATAATGTTACACTGCATGCAACT
* * *
44789045 ATGTATTCCAAAGTGTTTCACTTTTGCCAAGTGGTAAAAGAAATTCCAAAAGAAAAATCTAATGT
240 ATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGT
44789110 CTTTAAAAG
305 CTTTAAAAG
** *
44789119 TAGATTCATCGATTTTATAGAAAATATCGTC-TTCTTTCAGTGAAGAACAACACGAGGCAATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTT-TTTCAGTGAAGAACAACACGAGGCAATAAT
* * *
44789183 GTTACATTGAATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAAGTGATAAGAGAAATTCC
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* * *
44789248 AAAAGAATAATCTAATGTCTTTAAAAGTAGATTCACCAATTTTGTAGAAAATATCGTC-GTCTTT
130 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATCGTCAGTCTTT
*
44789312 CAGTGAAGAACAACACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCA
195 CAGTGAAGAACAACACGAAGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCA
* * *
44789377 CTTTTGCCAAGTGATAATAGAAATTTCAAAAGAAAATTCTAATGTCTTTAAAAG
260 CTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
** **
44789431 TAGATTTACCGGTTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGG-ACATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGGCA-ATAAT
* * *
44789495 GTTACACTGCATGCAACTATGCATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGATAAATTTC
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* * * *
44789560 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAATTTTATAGAAAATATCTTGA-TTTTT
130 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATCGTCAGTCTTT
* * * *
44789624 TAGTGAACAACAACACG-AGACAATAATGTAACACTGCATGCAACCATGTATTGCAAAGTGTTTC
195 CAGTGAAGAACAACACGAAG-CAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTC
*
44789688 ACTTTTGCCAAGTGATAAGAGAAATTCTAAAAGAAAAATCTAATGTCTTTAAAAG
259 ACTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
* * * *
44789743 TAGATTTGCCAGTTTTATAGAAAATATCGTCATTTTTCAGTGAAGAACAACACGAGACAATAATG
1 TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGGCAATAATG
* *
44789808 TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGTCAAGTGATAAGGGAAATTCCA
66 TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
* * *** *
44789873 AAAGAAAGATCTAATATCTTTAAAAGTAGATTCGTTGATTTTATAGAAAATATCGCCA-TCTTTC
131 AAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATCGTCAGTCTTTC
* * *
44789937 AGTGAAGAACAACACGATGCAATAATGTTACACTGCATGTAACTATGTATTGTAAAGTGTTTCAC
196 AGTGAAGAACAACACGAAGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCAC
44790002 TTTTGCCAAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
261 TTTTGCC-AAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
* * * *
44790056 TAGATTTGTCAATTTTATAGAAAA-ATCGT-GATTTTTCAGTGAAGAACAACACGAGACACTAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTCG-TTTTTCAGTGAAGAACAACACGAGGCAATAAT
** * * *
44790119 GTTACACTGCATGCAACTATGTATTATAAAGTGATTCACTTTTGCCAAGTGATGAGAGAAATTCT
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* * * *
44790184 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGTCAGTTTTATAGAAAGTATC
130 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATC
44790239 ACCGTCTTTA
Statistics
Matches: 1577, Mismatches: 153, Indels: 70
0.88 0.09 0.04
Matches are distributed among these distances:
311 2 0.00
312 1211 0.77
313 75 0.05
314 1 0.00
315 2 0.00
318 2 0.00
319 2 0.00
326 3 0.00
327 1 0.00
330 2 0.00
331 1 0.00
332 2 0.00
333 272 0.17
334 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (313 bp):
TAGATTCGCCAATTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGGCAATAATG
TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
AAAGAAAAATCTAATGTCTTTAAAAGTAGATTCGCCAATTTTATAGAAAATATCGTCAGTCTTTC
AGTGAAGAACAACACGAAGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCAC
TTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
Found at i:44789068 original size:177 final size:177
Alignment explanation
Indices: 44788772--44789123 Score: 535
Period size: 177 Copynumber: 2.0 Consensus size: 177
44788762 AGAAAAATCT
* * * *
44788772 AATGTCTTTAAAAGTAGATTCCCCAGTTTTATAGAAAATATCATTGTTTTTCAGTGAAGAAGAAC
1 AATGTCTTTAAAAGTAGATTCCCCAGTTTTATAGAAAATATCATCGTCTTTCAATGAAGAACAAC
* * * *
44788837 ACGAGACAATAATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTGGCCAACTGA
66 ACGAGACAATAATGCTACACTGAATGCAACTATGTATTCCAAAGTGTTTCACTTTGGCCAACTGA
*
44788902 TAAGAGAAATTCCAAAAGAAAAACCTAATATCTTTAAAAGTAGATCC
131 TAAAAGAAATTCCAAAAGAAAAACCTAATATCTTTAAAAGTAGATCC
* *
44788949 AATGTCTTTAAAAGTAGATTCACC-GATTTTATAGAAAATATCGTCGTCTTTCAATGAAGAACAA
1 AATGTCTTTAAAAGTAGATTCCCCAG-TTTTATAGAAAATATCATCGTCTTTCAATGAAGAACAA
* * *
44789013 CACGAGGCAATAATGCTACACTGAATGCAACTATGTATTCCAAAGTGTTTCACTTTTGCCAAGTG
65 CACGAGACAATAATGCTACACTGAATGCAACTATGTATTCCAAAGTGTTTCACTTTGGCCAACTG
* * *
44789078 GTAAAAGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAGTAGAT
130 ATAAAAGAAATTCCAAAAGAAAAACCTAATATCTTTAAAAGTAGAT
44789124 TCATCGATTT
Statistics
Matches: 157, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
176 1 0.01
177 156 0.99
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (177 bp):
AATGTCTTTAAAAGTAGATTCCCCAGTTTTATAGAAAATATCATCGTCTTTCAATGAAGAACAAC
ACGAGACAATAATGCTACACTGAATGCAACTATGTATTCCAAAGTGTTTCACTTTGGCCAACTGA
TAAAAGAAATTCCAAAAGAAAAACCTAATATCTTTAAAAGTAGATCC
Found at i:44789233 original size:156 final size:155
Alignment explanation
Indices: 44788949--44790238 Score: 1852
Period size: 156 Copynumber: 8.3 Consensus size: 155
44788939 AAGTAGATCC
* * *
44788949 AATGTCTTTAAAAGTAGATTCACCGATTTTATAGAAAATATCGTCGTCTTTCAATGAAGAACAAC
1 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGTC-TTTTTCAGTGAAGAACAAC
* * * *
44789014 ACGAGGCAATAATGCTACACTGAATGCAACTATGTATTCCAAAGTGTTTCACTTTTGCCAAGTGG
65 ACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGA
*
44789079 TAAAAGAAATTCCAAAAGAAAAATCT
130 TAAGAGAAATTCCAAAAGAAAAATCT
44789105 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGTCTTCTTTCAGTGAAGAACAAC
1 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGTCTT-TTTCAGTGAAGAACAAC
* * *
44789170 ACGAGGCAATAATGTTACATTGAATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAAGTGA
65 ACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGA
*
44789235 TAAGAGAAATTCCAAAAGAATAATCT
130 TAAGAGAAATTCCAAAAGAAAAATCT
* * * *
44789261 AATGTCTTTAAAAGTAGATTCACCAATTTTGTAGAAAATATCGTCGTCTTTCAGTGAAGAACAAC
1 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGTC-TTTTTCAGTGAAGAACAAC
44789326 ACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGA
65 ACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGA
* * *
44789391 TAATAGAAATTTCAAAAGAAAATTCT
130 TAAGAGAAATTCCAAAAGAAAAATCT
* * *
44789417 AATGTCTTTAAAAGTAGATTTACCGGTTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAAC
1 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGTC-TTTTTCAGTGAAGAACAAC
*
44789482 ACGAGG-ACATAATGTTACACTGCATGCAACTATGCATTGCAAAGTGTTTCACTTTTGCCAAGTG
65 ACGAGGCA-ATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTG
* *
44789546 ATAAGATAAATTTCAAAAGAAAAATCT
129 ATAAGAGAAATTCCAAAAGAAAAATCT
*** * * * * *
44789573 AATGTCTTTAAAAGTAGATTTGCCAATTTTATAGAAAATATCTTGATTTTTTAGTGAACAACAAC
1 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGT-CTTTTTCAGTGAAGAACAAC
* * *
44789638 ACGAGACAATAATGTAACACTGCATGCAACCATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGA
65 ACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGA
*
44789703 TAAGAGAAATTCTAAAAGAAAAATCT
130 TAAGAGAAATTCCAAAAGAAAAATCT
*
44789729 AATGTCTTTAAAAGTAGATT--TGCCAGTTTTATAGAAAATATCGTCATTTTTCAGTGAAGAACA
1 AATGTCTTTAAAAGTAGATTCAT-CGA-TTTTATAGAAAATATCGTC-TTTTTCAGTGAAGAACA
* *
44789792 ACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGTCAAGT
63 ACACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGT
* *
44789857 GATAAGGGAAATTCCAAAAGAAAGATCT
128 GATAAGAGAAATTCCAAAAGAAAAATCT
* * * * *
44789885 AATATCTTTAAAAGTAGATTCGTTGATTTTATAGAAAATATCGCCATCTTTCAGTGAAGAACAAC
1 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGTC-TTTTTCAGTGAAGAACAAC
* * *
44789950 ACGATGCAATAATGTTACACTGCATGTAACTATGTATTGTAAAGTGTTTCACTTTTGCCAAAGTG
65 ACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCC-AAGTG
44790015 ATAAGAGAAATTCCAAAAGAAAAATCT
129 ATAAGAGAAATTCCAAAAGAAAAATCT
** * *
44790042 AATGTCTTTAAAAGTAGATTTGTCAATTTTATAGAAAA-ATCGTGATTTTTCAGTGAAGAACAAC
1 AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGT-CTTTTTCAGTGAAGAACAAC
* * ** *
44790106 ACGAGACACTAATGTTACACTGCATGCAACTATGTATTATAAAGTGATTCACTTTTGCCAAGTGA
65 ACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGA
* *
44790171 TGAGAGAAATTCTAAAAGAAAAATCT
130 TAAGAGAAATTCCAAAAGAAAAATCT
** *
44790197 AATGTCTTTAAAAGTAGATTTGTC-AGTTTTATAGAAAGTATC
1 AATGTCTTTAAAAGTAGATTCATCGA-TTTTATAGAAAATATC
44790239 ACCGTCTTTA
Statistics
Matches: 1036, Mismatches: 84, Indels: 28
0.90 0.07 0.02
Matches are distributed among these distances:
154 1 0.00
155 69 0.07
156 898 0.87
157 67 0.06
158 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (155 bp):
AATGTCTTTAAAAGTAGATTCATCGATTTTATAGAAAATATCGTCTTTTTCAGTGAAGAACAACA
CGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGAT
AAGAGAAATTCCAAAAGAAAAATCT
Found at i:44789825 original size:468 final size:468
Alignment explanation
Indices: 44788162--44790247 Score: 2880
Period size: 468 Copynumber: 4.4 Consensus size: 468
44788152 GTGTCAACAA
* * * *
44788162 TAGATTCGCCAAATTTATAGAAAATATCGCTG-TCTTTCAGTGCAGAACAACACGAGGCAATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCG-TGATTTTTCAGTGAAGAACAACACGAGACAATAAT
* *
44788226 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTTCCAAGTGATAAGAGATATTCC
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* * * * * * *
44788291 AAAAGAAAATTTTAATGTCATTAAAATTAAAATCGTTG--A-TTTTATAGAGAATATCGCCGTCT
130 AAAAGAAAAATCTAATGTCTTTAAAAGT-AGAT--TTGCCAGTTTTATAGAAAATATCGTCGTCT
* * *
44788353 TTCAGTGAAGAACAACACGAGTCAATAATGTTACACCGCATGCAACTATGTATTGCAAAGAGTTT
192 TTCAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTT
* * *
44788418 CACTTTTGCCAAGTGATAAGAGAAATTCCAAACGAAAAATCTAATGTCTTTAAAAGTAGATTCGC
257 CACTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAATTCTAATGTCTTTAAAAGTAGATTCAC
* * * **
44788483 CAATTTTATAGAAAATATCGTCGTTTTTCAGT-ACATAACAACACGAGGCAATAATGTTACACAA
322 CGATTTTATAGAAAATATCGTCGTCTTTCAGTGA-AGAACAACACGAGGCAATAATGTTACACTG
* * *
44788547 CATGCAACTATGTATTGTAAAGTGTTTCACTTTTTCCAAGTGATAAGAGAAATTCTAAAAGAAAA
386 CATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAA
*
44788612 ATATAATGTCTTTAAAAG
451 ATCTAATGTCTTTAAAAG
* * *
44788630 TAGATTCGCCAATTTTATAGAAAATATCG-CAGTTTTTCAGCGAAGAACAACAC-AAAGCAATAA
1 TAGATTCGCCAATTTTATAGAAAATATCGTGA-TTTTTCAGTGAAGAACAACACGAGA-CAATAA
* * *
44788693 TGTTACACTGCATGCAACTATGTATTGCAAATTGTTTCACTTTTGTCAAGTGATAAGAGGAATTC
64 TGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTC
** * * *
44788758 CAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTCCCCAGTTTTATAGAAAATATCATTGTTTTT
129 CAAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAGTTTTATAGAAAATATCGTCGTCTTT
* *
44788823 CAGTGAAGAAGAACACGAGACAATAATGTTACATTGCATGCAACTATGTATTGCAAAGTGTTTCA
194 CAGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCA
* *
44788888 CTTTGGCCAACTGATAAGAGAAATTCCAAAAGAAAAACCTAATATCTTTAAAAGTAGATCCAATG
259 CTTTTGCCAAGTGATAAGAGAAATTCCAAAAG---AA---AAT-TC------------T--AATG
*
44788953 TCTTTAAAAGTAGATTCACCGATTTTATAGAAAATATCGTCGTCTTTCAATGAAGAACAACACGA
303 TCTTTAAAAGTAGATTCACCGATTTTATAGAAAATATCGTCGTCTTTCAGTGAAGAACAACACGA
* * * * *
44789018 GGCAATAATGCTACACTGAATGCAACTATGTATTCCAAAGTGTTTCACTTTTGCCAAGTGGTAAA
368 GGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAG
44789083 AGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
433 AGAAATTCCAAAAGAAAAATCTAATGTCTTTAAAAG
** * * *
44789119 TAGATTCATCGATTTTATAGAAAATATCGT-CTTCTTTCAGTGAAGAACAACACGAGGCAATAAT
1 TAGATTCGCCAATTTTATAGAAAATATCGTGATT-TTTCAGTGAAGAACAACACGAGACAATAAT
* * *
44789183 GTTACATTGAATGCAACTATGTATTGCAAAGTGTTTCGCTTTTGCCAAGTGATAAGAGAAATTCC
65 GTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCC
* ** * *
44789248 AAAAGAATAATCTAATGTCTTTAAAAGTAGATTCACCAATTTTGTAGAAAATATCGTCGTCTTTC
130 AAAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAGTTTTATAGAAAATATCGTCGTCTTTC
*
44789313 AGTGAAGAACAACACGAGGCAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCAC
195 AGTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCAC
* * * *
44789378 TTTTGCCAAGTGATAATAGAAATTTCAAAAGAAAATTCTAATGTCTTTAAAAGTAGATTTACCGG
260 TTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAATTCTAATGTCTTTAAAAGTAGATTCACCGA
*
44789443 TTTTATAGAAAATATCGTCGTTTTTCAGTGAAGAACAACACGAGG-ACATAATGTTACACTGCAT
325 TTTTATAGAAAATATCGTCGTCTTTCAGTGAAGAACAACACGAGGCA-ATAATGTTACACTGCAT
* * *
44789507 GCAACTATGCATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGATAAATTTCAAAAGAAAAATC
389 GCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATC
44789572 TAATGTCTTTAAAAG
454 TAATGTCTTTAAAAG
* * * *
44789587 TAGATTTGCCAATTTTATAGAAAATATCTTGATTTTTTAGTGAACAACAACACGAGACAATAATG
1 TAGATTCGCCAATTTTATAGAAAATATCGTGATTTTTCAGTGAAGAACAACACGAGACAATAATG
* * *
44789652 TAACACTGCATGCAACCATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCTA
66 TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
* *
44789717 AAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAGTTTTATAGAAAATATCGTCATTTTTCA
131 AAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAGTTTTATAGAAAATATCGTCGTCTTTCA
44789782 GTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACT
196 GTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACT
* * * ***
44789847 TTTGTCAAGTGATAAGGGAAATTCCAAAAGAAAGA-TCTAATATCTTTAAAAGTAGATTCGTTGA
261 TTTGCCAAGTGATAAGAGAAATTCCAAAAGAAA-ATTCTAATGTCTTTAAAAGTAGATTCACCGA
* * *
44789911 TTTTATAGAAAATATCGCCATCTTTCAGTGAAGAACAACACGATGCAATAATGTTACACTGCATG
325 TTTTATAGAAAATATCGTCGTCTTTCAGTGAAGAACAACACGAGGCAATAATGTTACACTGCATG
* *
44789976 TAACTATGTATTGTAAAGTGTTTCACTTTTGCCAAAGTGATAAGAGAAATTCCAAAAGAAAAATC
390 CAACTATGTATTGCAAAGTGTTTCACTTTTGCC-AAGTGATAAGAGAAATTCCAAAAGAAAAATC
44790041 TAATGTCTTTAAAAG
454 TAATGTCTTTAAAAG
* * *
44790056 TAGATTTGTCAATTTTATAGAAAA-ATCGTGATTTTTCAGTGAAGAACAACACGAGACACTAATG
1 TAGATTCGCCAATTTTATAGAAAATATCGTGATTTTTCAGTGAAGAACAACACGAGACAATAATG
** * * *
44790120 TTACACTGCATGCAACTATGTATTATAAAGTGATTCACTTTTGCCAAGTGATGAGAGAAATTCTA
66 TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
* * **
44790185 AAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGTCAGTTTTATAGAAAGTATCACCGTCTTT
131 AAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAGTTTTATAGAAAATATCGTCGTCTTT
44790248 AAGAAAAAAA
Statistics
Matches: 1435, Mismatches: 147, Indels: 72
0.87 0.09 0.04
Matches are distributed among these distances:
465 1 0.00
467 6 0.00
468 929 0.65
469 71 0.05
470 1 0.00
471 2 0.00
474 2 0.00
475 2 0.00
482 2 0.00
483 3 0.00
486 2 0.00
487 1 0.00
488 2 0.00
489 409 0.29
490 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (468 bp):
TAGATTCGCCAATTTTATAGAAAATATCGTGATTTTTCAGTGAAGAACAACACGAGACAATAATG
TTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCA
AAAGAAAAATCTAATGTCTTTAAAAGTAGATTTGCCAGTTTTATAGAAAATATCGTCGTCTTTCA
GTGAAGAACAACACGAGACAATAATGTTACACTGCATGCAACTATGTATTGCAAAGTGTTTCACT
TTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAATTCTAATGTCTTTAAAAGTAGATTCACCGAT
TTTATAGAAAATATCGTCGTCTTTCAGTGAAGAACAACACGAGGCAATAATGTTACACTGCATGC
AACTATGTATTGCAAAGTGTTTCACTTTTGCCAAGTGATAAGAGAAATTCCAAAAGAAAAATCTA
ATGTCTTTAAAAG
Found at i:44795615 original size:17 final size:17
Alignment explanation
Indices: 44795575--44795616 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
44795565 TTTTATTTAG
*
44795575 TCCTTATTTTAAATCAAA
1 TCCTAATTTTAAA-CAAA
44795593 TCCTAATTTTAAA-AAA
1 TCCTAATTTTAAACAAA
44795609 CTCCTAAT
1 -TCCTAAT
44795617 CCTATTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (17 bp):
TCCTAATTTTAAACAAA
Found at i:44796020 original size:34 final size:33
Alignment explanation
Indices: 44795977--44796082 Score: 113
Period size: 34 Copynumber: 3.0 Consensus size: 33
44795967 ATCACTTAAT
*
44795977 ACATAGTATGCGAACCATCATGTTATATGGTATG
1 ACATAGTATGCGAACC-CCATGTTATATGGTATG
*
44796011 ACATAGTATGCAAACCCCTATGTTATATAGTACGTATG
1 ACATAGTATGCGAACCCC-ATGTTATAT-G---GTATG
* *
44796049 ACATAGTATGCGAACCCCCAAGTTATATAGTATG
1 ACATAGTATGCGAA-CCCCATGTTATATGGTATG
44796083 TGATTTAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
33 1 0.02
34 29 0.48
35 1 0.02
38 26 0.43
39 4 0.07
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (33 bp):
ACATAGTATGCGAACCCCATGTTATATGGTATG
Found at i:44796055 original size:38 final size:38
Alignment explanation
Indices: 44796006--44796080 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
44795996 ATGTTATATG
* *
44796006 GTATGACATAGTATGCAAACCCCTATGTTATATAGTAC
1 GTATGACATAGTATGCAAACCCCCAAGTTATATAGTAC
*
44796044 GTATGACATAGTATGCGAACCCCCAAGTTATATAGTA
1 GTATGACATAGTATGCAAACCCCCAAGTTATATAGTA
44796081 TGTGATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (38 bp):
GTATGACATAGTATGCAAACCCCCAAGTTATATAGTAC
Found at i:44798423 original size:37 final size:37
Alignment explanation
Indices: 44798379--44798543 Score: 296
Period size: 37 Copynumber: 4.5 Consensus size: 37
44798369 CACTTGTCCC
44798379 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
44798416 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
44798453 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
* *
44798490 TGATCAGATAAGTGTAGCCACTTATCAC-TTGTCTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
44798526 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
44798544 TAAAGCTATC
Statistics
Matches: 126, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
36 25 0.20
37 101 0.80
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:44798586 original size:52 final size:52
Alignment explanation
Indices: 44798508--44798873 Score: 468
Period size: 52 Copynumber: 7.2 Consensus size: 52
44798498 TAAGTGTAGC
* * **
44798508 CACTTATCACTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
44798560 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
44798612 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
44798658 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
44798710 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* * *
44798756 CACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
44798808 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
44798860 CACTTTGTCACTTG
1 CACTTT-TCACTTG
44798874 ATCAGAAGTA
Statistics
Matches: 276, Mismatches: 25, Indels: 25
0.85 0.08 0.08
Matches are distributed among these distances:
46 83 0.30
49 1 0.00
52 186 0.67
53 6 0.02
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:44798648 original size:98 final size:98
Alignment explanation
Indices: 44798508--44798865 Score: 511
Period size: 98 Copynumber: 3.6 Consensus size: 98
44798498 TAAGTGTAGC
* * * *
44798508 CACTTATCAC-TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
44798572 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
44798605 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
** *
44798670 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
44798703 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
*
44798768 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * * *
44798801 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTT
44798866 GTCACTTGAT
Statistics
Matches: 235, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
97 10 0.04
98 181 0.77
100 1 0.00
104 43 0.18
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:44798874 original size:150 final size:144
Alignment explanation
Indices: 44798515--44798879 Score: 586
Period size: 150 Copynumber: 2.5 Consensus size: 144
44798505 AGCCACTTAT
* *
44798515 CACTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTTG
1 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC---T---TTGTCACTTG
*
44798580 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGA
60 ATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGA
44798645 AGCTATTACTTATCACTTTC
125 AGCTATTACTTATCACTTTC
44798665 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
*
44798730 TAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGA
66 TAAGTATAGCCGAAGCTATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGA
44798795 AGCTATTACTTATCACTTTC
125 AGCTATTACTTATCACTTTC
44798815 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
44798880 AGTACTCAAA
Statistics
Matches: 205, Mismatches: 4, Indels: 12
0.93 0.02 0.05
Matches are distributed among these distances:
144 43 0.21
146 1 0.00
147 1 0.00
150 160 0.78
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (144 bp):
CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
TAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
TACTTATCACTTTC
Found at i:44802064 original size:49 final size:50
Alignment explanation
Indices: 44802009--44802212 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
44801999 TTCGTTTTCT
*
44802009 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
44802058 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
44802107 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
44802165 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
44802213 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:44802179 original size:58 final size:59
Alignment explanation
Indices: 44802093--44802211 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
44802083 TACACGAAAT
44802093 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
44802151 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
44802210 CA
1 CA
44802212 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:44802192 original size:28 final size:28
Alignment explanation
Indices: 44802102--44802192 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
44802092 TCACATATCA
44802102 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
44802130 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
44802160 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
44802188 CTTAC
1 CTTAC
44802193 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:44803525 original size:37 final size:37
Alignment explanation
Indices: 44803481--44803645 Score: 296
Period size: 37 Copynumber: 4.5 Consensus size: 37
44803471 CACTTGTCCC
44803481 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
44803518 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
44803555 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
* *
44803592 TGATCAGATAAGTGTAGCCACTTATCAC-TTGTCTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
44803628 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
44803646 TAAAGCTATC
Statistics
Matches: 126, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
36 25 0.20
37 101 0.80
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:44803688 original size:52 final size:52
Alignment explanation
Indices: 44803610--44803975 Score: 468
Period size: 52 Copynumber: 7.2 Consensus size: 52
44803600 TAAGTGTAGC
* * **
44803610 CACTTATCACTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
44803662 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
44803714 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
44803760 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
44803812 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* * *
44803858 CACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
44803910 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
44803962 CACTTTGTCACTTG
1 CACTTT-TCACTTG
44803976 ATCAGAAGTA
Statistics
Matches: 276, Mismatches: 25, Indels: 25
0.85 0.08 0.08
Matches are distributed among these distances:
46 83 0.30
49 1 0.00
52 186 0.67
53 6 0.02
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:44803750 original size:98 final size:98
Alignment explanation
Indices: 44803610--44803967 Score: 511
Period size: 98 Copynumber: 3.6 Consensus size: 98
44803600 TAAGTGTAGC
* * * *
44803610 CACTTATCAC-TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
44803674 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
44803707 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
** *
44803772 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
44803805 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
*
44803870 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * * *
44803903 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTT
44803968 GTCACTTGAT
Statistics
Matches: 235, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
97 10 0.04
98 181 0.77
100 1 0.00
104 43 0.18
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:44803976 original size:150 final size:144
Alignment explanation
Indices: 44803617--44803981 Score: 586
Period size: 150 Copynumber: 2.5 Consensus size: 144
44803607 AGCCACTTAT
* *
44803617 CACTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTTG
1 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC---T---TTGTCACTTG
*
44803682 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGA
60 ATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGA
44803747 AGCTATTACTTATCACTTTC
125 AGCTATTACTTATCACTTTC
44803767 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
*
44803832 TAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGA
66 TAAGTATAGCCGAAGCTATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGA
44803897 AGCTATTACTTATCACTTTC
125 AGCTATTACTTATCACTTTC
44803917 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
44803982 AGTACTCAAA
Statistics
Matches: 205, Mismatches: 4, Indels: 12
0.93 0.02 0.05
Matches are distributed among these distances:
144 43 0.21
146 1 0.00
147 1 0.00
150 160 0.78
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (144 bp):
CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
TAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
TACTTATCACTTTC
Found at i:44807929 original size:47 final size:45
Alignment explanation
Indices: 44807878--44808045 Score: 132
Period size: 47 Copynumber: 3.6 Consensus size: 45
44807868 TATTTAATAT
*
44807878 TAATTATTTTAAATTGTATAAATTCATATAAGAAAAATTATTATCAA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAATTTATTAT-AA
* * **
44807925 TAATT-TTATGAAA-TTATATATT-AT-T-ATTAAATTATATGTAATAA
1 TAATTATT-TTAAATTTATAAATTCATATAAGAAAATT-TAT-T-ATAA
* * *
44807969 TAATTATTTTAAATTATACAAATTCATATAAGATAATTTATTAGTTA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAATTTATTA-TAA
44808016 TAATTATTTTAAATTTTATTAAA-TCATATA
1 TAATTATTTTAAA-TTTA-TAAATTCATATA
44808046 TTTTAATTAA
Statistics
Matches: 95, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 14 0.15
45 12 0.13
46 10 0.11
47 36 0.38
48 9 0.09
49 5 0.05
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (45 bp):
TAATTATTTTAAATTTATAAATTCATATAAGAAAATTTATTATAA
Found at i:44807951 original size:91 final size:91
Alignment explanation
Indices: 44807804--44808011 Score: 317
Period size: 91 Copynumber: 2.3 Consensus size: 91
44807794 TTGATTTTAG
* *
44807804 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
44807869 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* * *
44807896 TAAATTCATATAAGAAAAATTATTATCAATAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
44807961 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
44807987 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
44808012 GTTATAATTA
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 89 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:44807972 original size:44 final size:43
Alignment explanation
Indices: 44807825--44807986 Score: 116
Period size: 44 Copynumber: 3.6 Consensus size: 43
44807815 AAGAACATTT
* * *
44807825 TATTATTAAGAATT-TTATGAAATTATATATCATTATTAAATTA
1 TATTAATAATAATTATT-TGAAATTATATATAATTATTAAATTA
* * * *
44807868 TATTTAATATTAATTATTTTAAATTGTATA-AATTCATATAAGA-AA
1 TA-TTAATAATAATTATTTGAAATTATATATAATT-AT-TAA-ATTA
* *
44807913 AATTATTATCAATAATT-TTATGAAATTATATATTATTATTAAATTA
1 TATTA--AT-AATAATTATT-TGAAATTATATATAATTATTAAATTA
*
44807959 TATGTAATAATAATTATTTTAAATTATA
1 TAT-TAATAATAATTATTTGAAATTATA
44807987 CAAATTCATA
Statistics
Matches: 91, Mismatches: 15, Indels: 25
0.69 0.11 0.19
Matches are distributed among these distances:
43 5 0.05
44 40 0.44
45 12 0.13
46 11 0.12
47 20 0.22
48 3 0.03
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (43 bp):
TATTAATAATAATTATTTGAAATTATATATAATTATTAAATTA
Found at i:44807986 original size:26 final size:28
Alignment explanation
Indices: 44807824--44807900 Score: 52
Period size: 28 Copynumber: 2.8 Consensus size: 28
44807814 TAAGAACATT
* *
44807824 TTATTATTAAGAATTTTATGAAATTATATA
1 TTATTATT-A-AATTATATGAAATAATATA
* ** *
44807854 TCATTATTAAATTATATTTAATATTA-A
1 TTATTATTAAATTATATGAAATAATATA
*
44807881 TTATT-TTAAATTGTAT-AAAT
1 TTATTATTAAATTATATGAAAT
44807901 TCATATAAGA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
25 3 0.08
26 10 0.26
27 5 0.13
28 12 0.32
29 1 0.03
30 7 0.18
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (28 bp):
TTATTATTAAATTATATGAAATAATATA
Found at i:44808193 original size:25 final size:26
Alignment explanation
Indices: 44808161--44808215 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
44808151 TTATTAAATT
*
44808161 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
44808186 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
44808211 A-ATAT
1 ATATAT
44808216 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:44808382 original size:39 final size:40
Alignment explanation
Indices: 44808339--44808443 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
44808329 TTCCATTATG
44808339 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
44808378 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
44808423 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
44808444 ACACCTCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:44808437 original size:45 final size:44
Alignment explanation
Indices: 44808337--44808446 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
44808327 TTTTCCATTA
44808337 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
44808376 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
44808421 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
44808447 CCTCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:44808446 original size:16 final size:16
Alignment explanation
Indices: 44808425--44808478 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
44808415 TTGATTTGCT
44808425 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
44808441 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
44808457 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
44808473 AATACA
1 ATTACA
44808479 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:44812337 original size:29 final size:29
Alignment explanation
Indices: 44812272--44812338 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
44812262 GATTTCGCGG
*
44812272 AAAATGGCCCATTCCGGTAAATAATTAAA
1 AAAACGGCCCATTCCGGTAAATAATTAAA
* * *
44812301 AAATCGGCCCATTTCGGTAAAT-TTTGAAA
1 AAAACGGCCCATTCCGGTAAATAATT-AAA
44812330 AAAACGGCC
1 AAAACGGCC
44812339 TTTTTTGGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.24
Consensus pattern (29 bp):
AAAACGGCCCATTCCGGTAAATAATTAAA
Found at i:44813095 original size:168 final size:168
Alignment explanation
Indices: 44812815--44813153 Score: 536
Period size: 168 Copynumber: 2.0 Consensus size: 168
44812805 AGGATTGATT
* *
44812815 TTATTAGATTTAAATTTTTATGATTTTATTATTAAAATAAATTTAATGTCATTGTAAAATTGTTT
1 TTATTAGATTTAAATTTTTATGATTTTATTACTAAAATAAATTTAATGTAATTGTAAAATTGTTT
* * *
44812880 AATCTTGTATTTAATTTGTTAAATACAATTTAATGAGTATAATTCTATTTTAGTTTTAAAATTGA
66 AATCTTGTACTTAATTTGTTAAATACAATTTAATGAGTATAATTCTATTTTAGTTTTAAAACTCA
* *
44812945 TTTAATGAAAATTACTTGCTAATATTAATAGTTAA-TA
131 TTTAATGAAAACTACTTGCTAATATTAACAGTTAATTA
* * *
44812982 TTATTAGATTTAATTTTTTATGATTTTGTTACTAAAATAAATTTAATGTTAATTGTGAAATTGTT
1 TTATTAGATTTAAATTTTTATGATTTTATTACTAAAATAAATTTAATG-TAATTGTAAAATTGTT
* * *
44813047 TAATCTTGTGCTTAATTTGTTAAATACAGTTTAATGAGTATGATTCTATTTTAGTTTTAAAACTC
65 TAATCTTGTACTTAATTTGTTAAATACAATTTAATGAGTATAATTCTATTTTAGTTTTAAAACTC
*
44813112 ATTTAATGAAAACTAGTTGCTAATATTAACAGTTAATTA
130 ATTTAATGAAAACTACTTGCTAATATTAACAGTTAATTA
44813151 TTA
1 TTA
44813154 ATTTTCATCA
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
167 45 0.29
168 106 0.68
169 5 0.03
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.49
Consensus pattern (168 bp):
TTATTAGATTTAAATTTTTATGATTTTATTACTAAAATAAATTTAATGTAATTGTAAAATTGTTT
AATCTTGTACTTAATTTGTTAAATACAATTTAATGAGTATAATTCTATTTTAGTTTTAAAACTCA
TTTAATGAAAACTACTTGCTAATATTAACAGTTAATTA
Found at i:44814070 original size:24 final size:26
Alignment explanation
Indices: 44814027--44814076 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
44814017 TATTGATAAA
44814027 ATAAAAAATTATTATGATAATTTATTT
1 ATAAAAAATTA-TATGATAATTTATTT
44814054 ATAAAAAATTA-AT-ATAATTTATT
1 ATAAAAAATTATATGATAATTTATT
44814077 AGTATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.43
25 2 0.09
27 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
ATAAAAAATTATATGATAATTTATTT
Found at i:44814695 original size:11 final size:11
Alignment explanation
Indices: 44814681--44814714 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
44814671 TTTTAATTTG
44814681 ATTTTTTTAAA
1 ATTTTTTTAAA
*
44814692 ATTTTTTTCAA
1 ATTTTTTTAAA
*
44814703 ATATTTTTAAA
1 ATTTTTTTAAA
44814714 A
1 A
44814715 AATTTAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTTTTTTAAA
Found at i:44815034 original size:29 final size:29
Alignment explanation
Indices: 44815013--44815067 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
44815003 ATTTGGTCCG
44815013 TTGTACTTTAAATTGATCAATTTTAGTCA
1 TTGTACTTTAAATTGATCAATTTTAGTCA
*
44815042 TTGTACTTTAATTTGA--AATTTTAGTC
1 TTGTACTTTAAATTGATCAATTTTAGTC
44815068 CTAATCTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.40
29 15 0.60
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (29 bp):
TTGTACTTTAAATTGATCAATTTTAGTCA
Found at i:44817101 original size:16 final size:16
Alignment explanation
Indices: 44817077--44817116 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
44817067 TGAAGGTTTG
*
44817077 AAATGATTCGAATATA
1 AAATAATTCGAATATA
* *
44817093 AAATAATTCTAATTTA
1 AAATAATTCGAATATA
44817109 AAATAATT
1 AAATAATT
44817117 TAAAATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (16 bp):
AAATAATTCGAATATA
Found at i:44817125 original size:16 final size:16
Alignment explanation
Indices: 44817091--44817128 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
44817081 GATTCGAATA
*
44817091 TAAAATAATTCTAATT
1 TAAAATAATTCTAAAT
44817107 TAAAATAATT-TAAAAT
1 TAAAATAATTCT-AAAT
44817123 TAAAAT
1 TAAAAT
44817129 GAGTATATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAATAATTCTAAAT
Found at i:44820489 original size:16 final size:16
Alignment explanation
Indices: 44820468--44820536 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
44820458 TTTGGTTCGC
*
44820468 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAAG
44820484 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAAG
44820500 TGTATTAGGATTAGAAG
1 TGTATT-GGATTAGAAG
*
44820517 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAAG
44820533 TGTA
1 TGTA
44820537 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAAG
Found at i:44820512 original size:33 final size:32
Alignment explanation
Indices: 44820468--44820536 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
44820458 TTTGGTTCGC
*
44820468 TGTATTGGATTAGAGGTGTATTGGATTAGAAG
1 TGTATTGGATTAGAAGTGTATTGGATTAGAAG
*
44820500 TGTATTAGGATTAGAAGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAAGTGTATTGGATTAGAAG
44820533 TGTA
1 TGTA
44820537 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAAGTGTATTGGATTAGAAG
Found at i:44820601 original size:44 final size:45
Alignment explanation
Indices: 44820517--44820606 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
44820507 GGATTAGAAG
* * *
44820517 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
44820562 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
44820606 T
1 T
44820607 AGAATAGAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.38
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:44820623 original size:39 final size:43
Alignment explanation
Indices: 44820527--44820630 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 43
44820517 TGTATTGGAT
44820527 TAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAATGTAATGGAA
1 TAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA-GTAA-GGAA
* ***
44820572 TAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA-T-A-GAA
1 TAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAAGTAAGGAA
44820611 TAGAGGTGTAATAGCATAAT
1 TAGAGGTGTAATAGC-TAAT
44820631 GGAAAAAACT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
39 16 0.31
41 5 0.10
42 1 0.02
44 17 0.33
45 13 0.25
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.34
Consensus pattern (43 bp):
TAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAAGTAAGGAA
Found at i:44820789 original size:16 final size:16
Alignment explanation
Indices: 44820752--44820806 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
44820742 TTAATCATAT
*
44820752 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
44820768 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
44820783 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
44820801 -TAAAAT
1 TTAAAAT
44820807 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:44820799 original size:18 final size:18
Alignment explanation
Indices: 44820758--44820806 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
44820748 ATATTTAAAC
44820758 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
44820776 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
44820792 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
44820807 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:44820943 original size:156 final size:156
Alignment explanation
Indices: 44820659--44820986 Score: 602
Period size: 156 Copynumber: 2.1 Consensus size: 156
44820649 TAGAATACCC
* *
44820659 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
44820724 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAACTAAATATATTTTAATTAAAA
44820789 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
44820815 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
44820880 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTACTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAACTAAATATATTTTAATTAAAA
*
44820945 TATATAATTTAATAAAATTTTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
44820971 TTAGCAGAAATTTGTT
1 TTAGCAGAAAATTGTT
44820987 ATTGTTATTT
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 166 1.00
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAACTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:44820949 original size:18 final size:17
Alignment explanation
Indices: 44820928--44820962 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44820918 TTATTACTAA
*
44820928 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44820946 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44820963 TTTTATAATT
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:44820953 original size:137 final size:136
Alignment explanation
Indices: 44820664--44821103 Score: 472
Period size: 156 Copynumber: 3.1 Consensus size: 136
44820654 TACCCTTAGC
44820664 ATAAAATTGTTTTGGTAAATG-ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTAT
1 ATAAAATT-TTTTGGTAAATGTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTAT
*
44820728 CAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATA
65 CAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATA
44820793 TAATTTA
130 TAATTTA
* * *
44820800 ATAAAATTCTTATAATTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATT
1 ATAAAA-T-TT-T--TT-G--GTAAA-TG-TAT--T-ATTG-TTA----T--TGTTATTTAAATT
*
44820865 TTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTACTAAAT
46 TTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAAT
44820930 ATATTTTAATTAAAATATATAATTTA
111 ATATTTTAATTAAAATATATAATTTA
* * * ** *
44820956 ATAAAA-TTTTT-ATAATTAGCAGAAATTTGTTATTGTTATTTAAATTTTAATAAGATTATTAAT
1 ATAAAATTTTTTGGTAAAT-GTA-TTA-TTGTTATTGTTATTTAAATTTTAATAAGATTATTATT
* * * * ****
44821019 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATACATTATAATTTTGGTA
63 ATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATA
44821084 TATAATTTA
128 TATAATTTA
44821093 ATAAAATTTTT
1 ATAAAATTTTT
44821104 AATAATTTAT
Statistics
Matches: 256, Mismatches: 23, Indels: 48
0.78 0.07 0.15
Matches are distributed among these distances:
136 6 0.02
137 102 0.40
138 6 0.02
139 1 0.00
140 2 0.01
141 1 0.00
143 8 0.03
144 4 0.02
145 1 0.00
146 4 0.02
148 1 0.00
149 3 0.01
150 5 0.02
152 1 0.00
153 2 0.01
154 1 0.00
156 108 0.42
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (136 bp):
ATAAAATTTTTTGGTAAATGTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATC
AGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATAT
AATTTA
Found at i:44821062 original size:67 final size:66
Alignment explanation
Indices: 44820854--44821066 Score: 159
Period size: 67 Copynumber: 3.2 Consensus size: 66
44820844 ATTGTTAATG
*
44820854 TTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTAATATCA-TAATAAATATTTTAATCATATTTAAACATAAT
44820919 TA
65 TA
* * * * * ***
44820921 TTACTAAATATATTTTAATTAA-AATATATAAT-T--TAATAAA-ATTTTTATAATTAGCAGAAA
1 TTA-T--TTAAATTTTAA-TAAGATTAT-TAATATCATAATAAATATTTTAATCA-TA-TTTAAA
** * *
44820981 TTTGTTATTG
59 --CATAATTA
*
44820991 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTAATATC-ATAATAAATATTTTAATCATATTTAAACATAAT
44821056 TA
65 TA
44821058 TTA-TTAAAT
1 TTATTTAAAT
44821067 ACATTATAAT
Statistics
Matches: 105, Mismatches: 26, Indels: 31
0.65 0.16 0.19
Matches are distributed among these distances:
66 21 0.20
67 33 0.31
68 4 0.04
69 4 0.04
70 30 0.29
71 13 0.12
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (66 bp):
TTATTTAAATTTTAATAAGATTATTAATATCATAATAAATATTTTAATCATATTTAAACATAATT
A
Found at i:44821104 original size:137 final size:138
Alignment explanation
Indices: 44820845--44821110 Score: 426
Period size: 137 Copynumber: 1.9 Consensus size: 138
44820835 TAAATGATTA
* * *
44820845 TTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
* *
44820910 AAACATAATTATTACTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTT-ATAATTA
66 AAACATAATTATTACTAAATACATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATTA
44820974 GCAGAAAT
131 GCAGAAAT
*
44820982 TTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
* ****
44821047 AAACATAATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTTTTAATAATT
66 AAACATAATTATTACTAAATACATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATT
44821111 TATATTCTTA
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
137 111 0.95
138 6 0.05
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (138 bp):
TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
AAACATAATTATTACTAAATACATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATTA
GCAGAAAT
Found at i:44821144 original size:137 final size:134
Alignment explanation
Indices: 44820866--44821144 Score: 319
Period size: 137 Copynumber: 2.0 Consensus size: 134
44820856 ATTTAAATTT
* * *
44820866 TAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTACTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTACTAAATA
* * * *
44820931 TATTTTAATTAAAATATATAATTTAATAAAATTTTTATAATTAGCAGAAATTTGTTATTGTTATT
66 CATTATAATTAAAATATATAATTTAATAAAATTTTTATAATT---AGAAATTTCTTATTGTTACT
* **
44820996 TAAATTT
128 CAAATCA
*
44821003 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTACTAAATA
**** * *
44821068 CATTATAATTTTGGTATATAATTTAATAAAATTTTTAATAATT-TATA-TTCTTATATGAATTTA
66 CATTATAATTAAAATATATAATTTAATAAAATTTTT-ATAATTAGAAATTTCTTAT-TG---TTA
44821131 CTCAAATCA
126 CTCAAATCA
44821140 TAATA
1 TAATA
44821145 TATGATAAAT
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
133 6 0.05
134 4 0.03
137 104 0.87
138 6 0.05
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (134 bp):
TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTACTAAATA
CATTATAATTAAAATATATAATTTAATAAAATTTTTATAATTAGAAATTTCTTATTGTTACTCAA
ATCA
Found at i:44822105 original size:18 final size:17
Alignment explanation
Indices: 44822084--44822118 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44822074 TTATTATTAA
*
44822084 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44822102 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44822119 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:44822138 original size:16 final size:16
Alignment explanation
Indices: 44822117--44822155 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
44822107 ATTTAATAAA
44822117 ATTCTTAATAATCAAT
1 ATTCTTAATAATCAAT
44822133 ATTCTTAATAATCAAT
1 ATTCTTAATAATCAAT
44822149 ATTCTTA
1 ATTCTTA
44822156 TAACAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTCTTAATAATCAAT
Found at i:44826674 original size:19 final size:19
Alignment explanation
Indices: 44826647--44826684 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
44826637 TTGTATTATA
44826647 AATTAATATTAATTTAATT
1 AATTAATATTAATTTAATT
* *
44826666 AATTTATATTATTTTAATT
1 AATTAATATTAATTTAATT
44826685 TTTTTTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
AATTAATATTAATTTAATT
Found at i:44827790 original size:18 final size:18
Alignment explanation
Indices: 44827769--44827830 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 18
44827759 ACAATTGAAC
44827769 ATTTTTATATAATTTTTA
1 ATTTTTATATAATTTTTA
44827787 ATTTTTATAT--TTTCTGTA
1 ATTTTTATATAATTT-T-TA
44827805 ATTTTT-TATAGATATTTTAA
1 ATTTTTATATA-AT-TTTT-A
44827825 ATTTTT
1 ATTTTT
44827831 GAAGATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.08
17 4 0.11
18 18 0.49
19 1 0.03
20 9 0.24
21 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (18 bp):
ATTTTTATATAATTTTTA
Found at i:44831712 original size:45 final size:45
Alignment explanation
Indices: 44831608--44831712 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 45
44831598 TCCATCATTA
* * * *
44831608 TGATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTC
1 TGATCCGCTCCACTACAACTTCAGGGAGATAAGATTGGTATCTTC
* *
44831653 TG-TCCGCTCCACTACAACTTCAGGGAGATAAGTTTTGTCATCTTC
1 TGATCCGCTCCACTACAACTTCAGGGAGATAAGATTGGT-ATCTTC
*
44831698 -GATCTGCTCCACTAC
1 TGATCCGCTCCACTAC
44831713 TGTTTAGGTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
44 32 0.63
45 19 0.37
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (45 bp):
TGATCCGCTCCACTACAACTTCAGGGAGATAAGATTGGTATCTTC
Found at i:44831982 original size:86 final size:88
Alignment explanation
Indices: 44831836--44832000 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 88
44831826 AATCTGCCTT
* * * ** *
44831836 ACTACAACCGAGGAAGGTAAGGTTTGTGTCTTCGATCTACTTCGTTGTTGATGCAGGAAGGCAAG
1 ACTACAACCGAGGAAGGCAAGGTCTGTGTCTTCGATCTACTTCGCTGTCAACGCAGGAAGGCAAG
*
44831901 ATCTGCTATCTTCAACCTACTCC
66 ATCTGATATCTTCAACCTACTCC
* * * *
44831924 ACTACAACCGAGGGAGGCAAGG-CT-TGTCTTCGATCTGCTTCGCTGTCAACGCATGAAGGTAAG
1 ACTACAACCGAGGAAGGCAAGGTCTGTGTCTTCGATCTACTTCGCTGTCAACGCAGGAAGGCAAG
*
44831987 ATCTGATGTCTTCA
66 ATCTGATATCTTCA
44832001 TTGATCTGTT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
86 44 0.68
87 1 0.02
88 20 0.31
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (88 bp):
ACTACAACCGAGGAAGGCAAGGTCTGTGTCTTCGATCTACTTCGCTGTCAACGCAGGAAGGCAAG
ATCTGATATCTTCAACCTACTCC
Found at i:44833271 original size:15 final size:14
Alignment explanation
Indices: 44833238--44833270 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
44833228 TTATTTTTCA
44833238 TTTTTCATTTCCAT
1 TTTTTCATTTCCAT
*
44833252 TTTTTCATTTTCAT
1 TTTTTCATTTCCAT
44833266 TTTTT
1 TTTTT
44833271 TAGACTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTCATTTCCAT
Found at i:44834156 original size:15 final size:15
Alignment explanation
Indices: 44834129--44834162 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
44834119 CTCATTTTTC
44834129 TTTTCTTTTTCTT-T
1 TTTTCTTTTTCTTAT
44834143 TTTTCTTCTTTCTTAT
1 TTTTCTT-TTTCTTAT
44834159 TTTT
1 TTTT
44834163 GACTTTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 6 0.33
16 5 0.28
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTTCTTAT
Found at i:44834187 original size:11 final size:11
Alignment explanation
Indices: 44834171--44834221 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
44834161 TTGACTTTGA
44834171 TTTTTTGATTT
1 TTTTTTGATTT
44834182 TTTTTTG-TTT
1 TTTTTTGATTT
44834192 TTAATTTTGA--T
1 TT--TTTTGATTT
44834203 TTTTTTGATTT
1 TTTTTTGATTT
44834214 TTTTTTGA
1 TTTTTTGA
44834222 ATTGGATCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
9 6 0.17
10 5 0.14
11 19 0.54
12 5 0.14
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (11 bp):
TTTTTTGATTT
Found at i:44834193 original size:31 final size:32
Alignment explanation
Indices: 44834158--44834220 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
44834148 TTCTTTCTTA
*
44834158 TTTTTGACTTTGA-TTTTTTGATTTTTTTTTG
1 TTTTTAACTTTGATTTTTTTGATTTTTTTTTG
*
44834189 TTTTTAATTTTGATTTTTTTGATTTTTTTTTG
1 TTTTTAACTTTGATTTTTTTGATTTTTTTTTG
44834221 AATTGGATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.76
Consensus pattern (32 bp):
TTTTTAACTTTGATTTTTTTGATTTTTTTTTG
Found at i:44834215 original size:23 final size:23
Alignment explanation
Indices: 44834173--44834217 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
44834163 GACTTTGATT
*
44834173 TTTTGATTTTTTTTTGTTTTTAA
1 TTTTGATTTTTTTATGTTTTTAA
*
44834196 TTTTGATTTTTTTGATTTTTTT
1 TTTTGATTTTTTT-ATGTTTTT
44834218 TTGAATTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (23 bp):
TTTTGATTTTTTTATGTTTTTAA
Found at i:44836581 original size:20 final size:21
Alignment explanation
Indices: 44836539--44836583 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
44836529 TCTTTTTACA
*
44836539 TTTGCTCCAGTTTCTCTAATC
1 TTTGATCCAGTTTCTCTAATC
* *
44836560 TTTGATCCA-TTTCTTTAGTC
1 TTTGATCCAGTTTCTCTAATC
44836580 TTTG
1 TTTG
44836584 CTTGGATATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.13, C:0.22, G:0.11, T:0.53
Consensus pattern (21 bp):
TTTGATCCAGTTTCTCTAATC
Found at i:44840596 original size:20 final size:19
Alignment explanation
Indices: 44840571--44840626 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
44840561 AAAATTTATG
44840571 TTCTAAAATAATTATAAAAA
1 TTCTAAAA-AATTATAAAAA
44840591 TTCTAAAAAATGTATAAAAA
1 TTCTAAAAAAT-TATAAAAA
*
44840611 AT-TAAAAAATTA-AAAA
1 TTCTAAAAAATTATAAAA
44840627 TTTTCTAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 4 0.12
18 2 0.06
19 11 0.32
20 17 0.50
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
TTCTAAAAAATTATAAAAA
Found at i:44840608 original size:11 final size:10
Alignment explanation
Indices: 44840574--44840619 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
44840564 ATTTATGTTC
44840574 TAAAATAATTA
1 TAAAA-AATTA
*
44840585 T-AAAAATTC
1 TAAAAAATTA
44840594 TAAAAAATGTA
1 TAAAAAAT-TA
44840605 TAAAAAATTA
1 TAAAAAATTA
44840615 -AAAAA
1 TAAAAA
44840620 TTAAAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 10 0.32
10 11 0.35
11 10 0.32
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
TAAAAAATTA
Done.