Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 17 of 199
Found at i:5679387 original size:152 final size:151
Alignment explanation
Indices: 5679201--5679804 Score: 786
Period size: 152 Copynumber: 4.0 Consensus size: 151
5679191 TTTTTTATTG
** * *
5679201 AAAGTAATAAAATCCGATAAAAAAATACTAACAAAGGGCCGAAATAA-GGTTTTTTTTAATTTAT
1 AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGACCGAAATAAGGGTTTTTTTTAATTTAT
*
5679265 TTAAAATACACACTAAATGAATACATTTCAAACATGATGTACTAAAATAATATAAAATAATAAAA
66 TTAAAA-ACACACTAAATGAATACATTTCAAACATGATGTACTAAAATAATATAAAATAAGAAAA
*
5679330 TTAGAAAATATTATATTTTTTA
130 TTAGAAAATAGTATATTTTTTA
* * *
5679352 AAAGTAATAAAATCCGGGGAAAAAAATACGAACAAAGGATCGAAATAATGGTTTTTTTAAAAATT
1 AAAGTAATAAAATCC-GGGAAAAAAATACGAACAAAGGACCGAAATAAGGGTTTTTTT--TAATT
* * * *
5679417 TATTTAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAA
63 TATTTAAAAACACACTAAATGAATACATTTCAAACATGATGTACTAAAATAATATAAAATAAGAA
* * *
5679482 AA-TACATAAATAATATATTTTTATTG
128 AATTAGA-AAATAGTATA-TTTT-TTA
* * *
5679508 AAAGTAATAAAATCC-GGAAAAAAATACGAATAAA-AAGCCGAAATAAGGATTTTTTTTAAATTT
1 AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGA-CCGAAATAAGGGTTTTTTTT-AATTT
* *
5679571 ATTTAAAAACACACTAAATGAATACATTTCAAACATGATGTACTAAAATAATGTAAAATTAGAAA
64 ATTTAAAAACACACTAAATGAATACATTTCAAACATGATGTACTAAAATAATATAAAATAAGAAA
*
5679636 ATTAGAAAATAGTATATTTTTTT
129 ATTAGAAAATAGTATATTTTTTA
* * * * *
5679659 AAAGTAATAAAATCCGGGGAAAAAATATGAACAAATGACCTAAATAAGGGTTTTTTTGAATTTAT
1 AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGACCGAAATAAGGGTTTTTTTTAATTTAT
* * * *
5679724 TTAAAAAACACAGTAAATTAATACATTTCAAACAT-ACTGTACTAAAATAATGTAAAATTAGAAA
66 TT-AAAAACACACTAAATGAATACATTTCAAACATGA-TGTACTAAAATAATATAAAATAAGAAA
*
5679788 AATAGAAAATAGTATAT
129 ATTAGAAAATAGTATAT
5679805 GTAATACCCA
Statistics
Matches: 402, Mismatches: 37, Indels: 27
0.86 0.08 0.06
Matches are distributed among these distances:
151 42 0.10
152 137 0.34
153 88 0.22
154 101 0.25
155 17 0.04
156 17 0.04
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (151 bp):
AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGACCGAAATAAGGGTTTTTTTTAATTTAT
TTAAAAACACACTAAATGAATACATTTCAAACATGATGTACTAAAATAATATAAAATAAGAAAAT
TAGAAAATAGTATATTTTTTA
Found at i:5679881 original size:21 final size:21
Alignment explanation
Indices: 5679856--5679899 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
5679846 ATCTTCGAGG
5679856 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
5679877 ATATGCAATCTTAGATGTGAT
1 ATATGCAATCTTAGATATGAT
5679898 AT
1 AT
5679900 GTAATCTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:5679905 original size:19 final size:19
Alignment explanation
Indices: 5679855--5679910 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
5679845 AATCTTCGAG
5679855 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
5679874 GATATATGCAATCTTAGATGT
1 G--ATATGCAATCTTAGATAT
*
5679895 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
5679911 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
21 18 0.55
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:5679919 original size:22 final size:23
Alignment explanation
Indices: 5679889--5679933 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
5679879 ATGCAATCTT
* *
5679889 AGATGTGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATATTAGA
*
5679911 AGATATGATTTTGTAATATTAGA
1 AGATATGATTATGTAATATTAGA
5679934 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATATTAGA
Found at i:5679943 original size:22 final size:23
Alignment explanation
Indices: 5679899--5679943 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
5679889 AGATGTGATA
* *
5679899 TGTAATCTTAGAAGATATGATTT
1 TGTAATATTAGAAGATATAATTT
*
5679922 TGTAATATTAG-AGATTTAATTT
1 TGTAATATTAGAAGATATAATTT
5679944 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATATTAGAAGATATAATTT
Found at i:5680373 original size:3 final size:3
Alignment explanation
Indices: 5680365--5680404 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
5680355 TATTAATTTG
*
5680365 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
5680405 ACCTACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5680382 original size:12 final size:13
Alignment explanation
Indices: 5680350--5680402 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 13
5680340 GTTTTTAGTC
5680350 TATT-TTATTAATT
1 TATTATTATT-ATT
*
5680363 TGTTATTATTATT
1 TATTATTATTATT
5680376 T-TTATTATTATAT
1 TATTATTATTAT-T
5680389 TATATATTATTATT
1 TAT-TATTATTATT
5680403 ATACCTACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
12 10 0.29
13 9 0.26
14 7 0.20
15 9 0.26
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (13 bp):
TATTATTATTATT
Found at i:5680774 original size:51 final size:52
Alignment explanation
Indices: 5680660--5680775 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 52
5680650 ATTTTCCACG
**
5680660 TTTT-TATAT-TATACTTATATATTTCATTTTTTTGTAAATGCATGAATATA
1 TTTTATATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATA
* * * * *
5680710 TTTTATATGTATATATTTATAT-TTTCCTTGTTTTCATAAATGCAT-TATGTA
1 TTTTATATATATATACTTATATATTTCATT-TTTTCATAAATGCATGAATATA
5680761 TTTTATATATATATA
1 TTTTATATATATATA
5680776 AGTTTTATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
50 4 0.07
51 28 0.51
52 23 0.42
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (52 bp):
TTTTATATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATA
Found at i:5682018 original size:155 final size:153
Alignment explanation
Indices: 5681769--5682132 Score: 515
Period size: 155 Copynumber: 2.4 Consensus size: 153
5681759 GTTTCGACAG
* *
5681769 TATATTTTTTTAAAGTAATAAAATCCAGGGAAAAAAATAAGAACAAAGGGCCGAAATAAATGTTT
1 TATATTTTTTTAAAGTAATAAAATCCAGGAAAAAAAATACGAACAAAGGGCCGAAATAAATGTTT
** * * *
5681834 TTTTAAATTTATTTAAAAAATACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGA
66 TTTTAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAAT-A
5681899 -AAAATAATAAAA-TACGAAAATAA
130 TAAAATAATAAAACTA-GAAAATAA
* *
5681922 TATATTTTTATTGAAAGTAATAAAAT-CTGGAAAAAAAATACGAACAAACGGCCGAAATAAGA-G
1 TATATTTTT-TT-AAAGTAATAAAATCCAGGAAAAAAAATACGAACAAAGGGCCGAAATAA-ATG
* *
5681985 TTTTTTTTTAATTTAAATAAAACACACACTAAATGAATACATTTCAAACATAATGTACTAAAATA
63 -TTTTTTTAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATA
*
5682050 ATATAAAATAATAAAACTAGAAAATAG
127 ATATAAAATAATAAAACTAGAAAATAA
*
5682077 TAT-TTTTTTT-AAGTAATAAAATCCAGGAAAAAAAATACGAACAAAGGGCTGAAATA
1 TATATTTTTTTAAAGTAATAAAATCCAGGAAAAAAAATACGAACAAAGGGCCGAAATA
5682133 CGAACATGTT
Statistics
Matches: 189, Mismatches: 15, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
151 12 0.06
152 30 0.16
153 11 0.06
154 39 0.21
155 95 0.50
156 2 0.01
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (153 bp):
TATATTTTTTTAAAGTAATAAAATCCAGGAAAAAAAATACGAACAAAGGGCCGAAATAAATGTTT
TTTTAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATAT
AAAATAATAAAACTAGAAAATAA
Found at i:5682274 original size:21 final size:20
Alignment explanation
Indices: 5682231--5682267 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
5682221 TGGTAAATAA
5682231 TATTTTTTATATTATTTTGG
1 TATTTTTTATATTATTTTGG
*
5682251 TATTTTAT-TATTATTTT
1 TATTTTTTATATTATTTT
5682268 TTTGTATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (20 bp):
TATTTTTTATATTATTTTGG
Found at i:5687466 original size:130 final size:130
Alignment explanation
Indices: 5687189--5687466 Score: 296
Period size: 130 Copynumber: 2.1 Consensus size: 130
5687179 TTTGTAAAGG
* * *
5687189 GTATTTTCATCATTATTTAACTAAATTAGTGCATATAGTTGACTCGTGGCACCAAATTCACTAAA
1 GTATTTTCGTCATTACTTAACTAAATTAGTGCATATAGTTGACTCGTGACACCAAATTCACTAAA
* *
5687254 AGATTTAATATTAACAGTGGAGATGACAAAAATCTCAAGATTATATAATCTACTTTGTAAAATAA
66 AGATGTAATATT-A-AGTGGAGATGACAAAAATCTCAACATTATATAATCTACTTTGTAAAATAA
5687319 AT
129 AT
* * * * * * *
5687321 GTATTTTTGTTATTACTTAGCTGAATTGGTGCATA-A-TTGACTCGTGACACCAAATTTAGTAAA
1 GTATTTTCGTCATTACTTAACTAAATTAGTGCATATAGTTGACTCGTGACACCAAATTCACTAAA
* * * * *
5687384 AGGTGTAATATT-AGTTGAGATGACAAAAATACCCTGAACA-TAGTATAGTTTACTTTGTAAAAT
66 AGATGTAATATTAAGTGGAGATGACAAAAAT---CTCAACATTA-TATAATCTACTTTGTAAAAT
5687447 AAGA-
127 AA-AT
*
5687451 GTATTTCCGTCATTAC
1 GTATTTTCGTCATTAC
5687467 CTGGCTAAAT
Statistics
Matches: 121, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
127 17 0.14
129 2 0.02
130 72 0.60
131 2 0.02
132 28 0.23
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
GTATTTTCGTCATTACTTAACTAAATTAGTGCATATAGTTGACTCGTGACACCAAATTCACTAAA
AGATGTAATATTAAGTGGAGATGACAAAAATCTCAACATTATATAATCTACTTTGTAAAATAAAT
Found at i:5694139 original size:4 final size:4
Alignment explanation
Indices: 5694130--5694157 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
5694120 AACCATAATA
5694130 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
5694158 CAGTTTCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:5697468 original size:7 final size:7
Alignment explanation
Indices: 5697456--5697482 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
5697446 CATCCCCTTA
5697456 TTTTTTC
1 TTTTTTC
5697463 TTTTTTC
1 TTTTTTC
5697470 TTTTTTC
1 TTTTTTC
5697477 TTTTTT
1 TTTTTT
5697483 TTTAACTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:5700107 original size:20 final size:22
Alignment explanation
Indices: 5700084--5700123 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
5700074 ATATCATATT
5700084 TTTAAAT-AATT-TTAAAATTA
1 TTTAAATAAATTATTAAAATTA
*
5700104 TTTATATAAATTATTAAAAT
1 TTTAAATAAATTATTAAAAT
5700124 ATAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 4 0.24
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTAAATAAATTATTAAAATTA
Found at i:5704045 original size:3 final size:3
Alignment explanation
Indices: 5704037--5704065 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
5704027 CGAGTATGGG
5704037 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
5704066 GAAATAGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:5705476 original size:37 final size:37
Alignment explanation
Indices: 5705435--5705515 Score: 162
Period size: 37 Copynumber: 2.2 Consensus size: 37
5705425 AAGTACAACA
5705435 AATTGAAATTTGAATACATCTAAACCTATATCAAAAT
1 AATTGAAATTTGAATACATCTAAACCTATATCAAAAT
5705472 AATTGAAATTTGAATACATCTAAACCTATATCAAAAT
1 AATTGAAATTTGAATACATCTAAACCTATATCAAAAT
5705509 AATTGAA
1 AATTGAA
5705516 TAAAATTTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.32
Consensus pattern (37 bp):
AATTGAAATTTGAATACATCTAAACCTATATCAAAAT
Found at i:5713301 original size:22 final size:21
Alignment explanation
Indices: 5713274--5713315 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5713264 CAAATTAGAA
* *
5713274 TAAAATTAACATTTATTGTTT
1 TAAAAATAACATCTATTGTTT
*
5713295 TAAAAATAGCATCTATTGTTT
1 TAAAAATAACATCTATTGTTT
5713316 AGCAAAATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAAAATAACATCTATTGTTT
Found at i:5714856 original size:21 final size:21
Alignment explanation
Indices: 5714830--5714872 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
5714820 GGTTCGCTGT
*
5714830 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
5714851 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
5714872 A
1 A
5714873 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:5714872 original size:16 final size:16
Alignment explanation
Indices: 5714853--5714885 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5714843 TGTATTGGAT
*
5714853 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
5714869 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
5714885 T
1 T
5714886 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:5714930 original size:45 final size:44
Alignment explanation
Indices: 5714864--5714958 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
5714854 GGATTAGAGG
* *
5714864 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
5714909 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
5714953 TGTAAT
1 TGTAAT
5714959 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:5715141 original size:18 final size:17
Alignment explanation
Indices: 5715120--5715154 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5715110 TTATTATTTA
*
5715120 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
5715138 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
5715155 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:5715148 original size:28 final size:27
Alignment explanation
Indices: 5715078--5715150 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
5715068 TTTATTATCA
*
5715078 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
5715106 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
5715133 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
5715151 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:5715267 original size:144 final size:147
Alignment explanation
Indices: 5715039--5715310 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
5715029 ATGATTATTG
5715039 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
5715104 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
5715169 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
5715188 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
5715250 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
5715311 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:5715285 original size:18 final size:17
Alignment explanation
Indices: 5715264--5715298 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5715254 TTATTATTAA
*
5715264 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
5715282 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
5715299 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:5715342 original size:54 final size:54
Alignment explanation
Indices: 5715284--5715462 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
5715274 ATTAAAATAT
*
5715284 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
5715338 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
5715401 TAT
53 -AC
*
5715404 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
5715458 ATAAT
1 ATAAT
5715463 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:5715344 original size:61 final size:61
Alignment explanation
Indices: 5715279--5715466 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
5715269 TTTTAATTAA
*
5715279 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
5715340 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
5715399 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
5715460 AATATAT
1 AATATAT
5715467 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:5715377 original size:120 final size:120
Alignment explanation
Indices: 5715247--5715469 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
5715237 ATCATATTTA
* *
5715247 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
5715312 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
5715367 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
5715432 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
5715470 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:5715405 original size:18 final size:17
Alignment explanation
Indices: 5715384--5715418 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5715374 TTATTATTAA
5715384 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
5715402 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
5715419 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:5715481 original size:17 final size:16
Alignment explanation
Indices: 5715459--5715505 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
5715449 ACTCAAATCA
5715459 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
5715476 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
5715490 TAAATATATGATTTAA
1 T-AATATATGATTTAA
5715506 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:5715506 original size:17 final size:17
Alignment explanation
Indices: 5715478--5715511 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5715468 ATTATAACTA
*
5715478 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
5715495 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
5715512 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:5715654 original size:93 final size:92
Alignment explanation
Indices: 5715544--5715738 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
5715534 GATTATAGTT
* * *
5715544 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
5715607 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
5715637 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
5715702 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
5715729 TATGAATTTA
1 TATGAATTTA
5715739 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:5717149 original size:11 final size:11
Alignment explanation
Indices: 5717135--5717161 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
5717125 AAAAATCAAT
5717135 ACAAAAGTTTC
1 ACAAAAGTTTC
5717146 ACAAAAGTTTC
1 ACAAAAGTTTC
5717157 ACAAA
1 ACAAA
5717162 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:5719426 original size:15 final size:15
Alignment explanation
Indices: 5719406--5719436 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5719396 ATATTATGTA
5719406 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
5719421 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
5719436 T
1 T
5719437 TGAAGGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATTGAGGTAAAAT
Found at i:5723841 original size:37 final size:37
Alignment explanation
Indices: 5723780--5723925 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
5723770 TGCGTATGAT
* *
5723780 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
5723815 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
5723852 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
5723889 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
5723926 TAAAGTTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:5723942 original size:46 final size:46
Alignment explanation
Indices: 5723889--5724091 Score: 280
Period size: 46 Copynumber: 4.3 Consensus size: 46
5723879 TAAGTGTAGC
* * ** *
5723889 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGTTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
5723935 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
5723981 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
5724033 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
5724079 TACTTATCACTTT
1 CACTTATCACTTT
5724092 CCACTTGTCA
Statistics
Matches: 143, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
46 98 0.69
49 2 0.01
52 43 0.30
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:5724008 original size:52 final size:52
Alignment explanation
Indices: 5723931--5724109 Score: 262
Period size: 52 Copynumber: 3.5 Consensus size: 52
5723921 GTAGCTAAAG
* *
5723931 TTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCAC
1 TTATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCAC
*
5723984 TTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCAC
1 TTATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCAC
*
5724036 TTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTAC
1 TTATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCAC
*
5724082 TTATCACTTTCCACTTGTCACTTGATCA
1 TTATCACTTTTCACTTGTCACTTGATCA
5724110 TATACAAAAA
Statistics
Matches: 114, Mismatches: 6, Indels: 13
0.86 0.05 0.10
Matches are distributed among these distances:
46 43 0.38
49 1 0.01
52 57 0.50
53 13 0.11
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.36
Consensus pattern (52 bp):
TTATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCAC
Found at i:5724054 original size:98 final size:98
Alignment explanation
Indices: 5723889--5724109 Score: 361
Period size: 98 Copynumber: 2.2 Consensus size: 98
5723879 TAAGTGTAGC
* * * * *
5723889 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGTTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACT
5723954 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
5723988 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTT
*
5724053 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
5724086 CACTTTCCACTTGTCACTTGATCA
1 CACTTTTCACTTGTCACTTGATCA
5724110 TATACAAAAA
Statistics
Matches: 114, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
98 105 0.92
99 9 0.08
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:5726188 original size:52 final size:48
Alignment explanation
Indices: 5726169--5726371 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
5726159 TGACAAGTGG
* *
5726169 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
5726215 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
5726267 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
5726313 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
5726359 AAAGTGATAAGTG
1 AAAGTGATAAGTG
5726372 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:5726223 original size:98 final size:98
Alignment explanation
Indices: 5726103--5726371 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
5726093 TTTGAGTACT
*
5726103 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
5726168 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
5726201 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
5726266 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
5726299 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
5726364 GATAAGTG
65 GAAAAGTG
5726372 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:5726379 original size:37 final size:37
Alignment explanation
Indices: 5726335--5726480 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
5726325 GATAGCTTTA
*
5726335 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
5726372 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
5726409 GCTACACTTATCTGATCAATAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
5726446 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
5726481 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 3 0.03
37 88 0.86
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:5746508 original size:20 final size:22
Alignment explanation
Indices: 5746461--5746509 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
5746451 AGACTTAATT
*
5746461 TAATATATATTTTAATTATTTA
1 TAATATATATTTTAATAATTTA
5746483 -AA-ATATA-TTTAA-AATTTA
1 TAATATATATTTTAATAATTTA
5746501 TAATATATA
1 TAATATATA
5746510 AAATAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 5 0.21
19 7 0.29
20 10 0.42
21 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TAATATATATTTTAATAATTTA
Found at i:5749062 original size:3 final size:3
Alignment explanation
Indices: 5749027--5749110 Score: 64
Period size: 3 Copynumber: 27.3 Consensus size: 3
5749017 ATAAGAAAAC
* * * * *
5749027 ATA ATA CTA ACA ATA GTA TTA ATA A-A TATA ATA ATA ATA GTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
*
5749071 GATA ATA ATG ATA ATA ATA ATA ACTAA ATA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA ATA ATA A
5749111 ATTGCTAAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
2 2 0.03
3 56 0.88
4 4 0.06
5 2 0.03
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:5749102 original size:14 final size:13
Alignment explanation
Indices: 5749046--5749112 Score: 64
Period size: 14 Copynumber: 4.8 Consensus size: 13
5749036 ACAATAGTAT
5749046 TAATAAATATAATAA
1 TAAT-AATA-AATAA
* *
5749061 TAATAGTAAA-GA
1 TAATAATAAATAA
5749073 TAATAATGATAATAA
1 TAATAAT-A-AATAA
5749088 TAATAACTAAATAA
1 TAATAA-TAAATAA
5749102 TAATAATAAAT
1 TAATAATAAAT
5749113 TGCTAAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
12 7 0.16
13 8 0.18
14 16 0.36
15 12 0.27
16 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (13 bp):
TAATAATAAATAA
Found at i:5750722 original size:44 final size:44
Alignment explanation
Indices: 5750611--5750991 Score: 194
Period size: 44 Copynumber: 8.7 Consensus size: 44
5750601 AATTCCTCGG
* * * *
5750611 TCTGTTCCACAGTAATCTCAGGGAGATAAGA-C--CTGA-TGCGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTACT-ATTTCAA
* ** * ** *
5750652 TCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCTTTTATTTTAA
1 TCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTACTATTTCAA
* * * * *
5750696 TCCGCTCCACTGTAATCTTAGGGAGATAGGAT-TACTAGCTTCGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTACTA-TTTCAA
* * **
5750740 TCTGCTCCACTGTAATCTCAGGGAGATAACATCTGA-AATTCTTCGG
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-ACTA-T-TTCAA
* * * ** * *
5750786 TCTGTTCCTCTGTAATCTCAGGGAAATAAGA-C--CTGGTACGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTACTATTTCAA
* * * * *
5750827 TCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTATTTTAA
1 TCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTACTATTTCAA
* *
5750871 TCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TACTATATTCAA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTACTAT-TTCAA
* * * **
5750915 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTACTA-T-TTCAA
* * *
5750961 TCTGTTCCACCGTAATCTCAGGGAAATAAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGA
5750992 CCTGGTGCGA
Statistics
Matches: 250, Mismatches: 70, Indels: 35
0.70 0.20 0.10
Matches are distributed among these distances:
40 2 0.01
41 49 0.20
42 2 0.01
43 8 0.03
44 118 0.47
45 8 0.03
46 63 0.25
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTACTATTTCAA
Found at i:5750767 original size:175 final size:175
Alignment explanation
Indices: 5750567--5751034 Score: 747
Period size: 175 Copynumber: 2.7 Consensus size: 175
5750557 GGTTTTAGTT
* * * *
5750567 TGCTCCACTGCAATGTTAGGGAGATAAAATCTGAAATTCCTCGGTCTGTTCCACAGTAATCTCAG
1 TGCTCCACTGTAATCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTGTTCCACAGTAATCTCAG
* * * *
5750632 GGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTTAAT
66 GGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
* * *
5750697 CCGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCGATC
131 CCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGATTCAATC
* * *
5750742 TGCTCCACTGTAATCTCAGGGAGATAACATCTGAAATTCTTCGGTCTGTTCCTCTGTAATCTCAG
1 TGCTCCACTGTAATCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTGTTCCACAGTAATCTCAG
*
5750807 GGAAATAAGACCTGGTACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
66 GGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
*
5750872 CCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATATTCAATC
131 CCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGATTCAATC
* * * *
5750917 TGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACCGTAATCTCAG
1 TGCTCCACTGTAATCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTGTTCCACAGTAATCTCAG
*
5750982 GGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAAAGATAAGATC
66 GGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
5751035 ATTTCTTCAA
Statistics
Matches: 270, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
175 270 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (175 bp):
TGCTCCACTGTAATCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTGTTCCACAGTAATCTCAG
GGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
CCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGATTCAATC
Found at i:5751188 original size:87 final size:88
Alignment explanation
Indices: 5751040--5751296 Score: 322
Period size: 87 Copynumber: 2.9 Consensus size: 88
5751030 AGATCATTTC
* * * **
5751040 TTCAATCAGCTTCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAACG
1 TTCAATCAGCTCCACTGCAACCGATGGAGACAAAGCTTTGTTTTCGATCTGCTTCACTGTTAACG
*
5751105 CAGGAAGGCAATATCTGCTAT-A
66 CAGGAAGGCAAGATCTGCTATCA
* * *
5751127 TTCAATCAGCTCCACTACAACCGATGGAGACAATGCTTTGTTTTCAATCTGCTTCACTGTTAACG
1 TTCAATCAGCTCCACTGCAACCGATGGAGACAAAGCTTTGTTTTCGATCTGCTTCACTGTTAACG
* *
5751192 CAGGAAGGCCAGATTTGCTATCA
66 CAGGAAGGCAAGATCTGCTATCA
* * * *
5751215 -TCAACCAGTTCCACCGCAACCGATGGAGACAAAGC-TTGTATCTTCGATCTGCTTCACTGTCAA
1 TTCAATCAGCTCCACTGCAACCGATGGAGACAAAGCTTTGT-T-TTCGATCTGCTTCACTGTTAA
* *
5751278 GGTAGGAAGGCAAGATCTG
64 CGCAGGAAGGCAAGATCTG
5751297 TTGTCTTTGA
Statistics
Matches: 146, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
86 4 0.03
87 107 0.73
88 35 0.24
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (88 bp):
TTCAATCAGCTCCACTGCAACCGATGGAGACAAAGCTTTGTTTTCGATCTGCTTCACTGTTAACG
CAGGAAGGCAAGATCTGCTATCA
Found at i:5752452 original size:21 final size:21
Alignment explanation
Indices: 5752426--5752472 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
5752416 GGTATAGCAG
5752426 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
5752447 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
5752468 GATCA
1 GATCA
5752473 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:5752601 original size:12 final size:10
Alignment explanation
Indices: 5752566--5752600 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
5752556 CCATTTTTAC
5752566 TTTTTCA-TT
1 TTTTTCATTT
5752575 TTTTTCATTT
1 TTTTTCATTT
5752585 TTTTTCATCTT
1 TTTTTCAT-TT
5752596 TTTTT
1 TTTTT
5752601 TGACTCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 7 0.29
10 10 0.42
11 7 0.29
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:5753448 original size:13 final size:14
Alignment explanation
Indices: 5753430--5753459 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5753420 TGACCTCTCA
5753430 TTTTCTT-TTTCTT
1 TTTTCTTCTTTCTT
5753443 TTTTCTTCTTTCTT
1 TTTTCTTCTTTCTT
5753457 TTT
1 TTT
5753460 CTCCTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTCTTTCTT
Found at i:5758158 original size:3 final size:3
Alignment explanation
Indices: 5758123--5758209 Score: 70
Period size: 3 Copynumber: 28.3 Consensus size: 3
5758113 ATAAGAAAAC
* * * * *
5758123 ATA ATA CTA ACA ATA GTA TTA ATA A-A TATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
*
5758168 A-A GATA ATA ATG ATA ATA ATA ATA ATA ACTAA ATA ATA ATA A
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA ATA A
5758210 AAAATTGCTA
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
2 2 0.03
3 59 0.88
4 4 0.06
5 2 0.03
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:5760326 original size:12 final size:12
Alignment explanation
Indices: 5760309--5760334 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5760299 CAAAATAGGC
5760309 TTTTAGCGGCGT
1 TTTTAGCGGCGT
5760321 TTTTAGCGGCGT
1 TTTTAGCGGCGT
5760333 TT
1 TT
5760335 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:5760570 original size:114 final size:113
Alignment explanation
Indices: 5760403--5761003 Score: 769
Period size: 114 Copynumber: 5.3 Consensus size: 113
5760393 AAAATAAGCA
*
5760403 TTAGCGGCGTTTTTGAGAAAGCGCAG-CAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTG-GAAAGCGCCGCCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
* ** *
5760467 TTGTTGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
65 TCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
*
5760516 TTAGCGGCGTTTTTGAGGAAGCGCCGCCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTG-GAAAGCGCCGCCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
*** * * *
5760581 TCATTGATTTAGTGGCATTTTTAAGAAATCGCCGCTAATGCTCATGGCT
65 TCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * * * *
5760630 TTAGCGGTGTTTTTGAGAAAGCGCCGCAAAAAAACCTTAGCCCAACGATGCCGTTTTGTGAGCTC
1 TTAGCGGCGTTTTTG-GAAAGCGCCGCCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
* * *
5760695 TCGGGGATTTAGTGGCGCTTTCATA-AAAGCGCCGCTAATGCTCAGAGCT
65 TCGGGGATTTAGTGGCGTTTTTA-AGAAAGCGCCGCTAATGCTCAGGGCT
* *
5760744 TTAGCGGCGTTTTTGGGAAAGCGCCG-CAAAAAACCAAAGCCCAACGACGTCGTTTTGTGAGCTT
1 TTAGCGGCGTTTTT-GGAAAGCGCCGCCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
* * * *
5760808 TCGGGGATTTA-CGGCGTTTTTAGGAAAGTGCCGCTAATGCTCAGGACT
65 TCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * * * *
5760856 TTAGCGGCGTTTTTGGCAAAAGCGCCGCAAAAAAACCTAAGCCCAATGATGCCGTTTTCTAAGCT
1 TTAGCGGCGTTTTTGG--AAAGCGCCGCCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
** * **
5760921 TTCAAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGTTT
64 TTCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
*
5760971 TTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAAA
1 TTAGCGGCGTTTTT-GGAAAGCGCCGCCAAAAA
5761004 TATTTTATCT
Statistics
Matches: 427, Mismatches: 52, Indels: 17
0.86 0.10 0.03
Matches are distributed among these distances:
111 2 0.00
112 43 0.10
113 76 0.18
114 256 0.60
115 48 0.11
116 2 0.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGGAAAGCGCCGCCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTT
CGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:5760808 original size:227 final size:225
Alignment explanation
Indices: 5760403--5761003 Score: 818
Period size: 227 Copynumber: 2.6 Consensus size: 225
5760393 AAAATAAGCA
* *
5760403 TTAGCGGCGTTTTTGAGAAAGCGCAGC-AAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTGTGAGCTT
* ** *
5760467 TTGTTGATTTAGCGGCGTTTTTA-AGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
66 TCGAGGATTTAGTGGCGTTTTTATA-AAAGCGCCGCTAATGCTCA-GGCTTTAGCGGCGTTTTTG
* ** *
5760531 AGG-AAGCGCCGCCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTTCATTGATTTAGTG
129 -GGAAAGCGCCG-CAAAAAACCAAAGCCCAACGACGCCGTTTTGTGAGCTTTCAGGGATTTA-CG
5760595 GCATTTTTAAGAAA-TCGCCGCTAATGCTCATGG-CT
191 GCATTTTTAAGAAAGT-GCCGCTAATGCTCA-GGACT
* * *
5760630 TTAGCGGTGTTTTTGAGAAAGCGCCGCAAAAAAACCTTAGCCCAACGATGCCGTTTTGTGAGCTC
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTGTGAGCTT
* * *
5760695 TCGGGGATTTAGTGGCGCTTTCATAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTGG
66 TCGAGGATTTAGTGGCGTTTTTATAAAAGCGCCGCTAATGCTCAG-GCTTTAGCGGCGTTTTTGG
* * *
5760760 GAAAGCGCCGCAAAAAACCAAAGCCCAACGACGTCGTTTTGTGAGCTTTCGGGGATTTACGGCGT
130 GAAAGCGCCGCAAAAAACCAAAGCCCAACGACGCCGTTTTGTGAGCTTTCAGGGATTTACGGCAT
*
5760825 TTTTAGGAAAGTGCCGCTAATGCTCAGGACT
195 TTTTAAGAAAGTGCCGCTAATGCTCAGGACT
* * *
5760856 TTAGCGGCGTTTTTG-GCAAAAGCGCCGCAAAAAAACCTAAGCCCAATGATGCCGTTTTCTAAGC
1 TTAGCGGCGTTTTTGAG--AAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTGTGAGC
* * *
5760920 TTTCAAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGTTTTTAGCGGCGTTTTT
64 TTTCGAGGATTTAGTGGCGTTTTTATAAAAGCGCCGCTAATGCTCAGG-CTTTAGCGGCGTTTTT
*
5760985 GGGAAAGCGCCGCTAAAAA
128 GGGAAAGCGCCGCAAAAAA
5761004 TATTTTATCT
Statistics
Matches: 333, Mismatches: 32, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
225 3 0.01
226 44 0.13
227 189 0.57
228 96 0.29
229 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (225 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTGTGAGCTT
TCGAGGATTTAGTGGCGTTTTTATAAAAGCGCCGCTAATGCTCAGGCTTTAGCGGCGTTTTTGGG
AAAGCGCCGCAAAAAACCAAAGCCCAACGACGCCGTTTTGTGAGCTTTCAGGGATTTACGGCATT
TTTAAGAAAGTGCCGCTAATGCTCAGGACT
Found at i:5761284 original size:14 final size:14
Alignment explanation
Indices: 5761250--5761298 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
5761240 ATTTTAAGGT
* *
5761250 TTAGGGAGTATGAGT
1 TTAGGGATTATG-GA
5761265 TTAGGGATTATGGA
1 TTAGGGATTATGGA
5761279 TTAGGGATTATGGA
1 TTAGGGATTATGGA
5761293 TTAGGG
1 TTAGGG
5761299 GTTGGTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.35
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:5762262 original size:107 final size:108
Alignment explanation
Indices: 5762102--5762318 Score: 298
Period size: 107 Copynumber: 2.0 Consensus size: 108
5762092 AAAGGTGAGC
* *
5762102 AATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATAAATTTATTAAAAAAATAAAAT--A
1 AATAGCAGCGTTTTGTATAAAAACGCCACAAAAAATAAATAAATTTA-TAAAAAAACAAAATAAA
* * * *
5762165 AAAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGA
65 AAAAAATTT-AGAATAACAAAACGGCATCATTTTGTTCAAAATGA
* *
5762210 AATAGCAGCGTTTT-TATAAAAAACGCCGC-AAAAATAAATCAATTTATAAAAAAACAAAATAAA
1 AATAGCAGCGTTTTGTAT-AAAAACGCCACAAAAAATAAATAAATTTATAAAAAAACAAAATAAA
*
5762273 AAAAAATTTAGAATAGCAAAACGGCATCATTTTGTTCAAAATGA
65 AAAAAATTTAGAATAACAAAACGGCATCATTTTGTTCAAAATGA
5762317 AA
1 AA
5762319 ATTTTTTAGG
Statistics
Matches: 97, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
106 13 0.13
107 52 0.54
108 32 0.33
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.25
Consensus pattern (108 bp):
AATAGCAGCGTTTTGTATAAAAACGCCACAAAAAATAAATAAATTTATAAAAAAACAAAATAAAA
AAAAATTTAGAATAACAAAACGGCATCATTTTGTTCAAAATGA
Found at i:5762367 original size:124 final size:125
Alignment explanation
Indices: 5762210--5762443 Score: 332
Period size: 125 Copynumber: 1.9 Consensus size: 125
5762200 TTCAAAGTGA
*
5762210 AATAGCAGCGTTTTTATAAAAAACGCCGC-AAAAATAAATCAATTTA-TAAAAAAACAAAATAAA
1 AATAGCAGCGTTTTTATAAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAAACAAAAT--A
*
5762273 AAAAAATTT-AGAATAGCAAAACGGCATCATTTTGTTCAAAATGAAAATTTTTTAGGTGAGC
64 AAAAAATTTAAGAATAACAAAACGGCATCATTTTGTTCAAAATGAAAATTTTTTAGGTGAGC
* * *
5762334 AATAGCGGCGTTTTGTAT-AAAAACGCCATAAAAAATAAATCAATTTATTAAAAAAATAAAATAA
1 AATAGCAGCGTTTT-TATAAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAAACAAAATAA
* * * *
5762398 AAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGAAA
65 AAAAATTTAAGAATAACAAAACGGCATCATTTTGTTCAAAATGAAA
5762444 TAGCGGCGTT
Statistics
Matches: 97, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
124 31 0.32
125 53 0.55
126 13 0.13
ACGTcount: A:0.50, C:0.11, G:0.12, T:0.27
Consensus pattern (125 bp):
AATAGCAGCGTTTTTATAAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAAACAAAATAAA
AAAATTTAAGAATAACAAAACGGCATCATTTTGTTCAAAATGAAAATTTTTTAGGTGAGC
Found at i:5762371 original size:232 final size:234
Alignment explanation
Indices: 5762093--5762790 Score: 1142
Period size: 232 Copynumber: 3.0 Consensus size: 234
5762083 AACGCCGCTA
*
5762093 AAGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATAAATTTATTAAAAAAA
1 AAGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAAA
*
5762158 TAAAATAAAAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGAAATAGCAGCGTTT
66 TAAAATAAAAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGAAATAGCGGCGTTT
5762223 TTATAAAAAACGCCGCAAAAATAAATCAATTTATAAAAAAACAAAATAAAAAAAAATTTAGAATA
131 TTATAAAAAACGCCGCAAAAATAAATCAATTTAT-AAAAAACAAAATAAAAAAAAATTTAGAATA
5762288 GCAAAACGGCATCATTTTGTTCAAAATGAAAA-TTT-TTT
195 GCAAAACGGCATCATTTTGTTCAAAATGAAAATTTTGTTT
*
5762326 -AGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCATAAAAAATAAATCAATTTATTAAAAAAA
1 AAGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAAA
5762390 TAAAATAAAAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGAAATAGCGGCGTTT
66 TAAAATAAAAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGAAATAGCGGCGTTT
*
5762455 TTATAAAAAAACGTCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAAAA-TTAGAATA
131 TTAT-AAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAAAATTTAGAATA
5762519 GCAAAACGGCATCATTTTGTTCAAAATGAAAATTTTTTAGCGGCGTTT
195 GCAAAACGGCATCATTTTGTTCAAAATGAAAA--TTTT------GTTT
* *
5762567 AAAGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCGCAAAAAATAAATCTATTTATT-AAAAA
1 -AAGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAA
* *
5762631 ATAAAATAAAAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAATGAAATAGTGGCGTT
65 ATAAAATAAAAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGAAATAGCGGCGTT
*
5762696 TTTATAAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAAT--AAAAAAATTTAAAATC
130 TTTATAAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAAAATTTAGAAT-
*
5762759 A-CAAAACGGTATCATTTTGTTCAAAATGAAAA
194 AGCAAAACGGCATCATTTTGTTCAAAATGAAAA
5762791 ATTGTTTGCG
Statistics
Matches: 438, Mismatches: 12, Indels: 23
0.93 0.03 0.05
Matches are distributed among these distances:
231 40 0.09
232 151 0.34
233 29 0.07
234 3 0.01
239 7 0.02
240 36 0.08
241 45 0.10
242 73 0.17
243 54 0.12
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (234 bp):
AAGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAAA
TAAAATAAAAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGAAATAGCGGCGTTT
TTATAAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAAAATTTAGAATAG
CAAAACGGCATCATTTTGTTCAAAATGAAAATTTTGTTT
Found at i:5762464 original size:108 final size:106
Alignment explanation
Indices: 5762334--5762549 Score: 276
Period size: 106 Copynumber: 2.0 Consensus size: 106
5762324 TTAGGTGAGC
* *
5762334 AATAGCGGCGTTTTGTAT-AAAAACGCCATAAAAAATAAATCAATTTATTAAAAAAATAAAAT-A
1 AATAGCGGCGTTTTGTATAAAAAACGCC-GAAAAAATAAATCAATTTA-T-AAAAAACAAAATAA
** * * *
5762397 AAAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGA
63 AAAAAAATT-AGAATAACAAAACGGCATCATTTTGTTCAAAATGA
* *
5762442 AATAGCGGCGTTTT-TATAAAAAAACGTCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAA
1 AATAGCGGCGTTTTGTAT-AAAAAACGCCGAAAAAATAAATCAATTTATAAAAAACAAAATAAAA
*
5762506 AAAAATTAGAATAGCAAAACGGCATCATTTTGTTCAAAATGA
65 AAAAATTAGAATAACAAAACGGCATCATTTTGTTCAAAATGA
5762548 AA
1 AA
5762550 ATTTTTTAGC
Statistics
Matches: 95, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
106 44 0.46
107 12 0.13
108 31 0.33
109 8 0.08
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.26
Consensus pattern (106 bp):
AATAGCGGCGTTTTGTATAAAAAACGCCGAAAAAATAAATCAATTTATAAAAAACAAAATAAAAA
AAAATTAGAATAACAAAACGGCATCATTTTGTTCAAAATGA
Found at i:5762599 original size:135 final size:136
Alignment explanation
Indices: 5762442--5762685 Score: 361
Period size: 136 Copynumber: 1.8 Consensus size: 136
5762432 TTCAAAGTGA
*
5762442 AATAGCGGCGTTTTTATAAAAAAACGTCGC-AAAAATAAATCAATTTA-TAAAAAACAAAATAAA
1 AATAGCGGCGTTTTTAT-AAAAAACGCCGCAAAAAATAAATCAATTTATTAAAAAACAAAAT-AA
*
5762505 AAAAAATT-AGAATAGCAAAACGGCATCATTTTGTTCAAAATGAAAATTTTTTAGCGGCGTTTAA
64 AAAAAATTAAGAATAACAAAACGGCATCATTTTGTTCAAAATGAAAATTTTTTAGCGGCGTTTAA
5762569 AGGTGAGC
129 AGGTGAGC
* *
5762577 AATAGCGGCGTTTTGTAT-AAAAACGCCGCAAAAAATAAATCTATTTATTAAAAAATAAAATAAA
1 AATAGCGGCGTTTT-TATAAAAAACGCCGCAAAAAATAAATCAATTTATTAAAAAACAAAATAAA
** * *
5762641 AAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAATGAAA
65 AAAAATTAAGAATAACAAAACGGCATCATTTTGTTCAAAATGAAA
5762686 TAGTGGCGTT
Statistics
Matches: 97, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
134 10 0.10
135 38 0.39
136 49 0.51
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (136 bp):
AATAGCGGCGTTTTTATAAAAAACGCCGCAAAAAATAAATCAATTTATTAAAAAACAAAATAAAA
AAAATTAAGAATAACAAAACGGCATCATTTTGTTCAAAATGAAAATTTTTTAGCGGCGTTTAAAG
GTGAGC
Found at i:5762687 original size:242 final size:241
Alignment explanation
Indices: 5762326--5762790 Score: 808
Period size: 242 Copynumber: 1.9 Consensus size: 241
5762316 AAAATTTTTT
*
5762326 AGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCATAAAAAATAAATCAATTTATTAAAAAAAT
1 AGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAAAT
*
5762391 AAAATAAAAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGAAATAGCGGCGTTTT
66 AAAATAAAAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCGTTTT
* *
5762456 TATAAAAAAACGTCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAAAATTAGAAT-AG
131 TAT-AAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAAT-AAAAAAAATTAAAATCA-
5762520 CAAAACGGCATCATTTTGTTCAAAATGAAAATTTTTTAGCGGCGTTTAA
193 CAAAACGGCATCATTTTGTTCAAAATGAAAATTTTTTAGCGGCGTTTAA
* *
5762569 AGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCGCAAAAAATAAATCTATTTATT-AAAAAAT
1 AGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAAAT
*
5762633 AAAATAAAAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAATGAAATAGTGGCGTTTT
66 AAAATAAAAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCGTTTT
*
5762698 TATAAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAATTTAAAATCACAA
131 TATAAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAAATTAAAATCACAA
*
5762763 AACGGTATCATTTTGTTCAAAATGAAAA
196 AACGGCATCATTTTGTTCAAAATGAAAA
5762791 ATTGTTTGCG
Statistics
Matches: 212, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
240 43 0.20
241 42 0.20
242 73 0.34
243 54 0.25
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (241 bp):
AGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAAAT
AAAATAAAAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCGTTTT
TATAAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAAATTAAAATCACAA
AACGGCATCATTTTGTTCAAAATGAAAATTTTTTAGCGGCGTTTAA
Found at i:5762789 original size:104 final size:107
Alignment explanation
Indices: 5762577--5762789 Score: 317
Period size: 104 Copynumber: 2.0 Consensus size: 107
5762567 AAAGGTGAGC
* *
5762577 AATAGCGGCGTTTTGTATAAAAACGCCGCAAAAAATAAATCTATTTATTAAAAAATAAAATAAAA
1 AATAGCGGCGTTTTGTATAAAAACGCCGCAAAAAATAAATCAATTTATTAAAAAACAAAATAAAA
* * *
5762642 AATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAATGA
66 AAATTTAAGAATAACAAAACGGCATCATTTTGTTCAAAATGA
*
5762684 AATAGTGGCGTTTT-TATAAAAAACGCCGC-AAAAATAAATCAATTTA-TAAAAAACAAAATAAA
1 AATAGCGGCGTTTTGTAT-AAAAACGCCGCAAAAAATAAATCAATTTATTAAAAAACAAAATAAA
* *
5762746 AAAATTTAA-AATCACAAAACGGTATCATTTTGTTCAAAATGA
65 AAAATTTAAGAATAACAAAACGGCATCATTTTGTTCAAAATGA
5762788 AA
1 AA
5762790 AATTGTTTGC
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
104 31 0.32
105 23 0.24
106 19 0.20
107 24 0.25
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.27
Consensus pattern (107 bp):
AATAGCGGCGTTTTGTATAAAAACGCCGCAAAAAATAAATCAATTTATTAAAAAACAAAATAAAA
AAATTTAAGAATAACAAAACGGCATCATTTTGTTCAAAATGA
Found at i:5765754 original size:142 final size:142
Alignment explanation
Indices: 5765498--5765781 Score: 532
Period size: 142 Copynumber: 2.0 Consensus size: 142
5765488 TTGTTTTATA
* *
5765498 ATGCAGCATACTCACAGGAAATTTGGATCTGATAATTTCACTGATATTGCAAATTTCCATCTTGA
1 ATGCAGCATACTCACAGGAAATTTGGATCTGATAATTTCACTGATATTGCAAATTTCCATCCTAA
5765563 GTTTGAAATTTAAGTGTCAACTTGTAATATACTCGATAACATTTTGATTGTACTTAGAATAATAG
66 GTTTGAAATTTAAGTGTCAACTTGTAATATACTCGATAACATTTTGATTGTACTTAGAATAATAG
5765628 TGCATAATGGTC
131 TGCATAATGGTC
*
5765640 ATGCAGCATACTCACAGGAAATTTGGATCTGATAATTTCATTGATATTGCAAATTTCCATCCTAA
1 ATGCAGCATACTCACAGGAAATTTGGATCTGATAATTTCACTGATATTGCAAATTTCCATCCTAA
*
5765705 GTTTGAAATTTAAGTGTCAACTTGTAATATACTCGATAATATTTTGATTGTACTTAGAATAATAG
66 GTTTGAAATTTAAGTGTCAACTTGTAATATACTCGATAACATTTTGATTGTACTTAGAATAATAG
5765770 TGCATAATGGTC
131 TGCATAATGGTC
5765782 GTGTTCTTTC
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 138 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (142 bp):
ATGCAGCATACTCACAGGAAATTTGGATCTGATAATTTCACTGATATTGCAAATTTCCATCCTAA
GTTTGAAATTTAAGTGTCAACTTGTAATATACTCGATAACATTTTGATTGTACTTAGAATAATAG
TGCATAATGGTC
Found at i:5766406 original size:43 final size:43
Alignment explanation
Indices: 5766359--5766550 Score: 217
Period size: 43 Copynumber: 4.5 Consensus size: 43
5766349 GCTAAATATA
* * * *
5766359 ATGGTCTTTAGCGGCTTTTGTGATAAAAGCGTCGATAAAGGTC
1 ATGGCCTTTAGCGGCGTTTGTGATAAAAGCGCCGTTAAAGGTC
* * * *
5766402 ATGGTCTATAGTGGCGTTTGTGATAAAAGCGCCGTTAAAGGTT
1 ATGGCCTTTAGCGGCGTTTGTGATAAAAGCGCCGTTAAAGGTC
* * *
5766445 ATAGCCTATAGCGGCGTTTGTGAAAAAAGCGCCGTTAAAGGTC
1 ATGGCCTTTAGCGGCGTTTGTGATAAAAGCGCCGTTAAAGGTC
** * *
5766488 ATGG-CTTATAGCGGCGTTTGTG-GGAAAGTGCCGCTAAAGGTC
1 ATGGCCTT-TAGCGGCGTTTGTGATAAAAGCGCCGTTAAAGGTC
*
5766530 ATGACCTTTAGCGGCGTTTGT
1 ATGGCCTTTAGCGGCGTTTGT
5766551 TTCTAAAAAC
Statistics
Matches: 129, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
42 34 0.26
43 95 0.74
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (43 bp):
ATGGCCTTTAGCGGCGTTTGTGATAAAAGCGCCGTTAAAGGTC
Found at i:5767692 original size:68 final size:68
Alignment explanation
Indices: 5767583--5767751 Score: 266
Period size: 68 Copynumber: 2.5 Consensus size: 68
5767573 CTTAGAATCG
* * *
5767583 GAAGTCCGTCAGGACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGGCAACA
1 GAAGTCTGCCAGGACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGACAACA
5767648 AAT
66 AAT
** *
5767651 GAAGTCTGGTAGGACAATAAACATGAGATTATATTGTGTAAGACCATAGCTAGGCTATGACAACA
1 GAAGTCTGCCAGGACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGACAACA
5767716 AAT
66 AAT
* *
5767719 GAAGTCTGCCAAGACAATAAATATGAGATTATA
1 GAAGTCTGCCAGGACAATAAACATGAGATTATA
5767752 AGATGTAATT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 92 1.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (68 bp):
GAAGTCTGCCAGGACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGACAACA
AAT
Found at i:5768515 original size:32 final size:33
Alignment explanation
Indices: 5768444--5768515 Score: 94
Period size: 32 Copynumber: 2.2 Consensus size: 33
5768434 TGGAAAAATT
*
5768444 AATATTTTCTGATGTTTGGATGAATTTGTGTAA
1 AATATTTTCTGATGTTTGGATGAATTTCTGTAA
* *
5768477 AATATTTTCTGTTGTTT-GAT-AGATTTCTTTAA
1 AATATTTTCTGATGTTTGGATGA-ATTTCTGTAA
5768509 AATATTT
1 AATATTT
5768516 CATAAAAGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 1 0.03
32 18 0.51
33 16 0.46
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.53
Consensus pattern (33 bp):
AATATTTTCTGATGTTTGGATGAATTTCTGTAA
Found at i:5773286 original size:20 final size:19
Alignment explanation
Indices: 5773258--5773319 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
5773248 TAAAAGTCCA
5773258 AAAAATATATATATTTAAT
1 AAAAATATATATATTTAAT
* *
5773277 AAAAAGTATATTTGATTAAAAAT
1 AAAAA-TATATAT-ATT--TAAT
*
5773300 AAAAATATAAATATTTAAT
1 AAAAATATATATATTTAAT
5773319 A
1 A
5773320 TAATTCGGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 9 0.26
20 6 0.18
21 6 0.18
22 5 0.15
23 8 0.24
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
AAAAATATATATATTTAAT
Found at i:5773304 original size:42 final size:40
Alignment explanation
Indices: 5773203--5773319 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 40
5773193 GGCCCGGCCC
*
5773203 ATATTTGATTAAAAAT--AAA-ATATATATTTAAT-ATAT
1 ATATTTGATTAAAAATAAAAATATATATATTTAATAAAAT
*
5773239 A-ATTTGGATTAAAAGTCCAAAAAATATATATATTTAATAAAAAGT
1 ATATTT-GATTAAAAAT---AAAAATATATATATTTAAT-AAAA-T
*
5773284 ATATTTGATTAAAAATAAAAATATAAATATTTAATA
1 ATATTTGATTAAAAATAAAAATATATATATTTAATA
5773320 TAATTCGGGC
Statistics
Matches: 66, Mismatches: 4, Indels: 17
0.76 0.05 0.20
Matches are distributed among these distances:
35 4 0.06
36 10 0.15
41 4 0.06
42 31 0.47
44 2 0.03
45 11 0.17
46 4 0.06
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (40 bp):
ATATTTGATTAAAAATAAAAATATATATATTTAATAAAAT
Found at i:5775040 original size:19 final size:19
Alignment explanation
Indices: 5775016--5775070 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
5775006 CAACACATAT
5775016 CTGGCACACGAAGTGCATC
1 CTGGCACACGAAGTGCATC
* *
5775035 CTGGCACACGAGGTACATC
1 CTGGCACACGAAGTGCATC
* *
5775054 TTGGCACA-GAAGCGCAT
1 CTGGCACACGAAGTGCAT
5775071 AATCCCGTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 6 0.20
19 24 0.80
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.16
Consensus pattern (19 bp):
CTGGCACACGAAGTGCATC
Found at i:5775539 original size:11 final size:11
Alignment explanation
Indices: 5775523--5775549 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
5775513 TATATACATT
5775523 ATTTAATCTTG
1 ATTTAATCTTG
5775534 ATTTAATCTTG
1 ATTTAATCTTG
5775545 ATTTA
1 ATTTA
5775550 CATTTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (11 bp):
ATTTAATCTTG
Found at i:5777917 original size:6 final size:6
Alignment explanation
Indices: 5777908--5777983 Score: 54
Period size: 6 Copynumber: 13.3 Consensus size: 6
5777898 TCAGCTGCAC
* * *
5777908 GAAGGA GAA-GA -AA-GA AAAGGA -AAGGA GAAGAA GAAGAA GAAGGA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA
* * *
5777952 GGAGGA GGAGGA GGAA-GA GGAGGA GAAGGA GA
1 GAAGGA GAAGGA -GAAGGA GAAGGA GAAGGA GA
5777984 GGGCAGTGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
4 4 0.07
5 11 0.19
6 42 0.71
7 2 0.03
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:5777954 original size:3 final size:3
Alignment explanation
Indices: 5777948--5777982 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
5777938 AAGAAGAAGA
* *
5777948 AGG AGG AGG AGG AGG AGG AAG AGG AGG AGA AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AG
5777983 AGGGCAGTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:5778267 original size:50 final size:50
Alignment explanation
Indices: 5778207--5778322 Score: 146
Period size: 50 Copynumber: 2.3 Consensus size: 50
5778197 TAGTTAGTAT
5778207 TATTATTGTTAGATTTTAGGGTTTAGTTATTAATAATTA-T-TGTTACTTAG
1 TATTATTGTTAG-TTTTAGGG-TTAGTTATTAATAATTATTATGTTACTTAG
* ** * *
5778257 TATTATTGTTAGTATTATTGTTAGTTATTAATAATTATTATTTTAGTTAG
1 TATTATTGTTAGTTTTAGGGTTAGTTATTAATAATTATTATGTTACTTAG
*
5778307 TATGATTGTTAGTTTT
1 TATTATTGTTAGTTTT
5778323 TACACTATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
48 17 0.30
49 6 0.11
50 34 0.60
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.57
Consensus pattern (50 bp):
TATTATTGTTAGTTTTAGGGTTAGTTATTAATAATTATTATGTTACTTAG
Found at i:5778270 original size:12 final size:12
Alignment explanation
Indices: 5778253--5778319 Score: 64
Period size: 12 Copynumber: 5.4 Consensus size: 12
5778243 TTATTGTTAC
5778253 TTAGTATTATTG
1 TTAGTATTATTG
5778265 TTAGTATTATTG
1 TTAGTATTATTG
**
5778277 TTAGTTATTAATAA
1 TTAG-TATT-ATTG
*
5778291 TTATTATT-TTAG
1 TTAGTATTATT-G
*
5778303 TTAGTATGATTG
1 TTAGTATTATTG
5778315 TTAGT
1 TTAGT
5778320 TTTTACACTA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
11 1 0.02
12 28 0.64
13 10 0.23
14 5 0.11
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (12 bp):
TTAGTATTATTG
Found at i:5778373 original size:37 final size:38
Alignment explanation
Indices: 5778326--5778414 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 38
5778316 TAGTTTTTAC
*
5778326 ACTA-TATTATTGTT-GGT-TATTATTTTTAGTAAAAC
1 ACTATTATTATTGTTAGGTATATTATTTTTAGTAAAAA
* *
5778361 CCTAATTATTATTGTTAGTTAGTATTATTTTTAGTAAAAA
1 ACT-ATTATTATTGTTAGGTA-TATTATTTTTAGTAAAAA
5778401 ACTATTATTATTGT
1 ACTATTATTATTGT
5778415 GTTAGTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
35 2 0.04
36 1 0.02
37 10 0.22
38 2 0.04
39 11 0.24
40 19 0.42
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.52
Consensus pattern (38 bp):
ACTATTATTATTGTTAGGTATATTATTTTTAGTAAAAA
Found at i:5780078 original size:25 final size:25
Alignment explanation
Indices: 5780028--5780086 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
5780018 TAATTAAATT
**
5780028 TATACAAAAAATTACAAACTTTGTAA
1 TATA-AAAAAATTACAAACTGAGTAA
5780054 TATAAAAAAA-TACAAACTAGAGTAA
1 TATAAAAAAATTACAAACT-GAGTAA
*
5780079 TATCAAAA
1 TATAAAAA
5780087 CCGCAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 8 0.28
25 17 0.59
26 4 0.14
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.25
Consensus pattern (25 bp):
TATAAAAAAATTACAAACTGAGTAA
Found at i:5782584 original size:159 final size:161
Alignment explanation
Indices: 5782178--5782875 Score: 1099
Period size: 161 Copynumber: 4.4 Consensus size: 161
5782168 TAATTTCAAT
* *
5782178 GTATTTTTCTTATTTTCGAATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
** * *
5782243 TATATTATTTTAGTACATAAAATTTAAAATGTATTAATTTAGTGTGTGTTTTTATATAAATTTAG
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTGTTTTTATATAAATTTAG
* * *
5782308 ---CAAAAACCCTTATTTTGGTCATTTATTC
131 TAAAAAAAACCCTTATTTTGGCCATTTGTTC
* **
5782336 GTATTTTTCTTATTTTCGGATTTTATTACTTT-AAAAAATATAGTATTTTTATATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
5782400 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGT-TTTTTATATAAATTTAG
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTGTTTTTATATAAATTTAG
* **
5782464 T-AAAAAACCCCTTATTTTAACCATTTGTTC
131 TAAAAAAAACCCTTATTTTGGCCATTTGTTC
5782494 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
*
5782559 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTG-CTTTTTATATAAATTTAG
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTGTTTTTATATAAATTTAG
* *
5782623 TAAAAAAAACCCTTATTTTGGCCCTCTGTTC
131 TAAAAAAAACCCTTATTTTGGCCATTTGTTC
* * *
5782654 ATATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTTGTATTTTGATTATT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTT-ATTATT
5782719 TTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTGTTTTT-TATAAATTTA
65 TTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTGTTTTTATATAAATTTA
5782783 GTAAAAAAAACCCTTATTTTGGCCATTTGTTC
130 GTAAAAAAAACCCTTATTTTGGCCATTTGTTC
* * *
5782815 GTATTTTTCTT-TCTTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCATTTTTTATT
1 GTATTTTTCTTAT-TTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATT
5782876 TCTTTTCGTA
Statistics
Matches: 498, Mismatches: 34, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
156 17 0.03
157 72 0.14
158 85 0.17
159 93 0.19
160 83 0.17
161 143 0.29
162 5 0.01
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.54
Consensus pattern (161 bp):
GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTGTTTTTATATAAATTTAG
TAAAAAAAACCCTTATTTTGGCCATTTGTTC
Found at i:5782913 original size:29 final size:28
Alignment explanation
Indices: 5782878--5782937 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
5782868 TTTTTATTTC
*
5782878 TTTTCG-TATTTTATTTTTTCATACATATT
1 TTTTCGTTATTTTA-TTTTTAATAC-TATT
5782907 TTTTCGTTATTTTATTTTTAATACTATT
1 TTTTCGTTATTTTATTTTTAATACTATT
5782935 TTT
1 TTT
5782938 GTAAAAGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 7 0.24
29 15 0.52
30 7 0.24
ACGTcount: A:0.20, C:0.08, G:0.03, T:0.68
Consensus pattern (28 bp):
TTTTCGTTATTTTATTTTTAATACTATT
Found at i:5783061 original size:30 final size:30
Alignment explanation
Indices: 5783027--5783147 Score: 129
Period size: 30 Copynumber: 4.4 Consensus size: 30
5783017 AAATAAAATA
5783027 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
5783057 AAATAAT--AACATA-AA--TA-AT---A-
1 AAATAATAAAACATAGAATGTACATAACAT
* * *
5783077 AAATAATAAGATATAGTATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
5783107 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
5783137 AAA-AATTAAAA
1 AAATAA-TAAAA
5783148 TTAAATTCTG
Statistics
Matches: 74, Mismatches: 6, Indels: 22
0.73 0.06 0.22
Matches are distributed among these distances:
20 7 0.09
21 1 0.01
22 4 0.05
23 1 0.01
24 2 0.03
25 4 0.05
26 2 0.03
27 2 0.03
28 6 0.08
29 3 0.04
30 42 0.57
ACGTcount: A:0.62, C:0.07, G:0.06, T:0.25
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:5783067 original size:12 final size:12
Alignment explanation
Indices: 5783050--5783082 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
5783040 TAGAATGTAC
5783050 ATAACATAAATA
1 ATAACATAAATA
5783062 ATAACATAAATA
1 ATAACATAAATA
*
5783074 ATAAAATAA
1 ATAACATAA
5783083 TAAGATATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAACATAAATA
Found at i:5783137 original size:16 final size:16
Alignment explanation
Indices: 5783089--5783137 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
5783079 ATAATAAGAT
*
5783089 ATAGTATGTACATAAC
1 ATAGAATGTACATAAC
*
5783105 ATA-AATAATA-A-AAC
1 ATAGAAT-GTACATAAC
5783119 ATAGAATGTACATAAC
1 ATAGAATGTACATAAC
5783135 ATA
1 ATA
5783138 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
14 8 0.31
15 7 0.27
16 11 0.42
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (16 bp):
ATAGAATGTACATAAC
Found at i:5783457 original size:5 final size:5
Alignment explanation
Indices: 5783441--5783541 Score: 166
Period size: 5 Copynumber: 19.6 Consensus size: 5
5783431 TCCTTCCCCT
5783441 TCTTC TTCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC
1 TCTTC -TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC
*
5783492 TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TTCTTC TTTTC TTCTTC TCT
1 TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC -TCTTC TCTTC -TCTTC TCT
5783542 CATTCTTCTT
Statistics
Matches: 91, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
5 77 0.85
6 14 0.15
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
TCTTC
Found at i:5784565 original size:22 final size:22
Alignment explanation
Indices: 5784541--5784581 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
5784531 TGACGCGCTA
*
5784541 AAAAATAATTTA-AAAATATTC
1 AAAAATAAATTATAAAATATTC
5784562 AAAAATAAATTATAAAATAT
1 AAAAATAAATTATAAAATAT
5784582 AAAAAGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAAATAAATTATAAAATATTC
Found at i:5784586 original size:21 final size:21
Alignment explanation
Indices: 5784539--5784586 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
5784529 TATGACGCGC
*
5784539 TAAAAAATAATTTAAAAATAT
1 TAAAAAATAAATTAAAAATAT
*
5784560 TCAAAAATAAATTATAAAATA-
1 TAAAAAATAAATTA-AAAATAT
5784581 TAAAAA
1 TAAAAA
5784587 GTTCATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAAATAAATTAAAAATAT
Found at i:5793374 original size:27 final size:27
Alignment explanation
Indices: 5793344--5793420 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
5793334 CAATGGCATT
5793344 GGTGCCAAAGCCATTGGCGGCACCAAA
1 GGTGCCAAAGCCATTGGCGGCACCAAA
* * *
5793371 GGTGCCAAAACCATTGGCAGCACCAAT
1 GGTGCCAAAGCCATTGGCGGCACCAAA
*
5793398 GGTGCCAAAGGCATTGGCGGCAC
1 GGTGCCAAAGCCATTGGCGGCAC
5793421 TACTCGTGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.29, C:0.29, G:0.30, T:0.13
Consensus pattern (27 bp):
GGTGCCAAAGCCATTGGCGGCACCAAA
Found at i:5796175 original size:3 final size:3
Alignment explanation
Indices: 5796167--5796335 Score: 51
Period size: 3 Copynumber: 59.3 Consensus size: 3
5796157 CTTCCTTCCC
* * * * *
5796167 TCT TCT TCT TCT TTT TTT TTT TC- TCT T-T TCCT T-T CCT TCT TTT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT
* * *
5796210 TCTT TCT T-T T-T TCT TCT CCTT TCC TCT TCT TCT TCT T-T CCT T-T
1 TC-T TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT
* * * *
5796253 T-T TTT TC- TCT TC- TCT TCT CCTT TCC TCT TCT TCT TCT T-T CCT
1 TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT
* * * *
5796295 T-T TTT TTT TC- TCT TC- TCT TCT CCTT TCC TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT T
5796336 TCCTTTTTTG
Statistics
Matches: 125, Mismatches: 24, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
2 25 0.20
3 89 0.71
4 11 0.09
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:5796196 original size:44 final size:42
Alignment explanation
Indices: 5796134--5796336 Score: 143
Period size: 38 Copynumber: 5.1 Consensus size: 42
5796124 AAAAAATTAC
5796134 CTTTTTTTCTTTT-T-TTTTCCTTCCTTCCTTCCCTCTTCTTCTT
1 CTTTTTTT-TTTTCTCTTTTCCTT-CTTCCTT-CCTCTTCTTCTT
5796177 CTTTTTTTTTTTCTCTTTTCC-T-TTCCTT-CT-TT-TTCTT
1 CTTTTTTTTTTTCTCTTTTCCTTCTTCCTTCCTCTTCTTCTT
* * * * *
5796214 -TCTTTTTTCTTCTCCTTTCC-TCTT-CTTCTTCTT-TCCTT
1 CTTTTTTTTTTTCTCTTTTCCTTCTTCCTTCCTCTTCTTCTT
* * *
5796252 -TTTTTTTCTCTTCTCTTCTCC-T-TTCC-TCTTCTTCTTCTTT
1 CTTTTTTT-TTTTCTCTTTTCCTTCTTCCTTCCTCTTCTTC-TT
* *
5796292 CCTTTTTTTTTTCTCTTCT-CTTC-TCCTTTCCTCTTCTTCTT
1 CTTTTTTTTTTTCTCTTTTCCTTCTTCC-TTCCTCTTCTTCTT
5796333 CTTT
1 CTTT
5796337 CCTTTTTTGA
Statistics
Matches: 133, Mismatches: 13, Indels: 30
0.76 0.07 0.17
Matches are distributed among these distances:
36 21 0.16
37 8 0.06
38 23 0.17
39 18 0.14
40 16 0.12
41 17 0.13
42 14 0.11
43 10 0.08
44 6 0.05
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (42 bp):
CTTTTTTTTTTTCTCTTTTCCTTCTTCCTTCCTCTTCTTCTT
Found at i:5796206 original size:31 final size:32
Alignment explanation
Indices: 5796171--5796344 Score: 115
Period size: 31 Copynumber: 5.7 Consensus size: 32
5796161 CTTCCCTCTT
*
5796171 CTTCTTCTTT-TTT-TTTTTCTCTTTTCCTTTC
1 CTTCTTCTTTCTTTCTTTTT-TCTTCTCCTTTC
5796202 CTTCTT-TTTCTTTCTTTTTTCTTCTCCTTTC
1 CTTCTTCTTTCTTTCTTTTTTCTTCTCCTTTC
*
5796233 C-TCTTCTTCTTCTTTCCTTTTTTTTTCT-C-TT-
1 CTTCTTC-T-TTCTTT-CTTTTTTCTTCTCCTTTC
* * * *
5796264 C-TCTTC-TCCTTTC-CTCTTCTTCTTCTTTC
1 CTTCTTCTTTCTTTCTTTTTTCTTCTCCTTTC
* *
5796293 CTT-TT-TTT-TTTCTCTTCTCTTCTCCTTTC
1 CTTCTTCTTTCTTTCTTTTTTCTTCTCCTTTC
5796322 C-TCTTCTTCTTCTTTCCTTTTTT
1 CTTCTTC-T-TTCTTT-CTTTTTT
5796345 GATCCAGAAT
Statistics
Matches: 113, Mismatches: 12, Indels: 33
0.72 0.08 0.21
Matches are distributed among these distances:
26 7 0.06
27 2 0.02
28 12 0.11
29 20 0.18
30 8 0.07
31 28 0.25
32 10 0.09
33 10 0.09
34 16 0.14
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (32 bp):
CTTCTTCTTTCTTTCTTTTTTCTTCTCCTTTC
Found at i:5796254 original size:70 final size:68
Alignment explanation
Indices: 5796133--5796263 Score: 187
Period size: 70 Copynumber: 1.9 Consensus size: 68
5796123 AAAAAAATTA
5796133 CCTTTTTTTCTTTTTTTTTCCTTCCTTCCTTCCCTCTTCTTCTTCTTTTTTTTTTTCTCTTTTCC
1 CCTTTTTTTCTTTTTTTTTCCTTCCTTCCTTCCCTCTTCTTCTTCTTTTTTTTTTTCTCTTTTCC
5796198 TTT
66 TTT
*
5796201 CCTTCTTTTTCTTTCTTTTTT-CTT-C-TCCTTTCCTCTTCTTCTTCTTTCCTTTTTTTTTCTCT
1 CCTT-TTTTTCTTT-TTTTTTCCTTCCTTCCTTCCCTCTTCTTCTTC-TT--TTTTTTTTTCTCT
5796263 T
61 T
5796264 CTCTTCTCCT
Statistics
Matches: 57, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
67 18 0.32
68 7 0.12
69 12 0.21
70 20 0.35
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (68 bp):
CCTTTTTTTCTTTTTTTTTCCTTCCTTCCTTCCCTCTTCTTCTTCTTTTTTTTTTTCTCTTTTCC
TTT
Found at i:5796314 original size:45 final size:45
Alignment explanation
Indices: 5796197--5796344 Score: 253
Period size: 45 Copynumber: 3.3 Consensus size: 45
5796187 TTCTCTTTTC
* *
5796197 CTTTCCTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTCTTCTTCTT
1 CTTTCCTT-TTTTT-TTTCTCTTCTCTTCTCCTTTCCTCTTCTTCTT
5796244 CTTTCC-TTTTTTTTTCTCTTCTCTTCTCCTTTCCTCTTCTTCTT
1 CTTTCCTTTTTTTTTTCTCTTCTCTTCTCCTTTCCTCTTCTTCTT
5796288 CTTTCCTTTTTTTTTTCTCTTCTCTTCTCCTTTCCTCTTCTTCTT
1 CTTTCCTTTTTTTTTTCTCTTCTCTTCTCCTTTCCTCTTCTTCTT
5796333 CTTTCCTTTTTT
1 CTTTCCTTTTTT
5796345 GATCCAGAAT
Statistics
Matches: 98, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
44 36 0.37
45 55 0.56
46 1 0.01
47 6 0.06
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (45 bp):
CTTTCCTTTTTTTTTTCTCTTCTCTTCTCCTTTCCTCTTCTTCTT
Found at i:5796343 original size:44 final size:44
Alignment explanation
Indices: 5796205--5796344 Score: 244
Period size: 44 Copynumber: 3.2 Consensus size: 44
5796195 TCCTTTCCTT
* * *
5796205 CTTTTTCTTTCTTTTTTCTTCTCCTTTCCTCTTCTTCTTCTTTC
1 CTTTTTTTTTCTCTTCTCTTCTCCTTTCCTCTTCTTCTTCTTTC
5796249 CTTTTTTTTTCTCTTCTCTTCTCCTTTCCTCTTCTTCTTCTTTC
1 CTTTTTTTTTCTCTTCTCTTCTCCTTTCCTCTTCTTCTTCTTTC
5796293 CTTTTTTTTTTCTCTTCTCTTCTCCTTTCCTCTTCTTCTTCTTTC
1 C-TTTTTTTTTCTCTTCTCTTCTCCTTTCCTCTTCTTCTTCTTTC
5796338 CTTTTTT
1 CTTTTTT
5796345 GATCCAGAAT
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
44 48 0.52
45 44 0.48
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (44 bp):
CTTTTTTTTTCTCTTCTCTTCTCCTTTCCTCTTCTTCTTCTTTC
Found at i:5797612 original size:77 final size:77
Alignment explanation
Indices: 5797511--5797687 Score: 257
Period size: 77 Copynumber: 2.3 Consensus size: 77
5797501 TTTGGTTTAT
* * *
5797511 TGAAATATATGATAAGTTGGTTTTATGTAGTGTATGCATATATAAATGTAAGGTTAAGAAAGGAA
1 TGAAATATATGATAAGTTGCTTTTATGCAGTGTATGCATATATAAATGTAAGGTGAAGAAAGGAA
5797576 CATC-GACATTAC
66 CATCAG-CATTAC
* * *
5797588 TGAAATATACGATAAGTTGCTTTTATGCAGTGTATGCATCTCTAAATGTAAGGTGAAGAAAGGAA
1 TGAAATATATGATAAGTTGCTTTTATGCAGTGTATGCATATATAAATGTAAGGTGAAGAAAGGAA
*
5797653 CATCAGCATTAG
66 CATCAGCATTAC
*
5797665 TGAAAGCATATGATAAGTTGCTT
1 TGAAA-TATATGATAAGTTGCTT
5797688 CTATATAGAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
77 73 0.82
78 16 0.18
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.32
Consensus pattern (77 bp):
TGAAATATATGATAAGTTGCTTTTATGCAGTGTATGCATATATAAATGTAAGGTGAAGAAAGGAA
CATCAGCATTAC
Found at i:5798476 original size:31 final size:31
Alignment explanation
Indices: 5798404--5798546 Score: 124
Period size: 31 Copynumber: 4.6 Consensus size: 31
5798394 GGATGGTAGT
* * * * **
5798404 TCATCGTTGTCGAGTAATCCAGAGTGGTAAA
1 TCATCGTTGTCGGGCAATCCAGGGTGGCAGG
* * *
5798435 CCATCGTTGTCGGGCAATCCAAGGTGGCAAG
1 TCATCGTTGTCGGGCAATCCAGGGTGGCAGG
* * * *
5798466 TCATCATTGTCGGCCAATTCAGGGTGGTAGG
1 TCATCGTTGTCGGGCAATCCAGGGTGGCAGG
** * * *
5798497 TTGTCGTTGTCGAGAAATCCGGGGTGGCAGG
1 TCATCGTTGTCGGGCAATCCAGGGTGGCAGG
5798528 TCATCGTTGTCGGGCAATC
1 TCATCGTTGTCGGGCAATC
5798547 TGGGATGACA
Statistics
Matches: 85, Mismatches: 27, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
31 85 1.00
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (31 bp):
TCATCGTTGTCGGGCAATCCAGGGTGGCAGG
Found at i:5809701 original size:23 final size:24
Alignment explanation
Indices: 5809648--5809701 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
5809638 CTTTTTAAAA
* **
5809648 AAATTATATGCTTTTAATTTTTTT
1 AAATTATATGCTTTTAAGTTTTAG
*
5809672 AAA-TATAT-TTTTTAAGTTTTAG
1 AAATTATATGCTTTTAAGTTTTAG
5809694 AAATTATA
1 AAATTATA
5809702 ATTATAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 13 0.52
23 9 0.36
24 3 0.12
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (24 bp):
AAATTATATGCTTTTAAGTTTTAG
Found at i:5810059 original size:31 final size:31
Alignment explanation
Indices: 5810024--5810084 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
5810014 AGTTAGACAT
* * *
5810024 TAAACTTGACAATTGTTTCTACATTGGAGCC
1 TAAACTAGACAATTATTTCCACATTGGAGCC
* *
5810055 TAAACTAGGCAATTATTTCCATATTGGAGC
1 TAAACTAGACAATTATTTCCACATTGGAGC
5810085 TTCAACTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (31 bp):
TAAACTAGACAATTATTTCCACATTGGAGCC
Found at i:5823777 original size:36 final size:36
Alignment explanation
Indices: 5823706--5823777 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 36
5823696 AATAATATAT
* **
5823706 TTTTATATATTTTCAATAATTTTAATTTTTAGAATA
1 TTTTATATATTTTCAAAAATTTTAAAATTTAGAATA
*
5823742 TTTTATATATTTTTTAAAAATTTTAAAATTT-GAATA
1 TTTTATATA-TTTTCAAAAATTTTAAAATTTAGAATA
5823778 ATTAATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 14 0.45
37 17 0.55
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (36 bp):
TTTTATATATTTTCAAAAATTTTAAAATTTAGAATA
Found at i:5829489 original size:17 final size:17
Alignment explanation
Indices: 5829452--5829499 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
5829442 GAATTTAGAA
*
5829452 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
5829468 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
5829485 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
5829500 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:5830737 original size:13 final size:13
Alignment explanation
Indices: 5830719--5830750 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5830709 TTTCCAGCAA
5830719 TTATGAATTTATT
1 TTATGAATTTATT
5830732 TTATGAATTTATT
1 TTATGAATTTATT
*
5830745 TGATGA
1 TTATGA
5830751 TTATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:5830958 original size:50 final size:50
Alignment explanation
Indices: 5830845--5831036 Score: 240
Period size: 50 Copynumber: 3.7 Consensus size: 50
5830835 ATCTGGGTAA
* *
5830845 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
* *
5830901 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
5830951 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
*
5831001 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGC
5831037 TTTGGCATGT
Statistics
Matches: 125, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
50 51 0.41
51 29 0.23
52 1 0.01
53 3 0.02
55 2 0.02
56 39 0.31
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:5833502 original size:22 final size:22
Alignment explanation
Indices: 5833476--5833548 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
5833466 TGGTATTTCA
5833476 GTGAAGAAAACCATACTGAGTT
1 GTGAAGAAAACCATACTGAGTT
*** * **
5833498 GTGAA-AAGTAGGTATAGTGTTTT
1 GTGAAGAA--AACCATACTGAGTT
5833521 AGTGAAGAAAACCATACTGAGTT
1 -GTGAAGAAAACCATACTGAGTT
5833544 GTGAA
1 GTGAA
5833549 AAGTAGGTAT
Statistics
Matches: 35, Mismatches: 12, Indels: 8
0.64 0.22 0.15
Matches are distributed among these distances:
21 2 0.06
22 10 0.29
23 16 0.46
24 5 0.14
25 2 0.06
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.27
Consensus pattern (22 bp):
GTGAAGAAAACCATACTGAGTT
Found at i:5833525 original size:46 final size:46
Alignment explanation
Indices: 5833451--5833589 Score: 226
Period size: 46 Copynumber: 3.0 Consensus size: 46
5833441 CATGGCAAAG
5833451 TGTGAAACA-TAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAA-AGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* * *
5833497 TGTGAAAAGTAGGTATAGTGTTTTAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
*
5833543 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
5833589 T
1 T
5833590 ATAGCAATGT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 1 0.01
46 84 0.99
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:5845952 original size:13 final size:12
Alignment explanation
Indices: 5845914--5845952 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
5845904 AAATTTAAAA
5845914 TTTTTATAACTT
1 TTTTTATAACTT
*
5845926 TTTTTATAAATT
1 TTTTTATAACTT
*
5845938 TTGTTTATATCTT
1 TT-TTTATAACTT
5845951 TT
1 TT
5845953 CATGGTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (12 bp):
TTTTTATAACTT
Found at i:5855157 original size:7 final size:7
Alignment explanation
Indices: 5855145--5855187 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
5855135 CCCAGTCAAA
5855145 TTAATTT
1 TTAATTT
5855152 TTAATTT
1 TTAATTT
5855159 TTAATCTT
1 TTAAT-TT
**
5855167 GGAAATTT
1 -TTAATTT
5855175 TTAATTT
1 TTAATTT
5855182 TTAATT
1 TTAATT
5855188 GCAGTTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 23 0.77
8 4 0.13
9 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (7 bp):
TTAATTT
Found at i:5859536 original size:21 final size:21
Alignment explanation
Indices: 5859511--5859551 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
5859501 TCCTATGAAT
* *
5859511 TAAAAAATAACATC-AATTTA
1 TAAAAAAAAAAATCAAATTTA
5859531 TAAAAAAAAAAATCAAATTTA
1 TAAAAAAAAAAATCAAATTTA
5859552 CAATATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAAAAAAAAAATCAAATTTA
Found at i:5863236 original size:60 final size:60
Alignment explanation
Indices: 5863143--5863263 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
5863133 AGTCTCATCT
5863143 TTAATTTTTTTATATGATAGATTTGTGAAAAAAAATTCGAAGTACATTTTAGATCAAATA
1 TTAATTTTTTTATATGATAGATTTGTGAAAAAAAATTCGAAGTACATTTTAGATCAAATA
5863203 TTAATTTTTTTATATGATAGATTTGTGAAAAAAAATTCGAAGTACATTTTAGATCAAATA
1 TTAATTTTTTTATATGATAGATTTGTGAAAAAAAATTCGAAGTACATTTTAGATCAAATA
5863263 T
1 T
5863264 AAATAGAAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (60 bp):
TTAATTTTTTTATATGATAGATTTGTGAAAAAAAATTCGAAGTACATTTTAGATCAAATA
Found at i:5869056 original size:13 final size:14
Alignment explanation
Indices: 5869023--5869056 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
5869013 TGGAGATATC
5869023 TAAACTTGGTAACT
1 TAAACTTGGTAACT
*
5869037 TATACTTGGT-ACT
1 TAAACTTGGTAACT
5869050 TAAACTT
1 TAAACTT
5869057 TTTCTTGGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (14 bp):
TAAACTTGGTAACT
Found at i:5878061 original size:4 final size:4
Alignment explanation
Indices: 5878047--5878076 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
5878037 CTACACCAAC
*
5878047 ATTA GTTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
5878077 CATAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:5880756 original size:78 final size:79
Alignment explanation
Indices: 5880556--5880778 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 79
5880546 TGGTTTTTTG
* * * *
5880556 TATAGTGGAGTCGGAAAATGATGCAAGTCCCATATTAGTTAGGAAGGGTAAAGAGGTATTGGAAT
1 TATAGTGGAGTCGGAAAACGATGCGAGTCCCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAAT
*
5880621 TTATATCTTCTACA
66 ATATATCTTCTACA
* * * * * * *
5880635 TACAATGGAGTCGGAAAACGATTGTGAGTTCCATATTGATTAGGGAGGGCAAAGAGGTCTTGGTC
1 TATAGTGGAGTCGGAAAACGA-TGCGAGTCCCATATTGGTTAGGAAGGGCAAAGAGGTATTGG--
*
5880700 AATATGT-TCTT-TA-A
63 AATATATATCTTCTACA
* * *
5880714 TATAGTAGAGTTGGAAAACGATGCGAGTCCCATATTGGTTAGGAAGGGCAAAGAGGTATTAGAAT
1 TATAGTGGAGTCGGAAAACGATGCGAGTCCCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAAT
5880779 TGATAAGGGA
Statistics
Matches: 118, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
76 3 0.03
78 35 0.30
79 36 0.31
80 35 0.30
81 4 0.03
82 5 0.04
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (79 bp):
TATAGTGGAGTCGGAAAACGATGCGAGTCCCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAAT
ATATATCTTCTACA
Found at i:5880786 original size:26 final size:26
Alignment explanation
Indices: 5880757--5880809 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
5880747 ATTGGTTAGG
*
5880757 AAGGGCAAAGAGGTATTAGAATTGAT
1 AAGGGAAAAGAGGTATTAGAATTGAT
*
5880783 AAGGGAAAAGAGGTATTGGAATTGAT
1 AAGGGAAAAGAGGTATTAGAATTGAT
5880809 A
1 A
5880810 TATTTGAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.23
Consensus pattern (26 bp):
AAGGGAAAAGAGGTATTAGAATTGAT
Found at i:5881005 original size:131 final size:132
Alignment explanation
Indices: 5880713--5881046 Score: 571
Period size: 131 Copynumber: 2.5 Consensus size: 132
5880703 ATGTTCTTTA
*
5880713 ATATAGTAGAGTTGGAAAACGATGCGAGTCCCATATTGGTTAGGAAGGGCAAAGAGGTATTAGAA
1 ATATAGTAGAGTTGGAAAACGATGCGAGTCCCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAA
* * *
5880778 TTGATAAGGGAAAAGAGGTATTGGAATTGATATATTTGAGTCGAAAAATGGTGTGAGTTCCATAT
66 TTGATAAGGGAAAAGAGGTATTGGAATTAATATATTCGAGTCAAAAAATGGTGTGAGTTCCATAT
5880843 TC
131 TC
* * *
5880845 ATAAAATAGAGTTGGAAAACGATGTGAGTCCCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAA
1 ATATAGTAGAGTTGGAAAACGATGCGAGTCCCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAA
*
5880910 TTGATAAGGG-AAAGAGGTATTGGAATTAATATGTTCGAGTCAAAAAATGGTGTGAGTTCCATAT
66 TTGATAAGGGAAAAGAGGTATTGGAATTAATATATTCGAGTCAAAAAATGGTGTGAGTTCCATAT
5880974 TC
131 TC
* *
5880976 ATATAGTAGAGTTGGAAAACGATGCGAGTCCTATATTGTTTAGGAAGGGCAAAGAGGTATTGGAA
1 ATATAGTAGAGTTGGAAAACGATGCGAGTCCCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAA
5881041 TTGATA
66 TTGATA
5881047 TGTTCGAGTC
Statistics
Matches: 189, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
131 118 0.62
132 71 0.38
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.28
Consensus pattern (132 bp):
ATATAGTAGAGTTGGAAAACGATGCGAGTCCCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAA
TTGATAAGGGAAAAGAGGTATTGGAATTAATATATTCGAGTCAAAAAATGGTGTGAGTTCCATAT
TC
Found at i:5883884 original size:78 final size:79
Alignment explanation
Indices: 5883755--5884336 Score: 263
Period size: 79 Copynumber: 7.7 Consensus size: 79
5883745 GATATGTTCT
* * *
5883755 ATGGAGTC-AGAAAACGATGTGAGTTCCATATTGATTAGGAAGGGAAAAGAGGTCTTGGTTGAAA
1 ATGGAGTCGA-AAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTCTTGGTTGATA
*
5883819 TGTTTTTTA-ATACA
65 TGTTTTCTACATACA
* * * *
5883833 ATGGAGTCGAAAAATGATGCGAG-TCTCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAATTTA
1 ATGGAGTCGAAAAATGATGTGAGTTC-CATATTGATTAGGAAGGGCAAAGAGGTCTTGG--TTGA
*
5883897 TATG--TTCTACATAGA
63 TATGTTTTCTACATACA
* * * *
5883912 ATGGAATCGAAAAATGATTTGAGTTCCATAATGATTAGGAA-GGCAAAGAGGCCTTGGTTGATAT
1 ATGGAGTCGAAAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTCTTGGTTGATAT
5883976 G---T-T-CAT---
66 GTTTTCTACATACA
* ** * * * * * * * *
5883982 -TGGAGTCGGAAAGCGATGTAAGGTCTATATTGGTTAGGAAGTGCGAAGAGGTATTGGACATGAT
1 ATGGAGTCGAAAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTCTTGG--TTGAT
** *
5884046 ATG--TTCTATGTTCA
64 ATGTTTTCTACATACA
* * * * *
5884060 GTGGAGTCAAAAAATGATGTGA---CAAATATTGATTTGGAA-GGCAAAGAGGTCTTAGTTGATA
1 ATGGAGTCGAAAAATGATGTGAGTTC-CATATTGATTAGGAAGGGCAAAGAGGTCTTGGTTGATA
5884121 TG---T-T---T--A
65 TGTTTTCTACATACA
* * * * * *
5884127 ATGGAGTCGGAAAGCAACG-T-TG-GTTCTATATTGGTTAGGAAGGACGAAGAGGTCTTGGAATA
1 ATGGAGTC-GAAA--AATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTCTTGG--TT
** *
5884189 GATATG--TTCTATGTATA
61 GATATGTTTTCTACATACA
* * * * * *
5884206 ATGGAGTC-AGAAAATTATGTGAATTCCATATTGATTAGGAAGGGCAAAAAGATTTTGGAATTAA
1 ATGGAGTCGA-AAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTCTTGG--TTGA
**
5884270 TATG-TTT-TATGTACA
63 TATGTTTTCTACATACA
* * * * *
5884285 ATAGAATCGAAAAATAATGTGAGTTTCATATT-ATTAGGAAGGAC-AAGAGGTC
1 ATGGAGTCGAAAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTC
5884337 GATATGTTCT
Statistics
Matches: 386, Mismatches: 79, Indels: 79
0.71 0.15 0.15
Matches are distributed among these distances:
67 8 0.02
68 5 0.01
69 44 0.11
70 29 0.08
72 15 0.04
73 6 0.02
74 10 0.03
75 2 0.01
76 22 0.06
77 22 0.06
78 81 0.21
79 131 0.34
80 11 0.03
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (79 bp):
ATGGAGTCGAAAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTCTTGGTTGATAT
GTTTTCTACATACA
Found at i:5883950 original size:79 final size:77
Alignment explanation
Indices: 5883765--5883978 Score: 227
Period size: 78 Copynumber: 2.8 Consensus size: 77
5883755 ATGGAGTCAG
* * * *
5883765 AAAACGATGTGAGTTCCATATTGATTAGGAAGGGAAAAGAGGTCTTGGTTGAAATGTTTTTTAAT
1 AAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTATTGGTTGAAATG-TTTCTAAT
*
5883830 ACAATGGAGTCGA
65 ACAATGGAATCGA
* * * *
5883843 AAAATGATGCGAG-TCTCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAATTTATATG-TTCTA
1 AAAATGATGTGAGTTC-CATATTGATTAGGAAGGGCAAAGAGGTATTGG--TTGAAATGTTTCTA
*
5883906 CATAGAATGGAATCGA
63 -ATACAATGGAATCGA
* * ** *
5883922 AAAATGATTTGAGTTCCATAATGATTAGGAA-GGCAAAGAGGCCTTGGTTGATATGTT
1 AAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTATTGGTTGAAATGTT
5883979 CATTGGAGTC
Statistics
Matches: 113, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
76 7 0.06
77 3 0.03
78 58 0.51
79 37 0.33
80 8 0.07
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (77 bp):
AAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTATTGGTTGAAATGTTTCTAATA
CAATGGAATCGA
Found at i:5884155 original size:146 final size:146
Alignment explanation
Indices: 5883855--5884253 Score: 423
Period size: 146 Copynumber: 2.7 Consensus size: 146
5883845 AATGATGCGA
* * ** ** * *
5883855 GTCTCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAATTTATATGTTCTACATAGAATGGAATC
1 GTCT-ATATTGGTTAGGAAGGACGAAGAGGTATTGGAATAGATATGTTCTATGTATAATGGAGTC
* * * * * *
5883920 GAAAAATGATTTGAGTTC-CATAATGATTAGGAAGGCAAAGAGGCCTTGGTTGATATGTTCATTG
65 AAAAAATGATGTGA---CAAATATTGATTAGGAAGGCAAAGAGGCCTTAGTTGATATGTTCAATG
* *
5883984 GAGTCGGAAAGCGATGTAAG
127 GAGTCGGAAAGCAACGTAAG
*
5884004 GTCTATATTGGTTAGGAAGTG-CGAAGAGGTATTGGACAT-GATATGTTCTATGT-TCAGTGGAG
1 GTCTATATTGGTTAGGAAG-GACGAAGAGGTATTGGA-ATAGATATGTTCTATGTAT-AATGGAG
* * *
5884066 TCAAAAAATGATGTGACAAATATTGATTTGGAAGGCAAAGAGGTCTTAGTTGATATGTTTAATGG
63 TCAAAAAATGATGTGACAAATATTGATTAGGAAGGCAAAGAGGCCTTAGTTGATATGTTCAATGG
*
5884131 AGTCGGAAAGCAACGT-TG
128 AGTCGGAAAGCAACGTAAG
*
5884149 GTTCTATATTGGTTAGGAAGGACGAAGAGGTCTTGGAATAGATATGTTCTATGTATAATGGAGTC
1 G-TCTATATTGGTTAGGAAGGACGAAGAGGTATTGGAATAGATATGTTCTATGTATAATGGAGTC
* * *
5884214 AGAAAATTATGTGA-ATTCCATATTGATTAGGAAGGGCAAA
65 AAAAAATGATGTGACA---AATATTGATTAGGAA-GGCAAA
5884254 AAGATTTTGG
Statistics
Matches: 213, Mismatches: 25, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
145 7 0.03
146 120 0.56
147 1 0.00
148 72 0.34
149 13 0.06
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.31
Consensus pattern (146 bp):
GTCTATATTGGTTAGGAAGGACGAAGAGGTATTGGAATAGATATGTTCTATGTATAATGGAGTCA
AAAAATGATGTGACAAATATTGATTAGGAAGGCAAAGAGGCCTTAGTTGATATGTTCAATGGAGT
CGGAAAGCAACGTAAG
Found at i:5890072 original size:16 final size:15
Alignment explanation
Indices: 5890051--5890092 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
5890041 TTTTTAAATT
*
5890051 TTTTTATATTATATTA
1 TTTTTATATT-TAATA
5890067 TTTTTATATTTAATA
1 TTTTTATATTTAATA
*
5890082 ATTTTATATTT
1 TTTTTATATTT
5890093 TTTTGTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTATATTTAATA
Found at i:5890221 original size:18 final size:16
Alignment explanation
Indices: 5890200--5890237 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 16
5890190 TATAAATTAC
5890200 ATAATATATAAAAATATT
1 ATAA-ATAT-AAAATATT
5890218 AT-AATATAAAATATT
1 ATAAATATAAAATATT
5890233 ATAAA
1 ATAAA
5890238 CTTAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.53
16 6 0.32
17 1 0.05
18 2 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAAATATAAAATATT
Found at i:5890230 original size:15 final size:16
Alignment explanation
Indices: 5890205--5890236 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
5890195 ATTACATAAT
5890205 ATATAAAAATATTATA
1 ATATAAAAATATTATA
5890221 ATAT-AAAATATTATA
1 ATATAAAAATATTATA
5890236 A
1 A
5890237 ACTTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATATTATA
Found at i:5893586 original size:17 final size:17
Alignment explanation
Indices: 5893560--5893599 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
5893550 CTTAGAGGAG
*
5893560 TCAAAGGAAAAATATAC
1 TCAAAAGAAAAATATAC
* *
5893577 TCAAAAGAAACATTTAC
1 TCAAAAGAAAAATATAC
5893594 TCAAAA
1 TCAAAA
5893600 TAAGATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.15, G:0.07, T:0.20
Consensus pattern (17 bp):
TCAAAAGAAAAATATAC
Found at i:5907514 original size:22 final size:22
Alignment explanation
Indices: 5907489--5907534 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
5907479 CTTTCTTTTA
*
5907489 TTTATTTTTAAAATTTTAATTT
1 TTTATTTTTAAAATTTTAAATT
*
5907511 TTTATTTTTTAAATTTTAAATT
1 TTTATTTTTAAAATTTTAAATT
5907533 TT
1 TT
5907535 AAATCCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTATTTTTAAAATTTTAAATT
Found at i:5907870 original size:26 final size:30
Alignment explanation
Indices: 5907807--5907869 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
5907797 TTTAAATATT
*
5907807 ATTTTTTATTTAATTATAATATATTTTTAA
1 ATTTTTTATTTAATTATAATATATTTATAA
5907837 ATTTTTTATTT-ATTA-AATATATTTAT-A
1 ATTTTTTATTTAATTATAATATATTTATAA
5907864 ATTTTT
1 ATTTTT
5907870 ACAAAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 7 0.22
28 10 0.31
29 4 0.12
30 11 0.34
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
ATTTTTTATTTAATTATAATATATTTATAA
Found at i:5909693 original size:18 final size:18
Alignment explanation
Indices: 5909670--5909706 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
5909660 AATAGTTTTA
5909670 GCAGAACTAAACTTTCTT
1 GCAGAACTAAACTTTCTT
5909688 GCAGAACTAAACTTTCTT
1 GCAGAACTAAACTTTCTT
5909706 G
1 G
5909707 TTGACTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (18 bp):
GCAGAACTAAACTTTCTT
Found at i:5910490 original size:10 final size:10
Alignment explanation
Indices: 5910472--5910501 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
5910462 ATTAACTATT
5910472 TTTTA-AAAA
1 TTTTACAAAA
5910481 TTTTACAAAA
1 TTTTACAAAA
5910491 TTTTACAAAA
1 TTTTACAAAA
5910501 T
1 T
5910502 ATTTTTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.25
10 15 0.75
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
TTTTACAAAA
Done.