Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 67 of 255
Found at i:19654651 original size:25 final size:24
Alignment explanation
Indices: 19654598--19654711 Score: 72
Period size: 25 Copynumber: 4.6 Consensus size: 24
19654588 GTTACCAATT
* *
19654598 TCAGCTCGTACGAGCTTGCCGA-TAC
1 TCAGCTCG-AAGAGCTTACC-ATTAC
* *
19654623 TCAGCTCGCATGAGCTTACCATTAT
1 TCAGCTCG-AAGAGCTTACCATTAC
* *
19654648 TCAGTTTGAAGAAGCTTACCATTAC
1 TCAGCTCGAAG-AGCTTACCATTAC
* *
19654673 TCAGCTCGGAGGAGCTTATCATTGA-
1 TCAGCTC-GAAGAGCTTACCATT-AC
19654698 T-AGCTCGTAAGAGC
1 TCAGCTCG-AAGAGC
19654712 ATACTGATTT
Statistics
Matches: 71, Mismatches: 13, Indels: 11
0.75 0.14 0.12
Matches are distributed among these distances:
23 1 0.01
24 13 0.18
25 53 0.75
26 4 0.06
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (24 bp):
TCAGCTCGAAGAGCTTACCATTAC
Found at i:19659666 original size:13 final size:13
Alignment explanation
Indices: 19659653--19659702 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
19659643 AAACAGAATT
*
19659653 AGATATACAGATT
1 AGATATACAGATC
*
19659666 AAATATACAGATC
1 AGATATACAGATC
19659679 AGATATACAGATC
1 AGATATACAGATC
*
19659692 AGACATACAGA
1 AGATATACAGA
19659703 ATCCTACCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (13 bp):
AGATATACAGATC
Found at i:19666450 original size:30 final size:30
Alignment explanation
Indices: 19666416--19666476 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
19666406 TCTTTAATAC
19666416 AAACTTTGGAAAAATTACA-TTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTT-CCCCT
* *
19666446 AAACTTTTGAATAATTACACTTTTTCCCCT
1 AAACTTTGGAAAAATTACACTTTTTCCCCT
19666476 A
1 A
19666477 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTTCCCCT
Found at i:19670528 original size:15 final size:15
Alignment explanation
Indices: 19670508--19670539 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
19670498 AGAACACTTA
19670508 ACCACTGAAGCAGAT
1 ACCACTGAAGCAGAT
19670523 ACCACTGAAGCAGAT
1 ACCACTGAAGCAGAT
19670538 AC
1 AC
19670540 ATATTTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.28, G:0.19, T:0.12
Consensus pattern (15 bp):
ACCACTGAAGCAGAT
Found at i:19676616 original size:43 final size:43
Alignment explanation
Indices: 19676532--19676617 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
19676522 AAATCGTACA
*
19676532 ATGCCAACGTCCCAGACGTGGTCTTACATGTAACCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACAAATATCG
*
19676575 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAAACAAATATCG
19676618 GAATCACAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 34 0.89
44 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACAAATATCG
Found at i:19683998 original size:28 final size:27
Alignment explanation
Indices: 19683966--19684061 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 27
19683956 ACATACATGC
19683966 ATATGGCCCACTTGGCCCAATCTCATTT
1 ATATGGCCCA-TTGGCCCAATCTCATTT
* * *
19683994 ATATGGCCCATCAGGCCCAAATCACCTTT
1 ATATGGCCCAT-TGGCCC-AATCTCATTT
*
19684023 ATATGGCCCATTAGGCCCAATATCATTT
1 ATATGGCCCATT-GGCCCAATCTCATTT
19684051 ATATGGCCCAT
1 ATATGGCCCAT
19684062 CCGACTCAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
27 1 0.02
28 33 0.57
29 24 0.41
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (27 bp):
ATATGGCCCATTGGCCCAATCTCATTT
Found at i:19684072 original size:57 final size:57
Alignment explanation
Indices: 19683966--19684075 Score: 168
Period size: 57 Copynumber: 1.9 Consensus size: 57
19683956 ACATACATGC
* *
19683966 ATATGGCCCACTTGGCCCAATCTCATTTATATGGCCCATCAGGCCCAAATCACCTTT
1 ATATGGCCCACTTGGCCCAATATCATTTATATGGCCCATCAGACCCAAATCACCTTT
* *
19684023 ATATGGCCCA-TTAGGCCCAATATCATTTATATGGCCCATCCGACTCAAATCAC
1 ATATGGCCCACTT-GGCCCAATATCATTTATATGGCCCATCAGACCCAAATCAC
19684076 ATTATATTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 2 0.04
57 46 0.96
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (57 bp):
ATATGGCCCACTTGGCCCAATATCATTTATATGGCCCATCAGACCCAAATCACCTTT
Found at i:19684080 original size:28 final size:28
Alignment explanation
Indices: 19683966--19684082 Score: 114
Period size: 28 Copynumber: 4.1 Consensus size: 28
19683956 ACATACATGC
* *
19683966 ATATGGCCCA-CTTGGCCCAATCTCA-TTT
1 ATATGGCCCATC-AGGCCCAA-ATCACTTT
19683994 ATATGGCCCATCAGGCCCAAATCACCTTT
1 ATATGGCCCATCAGGCCCAAATCA-CTTT
*
19684023 ATATGGCCCATTAGGCCCAATATCA-TTT
1 ATATGGCCCATCAGGCCCAA-ATCACTTT
* * * *
19684051 ATATGGCCCATCCGACTCAAATCACATT
1 ATATGGCCCATCAGGCCCAAATCACTTT
19684079 ATAT
1 ATAT
19684083 TCATGCTCAT
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
27 7 0.09
28 42 0.55
29 23 0.30
30 4 0.05
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAAATCACTTT
Found at i:19690023 original size:11 final size:11
Alignment explanation
Indices: 19689990--19690032 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
19689980 ATCTTCTTGG
19689990 TTTGG-TCCTT
1 TTTGGCTCCTT
19690000 TTT-G-TCCTT
1 TTTGGCTCCTT
*
19690009 TTTGGCTCGTT
1 TTTGGCTCCTT
19690020 TTTGGCTCCTT
1 TTTGGCTCCTT
19690031 TT
1 TT
19690033 GACTCTTGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 9 0.31
10 4 0.14
11 16 0.55
ACGTcount: A:0.00, C:0.21, G:0.19, T:0.60
Consensus pattern (11 bp):
TTTGGCTCCTT
Found at i:19699424 original size:42 final size:43
Alignment explanation
Indices: 19699368--19699462 Score: 113
Period size: 42 Copynumber: 2.2 Consensus size: 43
19699358 TTGTTTTATG
* *
19699368 TGTAAGACCATGTCTGGGACA-TCAGCATCG-TATCTGATTTCA
1 TGTAAGACCATGTCTAGGACAGT-AGCATCGATATCTGATTACA
* * * *
19699410 TGTAAGACCCTGTCTAGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTAGGACAGTAGCATCGATATCTGATTACA
19699453 TGTAAGACCA
1 TGTAAGACCA
19699463 CATTTCGGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 25 0.57
43 19 0.43
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACAGTAGCATCGATATCTGATTACA
Found at i:19710322 original size:31 final size:31
Alignment explanation
Indices: 19710249--19710322 Score: 112
Period size: 32 Copynumber: 2.4 Consensus size: 31
19710239 GTTTAAAGTA
* *
19710249 CTCTCCCCTAACTGATTACAAGTTGTTATTT
1 CTCTCCCCTAACTCATTACAAGTTATTATTT
*
19710280 TTCTTCCCCTAACTCATTACAAGTTATTATTT
1 CTC-TCCCCTAACTCATTACAAGTTATTATTT
19710312 CTCTCCCCTAA
1 CTCTCCCCTAA
19710323 TGTTGGGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 10 0.26
32 28 0.74
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (31 bp):
CTCTCCCCTAACTCATTACAAGTTATTATTT
Found at i:19714135 original size:40 final size:40
Alignment explanation
Indices: 19714091--19714237 Score: 190
Period size: 40 Copynumber: 3.7 Consensus size: 40
19714081 ATTTGATGTA
* * *
19714091 TGTATCCGGGCTTAAAGACCCGTAGGCTATATGTTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
19714131 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
* * *
19714171 TCTATCCGGGTTTAAAGACCCGCAAGCT-TCGTGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTAT-ATGCTGGAAT
* * *
19714211 GGAATCCGGG-TTAAAGACCCGTAGGCT
1 TGTATCCGGGTTTAAAGACCCGCAGGCT
19714238 CGTGTTAGAA
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 16 0.17
40 79 0.83
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
Found at i:19721837 original size:40 final size:40
Alignment explanation
Indices: 19721782--19721957 Score: 239
Period size: 40 Copynumber: 4.4 Consensus size: 40
19721772 GTATTCGGAC
*
19721782 TTAAAGACCCGCAGGCTATATGCTGGAATTGTAGCCGGGT
1 TTAAAGACCCGCAGGCTATATGCTGGAATTGTATCCGGGT
19721822 TTAAAGACCCGCAGGCTATATGCTGGAATTGTATCCGGGT
1 TTAAAGACCCGCAGGCTATATGCTGGAATTGTATCCGGGT
* *
19721862 TTAAAGACCCACAGGCTATATGCTGGAATTCTATCCGGGT
1 TTAAAGACCCGCAGGCTATATGCTGGAATTGTATCCGGGT
** * * * *
19721902 TTAAAGACTTGTAGGCT-TAGTGCTGGAATGGAATCAGGG-
1 TTAAAGACCCGCAGGCTATA-TGCTGGAATTGTATCCGGGT
*
19721941 TTAAAGACCCGTAGGCT
1 TTAAAGACCCGCAGGCT
19721958 CGTGCTAGAA
Statistics
Matches: 122, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
39 17 0.14
40 105 0.86
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (40 bp):
TTAAAGACCCGCAGGCTATATGCTGGAATTGTATCCGGGT
Found at i:19734844 original size:19 final size:19
Alignment explanation
Indices: 19734817--19734853 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19734807 GTCAGCATAG
19734817 ATTCATAGGCATAACTTAA
1 ATTCATAGGCATAACTTAA
*
19734836 ATTCGTAGGCATAACTTA
1 ATTCATAGGCATAACTTA
19734854 CACATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (19 bp):
ATTCATAGGCATAACTTAA
Found at i:19739467 original size:34 final size:34
Alignment explanation
Indices: 19739424--19739492 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
19739414 TGTACATCCA
*
19739424 ATAACACCATTTATGGTCTAATTACCATATAAGG
1 ATAACACCATTTATGGTCTAATTACCACATAAGG
*
19739458 ATAACACCATTTATTGTCTAATTACCACATAAGG
1 ATAACACCATTTATGGTCTAATTACCACATAAGG
19739492 A
1 A
19739493 CTCATACTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (34 bp):
ATAACACCATTTATGGTCTAATTACCACATAAGG
Found at i:19740390 original size:16 final size:16
Alignment explanation
Indices: 19740369--19740405 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
19740359 TACTGGGCCG
19740369 GTGTCGTGACACCCTA
1 GTGTCGTGACACCCTA
19740385 GTGTCGTGACACCCTA
1 GTGTCGTGACACCCTA
*
19740401 ATGTC
1 GTGTC
19740406 TATGTCGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.30, G:0.24, T:0.27
Consensus pattern (16 bp):
GTGTCGTGACACCCTA
Found at i:19741998 original size:57 final size:58
Alignment explanation
Indices: 19741889--19742006 Score: 184
Period size: 57 Copynumber: 2.1 Consensus size: 58
19741879 GGTATATTTG
* * * *
19741889 ATTACTCAATACCTATTTAAAGTATAATATATAGACCTTAATAGTCTAAAAATTTAAA
1 ATTACTCAATACCTATTTAAAGCATAATATATAGAACTCAATAGTCTAAAAATTAAAA
*
19741947 ATTACTCAATACCTATTTAAAGCA-AATATATAGAACTCAGTAGTCTAAAAATTAAAA
1 ATTACTCAATACCTATTTAAAGCATAATATATAGAACTCAATAGTCTAAAAATTAAAA
19742004 ATT
1 ATT
19742007 GAAAATCAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 32 0.58
58 23 0.42
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (58 bp):
ATTACTCAATACCTATTTAAAGCATAATATATAGAACTCAATAGTCTAAAAATTAAAA
Found at i:19749121 original size:47 final size:47
Alignment explanation
Indices: 19749052--19749614 Score: 957
Period size: 47 Copynumber: 11.9 Consensus size: 47
19749042 ACATAGTTGT
19749052 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
19749099 TCGGCTATT-GGACCTTATCACATATATACACTTTCACATTCATCACA
1 TCGGCCATTAGG-CCTTATCACATATATACACTTTCACATTCATCACA
19749146 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
19749193 TCGGCTATTAGGCCTTATCAAATATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
19749240 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACG
1 TCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
*
19749289 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
19749336 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
19749383 TCGGCTATTAGGCCTTATCACATATATACATTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
19749430 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* * *
19749479 TTGGCCATTCGGCCTTATTACATATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
19749526 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
*
19749575 TCGACCATTAGGCCTTATCACATATATACACTTTCACATT
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
19749615 TATTCAAATA
Statistics
Matches: 487, Mismatches: 21, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
46 2 0.00
47 349 0.72
48 2 0.00
49 134 0.28
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (47 bp):
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
Found at i:19749330 original size:143 final size:141
Alignment explanation
Indices: 19749052--19749614 Score: 957
Period size: 143 Copynumber: 4.0 Consensus size: 141
19749042 ACATAGTTGT
*
19749052 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATT-GGACCTTA
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTTA
19749116 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
65 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
19749181 ACATTCATCACA
130 ACATTCATCACA
* *
19749193 TCGGCTATTAGGCCTTATCAAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
* *
19749258 CACATATATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACATATATACACTTT
66 CAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
19749323 CACATTCATCACA
129 CACATTCATCACA
*
19749336 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
19749401 CACATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
66 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTT
19749466 CACATTCATCACA
129 CACATTCATCACA
* * *
19749479 TTGGCCATTCGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
19749544 CACATATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTT
66 CAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
19749609 CACATT
129 CACATT
19749615 TATTCAAATA
Statistics
Matches: 398, Mismatches: 17, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
141 106 0.27
142 2 0.01
143 245 0.62
145 45 0.11
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (141 bp):
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
CATTCATCACA
Found at i:19749373 original size:190 final size:189
Alignment explanation
Indices: 19749052--19749614 Score: 995
Period size: 190 Copynumber: 3.0 Consensus size: 189
19749042 ACATAGTTGT
19749052 TCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTGGACCTT
1 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTGG-CCTT
19749115 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
65 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
*
19749180 CACATTCATCACATCGGCTATTAGGCCTTATCAAATATATACACTTTCACATTCATCACA
130 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
19749240 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTT
1 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATT-GGCCTT
19749305 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
65 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
*
19749370 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACATTTTCACATTCATCACA
130 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
19749430 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
1 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATT-GGCCTT
*
19749495 ATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
65 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACT
* *
19749560 TTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACATT
128 TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATT
19749615 TATTCAAATA
Statistics
Matches: 359, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
188 21 0.06
190 273 0.76
191 2 0.01
192 63 0.18
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (189 bp):
TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTGGCCTTA
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
Found at i:19752226 original size:21 final size:23
Alignment explanation
Indices: 19752191--19752235 Score: 76
Period size: 21 Copynumber: 2.0 Consensus size: 23
19752181 ATCAAAGATT
19752191 CCCTTTAGTGGTATTGTGATATC
1 CCCTTTAGTGGTATTGTGATATC
19752214 CCCTTT-G-GGTATTGTGATATC
1 CCCTTTAGTGGTATTGTGATATC
19752235 C
1 C
19752236 ACCTGCCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 15 0.68
22 1 0.05
23 6 0.27
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (23 bp):
CCCTTTAGTGGTATTGTGATATC
Found at i:19755014 original size:23 final size:23
Alignment explanation
Indices: 19754985--19755110 Score: 118
Period size: 23 Copynumber: 5.5 Consensus size: 23
19754975 ACAGCTCGTT
* *
19754985 GAGCTTACCGTTTCAGTT-TTTAT
1 GAGCTTACCGTTTCA-TTCCTTAG
* * *
19755008 GAGCTTACC-ATTCAGAT-CTTCG
1 GAGCTTACCGTTTCA-TTCCTTAG
19755030 GAGCTTACCGTTTCATTCCTTAG
1 GAGCTTACCGTTTCATTCCTTAG
*
19755053 GGGCTTACCGTTTCATTCCTTAG
1 GAGCTTACCGTTTCATTCCTTAG
*
19755076 GGGCTTACCGTTTCA-T-CTCTACG
1 GAGCTTACCGTTTCATTCCT-TA-G
19755099 GAGCTTACCGTT
1 GAGCTTACCGTT
19755111 CAGCTCAATT
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
21 2 0.02
22 21 0.24
23 66 0.74
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (23 bp):
GAGCTTACCGTTTCATTCCTTAG
Found at i:19758222 original size:14 final size:14
Alignment explanation
Indices: 19758205--19758234 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19758195 GGATAATTAA
19758205 ATTAGTGAAATTTT
1 ATTAGTGAAATTTT
19758219 ATTAGTGAAATTTT
1 ATTAGTGAAATTTT
19758233 AT
1 AT
19758235 CATTTTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (14 bp):
ATTAGTGAAATTTT
Found at i:19758585 original size:48 final size:48
Alignment explanation
Indices: 19758509--19758778 Score: 287
Period size: 48 Copynumber: 5.6 Consensus size: 48
19758499 TATGTGTGCC
*
19758509 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATAGGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCT
* * * *
19758557 AGTGCAAGACCATGTCTGGGACATGGCATCGG-CATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCT
* * * *
19758605 AGTGTAAGACCATGTTTGAGACATGGCATCGGCCAC-ATTATAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCT
* * ** * *
19758653 AATGTAAGACCATGTCTAGGACATGGCAT-GG-CATTAAGATGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCT
* * * * *
19758700 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCT
* *
19758748 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
19758779 ACAATTCACC
Statistics
Matches: 183, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
46 2 0.01
47 38 0.21
48 140 0.77
49 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCT
Found at i:19758747 original size:95 final size:96
Alignment explanation
Indices: 19758509--19758778 Score: 346
Period size: 95 Copynumber: 2.8 Consensus size: 96
19758499 TATGTGTGCC
* * * *
19758509 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATAGGAGAGCTAGTGCAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAGCCAGTGTAAGACCATGTCT
* * * ***
19758574 GGGACATGGCATCGGCATTGATATGTGCGCT
66 AGGACATGGCATCGGCATTAAGATGAAAGCT
* * * * *
19758605 AGTGTAAGACCATGTTTGAGACATGGCATCGGCCACATTATAAGAGCCAATGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAGCCAGTGTAAGACCATGTCT
19758670 AGGACATGGCAT-GGCATTAAGATGAAAGCT
66 AGGACATGGCATCGGCATTAAGATGAAAGCT
* * *
19758700 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAACATGTGAGCCAGTGTAAGACCATGT-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAGCCAGTGTAAGACCATGTCT
*
19758764 TGGAACATGGCATCG
66 AGG-ACATGGCATCG
19758779 ACAATTCACC
Statistics
Matches: 148, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
94 3 0.02
95 77 0.52
96 68 0.46
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAGCCAGTGTAAGACCATGTCT
AGGACATGGCATCGGCATTAAGATGAAAGCT
Found at i:19758772 original size:143 final size:143
Alignment explanation
Indices: 19758506--19758778 Score: 381
Period size: 143 Copynumber: 1.9 Consensus size: 143
19758496 TGATATGTGT
* * * *
19758506 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATAGGAGAGCTAGTGCAAGACCATG
1 GCCAATGTAAGACCATGTCTAGGACATGGCATCGGCCAAGATA-GAAAGCTAGTGCAAGACCATG
** * * *
19758571 TCTGGGACATGGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATGTTTGAGACATGGCATCG
65 TCTGGGACATGGCATCGGCATCAACATGTGAGCCAGTGTAAGACCATGTTTGAGACATGGCATCG
19758636 GCCACATTATAAGA
130 GCCACATTATAAGA
* *
19758650 GCCAATGTAAGACCATGTCTAGGACATGGCAT-GGCATTAAGAT-GAAAGCTAGTGTAAGACCAT
1 GCCAATGTAAGACCATGTCTAGGACATGGCATCGGC--CAAGATAGAAAGCTAGTGCAAGACCAT
*
19758713 GTCTGGGACATGGCATCGGCCTCAACATGTGAGCCAGTGTAAGACCATGTTTG-GAACATGGCAT
64 GTCTGGGACATGGCATCGGCATCAACATGTGAGCCAGTGTAAGACCATGTTTGAG-ACATGGCAT
19758777 CG
128 CG
19758779 ACAATTCACC
Statistics
Matches: 114, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
142 1 0.01
143 79 0.69
144 30 0.26
145 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (143 bp):
GCCAATGTAAGACCATGTCTAGGACATGGCATCGGCCAAGATAGAAAGCTAGTGCAAGACCATGT
CTGGGACATGGCATCGGCATCAACATGTGAGCCAGTGTAAGACCATGTTTGAGACATGGCATCGG
CCACATTATAAGA
Found at i:19764459 original size:46 final size:45
Alignment explanation
Indices: 19764406--19764657 Score: 244
Period size: 46 Copynumber: 5.5 Consensus size: 45
19764396 TGTGTGCCAC
19764406 TGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGATAGCTAG
* * * * **
19764452 TGTAAGACCATGTCT-GGACATGGCATC-GACATTGAGACGAGGGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATATGATAGCTAG
* * *
19764499 TGTAAGACATGTCTGGGACATGCATCAGCCATAATATGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCA-CATATGATAGCTAG
* * * *
19764545 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGATAGCTAG
* * *
19764591 TGTCAA-ACATGTCTGGGACATGCGTCGGCTACGAGATG-T-GCTAG
1 TGT-AAGACATGTCTGGGACATGCATCGGCCAC-ATATGATAGCTAG
19764635 TGTAAGACATGTCTGGGACATGC
1 TGTAAGACATGTCTGGGACATGC
19764658 GTTAGCACGG
Statistics
Matches: 175, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
43 2 0.01
44 24 0.14
45 1 0.01
46 109 0.62
47 38 0.22
48 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCACATATGATAGCTAG
Found at i:19764521 original size:93 final size:92
Alignment explanation
Indices: 19764401--19764656 Score: 297
Period size: 93 Copynumber: 2.8 Consensus size: 92
19764391 AGATTTGTGT
*
19764401 GCCACTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCTAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGATAGCTAGTGTAAGA-CATGTC
* *
19764466 T-GGACATGGCATCGACATTGAGACGAGG
64 TGGGACATGGCATCGACATCGAGACGAGA
* * * *
19764494 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATAATATGAGAGCTAGTGTAAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCA-CATATGATAGCTAGTGTAAGACATGTCT
* * * **
19764559 GGGACAT-GCATCGGCCTCGAGATGTTA
65 GGGACATGGCATCGACATCGAGACGAGA
* * *
19764586 GCCAGTGTCAA-ACATGTCTGGGACATGCGTCGGCTACGAGATG-T-GCTAGTGTAAGACATGTC
1 GCCAGTGT-AAGACATGTCTGGGACATGCATCGGCCAC-ATATGATAGCTAGTGTAAGACATGTC
19764648 TGGGACATG
64 TGGGACATG
19764657 CGTTAGCACG
Statistics
Matches: 139, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
90 26 0.19
92 53 0.38
93 59 0.42
94 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (92 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGATAGCTAGTGTAAGACATGTCTG
GGACATGGCATCGACATCGAGACGAGA
Found at i:19771850 original size:29 final size:29
Alignment explanation
Indices: 19771813--19771896 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
19771803 AATTATATTC
*
19771813 ATATGGGCCCATTAGGCCCAAATCACCCGT
1 ATAT-GGCCCATTAGGCCCAAATCACACGT
* **
19771843 ATATGGCCCATTAGGCCCAAATTACATTT
1 ATATGGCCCATTAGGCCCAAATCACACGT
*
19771872 ATATGGCCCGTTAGGCCC-AATCACA
1 ATATGGCCCATTAGGCCCAAATCACA
19771897 TTCATATTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.12
29 38 0.79
30 4 0.08
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACACGT
Found at i:19771853 original size:58 final size:57
Alignment explanation
Indices: 19771783--19771895 Score: 147
Period size: 58 Copynumber: 2.0 Consensus size: 57
19771773 TCACATACTT
* * *
19771783 GTATCTGGCCCATTAAGCTC-AATTATATTCATATGGGCCCATTAGGCCCAAATCACCC
1 GTATATGGCCCATTAAGCCCAAATTACATTCATAT-GGCCCATTAGGCCC-AATCACCC
* * *
19771841 GTATATGGCCCATTAGGCCCAAATTACATTTATATGGCCCGTTAGGCCCAATCAC
1 GTATATGGCCCATTAAGCCCAAATTACATTCATATGGCCCATTAGGCCCAATCAC
19771896 ATTCATATTC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 6 0.12
58 30 0.62
59 12 0.25
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (57 bp):
GTATATGGCCCATTAAGCCCAAATTACATTCATATGGCCCATTAGGCCCAATCACCC
Found at i:19775130 original size:13 final size:13
Alignment explanation
Indices: 19775108--19775140 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
19775098 AAGGATTTGT
19775108 TTAT-TAAACTAA
1 TTATCTAAACTAA
19775120 TTATCTAAACTAA
1 TTATCTAAACTAA
*
19775133 TTAACTAA
1 TTATCTAA
19775141 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:19779712 original size:40 final size:40
Alignment explanation
Indices: 19779650--19779894 Score: 345
Period size: 40 Copynumber: 6.2 Consensus size: 40
19779640 AAACCAAGTA
* * *
19779650 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
19779689 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
19779729 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
19779769 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
19779809 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * *
19779849 CCTTCGGGACTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
19779889 CCTTCG
1 CCTTCG
19779895 TTATCATCCG
Statistics
Matches: 194, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
39 16 0.08
40 176 0.91
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:19782841 original size:27 final size:27
Alignment explanation
Indices: 19782811--19782988 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
19782801 ATATTGAGTC
* * * *
19782811 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
19782838 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19782865 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19782893 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19782920 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19782947 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19782974 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19782989 GTACAATTTT
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19782950 original size:82 final size:81
Alignment explanation
Indices: 19782832--19782987 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
19782822 TGCTATATAA
*
19782832 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19782897 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19782914 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19782978 CACTTAGTGC
65 CACTTAGTGC
19782988 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19790355 original size:27 final size:27
Alignment explanation
Indices: 19790325--19790502 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
19790315 ATATTGAGTC
* * * *
19790325 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
19790352 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19790379 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19790407 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19790434 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19790461 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19790488 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19790503 GTACAATTTT
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19790420 original size:82 final size:81
Alignment explanation
Indices: 19790325--19790502 Score: 232
Period size: 82 Copynumber: 2.2 Consensus size: 81
19790315 ATATTGAGTC
* *
19790325 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGC-TACATAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTA
*
19790389 GTGCTACATAGTCAAACT
65 GTGCAACATAGTCAAA-T
** ** * * **
19790407 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAG
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAG
19790472 TGCAACATAGTCAAAT
66 TGCAACATAGTCAAAT
19790488 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19790503 GTACAATTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
81 15 0.18
82 67 0.81
83 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAG
TGCAACATAGTCAAAT
Found at i:19792110 original size:14 final size:14
Alignment explanation
Indices: 19792091--19792138 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
19792081 TTTTCATTAC
19792091 TTTATTTCTAACCT
1 TTTATTTCTAACCT
**
19792105 TTTATTT-TATTCT
1 TTTATTTCTAACCT
19792118 TTTATTTCTAACCT
1 TTTATTTCTAACCT
19792132 TTTATTT
1 TTTATTT
19792139 TATTCTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATTTCTAACCT
Found at i:19792121 original size:27 final size:27
Alignment explanation
Indices: 19792091--19792146 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
19792081 TTTTCATTAC
19792091 TTTATTTCTAACCTTTTATTTTATTCT
1 TTTATTTCTAACCTTTTATTTTATTCT
19792118 TTTATTTCTAACCTTTTATTTTATTCT
1 TTTATTTCTAACCTTTTATTTTATTCT
19792145 TT
1 TT
19792147 CTCCCATAAA
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:0.18, C:0.14, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTATTTCTAACCTTTTATTTTATTCT
Found at i:19798805 original size:39 final size:40
Alignment explanation
Indices: 19798668--19798815 Score: 223
Period size: 40 Copynumber: 3.7 Consensus size: 40
19798658 GGATTTAACT
*
19798668 GGATATAGCTA-CTCGCTCAAATGCCTTCGGGACTTAGCCC
1 GGATATAG-TAGCTCGCACAAATGCCTTCGGGACTTAGCCC
19798708 GGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCC
19798748 GGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAG-CC
1 GGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCC
*
19798787 GGA-ATTAGTCA-CTAGCACAAATGCCTTCG
1 GGATA-TAGT-AGCTCGCACAAATGCCTTCG
19798816 TTATCATCCG
Statistics
Matches: 103, Mismatches: 2, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
38 1 0.01
39 28 0.27
40 74 0.72
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
GGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:19802753 original size:48 final size:47
Alignment explanation
Indices: 19802679--19802906 Score: 262
Period size: 48 Copynumber: 4.8 Consensus size: 47
19802669 TGATATGTGT
* * *
19802679 GCCAGTGTAAGTCCATGTCTGGGACATGGCATCAGCCACGATAGGAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC-ATAGGAGA
* *
19802727 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACA-TAGGAGA
* *
19802775 GCCAGTGTAAGACCATCTTTGGGACATGGCATCGG-CA-TTAAGACGAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAT-AG--GAGA
* * * * * *
19802823 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAACATGTGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC-ATAGGAGA
*
19802871 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGC
19802907 AATTCACCCT
Statistics
Matches: 153, Mismatches: 20, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
45 1 0.01
46 1 0.01
47 3 0.02
48 146 0.95
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATAGGAGA
Found at i:19802846 original size:96 final size:95
Alignment explanation
Indices: 19802679--19802907 Score: 316
Period size: 96 Copynumber: 2.4 Consensus size: 95
19802669 TGATATGTGT
* * *
19802679 GCCAGTGTAAGTCCATGTCTGGGACATGGCATCAGCCACGATAGGAGAGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATC-GGCACGATAGGAGAGCTAGTGTAAGACCATG
* **
19802744 TTTGGGACATGGCATCGGCCACATTATGAGA
65 TCTGGGACATGGCATCGGCCACAACATGAGA
* **
19802775 GCCAGTGTAAGACCATCTTTGGGACATGGCATCGGCATTA-AGACGAGAGCTAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGATAG--GAGAGCTAGTGTAAGACCAT
* *
19802839 GTCTGGGACATGGCATCGGCCTCAACATGTGA
64 GTCTGGGACATGGCATCGGCCACAACATGAGA
*
19802871 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
19802908 ATTCACCCTC
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
94 2 0.02
95 4 0.03
96 112 0.95
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (95 bp):
GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGATAGGAGAGCTAGTGTAAGACCATGT
CTGGGACATGGCATCGGCCACAACATGAGA
Found at i:19806492 original size:46 final size:45
Alignment explanation
Indices: 19806439--19806613 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
19806429 ATTTGGGCAG
*
19806439 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GT
*** * *
19806485 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-T
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGT
* * * *
19806532 CCTAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GT
* *
19806578 CCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19806614 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGT
Found at i:19814686 original size:79 final size:82
Alignment explanation
Indices: 19814575--19814759 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
19814565 GCTACTCGTT
* *
19814575 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
19814638 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
19814655 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
19814718 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
19814735 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19814760 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:19814759 original size:40 final size:40
Alignment explanation
Indices: 19814556--19814759 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
19814546 CGGAATTTAA
** *
19814556 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19814596 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
19814636 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19814675 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
19814715 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
19814755 CCGGA
1 CCGGA
19814760 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:19822658 original size:39 final size:40
Alignment explanation
Indices: 19822521--19822703 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
19822511 GCTACTCGTT
*
19822521 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
19822561 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
19822601 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
19822639 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
19822680 CAAA-GCCTT-GGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19822704 CATCATTCAA
Statistics
Matches: 125, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
37 2 0.02
38 14 0.11
39 42 0.34
40 58 0.46
41 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:19822688 original size:78 final size:81
Alignment explanation
Indices: 19822521--19822703 Score: 218
Period size: 78 Copynumber: 2.3 Consensus size: 81
19822511 GCTACTCGTT
* *
19822521 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
19822585 GATTTAGTAACTCGCA
66 GATATAGTAACTAGCA
* **
19822601 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCT-GCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
19822662 GGATATGGTCACTTAGCA
65 GGATATAGTAAC-TAGCA
19822680 CAAA-GCCTT-GGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19822704 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
77 6 0.07
78 45 0.50
79 24 0.27
80 15 0.17
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATAGTAACTAGCA
Found at i:19837098 original size:21 final size:21
Alignment explanation
Indices: 19837058--19837113 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
19837048 GTTCATATCT
19837058 TAAATATTAAATAAAAAATAC
1 TAAATATTAAATAAAAAATAC
* * *
19837079 TAAATGTTAAATAGACAATA-
1 TAAATATTAAATAAAAAATAC
*
19837099 TATATATTAAA-AAAA
1 TAAATATTAAATAAAA
19837114 CATAATATTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 2 0.07
20 9 0.32
21 17 0.61
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (21 bp):
TAAATATTAAATAAAAAATAC
Found at i:19841201 original size:17 final size:17
Alignment explanation
Indices: 19841181--19841227 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
19841171 TTTTGTTTTT
*
19841181 TTTTTAATTTTATGAAC
1 TTTTTATTTTTATGAAC
*
19841198 TTTTTATTTTTTATGAAT
1 TTTTTA-TTTTTATGAAC
19841216 TTTTTATTTTTA
1 TTTTTATTTTTA
19841228 CAGATTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.70
Consensus pattern (17 bp):
TTTTTATTTTTATGAAC
Found at i:19841209 original size:18 final size:18
Alignment explanation
Indices: 19841188--19841226 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
19841178 TTTTTTTTAA
19841188 TTTTATGAACTTTTTATT
1 TTTTATGAACTTTTTATT
*
19841206 TTTTATGAATTTTTTATT
1 TTTTATGAACTTTTTATT
19841224 TTT
1 TTT
19841227 ACAGATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTTATGAACTTTTTATT
Found at i:19845137 original size:639 final size:639
Alignment explanation
Indices: 19843919--19845192 Score: 2109
Period size: 639 Copynumber: 2.0 Consensus size: 639
19843909 GCTTATTACA
19843919 CTTAAAAGATATATCATTTTAAGCTCACTATCTTACTCTTCACTTCCTTTATGCATACTTACTAC
1 CTTAAAAGATATATCATTTTAAGCTCACTATCTTACTCTTCACTTCCTTTATGCATACTTACTAC
* **
19843984 ATCTCATCATACACCAAGGTCTTGTTCATGGGTTTAGTATACATACCTGAAATCATTTGTAAAAT
66 ATCTCATCACACACCAAGGTCTTGTTCATGGGTTTAGTATACATACCTGAAATCATCCGTAAAAT
* * * * *
19844049 ATCTTAATTTCATTCTCTATAATTACATACCTCATTGAATTTTTTCCCAAGTCGTTCTTTAAACT
131 ATCTCAATTTCATTCTCTATAATAACATACCTCATTGAAGTTTTTCCCAACTCGTTCTTCAAACT
* * *
19844114 ACCCATTGAACACTCGAAATACTAGTGGATACACAGAAAGTTTACACTTAAGTGCCGTATCAGTA
196 ACCCATTGAACACTCGAAATACTAATGGATACACAGAAAGTTTACACTTAAGTGCCATATAAGTA
* *
19844179 GTCAGAGCTACCTCGTACTTTGTAATGCTCGCATTTTGAGTTACTCATGGGCCTTTTTGCCATGT
261 GTCAGAACTACCTCGTACTTTGTAATGCTCGCATTTTGAGTTACTCACGGGCCTTTTTGCCATGT
*
19844244 CAGTACCCGAACCCCATAACTCTATCATGTAATGCCCGCTCATTGAGCTATTCACGGGTCTACAC
326 CAGTACCCGAACCCCATAACTCTATCATGTAATGCCCGCTCATTGAGCTACTCACGGGTCTACAC
* * *
19844309 TCAAGGTCAGTACCCGAACCCACATTGCATATAACATTTATCTCATGAACTTAGACATAACTCAT
391 TCAAGGTCAGTACCCGAACCCACATTACATATAACATTTATCTCATGAAATCAGACATAACTCAT
* * * * *
19844374 GAGTTCAGACCATTTAGTTCTTCATGACATACCTTTTGTATCCTATACTATTTTTGAGGTTCAAC
456 GAGTTCAGACCATATAGTTCCTCATGACATACCTTTTGTATCCTATACTATTTCTAAGGCTCAAC
* *
19844439 GGGATTTCATATTCAACCTGATGTCGTTGTACTTATTCACCATGTAAATTTCTCTTATATTACAA
521 AGGATTTCATATTCAACCTGATGTCGTCGTACTTATTCACCATGTAAATTTCTCTTATATTACAA
19844504 TATTTAAGCTTCTATGGTAACAAGTAAGATTATATTACATGATAACGATATCAT
586 TATTTAAGCTTCTATGGTAACAAGTAAGATTATATTACATGATAACGATATCAT
19844558 CTTAAAAGATATATCATTTTAAGCTCACTATCTTACTCTTCACTTCCTTTATGCATACTTACTAC
1 CTTAAAAGATATATCATTTTAAGCTCACTATCTTACTCTTCACTTCCTTTATGCATACTTACTAC
* *
19844623 ATCTCATCACACACTACGGTCTTGTTCATGGGTTTAGTATACATACCTGAAATCATCCGTAAAAT
66 ATCTCATCACACACCAAGGTCTTGTTCATGGGTTTAGTATACATACCTGAAATCATCCGTAAAAT
* *
19844688 ATCTCAATTTCGTTCTCTCTAATAACATACCTCATTGAAGTTTTTCCCAACTCGTTCTTCAAACT
131 ATCTCAATTTCATTCTCTATAATAACATACCTCATTGAAGTTTTTCCCAACTCGTTCTTCAAACT
* * * *
19844753 ACCTATTGAACACTCGAAATACTAATGTATACACGGAAATTTTACACTTAAGTGCCATATAAGTA
196 ACCCATTGAACACTCGAAATACTAATGGATACACAGAAAGTTTACACTTAAGTGCCATATAAGTA
* * *
19844818 GTTAGAACTACCTCGTACTTTGTAATGCTCGTATTTTGAGTTACTCACGGGCCTTTTTTCCATGT
261 GTCAGAACTACCTCGTACTTTGTAATGCTCGCATTTTGAGTTACTCACGGGCCTTTTTGCCATGT
** * * *
19844883 TGGTACCC-AGACCCCATAACTCTATCATGTAATGCCTGCTCATTGAGCTACTCACGGTTCTGCA
326 CAGTACCCGA-ACCCCATAACTCTATCATGTAATGCCCGCTCATTGAGCTACTCACGGGTCTACA
* * *
19844947 CTCAAGGTCAGTATCCGGACCCACATTACGTATAACATTTATCTCATGAAATCAGACATAACTCA
390 CTCAAGGTCAGTACCCGAACCCACATTACATATAACATTTATCTCATGAAATCAGACATAACTCA
19845012 TGAGTTCAGACCATATAGTTCCTCATGACATACCTTTTGTATCCTATACTATTTCTAAGGCTCAA
455 TGAGTTCAGACCATATAGTTCCTCATGACATACCTTTTGTATCCTATACTATTTCTAAGGCTCAA
* * *
19845077 CAGGATTTCATTTTCAACCTGATGTCGTCGTACTTTTTCACCATGTAAATTTCTCTTATATTATA
520 CAGGATTTCATATTCAACCTGATGTCGTCGTACTTATTCACCATGTAAATTTCTCTTATATTACA
*
19845142 ATATTTAAGCTTCTATTGTAACAAGTAAGATTATATTACATGATAACGATA
585 ATATTTAAGCTTCTATGGTAACAAGTAAGATTATATTACATGATAACGATA
19845193 AAACATTTAA
Statistics
Matches: 587, Mismatches: 47, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
638 1 0.00
639 586 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (639 bp):
CTTAAAAGATATATCATTTTAAGCTCACTATCTTACTCTTCACTTCCTTTATGCATACTTACTAC
ATCTCATCACACACCAAGGTCTTGTTCATGGGTTTAGTATACATACCTGAAATCATCCGTAAAAT
ATCTCAATTTCATTCTCTATAATAACATACCTCATTGAAGTTTTTCCCAACTCGTTCTTCAAACT
ACCCATTGAACACTCGAAATACTAATGGATACACAGAAAGTTTACACTTAAGTGCCATATAAGTA
GTCAGAACTACCTCGTACTTTGTAATGCTCGCATTTTGAGTTACTCACGGGCCTTTTTGCCATGT
CAGTACCCGAACCCCATAACTCTATCATGTAATGCCCGCTCATTGAGCTACTCACGGGTCTACAC
TCAAGGTCAGTACCCGAACCCACATTACATATAACATTTATCTCATGAAATCAGACATAACTCAT
GAGTTCAGACCATATAGTTCCTCATGACATACCTTTTGTATCCTATACTATTTCTAAGGCTCAAC
AGGATTTCATATTCAACCTGATGTCGTCGTACTTATTCACCATGTAAATTTCTCTTATATTACAA
TATTTAAGCTTCTATGGTAACAAGTAAGATTATATTACATGATAACGATATCAT
Found at i:19853986 original size:40 final size:39
Alignment explanation
Indices: 19853905--19854125 Score: 232
Period size: 39 Copynumber: 5.6 Consensus size: 39
19853895 AATGATGTCT
* * *
19853905 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCC
1 GGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT-TCC
*
19853945 GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
19853985 GGGCTAAGGCCGAAGGCATTTGTGCGAGTTACTAATTTC
1 GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTCC
* * *
19854024 GGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTCC
* * * *
19854063 GGGTTAAGTCCCGAAGGCATTTGTGCAAATTACT-ATAACC
1 GGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
19854103 GGGCTATGTCTCGAAGGCATTTG
1 GGGCTAAGTC-CGAAGGCATTTG
19854126 AACGAGTAGC
Statistics
Matches: 155, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 73 0.47
40 72 0.46
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:19854003 original size:39 final size:39
Alignment explanation
Indices: 19853905--19854125 Score: 223
Period size: 40 Copynumber: 5.6 Consensus size: 39
19853895 AATGATGTCT
* * *
19853905 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCC
1 GGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAT-TCC
* *
19853945 GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
19853985 GGGCTAAGGCCGAAGGCATTTGTGCGAGTTACTAATTTC
1 GGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
19854024 GGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* * * *
19854063 GGGTTAAGTCCCGAAGGCATTTGTGCAAATTACT-ATAACC
1 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
* *
19854103 GGGCTATGTCTCGAAGGCATTTG
1 GGGCTAAG-CCCGAAGGCATTTG
19854126 AACGAGTAGC
Statistics
Matches: 155, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
39 72 0.46
40 74 0.48
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
GGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:19862126 original size:39 final size:40
Alignment explanation
Indices: 19862025--19862248 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
19862015 TCGAATGATG
* * *
19862025 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
19862064 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
19862105 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
19862144 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
19862183 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
19862222 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
19862249 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 74 0.45
40 79 0.48
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:19862212 original size:79 final size:80
Alignment explanation
Indices: 19862025--19862246 Score: 290
Period size: 79 Copynumber: 2.8 Consensus size: 80
19862015 TCGAATGATG
* * * * *
19862025 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
* * *
19862089 TGTGCGAGTTACTAAT
65 GGTGCGAGATACTAAA
19862105 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATT
19862167 GGTGCGAGATACTAAA
65 GGTGCGAGATACTAAA
* * * *
19862183 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
19862247 TGAACGAGTA
Statistics
Matches: 126, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
78 35 0.28
79 60 0.48
80 31 0.25
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTG
GTGCGAGATACTAAA
Found at i:19862279 original size:79 final size:79
Alignment explanation
Indices: 19862025--19862281 Score: 220
Period size: 79 Copynumber: 3.3 Consensus size: 79
19862015 TCGAATGATG
* * * * * * *
19862025 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGC-GAGTTACTAATA-CCGGGCTAAG-CCCGAAGGCAT
* ** * *
19862088 TTGTGCGAGTTACTAAT
63 TGGAACGAGATACTAAA
* * *
19862105 TCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGG
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGG
**
19862169 TGCGAGATACTAAA
66 AACGAGATACTAAA
* *
19862183 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
* *
19862247 TGAACGAG-TAGCTATA
64 GGAACGAGATA-CTAAA
*
19862263 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAATCCCGAAGG
19862282 TACGTGATTC
Statistics
Matches: 149, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
78 33 0.22
79 75 0.50
80 41 0.28
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGG
AACGAGATACTAAA
Found at i:19870827 original size:19 final size:19
Alignment explanation
Indices: 19870803--19870840 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
19870793 TCTCAACCCT
19870803 TAACAATTTTGCAAATTAA
1 TAACAATTTTGCAAATTAA
19870822 TAACAATTTTGCAAATTAA
1 TAACAATTTTGCAAATTAA
19870841 CCCTTGGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (19 bp):
TAACAATTTTGCAAATTAA
Found at i:19877215 original size:40 final size:38
Alignment explanation
Indices: 19877170--19877318 Score: 156
Period size: 40 Copynumber: 3.7 Consensus size: 38
19877160 CACTAGCTCA
**
19877170 AAGCCTGCGGAACTTTAAGCCCGGATATAGTACCAGCATT
1 AAGCCTGCGGAA-TTTAA-CCCGGATATAGTACCAGCACG
* *
19877210 AAGCCTGCGGGATTTAACCCGGATATATATTACCAGCACG
1 AAGCCTGCGGAATTTAACCCGG--ATATAGTACCAGCACG
*
19877250 AAGCCTGC-GAGATTTAACCCGGATATATATATTACCAGCACG
1 AAGCCTGCGGA-ATTTAACCCGG----ATATAGTACCAGCACG
*
19877292 AAGCCTGCGGGATTTAACCCGGATATA
1 AAGCCTGCGGAATTTAACCCGGATATA
19877319 TAATATATCA
Statistics
Matches: 97, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
38 10 0.10
39 6 0.06
40 43 0.44
42 37 0.38
43 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (38 bp):
AAGCCTGCGGAATTTAACCCGGATATAGTACCAGCACG
Found at i:19877291 original size:42 final size:42
Alignment explanation
Indices: 19877194--19877320 Score: 204
Period size: 42 Copynumber: 3.1 Consensus size: 42
19877184 TTAAGCCCGG
* **
19877194 ATATAGTACCAGCATTAAGCCTGCGGGATTTAACCCGG--AT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
*
19877234 ATATATTACCAGCACGAAGCCTGCGAGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
19877276 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
19877318 ATA
1 ATA
19877321 ATATATCAAG
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 34 0.43
42 46 0.57
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Found at i:19880221 original size:43 final size:43
Alignment explanation
Indices: 19880166--19880252 Score: 99
Period size: 43 Copynumber: 2.0 Consensus size: 43
19880156 AAATCATACA
*
19880166 ATGCCAACGTCCCAAACAT-GGTCTTACAT-GTAATCACATATCG
1 ATGCCAACGTCCCAAA-ATGGGTCTTAC-TCGTAAACACATATCG
* *
19880209 ATGCC-ACTGTCCCAGATTGGGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCCAAAATGGGTCTTACTCGTAAACACATATCG
19880252 A
1 A
19880253 AATCACATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
42 4 0.11
43 34 0.89
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAAAATGGGTCTTACTCGTAAACACATATCG
Found at i:19882819 original size:28 final size:28
Alignment explanation
Indices: 19882776--19882839 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
19882766 TGGGAAGTAG
* * * *
19882776 TTGGGCCCGATGGGCCATATGAATGTGA
1 TTGGGCCTGATAGGCCATATGAACGAGA
*
19882804 TTGGGCCTGATAGGCCATGTGAACGAGA
1 TTGGGCCTGATAGGCCATATGAACGAGA
19882832 TTGGGCCT
1 TTGGGCCT
19882840 AAAGGGGCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.20, C:0.19, G:0.36, T:0.25
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCATATGAACGAGA
Found at i:19883186 original size:27 final size:27
Alignment explanation
Indices: 19883156--19883545 Score: 349
Period size: 27 Copynumber: 14.7 Consensus size: 27
19883146 TAATAAAGAG
*
19883156 AAATTATCGAAATACCC-CCAGTTTGTA
1 AAATTATCGAAATACCCTCGA-TTTGTA
* * * *
19883183 AAATTATCGAAGTACTCTCGGTTTATA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
19883210 AAATTACCAAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
19883237 AAATTA-CTGAAGTACCCACGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
*
19883264 AAATTACCGAAATACTCCT-GATTTGTA
1 AAATTATCGAAATAC-CCTCGATTTGTA
*
19883291 AAATTA-CAGAAGTACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
19883318 AAATTATCAAAATA-CCTCCAGTTTGTA
1 AAATTATCGAAATACCCTCGA-TTTGTA
*
19883345 AAATTATTGAAATACCCTC-AGTTTGTA
1 AAATTATCGAAATACCCTCGA-TTTGTA
*
19883372 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
19883399 AAATTA-CTAAAATA-CC-C----TGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
19883420 AAATTACCGAAACACCCTCGATTTATA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
19883447 AATTTACCAAAATACCATCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
19883474 AAATTACCAAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
19883501 AAATTATCGAAATACCCTTG-TGGTGTA
1 AAATTATCGAAATACCCTCGAT-TTGTA
19883528 AAATTATCGAAATACCCT
1 AAATTATCGAAATACCCT
19883546 TGTAGTGTAA
Statistics
Matches: 303, Mismatches: 41, Indels: 38
0.79 0.11 0.10
Matches are distributed among these distances:
21 14 0.05
22 3 0.01
23 1 0.00
25 1 0.00
26 13 0.04
27 261 0.86
28 10 0.03
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:19883436 original size:21 final size:21
Alignment explanation
Indices: 19883395--19883437 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19883385 ACCCTCGATT
* *
19883395 TGTAAAATTACTAAAATACCC
1 TGTAAAATTACCAAAACACCC
*
19883416 TGTAAAATTACCGAAACACCC
1 TGTAAAATTACCAAAACACCC
19883437 T
1 T
19883438 CGATTTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26
Consensus pattern (21 bp):
TGTAAAATTACCAAAACACCC
Found at i:19883546 original size:27 final size:27
Alignment explanation
Indices: 19883497--19883585 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
19883487 ACCCTCGATT
*
19883497 TGTAAAATTATCGAAATACCCTTGTGG
1 TGTAAAATTATCGAAATACCCTTGTAG
19883524 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* * *
19883551 TGTAAAATGACCGACATAACCC-TGTAG
1 TGTAAAATTATCGAAAT-ACCCTTGTAG
*
19883578 GGTAAAAT
1 TGTAAAAT
19883586 GACGGTTTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 52 0.93
28 4 0.07
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:19883555 original size:156 final size:156
Alignment explanation
Indices: 19883173--19883558 Score: 413
Period size: 156 Copynumber: 2.4 Consensus size: 156
19883163 CGAAATACCC
* * * * * * * * *
19883173 CCAGTTTGTAAAATTATCGAAGTACTCTCGGTTTATAAAATTACCAAAATACCCCCGATTTGTAA
1 CCAGTTTGTAAAATTATCGAAATACCCTCAGTGTGTAAAATTATCGAAATACCCTCGATGTGTAA
* * * * *
19883238 AATTACTGAAGTACCCACGATTTGTAAAATTACCGAAATACTCCTGATTTGTAAAATTACAGAAG
66 AATTACTAAAATA-CC-C----TGTAAAATTACCGAAACACTCCTGATTTATAAAATTACAGAAA
* * *
19883303 TACCCTCGATTTGTAAAATTATCAAAATACCT
125 TACCATCGATTTGTAAAATTACCAAAACACCT
* * * *
19883335 CCAGTTTGTAAAATTATTGAAATACCCTCAGTTTGTAAAATTATTGAAATACCCTCGATTTGTAA
1 CCAGTTTGTAAAATTATCGAAATACCCTCAGTGTGTAAAATTATCGAAATACCCTCGATGTGTAA
*
19883400 AATTACTAAAATACCCTGTAAAATTACCGAAACAC-CCTCGATTTATAAATTTACCA-AAATACC
66 AATTACTAAAATACCCTGTAAAATTACCGAAACACTCCT-GATTTATAAAATTA-CAGAAATACC
19883463 ATCGATTTGTAAAATTACCAAAACACCCT
129 ATCGATTTGTAAAATTACCAAAACA-CCT
* * *
19883492 CGA-TTTGTAAAATTATCGAAATACCCT-TGTGGTGTAAAATTATCGAAATACCCTTG-TAGTGT
1 CCAGTTTGTAAAATTATCGAAATACCCTCAGT-GTGTAAAATTATCGAAATACCCTCGAT-GTGT
19883554 AAAAT
64 AAAAT
19883559 GACCGACATA
Statistics
Matches: 194, Mismatches: 25, Indels: 16
0.83 0.11 0.07
Matches are distributed among these distances:
155 6 0.03
156 111 0.57
157 7 0.04
160 1 0.01
161 2 0.01
162 67 0.35
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (156 bp):
CCAGTTTGTAAAATTATCGAAATACCCTCAGTGTGTAAAATTATCGAAATACCCTCGATGTGTAA
AATTACTAAAATACCCTGTAAAATTACCGAAACACTCCTGATTTATAAAATTACAGAAATACCAT
CGATTTGTAAAATTACCAAAACACCT
Found at i:19883585 original size:183 final size:183
Alignment explanation
Indices: 19883156--19883585 Score: 404
Period size: 183 Copynumber: 2.3 Consensus size: 183
19883146 TAATAAAGAG
* * * * * * * *** *
19883156 AAATTATCGAAATACCCCCAGTTTGTAAAATTATCGAAGTACTCTCGGTTTATAAAATTACCAAA
1 AAATTATCGAAATACCCTCAGTGTGTAAAATGACCGAAATACCCTCGATGGGTAAAATTACTAAA
* ** * * *
19883221 ATACCCCCGATTTGTAAAATTACTGAAGTACCCACGATTTGTAAAATTACCGAAATACTCCTGAT
66 ATA--CCC----TGTAAAATTACCGAAACACCCACGATTTATAAAATTACCAAAATACTCATGAT
** *
19883286 TTGTAAAATTACAGAAGTACCCTCGATTTGTAAAATTATCAAAATACCTCCAGTTTGTA
125 TTGTAAAATTACAGAAACACCCTCGATTTGTAAAATTATCAAAATACCTCCAGTGTGTA
* * * ** **
19883345 AAATTATTGAAATACCCTCAGTTTGTAAAATTATTGAAATACCCTCGATTTGTAAAATTACTAAA
1 AAATTATCGAAATACCCTCAGTGTGTAAAATGACCGAAATACCCTCGATGGGTAAAATTACTAAA
* *
19883410 ATACCCTGTAAAATTACCGAAACACCCTCGATTTATAAATTTACCAAAATAC-CATCGATTTGTA
66 ATACCCTGTAAAATTACCGAAACACCCACGATTTATAAAATTACCAAAATACTCAT-GATTTGTA
* **
19883474 AAATTACCA-AAACACCCTCGATTTGTAAAATTATCGAAATACC-CTTGTGGTGTA
130 AAATTA-CAGAAACACCCTCGATTTGTAAAATTATCAAAATACCTCCAGT-GTGTA
* *
19883528 AAATTATCGAAATACCCT-TGTAGTGTAAAATGACCGACATAACCCT-G-TAGGGTAAAAT
1 AAATTATCGAAATACCCTCAGT-GTGTAAAATGACCGAAAT-ACCCTCGAT-GGGTAAAAT
19883586 GACGGTTTTG
Statistics
Matches: 204, Mismatches: 31, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
182 8 0.04
183 126 0.62
184 7 0.03
187 3 0.01
189 60 0.29
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.31
Consensus pattern (183 bp):
AAATTATCGAAATACCCTCAGTGTGTAAAATGACCGAAATACCCTCGATGGGTAAAATTACTAAA
ATACCCTGTAAAATTACCGAAACACCCACGATTTATAAAATTACCAAAATACTCATGATTTGTAA
AATTACAGAAACACCCTCGATTTGTAAAATTATCAAAATACCTCCAGTGTGTA
Found at i:19888365 original size:31 final size:31
Alignment explanation
Indices: 19888327--19888389 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
19888317 CTTTTCATAA
19888327 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
** *
19888358 TTCATATTTCATATTACTGGGCTGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
19888389 T
1 T
19888390 ACTGTAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:19888630 original size:24 final size:25
Alignment explanation
Indices: 19888603--19888654 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
19888593 GCCTAGCCTC
*
19888603 TTTTAAT-AACTGGGGTAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
19888627 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
19888652 TTT
1 TTT
19888655 CGGTAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:19888647 original size:25 final size:25
Alignment explanation
Indices: 19888610--19888704 Score: 111
Period size: 25 Copynumber: 3.8 Consensus size: 25
19888600 CTCTTTTAAT
* * *
19888610 AACTGGGGTAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
19888635 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
19888660 AACTAGTGG-AAAGACCTTTTCGGTA
1 AACT-GGGGCAAAGCCCTTTTCGGTA
* *
19888685 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
19888705 TGCACTTCCT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 2 0.03
25 54 0.92
26 3 0.05
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:19896453 original size:31 final size:31
Alignment explanation
Indices: 19896415--19896478 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
19896405 CCTTTTCATA
19896415 TTTCATATTTCATAACACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
** *
19896446 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
19896477 TT
1 TT
19896479 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:19896727 original size:25 final size:25
Alignment explanation
Indices: 19896699--19896770 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
19896689 CTCTTTTAAT
19896699 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
19896724 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
19896749 AACTGGGGCATAGCCCTTTTTG
1 AACTGGGGCAAAGCCCTTTTTG
19896771 CACTTCCTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:19896839 original size:20 final size:20
Alignment explanation
Indices: 19896816--19896882 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
19896806 TTATGAATAC
19896816 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
19896836 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
19896856 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
19896876 ATCATGT
1 ATCATGT
19896883 ATATCAAAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:19896846 original size:40 final size:39
Alignment explanation
Indices: 19896802--19896882 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 39
19896792 CCCAACCCAA
19896802 TGCATTATGAATAC-ATCATGTGCATATCATA-CATATCATG
1 TGCA-TAT-AATACAATCATGTGCATATCATATCA-ATCATG
*
19896842 TGCATATCATACATATCATGTGCATATCATATCAATCATG
1 TGCATATAATACA-ATCATGTGCATATCATATCAATCATG
19896882 T
1 T
19896883 ATATCAAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 4 0.11
39 3 0.08
40 28 0.76
41 2 0.05
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.36
Consensus pattern (39 bp):
TGCATATAATACAATCATGTGCATATCATATCAATCATG
Found at i:19896847 original size:11 final size:11
Alignment explanation
Indices: 19896816--19896871 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
19896806 TTATGAATAC
19896816 ATCATGTGCAT
1 ATCATGTGCAT
*
19896827 ATCA--TACAT
1 ATCATGTGCAT
19896836 ATCATGTGCAT
1 ATCATGTGCAT
*
19896847 ATCA--TACAT
1 ATCATGTGCAT
19896856 ATCATGTGCAT
1 ATCATGTGCAT
19896867 ATCAT
1 ATCAT
19896872 ATCAATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:19896888 original size:9 final size:10
Alignment explanation
Indices: 19896816--19896888 Score: 64
Period size: 9 Copynumber: 7.4 Consensus size: 10
19896806 TTATGAATAC
19896816 ATCATGTGCAT
1 ATCATGT-CAT
*
19896827 ATCAT-ACAT
1 ATCATGTCAT
19896836 ATCATGTGCAT
1 ATCATGT-CAT
*
19896847 ATCAT-ACAT
1 ATCATGTCAT
19896856 ATCATGTGCAT
1 ATCATGT-CAT
*
19896867 ATCATATCA-
1 ATCATGTCAT
19896876 ATCATGT-AT
1 ATCATGTCAT
19896885 ATCA
1 ATCA
19896889 AAACCCATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
8 1 0.02
9 26 0.51
10 2 0.04
11 22 0.43
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:19898092 original size:10 final size:10
Alignment explanation
Indices: 19898077--19898101 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19898067 TTCTGCTAGG
19898077 GAAGAAAAAA
1 GAAGAAAAAA
19898087 GAAGAAAAAA
1 GAAGAAAAAA
19898097 GAAGA
1 GAAGA
19898102 CTACTCCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (10 bp):
GAAGAAAAAA
Found at i:19900933 original size:36 final size:36
Alignment explanation
Indices: 19900886--19900958 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
19900876 TGAAAATATC
19900886 TCTAGAAGTTTTCTAAAATAATTTCTTCAAAGAATT
1 TCTAGAAGTTTTCTAAAATAATTTCTTCAAAGAATT
*
19900922 TCTAGAAGTTTTCTAAAATAATTTCTTCTAAGAATT
1 TCTAGAAGTTTTCTAAAATAATTTCTTCAAAGAATT
19900958 T
1 T
19900959 TTTCTCTACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (36 bp):
TCTAGAAGTTTTCTAAAATAATTTCTTCAAAGAATT
Found at i:19904984 original size:27 final size:26
Alignment explanation
Indices: 19904934--19904993 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
19904924 CGCCATATAT
*
19904934 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* *
19904960 ATATCTGTATCTGGTGACTTCGCCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
19904987 ATATCTG
1 ATATCTG
19904994 GCAGCCTCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:19916284 original size:37 final size:39
Alignment explanation
Indices: 19916243--19916340 Score: 102
Period size: 37 Copynumber: 2.6 Consensus size: 39
19916233 TAATAATATT
19916243 TTAATAGTTTAATATTAAATTTAAT-TT-AA-T-ACTTATC
1 TTAATAGTTTAATATT-AATTTAATATTAAAGTGA-TTATC
*
19916280 TTAATAGTATT-TTATTAATTTAATATTAAAGTGATTATC
1 TTAATAGT-TTAATATTAATTTAATATTAAAGTGATTATC
*
19916319 TTAATA-TTAAAT-TTAATTTAAT
1 TTAATAGTTTAATATTAATTTAAT
19916341 GTTTATCAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
36 8 0.15
37 25 0.48
38 6 0.12
39 12 0.23
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (39 bp):
TTAATAGTTTAATATTAATTTAATATTAAAGTGATTATC
Found at i:19916384 original size:38 final size:38
Alignment explanation
Indices: 19916327--19916399 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
19916317 TCTTAATATT
* * *
19916327 AAATTTAATTTAATGTTTATC-AATATATTATTTTAGTA
1 AAATTTAATCTAATATTTATCTAATAT-TAATTTTAGTA
19916365 AAATTTAATCTAATATTTATCTAATATTAATTTTA
1 AAATTTAATCTAATATTTATCTAATATTAATTTTA
19916400 ATCATAGTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
38 26 0.84
39 5 0.16
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (38 bp):
AAATTTAATCTAATATTTATCTAATATTAATTTTAGTA
Found at i:19917605 original size:22 final size:22
Alignment explanation
Indices: 19917548--19917607 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
19917538 TTCATTAAAT
* *
19917548 CACCACCATCGAACCAAGATAC
1 CACCACCATAGCACCAAGATAC
* *
19917570 CACCACCCTAGCACCATGATAC
1 CACCACCATAGCACCAAGATAC
*
19917592 CACCACCATTGCACCA
1 CACCACCATAGCACCA
19917608 CCTTGAAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.45, G:0.08, T:0.12
Consensus pattern (22 bp):
CACCACCATAGCACCAAGATAC
Found at i:19917866 original size:25 final size:23
Alignment explanation
Indices: 19917836--19917887 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
19917826 AACCATTGTA
*
19917836 TTTTTTATATCATCTTCTTTTATCT
1 TTTTTTAT-TCATCTTATTTT-TCT
19917861 TTTTTTATTCATCTTATTTTTCT
1 TTTTTTATTCATCTTATTTTTCT
19917884 TTTT
1 TTTT
19917888 ACATAACAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 7 0.27
24 11 0.42
25 8 0.31
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTTATTCATCTTATTTTTCT
Found at i:19925298 original size:23 final size:22
Alignment explanation
Indices: 19925255--19925298 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
19925245 GAATGGAGAT
*
19925255 TTATCACACTTTTACTGGCAGC
1 TTATCACACTTTTACTAGCAGC
*
19925277 TTATCTACATTTTTACTAGCAG
1 TTATC-ACACTTTTACTAGCAG
19925299 AATTTTTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (22 bp):
TTATCACACTTTTACTAGCAGC
Found at i:19930224 original size:16 final size:17
Alignment explanation
Indices: 19930194--19930228 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19930184 AATTTGTGTG
*
19930194 TTATTTTTTTCTTTATT
1 TTATTTTATTCTTTATT
19930211 TTATTTTATT-TTTATT
1 TTATTTTATTCTTTATT
19930227 TT
1 TT
19930229 TTCACAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (17 bp):
TTATTTTATTCTTTATT
Found at i:19934669 original size:5 final size:5
Alignment explanation
Indices: 19934659--19934696 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
19934649 AATTTGTGTG
*
19934659 TTATT TTATT TTTTCT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
19934697 TTTCACACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:19935763 original size:44 final size:44
Alignment explanation
Indices: 19935702--19935794 Score: 186
Period size: 44 Copynumber: 2.1 Consensus size: 44
19935692 TAAAGTACAT
19935702 TCTCTATTGCTTTCATATTTTCTTTGTTCTTTATTCTTTCCATC
1 TCTCTATTGCTTTCATATTTTCTTTGTTCTTTATTCTTTCCATC
19935746 TCTCTATTGCTTTCATATTTTCTTTGTTCTTTATTCTTTCCATC
1 TCTCTATTGCTTTCATATTTTCTTTGTTCTTTATTCTTTCCATC
19935790 TCTCT
1 TCTCT
19935795 TTATTTTATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.11, C:0.24, G:0.04, T:0.61
Consensus pattern (44 bp):
TCTCTATTGCTTTCATATTTTCTTTGTTCTTTATTCTTTCCATC
Found at i:19942242 original size:20 final size:20
Alignment explanation
Indices: 19942208--19942248 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
19942198 ATCTCTCTTT
19942208 ATTTTATAACAA-TTTGATA
1 ATTTTATAACAATTTTGATA
*
19942227 ATTTTAATAACTATTTTGATA
1 ATTTT-ATAACAATTTTGATA
19942248 A
1 A
19942249 GGTCTTAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 6 0.32
21 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
ATTTTATAACAATTTTGATA
Found at i:19943197 original size:5 final size:5
Alignment explanation
Indices: 19943187--19943220 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
19943177 ATCTGTGTTT
19943187 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
19943221 TCACAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:19948459 original size:40 final size:40
Alignment explanation
Indices: 19948335--19948452 Score: 175
Period size: 40 Copynumber: 3.0 Consensus size: 40
19948325 AGCTTTAGTG
* * *
19948335 GCATTAGTGGCACTTTT-TAAAAAATGTCGCTATAGACCGA
1 GCATTAGCGGCTCTTTTCT-AAAAATGTCGCTATAGATCGA
*
19948375 GCATTAGCGGCTCTTTTCTAAAAATGCCGCTATAGATCGA
1 GCATTAGCGGCTCTTTTCTAAAAATGTCGCTATAGATCGA
*
19948415 GCATTAGCGGCTCTTTTCTAAAAACGTCGCTATAGATC
1 GCATTAGCGGCTCTTTTCTAAAAATGTCGCTATAGATC
19948453 AGGCATTGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
40 70 0.99
41 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (40 bp):
GCATTAGCGGCTCTTTTCTAAAAATGTCGCTATAGATCGA
Found at i:19948563 original size:194 final size:192
Alignment explanation
Indices: 19948200--19948693 Score: 502
Period size: 194 Copynumber: 2.5 Consensus size: 192
19948190 CGTTTGGATA
19948200 AAAAATGCCACTATAGATCGAGCATTAGCGGCACTTTTTGAAAAAC-TCCGCTATAGATC-GAGC
1 AAAAATGCCACTATAGATCGAGCATTAGCGGCACTTTTT-AAAAACGT-CGCTATAGATCAG-GC
* * * ** * * * *
19948263 ATTAGCGGCGTTTTTCAAGAAGGCCGTAAAAAAATTAAGCATAACGTCGTCGTTTTATGTTGAGC
63 ATTAGGGGC-TTTTTGAAAAACACCGCAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTGACC
* * * *
19948328 TTTAGTGGCATTAGTGGCACTTTTTAAAAAATGTCGCTATAGACCGAGCATTAGCGGCTCTTTTC
127 TTTAGCGGCATTAGTAGCACTTTTTAAAAAATCTCGCTATAGACCGAGCATTAGCGGCGCTTTT-
19948393 T-
191 TG
* *
19948394 AAAAATGCCGCTATAGATCGAGCATTAGCGGCTCTTTTCTAAAAACGTCGCTATAGATCAGGCAT
1 AAAAATGCCACTATAGATCGAGCATTAGCGGCACTTTT-TAAAAACGTCGCTATAGATCAGGCAT
* * *
19948459 T-GTGGTGCTTTTTTGAAAAACACCGCAAAAACATTAACCACAATGCCGTCGTTTTATGTTGACC
65 TAG-GG-GC-TTTTTGAAAAACACCGCAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTGACC
* *
19948523 TTTAGCGGCA-TAGTAGC-CTTTATTGAAAAACA-CT-GCTATAGATCGAGCATTAGCGGCGGTT
127 TTTAGCGGCATTAGTAGCACTTT-TT-AAAAA-ATCTCGCTATAGACCGAGCATTAGCGGCGCTT
19948584 TTTG
189 TTTG
** * * * * * * * * * *
19948588 AAAAACACCACTATAGGTCGACCGTTAGCGACGCTTTTTGAAAACGCCGCTATAGGTCA-ACTGT
1 AAAAATGCCACTATAGATCGAGCATTAGCGGCACTTTTTAAAAACGTCGCTATAGATCAGGC-AT
19948652 TAGCGGCGCTTTTTGAAAAACACCGCAAAAAAATTAAGCACA
65 TAG-GG-GCTTTTTGAAAAACACCGCAAAAAAATTAAGCACA
19948694 GTCCCATAAT
Statistics
Matches: 251, Mismatches: 38, Indels: 23
0.80 0.12 0.07
Matches are distributed among these distances:
192 1 0.00
193 57 0.23
194 128 0.51
195 64 0.25
196 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (192 bp):
AAAAATGCCACTATAGATCGAGCATTAGCGGCACTTTTTAAAAACGTCGCTATAGATCAGGCATT
AGGGGCTTTTTGAAAAACACCGCAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTGACCTTTA
GCGGCATTAGTAGCACTTTTTAAAAAATCTCGCTATAGACCGAGCATTAGCGGCGCTTTTTG
Found at i:19948602 original size:40 final size:40
Alignment explanation
Indices: 19948540--19948677 Score: 163
Period size: 40 Copynumber: 3.5 Consensus size: 40
19948530 GCATAGTAGC
* * * *
19948540 CTTTATTGAAAAACACTGCTATAGATCGAGCATTAGCGGCG
1 CTTT-TTGAAAAACACCGCTATAGGTCGAACGTTAGCGGCG
* * * *
19948581 GTTTTTGAAAAACACCACTATAGGTCGACCGTTAGCGACG
1 CTTTTTGAAAAACACCGCTATAGGTCGAACGTTAGCGGCG
*
19948621 CTTTTTG-AAAACGCCGCTATAGGTC-AACTGTTAGCGGCG
1 CTTTTTGAAAAACACCGCTATAGGTCGAAC-GTTAGCGGCG
19948660 CTTTTTGAAAAACACCGC
1 CTTTTTGAAAAACACCGC
19948678 AAAAAAATTA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
38 2 0.02
39 32 0.39
40 45 0.55
41 3 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (40 bp):
CTTTTTGAAAAACACCGCTATAGGTCGAACGTTAGCGGCG
Found at i:19949522 original size:7 final size:7
Alignment explanation
Indices: 19949512--19949623 Score: 50
Period size: 7 Copynumber: 15.9 Consensus size: 7
19949502 AGTTTCAGCA
19949512 CCTAAAC
1 CCTAAAC
19949519 CCTAAAC
1 CCTAAAC
* *
19949526 TCTAAAG
1 CCTAAAC
*
19949533 CCTAATC
1 CCTAAAC
*
19949540 CTTAAA-
1 CCTAAAC
*
19949546 CCTTAAC
1 CCTAAAC
19949553 ACCTAAAC
1 -CCTAAAC
*
19949561 CCTAAAA
1 CCTAAAC
* *
19949568 TCTAAAG
1 CCTAAAC
19949575 CCT-AAC
1 CCTAAAC
* *
19949581 CTTTAAAT
1 C-CTAAAC
19949589 CCT-AAC
1 CCTAAAC
*
19949595 CCATGAAC
1 CC-TAAAC
**
19949603 TATAAAC
1 CCTAAAC
19949610 CCTTAAAC
1 CC-TAAAC
19949618 CCTAAA
1 CCTAAA
19949624 ACCTTAAACT
Statistics
Matches: 74, Mismatches: 24, Indels: 14
0.66 0.21 0.12
Matches are distributed among these distances:
6 11 0.15
7 44 0.59
8 19 0.26
ACGTcount: A:0.42, C:0.32, G:0.03, T:0.23
Consensus pattern (7 bp):
CCTAAAC
Found at i:19949536 original size:14 final size:14
Alignment explanation
Indices: 19949513--19949593 Score: 58
Period size: 14 Copynumber: 5.8 Consensus size: 14
19949503 GTTTCAGCAC
19949513 CTAAACCCTAAACT
1 CTAAACCCTAAACT
* *
19949527 CTAAAGCCTAATC-
1 CTAAACCCTAAACT
*
19949540 CTTAAACCTTAACAC-
1 C-TAAACCCTAA-ACT
*
19949555 CTAAACCCTAAAAT
1 CTAAACCCTAAACT
* *
19949569 CTAAAGCCTAACCT
1 CTAAACCCTAAACT
* *
19949583 TTAAATCCTAA
1 CTAAACCCTAA
19949594 CCCATGAACT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
13 2 0.04
14 48 0.92
15 2 0.04
ACGTcount: A:0.42, C:0.31, G:0.02, T:0.25
Consensus pattern (14 bp):
CTAAACCCTAAACT
Found at i:19950761 original size:336 final size:337
Alignment explanation
Indices: 19950050--19950870 Score: 1062
Period size: 336 Copynumber: 2.4 Consensus size: 337
19950040 AGTTTAACAA
* * *** *
19950050 TAGTGGTGTTTTTGTCCAAAAAGCCGCAATAGGCTATGCATTACCGGCGTTTGAGCCAAAAACAC
1 TAGTGGCG-TTTTGTCCAAAACGCCGCAATAGGCTATGCATTACCGTATTTTG-GCCAAAAACGC
* * *
19950115 CGCAAACATGTGTTAAGTGTTAGTAAAACAGTGTCGTTTTATGCTTTATTTTTTAGTGG-AGCTT
64 CGCAAATATGTGTTAGGTGTTAGTAAAACGGTGTCGTTTTATGCTTTA-TTTTTAGTGGCA-CTT
* * *
19950179 TGTT-AAAATGCCATAAATATGTATTAGGAGTTCCCAAAATGGCACCGTTTAGCCTTGTTATTAG
127 TGTTAAAAACGCCACAAATATGTATTAGGAGTTCCCAAAATGACACCGTTTAGCCTTGTTATTAG
* * * *
19950243 TGGCGTTTCACCAAAAAATGCCGCAAAAAATGTTTTAAGTGTGAGCAAAACGGCGCCGTTTTATC
192 TAGCATTTCACCAAAAAA-GCCGCAAAAAATGTGTTAAGTGTGAGCAAAACGGCGCCATTTTATC
* * * *
19950308 ATTTGTATTTAGTGGCACTTGTGTAAAACGCCACAAATGTGTATTACAAGTCCATCAAATGACAC
256 ATTTGTATTTAGTGGCACTTCTATAAAACGCCACAAATGTGTATTACAAGTCCATAAAACGACAC
19950373 CGTTTTATCCTTGTTAT
321 CGTTTTATCCTTGTTAT
* * *
19950390 TAGTGGCATTTTGTCCAAAACGCCGCAATAGGCTATGCATTATCTGTATTTTGGCCAAAAATGCC
1 TAGTGGCGTTTTGTCCAAAACGCCGCAATAGGCTATGCATTA-CCGTATTTTGGCCAAAAACGCC
* *
19950455 GCAAATATGTGTTAGGTGTTAGTAAAACGGCGTTGTTTTATGCTTTATTTTTAGTGGCACTTTGT
65 GCAAATATGTGTTAGGTGTTAGTAAAACGGTGTCGTTTTATGCTTTATTTTTAGTGGCACTTTGT
* *
19950520 TAAAAACGCTACAAATATGTATTAGGAGTTCCCGAAATGACACCGTTTAG-CTCTGTTATTAGTA
130 TAAAAACGCCACAAATATGTATTAGGAGTTCCCAAAATGACACCGTTTAGCCT-TGTTATTAGTA
* * * * *
19950584 GCATTT-TCCAAAAACA-CCG-TAAATATGTGTTAAGTGTTAGCAAAACGGTGCCATTTTATTC-
194 GCATTTCACCAAAAA-AGCCGCAAAAAATGTGTTAAGTGTGAGCAAAACGGCGCCATTTTA-TCA
* * * **
19950645 TTTGTATTTAGTGGCGCTTCTATAAAACGCCGCAAATGTGTATTACGAGTCCATAAAACGTTACC
257 TTTGTATTTAGTGGCACTTCTATAAAACGCCACAAATGTGTATTACAAGTCCATAAAACGACACC
19950710 GTTTTATCCTTGTTAT
322 GTTTTATCCTTGTTAT
* * * *
19950726 TAGTGGCGTTTTGTCCAAAACGCCGCAATAGGCTATGCATTACCGATGTTTTAGCTAAAAACGCT
1 TAGTGGCGTTTTGTCCAAAACGCCGCAATAGGCTATGCATTACCG-TATTTTGGCCAAAAACGCC
* ** * * * *
19950791 GTAAATATGTGTTAGGTGTTAGTAAAACGGTGTCGTTTTATGAATTGTATTTAGTGGCGCTTTAT
65 GCAAATATGTGTTAGGTGTTAGTAAAACGGTGTCGTTTTATGCTTTATTTTTAGTGGCACTTTGT
*
19950856 TAGAAACGCCACAAA
130 TAAAAACGCCACAAA
19950871 CAGAATTCAG
Statistics
Matches: 419, Mismatches: 55, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
335 2 0.00
336 229 0.55
337 5 0.01
338 26 0.06
339 145 0.35
340 12 0.03
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (337 bp):
TAGTGGCGTTTTGTCCAAAACGCCGCAATAGGCTATGCATTACCGTATTTTGGCCAAAAACGCCG
CAAATATGTGTTAGGTGTTAGTAAAACGGTGTCGTTTTATGCTTTATTTTTAGTGGCACTTTGTT
AAAAACGCCACAAATATGTATTAGGAGTTCCCAAAATGACACCGTTTAGCCTTGTTATTAGTAGC
ATTTCACCAAAAAAGCCGCAAAAAATGTGTTAAGTGTGAGCAAAACGGCGCCATTTTATCATTTG
TATTTAGTGGCACTTCTATAAAACGCCACAAATGTGTATTACAAGTCCATAAAACGACACCGTTT
TATCCTTGTTAT
Found at i:19953057 original size:9 final size:9
Alignment explanation
Indices: 19953045--19953158 Score: 85
Period size: 9 Copynumber: 13.0 Consensus size: 9
19953035 ATATCATATA
19953045 ATAACTTAC
1 ATAACTTAC
19953054 ATAACTTAC
1 ATAACTTAC
*
19953063 AAAACTTAC
1 ATAACTTAC
19953072 ATAA--TAC
1 ATAACTTAC
* *
19953079 ATAA-ATAT
1 ATAACTTAC
* *
19953087 ATATCATATC
1 ATAACTTA-C
19953097 ATAACTTAC
1 ATAACTTAC
*
19953106 AGAACTTAC
1 ATAACTTAC
*
19953115 AAAACTTAC
1 ATAACTTAC
*
19953124 TTAACTTAC
1 ATAACTTAC
19953133 ATAA--TAC
1 ATAACTTAC
*
19953140 ATAAATATAC
1 ATAACT-TAC
*
19953150 ACAACTTAC
1 ATAACTTAC
19953159 CTGAATTAGT
Statistics
Matches: 85, Mismatches: 14, Indels: 12
0.77 0.13 0.11
Matches are distributed among these distances:
7 14 0.16
8 5 0.06
9 53 0.62
10 13 0.15
ACGTcount: A:0.49, C:0.19, G:0.01, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:19954881 original size:13 final size:13
Alignment explanation
Indices: 19954863--19954890 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19954853 ACATATTATA
19954863 AATATTTTGTGTT
1 AATATTTTGTGTT
19954876 AATATTTTGTGTT
1 AATATTTTGTGTT
19954889 AA
1 AA
19954891 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:19956355 original size:40 final size:40
Alignment explanation
Indices: 19956309--19956512 Score: 331
Period size: 40 Copynumber: 5.1 Consensus size: 40
19956299 ACTAAGATCT
*
19956309 GAAGGCATTTGTGCTAGTGACTATACCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* *
19956349 GAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCTC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
19956389 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
*
19956429 GAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* *
19956469 GAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCC
1 GAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCC
19956508 GAAGG
1 GAAGG
19956513 TACTTGGGTT
Statistics
Matches: 154, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 15 0.10
40 137 0.89
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
Found at i:19963055 original size:13 final size:13
Alignment explanation
Indices: 19963037--19963064 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19963027 ACATATTATA
19963037 AATATTTTGTGTT
1 AATATTTTGTGTT
19963050 AATATTTTGTGTT
1 AATATTTTGTGTT
19963063 AA
1 AA
19963065 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:19964398 original size:40 final size:40
Alignment explanation
Indices: 19964350--19964555 Score: 335
Period size: 40 Copynumber: 5.2 Consensus size: 40
19964340 GGACTAAGAT
19964350 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
19964390 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
19964430 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
19964470 CCGAAGGCATTTGTGCTACTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
19964510 CCAAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
19964549 CCGAAGG
1 CCGAAGG
19964556 TACTTGGGTT
Statistics
Matches: 155, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.09
40 139 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:19972414 original size:43 final size:43
Alignment explanation
Indices: 19972333--19972535 Score: 239
Period size: 43 Copynumber: 4.7 Consensus size: 43
19972323 GCTTTTTTGA
* *
19972333 GAAAAGCGTCGCTAAAGG-CATGTTCTTTAGCGGCGTTTGTAT
1 GAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTAT
* *
19972375 GAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCAGCGTTTGTGT
1 GAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTAT
* * * * *
19972418 GAAAAGTGCCACTAAATGTCACGTTCTTTAGCAGCATTTGTA-
1 GAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTAT
* * *
19972460 CAGGAAGCGCCGGTAAAGGTCATGTTCTTTAGCAGCGTTTGTAT
1 GA-AAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTAT
** **
19972504 GGTAAGCGCCATTAAAGGTCATGTTCTTTAGC
1 GAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
19972536 GGCACTTTCT
Statistics
Matches: 136, Mismatches: 22, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
42 18 0.13
43 118 0.87
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
GAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTAT
Found at i:19988266 original size:17 final size:18
Alignment explanation
Indices: 19988223--19988269 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
19988213 TGCCAGTGTC
19988223 GGCCCATACGCCTATGTG
1 GGCCCATACGCCTATGTG
*
19988241 GGCCCATACGCCTGTGT-
1 GGCCCATACGCCTATGTG
*
19988258 GGTCCATACGCC
1 GGCCCATACGCC
19988270 CAGATTGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.15, C:0.36, G:0.28, T:0.21
Consensus pattern (18 bp):
GGCCCATACGCCTATGTG
Found at i:19990884 original size:30 final size:30
Alignment explanation
Indices: 19990850--19990937 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
19990840 CTAGGTTATA
* *
19990850 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
* * *
19990880 TTCAGCTTAGGAG-TATAATCTCAGCTCAAC
1 TTCAGCTTAAGAGCTA-AACCTTAGCTCAAC
* * *
19990910 TTTAGCTTAAGGGCTAAAGCTTAGCTCA
1 TTCAGCTTAAGAGCTAAACCTTAGCTCA
19990938 TTTTAGCTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 2 0.04
30 43 0.91
31 2 0.04
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (30 bp):
TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
Found at i:19991131 original size:5 final size:5
Alignment explanation
Indices: 19991121--19991154 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
19991111 ATGTCTCATA
19991121 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT -TTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
19991155 GTAGATACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
ATTTT
Found at i:20001019 original size:39 final size:39
Alignment explanation
Indices: 20000969--20001244 Score: 435
Period size: 39 Copynumber: 7.1 Consensus size: 39
20000959 ATTATATTAT
* *
20000969 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
20001008 CAGCATGAAGCCTGCGGGACTTTGGCCCGGATACATTGC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
20001047 CAGCACGAACCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
20001086 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
20001125 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * * *
20001164 CAGCATGAAGCCTGCGGGAATTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
20001203 CAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
20001242 CAG
1 CAG
20001245 TGTCTTGCAT
Statistics
Matches: 214, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 214 1.00
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:20001098 original size:78 final size:78
Alignment explanation
Indices: 20000961--20001244 Score: 480
Period size: 78 Copynumber: 3.6 Consensus size: 78
20000951 AACCCGAAAT
* *
20000961 TATATTAT-CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCATGAAGCCTGCGG
1 TATATT-TCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCATGAAGCCTGCGG
20001025 GACTTTGGCCCGGA
65 GACTTTGGCCCGGA
* * * *
20001039 TACATTGCCAGCACGAACCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGG
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCATGAAGCCTGCGGG
20001104 ACTTTGGCCCGGA
66 ACTTTGGCCCGGA
20001117 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCATGAAGCCTGCGGG
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCATGAAGCCTGCGGG
*
20001182 AATTTGGCCCGGA
66 ACTTTGGCCCGGA
*
20001195 TATATTTCCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTCCAG
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
20001245 TGTCTTGCAT
Statistics
Matches: 193, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
78 193 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.23
Consensus pattern (78 bp):
TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCATGAAGCCTGCGGG
ACTTTGGCCCGGA
Found at i:20002678 original size:25 final size:25
Alignment explanation
Indices: 20002650--20002704 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
20002640 ATAGAACACA
20002650 ACTTTTACGCTTTGCGCGATTTAGT
1 ACTTTTACGCTTTGCGCGATTTAGT
20002675 ACTTTTACGCTTTGCGCGATTTAGT
1 ACTTTTACGCTTTGCGCGATTTAGT
*
20002700 CCTTT
1 ACTTT
20002705 GTACTTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (25 bp):
ACTTTTACGCTTTGCGCGATTTAGT
Found at i:20006114 original size:93 final size:93
Alignment explanation
Indices: 20006002--20006173 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
20005992 GCCCATAAGT
* *
20006002 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20006067 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
20006095 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
20006160 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
20006174 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:20006169 original size:46 final size:46
Alignment explanation
Indices: 20005994--20006169 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
20005984 TGTAACCCGC
* *
20005994 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
20006040 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
20006086 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
20006133 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
20006170 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:20008602 original size:30 final size:30
Alignment explanation
Indices: 20008558--20008646 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
20008548 CAAAGATAAC
20008558 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
20008587 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
20008617 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
20008647 TGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:20008606 original size:15 final size:15
Alignment explanation
Indices: 20008558--20008637 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
20008548 CAAAGATAAC
*
20008558 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
20008572 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
20008587 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
20008602 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
20008617 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
20008632 AAGAAA
1 AAGAAA
20008638 CCCAAGATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:20008646 original size:15 final size:15
Alignment explanation
Indices: 20008569--20008646 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
20008559 AGAAAACCGA
20008569 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
20008584 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
20008598 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
20008613 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
20008629 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
20008644 ATA
1 ATA
20008647 TGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:20013166 original size:27 final size:27
Alignment explanation
Indices: 20013135--20013312 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
20013125 TAAATTGTAC
20013135 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
20013162 TGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20013188 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20013216 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20013244 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20013271 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20013298 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20013313 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20013276 original size:82 final size:81
Alignment explanation
Indices: 20013136--20013291 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
20013126 AAATTGTACA
* *
20013136 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
20013201 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
*** *
20013217 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACTAAGT
*
20013281 GTGCGAGTTGA
64 GTGCGAATTGA
20013292 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20013303 original size:82 final size:81
Alignment explanation
Indices: 20013132--20013312 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
20013122 GATTAAATTG
* *
20013132 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
20013197 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * *** *
20013213 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACT
* **
20013277 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20013295 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20013313 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:20016237 original size:93 final size:93
Alignment explanation
Indices: 20016125--20016296 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
20016115 GCCCATAAGT
* *
20016125 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20016190 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
20016218 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
20016283 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
20016297 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:20016292 original size:46 final size:46
Alignment explanation
Indices: 20016117--20016292 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
20016107 TGTAACCCGC
* *
20016117 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
20016163 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
20016209 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
20016256 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
20016293 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:20019811 original size:39 final size:39
Alignment explanation
Indices: 20019768--20020082 Score: 531
Period size: 39 Copynumber: 8.1 Consensus size: 39
20019758 ATTATATTAT
* * *
20019768 CAGCACAAAGCCTGCGGGACTTTAACCCAGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
20019807 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
20019846 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
20019885 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
20019924 CAGCATGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
20019963 CAGCACGAAGCCTGCGAGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
20020002 CAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
20020041 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
20020080 CAG
1 CAG
20020083 TGTCTTGCAT
Statistics
Matches: 257, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 257 1.00
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:20031301 original size:18 final size:19
Alignment explanation
Indices: 20031262--20031302 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
20031252 AAACTTTAAA
*
20031262 AAAATTCAAAATAATTTTT
1 AAAATTCAAAATAATTTAT
20031281 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTTAT
20031299 AAAA
1 AAAA
20031303 AATTTAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTAT
Found at i:20031303 original size:19 final size:20
Alignment explanation
Indices: 20031256--20031303 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
20031246 TCAACAAAAC
*
20031256 TTTAAAAAAATTCAAAATAA
1 TTTATAAAAATTCAAAATAA
*
20031276 TTT-TTAAAATTCAAAAT-A
1 TTTATAAAAATTCAAAATAA
20031294 TTTATAAAAA
1 TTTATAAAAA
20031304 ATTTAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 17 0.71
20 3 0.12
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTATAAAAATTCAAAATAA
Found at i:20031316 original size:12 final size:11
Alignment explanation
Indices: 20031301--20031345 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
20031291 ATATTTATAA
20031301 AAAATTTAAAAG
1 AAAATTT-AAAG
20031313 AAAATTCTAAAG
1 AAAATT-TAAAG
* *
20031325 AATATATAAAG
1 AAAATTTAAAG
20031336 AAAATTTAAA
1 AAAATTTAAA
20031346 ATTTAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 13 0.46
12 14 0.50
13 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (11 bp):
AAAATTTAAAG
Found at i:20038111 original size:5 final size:5
Alignment explanation
Indices: 20038101--20038161 Score: 122
Period size: 5 Copynumber: 12.2 Consensus size: 5
20038091 ATTAAGACTT
20038101 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
20038151 TATAA TATAA T
1 TATAA TATAA T
20038162 GTATATATGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 56 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Done.