Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold350
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: 1036165
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 8
Found at i:126331 original size:2 final size:2
Alignment explanation
Indices: 126326--126356 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
126316 AATTTCACGA
*
126326 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
126357 AATTCTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:126553 original size:30 final size:29
Alignment explanation
Indices: 126537--126594 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
126527 ATTATATAAT
126537 AAAAAATAAT-TAAAAATAATATGATATA
1 AAAAAATAATATAAAAATAATATGATATA
*
126565 AAAAAATAATATAAATATAATATGAATATA
1 AAAAAATAATATAAAAATAATATG-ATATA
126595 TAAATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 10 0.37
29 12 0.44
30 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.29
Consensus pattern (29 bp):
AAAAAATAATATAAAAATAATATGATATA
Found at i:126576 original size:13 final size:13
Alignment explanation
Indices: 126537--126579 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
126527 ATTATATAAT
126537 AAAAAATAAT-TA
1 AAAAAATAATATA
126549 AAAATAATATGATATA
1 AAAA-AATA--ATATA
126565 AAAAAATAATATA
1 AAAAAATAATATA
126578 AA
1 AA
126580 TATAATATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 4 0.15
13 11 0.41
15 6 0.22
16 6 0.22
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
AAAAAATAATATA
Found at i:126582 original size:19 final size:20
Alignment explanation
Indices: 126532--126622 Score: 75
Period size: 19 Copynumber: 4.8 Consensus size: 20
126522 ATTAAATTAT
*
126532 ATAATA-AAAAATAATTAAAA
1 ATAATATAAATATAA-TAAAA
*
126552 ATAATAT-GATATAA-AAAA
1 ATAATATAAATATAATAAAA
**
126570 ATAATATAAATATAATATGA
1 ATAATATAAATATAATAAAA
*
126590 AT-ATATAAATATATTAAAA
1 ATAATATAAATATAATAAAA
* *
126609 TTTATATAAA-ATAA
1 ATAATATAAATATAA
126623 ATTATTAATG
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
18 11 0.19
19 24 0.42
20 22 0.39
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAATATAAATATAATAAAA
Found at i:126584 original size:29 final size:29
Alignment explanation
Indices: 126537--126608 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 29
126527 ATTATATAAT
126537 AAAAAATAATTAAAAATAATATG-ATATA
1 AAAAAATAATTAAAAATAATATGAATATA
*
126565 AAAAAATAATATAAATATAATATGAATATA
1 AAAAAATAAT-TAAAAATAATATGAATATA
* *
126595 TAAATAT-ATTAAAA
1 AAAAAATAATTAAAA
126609 TTTATATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 14 0.37
29 14 0.37
30 10 0.26
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAAAATAATTAAAAATAATATGAATATA
Found at i:126586 original size:11 final size:11
Alignment explanation
Indices: 126530--126594 Score: 52
Period size: 10 Copynumber: 6.5 Consensus size: 11
126520 AAATTAAATT
126530 ATATAATA-AA
1 ATATAATATAA
*
126540 AAATAAT-TAA
1 ATATAATATAA
* *
126550 AAATAATAT-G
1 ATATAATATAA
126560 ATATAA-A-AA
1 ATATAATATAA
126569 A-ATAATATAA
1 ATATAATATAA
*
126579 ATATAATATGA
1 ATATAATATAA
126590 ATATA
1 ATATA
126595 TAAATATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
8 4 0.09
9 3 0.07
10 23 0.52
11 14 0.32
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (11 bp):
ATATAATATAA
Found at i:126594 original size:17 final size:16
Alignment explanation
Indices: 126549--126600 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 16
126539 AAAATAATTA
126549 AAAATAATATG-ATAT
1 AAAATAATATGAATAT
126564 AAAA-AA-AT-AATAT
1 AAAATAATATGAATAT
126577 AAATATAATATGAATAT
1 AAA-ATAATATGAATAT
126594 ATAAATA
1 A-AAATA
126601 TATTAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.29
14 3 0.10
15 6 0.19
16 2 0.06
17 9 0.29
18 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (16 bp):
AAAATAATATGAATAT
Found at i:126609 original size:29 final size:28
Alignment explanation
Indices: 126530--126609 Score: 85
Period size: 30 Copynumber: 2.9 Consensus size: 28
126520 AAATTAAATT
*
126530 ATATAATA-AAAAATA-ATTAAAA-ATA
1 ATATGATATAAAAATATATTAAAATATA
* *
126555 ATATGATATAAAAAAATAATATAAATATA
1 ATATGATATAAAAATATATTA-AAATATA
*
126584 ATATGAATATATAAATATATTAAAAT
1 ATATG-ATATAAAAATATATTAAAAT
126610 TTATATAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
25 7 0.16
26 6 0.14
27 3 0.07
28 3 0.07
29 12 0.27
30 13 0.30
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (28 bp):
ATATGATATAAAAATATATTAAAATATA
Found at i:126615 original size:28 final size:26
Alignment explanation
Indices: 126525--126630 Score: 78
Period size: 29 Copynumber: 4.0 Consensus size: 26
126515 CTATAAAATT
126525 AAATT-ATATAATAAAAAATA-ATTA
1 AAATTAATATAATAAAAAATATATTA
* *
126549 AAAATAATATGATATAAAAAA-ATAATA
1 AAATTAATAT-A-ATAAAAAATATATTA
*
126576 TAAATATAATATGAATATATAAATATATTA
1 -AAAT-TAATAT-AATA-AAAAATATATTA
* *
126606 AAATTTATATAA-AATAAAT-TATTA
1 AAATTAATATAATAAAAAATATATTA
126630 A
1 A
126631 TGTATAAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
24 10 0.15
25 10 0.15
26 3 0.04
27 13 0.19
28 11 0.16
29 16 0.24
30 5 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
AAATTAATATAATAAAAAATATATTA
Found at i:126890 original size:12 final size:12
Alignment explanation
Indices: 126857--126893 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
126847 CAAACACAAC
126857 ATAAAAAATAAT
1 ATAAAAAATAAT
*
126869 -TAAAATATAAT
1 ATAAAAAATAAT
126880 ATAAAAAATAAT
1 ATAAAAAATAAT
126892 AT
1 AT
126894 TAACACAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATAAAAAATAAT
Found at i:126903 original size:23 final size:23
Alignment explanation
Indices: 126848--126891 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
126838 ATCATGATAC
*
126848 AAACACAACATAAAAAATAATTA
1 AAACACAATATAAAAAATAATTA
* *
126871 AAATATAATATAAAAAATAAT
1 AAACACAATATAAAAAATAAT
126892 ATTAACACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (23 bp):
AAACACAATATAAAAAATAATTA
Found at i:127815 original size:13 final size:13
Alignment explanation
Indices: 127797--127823 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
127787 CATTCTTCAA
127797 TTAATGAATAGAT
1 TTAATGAATAGAT
127810 TTAATGAATAGAT
1 TTAATGAATAGAT
127823 T
1 T
127824 ATCATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (13 bp):
TTAATGAATAGAT
Found at i:128023 original size:11 final size:11
Alignment explanation
Indices: 128007--128082 Score: 63
Period size: 11 Copynumber: 7.0 Consensus size: 11
127997 TAATAATTCG
128007 TATATTTATAT
1 TATATTTATAT
128018 TATA-TT-TA-
1 TATATTTATAT
128026 TATATTT-TAT
1 TATATTTATAT
128036 TATA-TTATAAT
1 TATATTTAT-AT
* *
128047 TATATTTAAAA
1 TATATTTATAT
128058 TATATTTTATATT
1 TATA-TTTATA-T
128071 TAATATTTATAT
1 T-ATATTTATAT
128083 AAATTTTGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
8 4 0.08
9 8 0.15
10 7 0.13
11 15 0.28
12 9 0.17
13 7 0.13
14 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TATATTTATAT
Found at i:128039 original size:29 final size:29
Alignment explanation
Indices: 128007--128082 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 29
127997 TAATAATTCG
128007 TATATTTATATTATATTT---ATATATTT
1 TATATTTATATTATATTTAAAATATATTT
128033 TATTATATTATAATTATATTTAAAATATATTT
1 TA-TAT-TTAT-ATTATATTTAAAATATATTT
128065 TATATTTAATATTTATAT
1 TATATTT-ATA-TTATAT
128083 AAATTTTGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
26 2 0.05
27 3 0.07
28 4 0.10
29 9 0.21
30 3 0.07
31 11 0.26
32 10 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (29 bp):
TATATTTATATTATATTTAAAATATATTT
Found at i:128109 original size:27 final size:24
Alignment explanation
Indices: 128017--128109 Score: 75
Period size: 24 Copynumber: 3.8 Consensus size: 24
128007 TATATTTATA
* *
128017 TTATATTTATATATTT-TAT-TATA
1 TTATATTTA-ATATTTATATAAATT
* * *
128040 TTATAATT-ATATTTAAAATATATT
1 TTATATTTAATATTT-ATATAAATT
128064 TTATATTTAATATTTATATAAATT
1 TTATATTTAATATTTATATAAATT
128088 TTGATATGTTAATAATTTATAT
1 TT-ATAT-TTAAT-ATTTATAT
128110 TATATAAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
21 6 0.11
23 9 0.16
24 19 0.33
25 10 0.18
26 5 0.09
27 8 0.14
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TTATATTTAATATTTATATAAATT
Found at i:128139 original size:33 final size:33
Alignment explanation
Indices: 128065--128142 Score: 104
Period size: 32 Copynumber: 2.3 Consensus size: 33
128055 AAATATATTT
* *
128065 TATATTTAATATTTATATAAATTTTGATATGTTAA
1 TATATTT-ATA-TTATATAAATTTTGAGATATTAA
*
128100 TA-ATTTATATTATATAAATTTTGAGATATTCA
1 TATATTTATATTATATAAATTTTGAGATATTAA
128132 TATATTTATAT
1 TATATTTATAT
128143 ATTTATATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
32 22 0.56
33 11 0.28
34 4 0.10
35 2 0.05
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (33 bp):
TATATTTATATTATATAAATTTTGAGATATTAA
Found at i:130623 original size:51 final size:51
Alignment explanation
Indices: 130561--130671 Score: 168
Period size: 51 Copynumber: 2.2 Consensus size: 51
130551 ACGGGGTTGG
* *
130561 AGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTAA
1 AGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGAGTTAA
* * **
130612 AGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGTGTTGG
1 AGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGAGTTAA
130663 AGTATCCCC
1 AGTATCCCC
130672 TTGGAAATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.32
Consensus pattern (51 bp):
AGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGAGTTAA
Found at i:130703 original size:79 final size:79
Alignment explanation
Indices: 130607--130908 Score: 356
Period size: 79 Copynumber: 3.8 Consensus size: 79
130597 TAAAATCGGA
* *
130607 GTTAAAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGTGTTGGAGTATCCCC
1 GTTAGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
* *
130672 TTGGAAATAACAGG
66 TTGAAAATAACGGG
* * *
130686 GTTAGAGTATCCCCGATTATAGAAAATTGGTGTTTT-GAAAATAAAATTGGGGTTGGAGTATCCC
1 GTTAGAGTATCCCCGATTATGGAAAATTGATGTTTTAG-AAATAAAATCGGGGTTGGAGTATCCC
*
130750 CTCGAAAATAACGGG
65 CTTGAAAATAACGGG
* * * * * * ***
130765 GTTGGAGTATCCTCGATTGTGGAAAATCGATGCTATAGAAATAAGGCCGGGGTTGGAGTATCCCC
1 GTTAGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
*
130830 ATGAAAATAACGGG
66 TTGAAAATAACGGG
* * * * * *
130844 GTTGGAGTATCCCCAATTGT-GAGAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCC
1 GTTAGAGTATCCCCGATTATGGA-AAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCC
130908 C
65 C
130909 GATTGTGAAA
Statistics
Matches: 187, Mismatches: 33, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
78 3 0.02
79 183 0.98
80 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
GTTAGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
TTGAAAATAACGGG
Found at i:130804 original size:158 final size:158
Alignment explanation
Indices: 130612--130908 Score: 416
Period size: 158 Copynumber: 1.9 Consensus size: 158
130602 TCGGAGTTAA
* * * * * * *
130612 AGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGTGTTGGAGTATCCCCTTGGA
1 AGTATCCCCGATTATGGAAAATCGATGCTATAGAAATAAAACCGGGGTTGGAGTATCCCCATGAA
* * *
130677 AATAACAGGGTTAGAGTATCCCCGATTAT-AGAAAATTGGTGTTTTGAAAATAAAATTGGGGTTG
66 AATAACAGGGTTAGAGTATCCCCAATTATGAG-AAATTGGTGTTTTGAAAATAAAATCGGAGTTG
130741 GAGTATCCCCTCGAAAATAACGGGGTTGG
130 GAGTATCCCCTCGAAAATAACGGGGTTGG
* * **
130770 AGTATCCTCGATTGTGGAAAATCGATGCTATAGAAATAAGGCCGGGGTTGGAGTATCCCCATGAA
1 AGTATCCCCGATTATGGAAAATCGATGCTATAGAAATAAAACCGGGGTTGGAGTATCCCCATGAA
* * * *
130835 AATAACGGGGTTGGAGTATCCCCAATTGTGAGAAATTGGTGTTTTGGAAATAAAATCGGAGTTGG
66 AATAACAGGGTTAGAGTATCCCCAATTATGAGAAATTGGTGTTTTGAAAATAAAATCGGAGTTGG
130900 AGTATCCCC
131 AGTATCCCC
130909 GATTGTGAAA
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
158 118 0.98
159 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (158 bp):
AGTATCCCCGATTATGGAAAATCGATGCTATAGAAATAAAACCGGGGTTGGAGTATCCCCATGAA
AATAACAGGGTTAGAGTATCCCCAATTATGAGAAATTGGTGTTTTGAAAATAAAATCGGAGTTGG
AGTATCCCCTCGAAAATAACGGGGTTGG
Found at i:130907 original size:51 final size:51
Alignment explanation
Indices: 130843--130959 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
130833 AAAATAACGG
* * *
130843 GGTTGGAGTATCCCCAATTGTGAGAAATTGGTGTTTTGGAAATAAAATCG-
1 GGTTGGAGTATCCCCAATTGTGAAAAATTGGTATTTTAGAAATAAAATCGA
*
130893 GAGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGA
1 G-GTTGGAGTATCCCCAATTGTGAAAAATTGGTATTTTAGAAATAAAATCGA
130945 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
130960 TCAAAAATAA
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
50 1 0.02
51 59 0.97
52 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCAATTGTGAAAAATTGGTATTTTAGAAATAAAATCGA
Found at i:131092 original size:28 final size:28
Alignment explanation
Indices: 131052--131124 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
131042 ATATAAAGCT
131052 GGGGTTGGAGTATCCTCTC-A-GAAATAAC
1 GGGGTTGGAGTATCC-C-CGATGAAATAAC
*
131080 GGGGTTGGAGTATCCCCGATGAAATAAT
1 GGGGTTGGAGTATCCCCGATGAAATAAC
131108 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
131125 AATTGTGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 1 0.02
27 2 0.05
28 39 0.93
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.25
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:131254 original size:51 final size:51
Alignment explanation
Indices: 131111--131254 Score: 171
Period size: 51 Copynumber: 2.8 Consensus size: 51
131101 AAATAATGGG
* * * * *
131111 GTTGGAGTATCCCCAATTGTGAAAATTTGGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGA
* * ** * * *
131162 GTTGGAGTATCCTCGATTGCGGTAAATCGATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGA
*
131213 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAAT
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAAT
131255 GGAACCGGGA
Statistics
Matches: 74, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 74 1.00
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGA
Found at i:133591 original size:20 final size:19
Alignment explanation
Indices: 133566--133640 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 19
133556 AAAATGCCTG
*
133566 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
133586 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
133606 AATGTATCGATACAATGAA
1 AATGTATCGATACAATGAA
133625 CAATGTATCGATACAA
1 -AATGTATCGATACAA
133641 ATTGTGAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 49 0.98
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:135163 original size:19 final size:20
Alignment explanation
Indices: 135139--135186 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
135129 ATTAAGTGTG
135139 TATCGATACTAAG-AACATA
1 TATCGATACTAAGCAACATA
* *
135158 TATCGATACTAAGCAATATG
1 TATCGATACTAAGCAACATA
135178 TATCGATAC
1 TATCGATAC
135187 ATCTGTGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (20 bp):
TATCGATACTAAGCAACATA
Found at i:135183 original size:20 final size:19
Alignment explanation
Indices: 135115--135186 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
135105 CTGCCAGTTT
*
135115 TATGTATCGATAC-AATTAA
1 TATGTATCGATACTAA-GAA
*
135134 GTGTGTATCGATACTAAGAA
1 -TATGTATCGATACTAAGAA
* *
135154 CATATATCGATACTAAGCAA
1 TATGTATCGATACTAAG-AA
135174 TATGTATCGATAC
1 TATGTATCGATAC
135187 ATCTGTGTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 14 0.33
20 27 0.63
21 2 0.05
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (19 bp):
TATGTATCGATACTAAGAA
Found at i:136194 original size:12 final size:12
Alignment explanation
Indices: 136170--136203 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
136160 ACAACTAGCA
*
136170 TACGACTACTCC
1 TACGACTAATCC
*
136182 TATGACTAATCC
1 TACGACTAATCC
136194 TACGACTAAT
1 TACGACTAAT
136204 TGTCACTCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.29
Consensus pattern (12 bp):
TACGACTAATCC
Found at i:137808 original size:13 final size:13
Alignment explanation
Indices: 137789--137826 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
137779 AATAGTGCCT
*
137789 ATGTATCGATATA
1 ATGTATCGATACA
*
137802 GTGTATCGATACA
1 ATGTATCGATACA
137815 ATGTATCGATAC
1 ATGTATCGATAC
137827 TAAAAACACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:143227 original size:28 final size:28
Alignment explanation
Indices: 143196--143290 Score: 106
Period size: 28 Copynumber: 3.4 Consensus size: 28
143186 AAAATCAGGA
*
143196 TTGGAGTATCCCTTCGAAAATAACGGGG
1 TTGGAGTATCCCATCGAAAATAACGGGG
*
143224 TTGGAGTATCCCCTC-AAAAGTAACGGGG
1 TTGGAGTATCCCATCGAAAA-TAACGGGG
* *
143252 TTGGAGTACTCCCGAT-G-AGATAACGAGG
1 TTGGAGTA-TCCC-ATCGAAAATAACGGGG
143280 TTGGAGTATCC
1 TTGGAGTATCC
143291 TCGATTGTGA
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.12
28 45 0.76
29 6 0.10
30 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (28 bp):
TTGGAGTATCCCATCGAAAATAACGGGG
Found at i:143389 original size:53 final size:52
Alignment explanation
Indices: 143278--143393 Score: 128
Period size: 53 Copynumber: 2.2 Consensus size: 52
143268 GAGATAACGA
* * * *
143278 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTAGTTTTGAAAATAAAACCAG
** *
143330 AATTGGAGTATCCCCGATTAAAG-GAAAAATTGGT-GTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT---GTGAAAAATTGGTAGTTTTGAAAATAAAACCAG
143383 GGTTGGAGTAT
1 GGTTGGAGTAT
143394 GGTTGAGAGA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
52 16 0.31
53 24 0.46
54 11 0.21
55 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTAGTTTTGAAAATAAAACCAG
Found at i:144119 original size:13 final size:13
Alignment explanation
Indices: 144101--144126 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
144091 ACAAAGATCC
144101 ATGTATCGATACA
1 ATGTATCGATACA
144114 ATGTATCGATACA
1 ATGTATCGATACA
144127 CAAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:144902 original size:55 final size:55
Alignment explanation
Indices: 144817--146019 Score: 1300
Period size: 55 Copynumber: 21.3 Consensus size: 55
144807 AAAGTGTATT
* * *
144817 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
*
144872 TTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTC
*
144927 CTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* *
144982 CTGCTTTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGGTGTC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA--GGTGTC
145039 CTGCTCTTTGA-G---G--A--TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* * * *
145086 ATGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTCGAAAGGGGTC
1 CTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* *
145141 CTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* * *
145196 TTGCTCTTTGAAGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGCGTC
1 CTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGT------GTC
* *
145257 CTGCTCTCTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTC
* * *
145312 CTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTCGAAAGGGGTC
1 CTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* * **
145367 CTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTC
* * * *
145428 ATGCTCTTTGAGGACTG-AAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGTGCC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTC
*
145487 CTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTC
* * *
145546 CCGCTCTTTGAGGACTG-AAGGTGCCACAAACTTGTGTGGGCTTTAAAAGAAAAGGCGTC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTC
* * **
145605 CCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCATC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTC
** * *
145664 CCACTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTC
1 CTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTC
* *
145724 CCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
*
145778 CTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
** * *
145833 CTGCTCTTTGAGGACTGAAAAATGTCACCAACTTGTGTGGGCTTTGAGAGGTGTC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
*
145888 CTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
*
145943 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAAGAGAAGGCGTC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTGTC
146004 CTGCTCTTTGAGGACT
1 CTGCTCTTTGAGGACT
146020 AGGAAGGGCT
Statistics
Matches: 1023, Mismatches: 76, Indels: 92
0.86 0.06 0.08
Matches are distributed among these distances:
47 16 0.02
48 1 0.00
49 27 0.03
51 1 0.00
52 1 0.00
53 1 0.00
54 45 0.04
55 507 0.50
56 23 0.02
57 15 0.01
58 2 0.00
59 208 0.20
60 81 0.08
61 89 0.09
64 6 0.01
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (55 bp):
CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
Found at i:145030 original size:29 final size:29
Alignment explanation
Indices: 144887--145032 Score: 92
Period size: 29 Copynumber: 5.2 Consensus size: 29
144877 CTTTGAGGAC
144887 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
** * * *
144916 T-AAGAGGTGTCCTGC-TCTT-TGAGGAC-T
1 TGAA-AGGTG-CCACCAACTTGTGTGGGCTT
* *
144943 GGAAA-ATGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
* ** * ***
144971 TGAAAGGTG--TCCTGCTT-TTTGGGGAC
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
144997 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
145026 TGAAAGG
1 TGAAAGG
145033 GGTGTCCTGC
Statistics
Matches: 79, Mismatches: 28, Indels: 20
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.04
26 19 0.24
27 12 0.15
28 19 0.24
29 23 0.29
30 3 0.04
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:154436 original size:20 final size:20
Alignment explanation
Indices: 154409--154463 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
154399 TAAAATTTCC
*
154409 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
154429 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
154449 AAATGTATCGATACA
1 AAATGTATCGATACA
154464 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:161650 original size:14 final size:14
Alignment explanation
Indices: 161628--161665 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
161618 AAAATGACCT
*
161628 TTGGCTTTTGCAAA
1 TTGGATTTTGCAAA
161642 TTGGATTTTGCAAA
1 TTGGATTTTGCAAA
161656 TTGGATTTTG
1 TTGGATTTTG
161666 AAACTTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.21, C:0.08, G:0.24, T:0.47
Consensus pattern (14 bp):
TTGGATTTTGCAAA
Found at i:162788 original size:72 final size:73
Alignment explanation
Indices: 162668--162943 Score: 286
Period size: 71 Copynumber: 3.9 Consensus size: 73
162658 TGAGTCCTAC
*
162668 TCTTTAAGGACT-AAAAGGATAAAAA--GTGCCA-TCAGCTTGTGTGGGGTTT-AAAAGAAAAAA
1 TCTTTAAGGACTAAAAAGGATAAAAAGGGTGCCACT-AGCTTGTGTGGGTTTTAAAAAGAAAAAA
162728 GGTATCCTGA
65 -GTATCCTGA
* * *
162738 TCTTTAAGGACTAAAAAAGACAAAAAGGGTACCACTAGCTTGTGTGGGTTTT-AAAAG-AAAAAG
1 TCTTTAAGGACTAAAAAGGATAAAAAGGGTGCCACTAGCTTGTGTGGGTTTTAAAAAGAAAAAAG
* *
162801 T-TTCTTA
66 TATCCTGA
* * * **
162808 CTCTTTAAAGACTAAAAAGGAT-AAAAGAGGTGCCAGCAAGCGTGTGTGGACTTTAAAAAGAAAA
1 -TCTTTAAGGACTAAAAAGGATAAAAAG-GGTGCCA-CTAGCTTGTGTGGGTTTTAAAAAGAAAA
*
162872 AA--ATCTTGA
63 AAGTATCCTGA
* * * *
162881 TCTTTTAGGACTAAAAAGGATAAAAGGGGTGCCACCAGCTTATGTGGGTTTTAAAAAGAAAAA
1 TCTTTAAGGACTAAAAAGGATAAAAAGGGTGCCACTAGCTTGTGTGGGTTTTAAAAAGAAAAA
162944 GGTGAAGCAT
Statistics
Matches: 170, Mismatches: 25, Indels: 21
0.79 0.12 0.10
Matches are distributed among these distances:
70 21 0.12
71 61 0.36
72 45 0.26
73 37 0.22
74 6 0.04
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (73 bp):
TCTTTAAGGACTAAAAAGGATAAAAAGGGTGCCACTAGCTTGTGTGGGTTTTAAAAAGAAAAAAG
TATCCTGA
Found at i:162927 original size:143 final size:140
Alignment explanation
Indices: 162665--162944 Score: 366
Period size: 143 Copynumber: 2.0 Consensus size: 140
162655 AAATGAGTCC
* * * **
162665 TACTCTTTAAGGACTAAAAGGATAAAAAGTGCCATCAGCTTGTGTGGGGTTTAAAAGAAAAAAGG
1 TACTCTTTAAAGACTAAAAGGATAAAAAGTGCCAGCAGCGTGTGTGGACTTTAAAAGAAAAAA-G
* *
162730 TATCCTGATCTTTAAGGACTAAAAAAGACAAAAAGGGTACCACTAGCTTGTGTGGGTTTT-AAAA
65 -ATCCTGATCTTTAAGGACTAAAAAAGACAAAAAGGGTACCACCAGCTTATGTGGGTTTTAAAAA
162794 GAAAAAGTTTCT
129 GAAAAAGTTTCT
162806 TACTCTTTAAAGACTAAAAAGGATAAAAGAGGTGCCAGCAAGCGTGTGTGGACTTTAAAAAGAAA
1 TACTCTTTAAAGACT-AAAAGGATAAAA-A-GTGCCAGC-AGCGTGTGTGGACTTT-AAAAGAAA
* * * * * *
162871 AAA-ATCTTGATCTTTTAGGACTAAAAAGGATAAAAGGGGTGCCACCAGCTTATGTGGGTTTTAA
61 AAAGATCCTGATCTTTAAGGACTAAAAAAGACAAAAAGGGTACCACCAGCTTATGTGGGTTTTAA
162935 AAAGAAAAAG
126 AAAGAAAAAG
162945 GTGAAGCATC
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
141 14 0.12
142 12 0.10
143 52 0.43
144 18 0.15
145 13 0.11
146 11 0.09
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (140 bp):
TACTCTTTAAAGACTAAAAGGATAAAAAGTGCCAGCAGCGTGTGTGGACTTTAAAAGAAAAAAGA
TCCTGATCTTTAAGGACTAAAAAAGACAAAAAGGGTACCACCAGCTTATGTGGGTTTTAAAAAGA
AAAAGTTTCT
Found at i:162999 original size:143 final size:139
Alignment explanation
Indices: 162665--163019 Score: 360
Period size: 143 Copynumber: 2.5 Consensus size: 139
162655 AAATGAGTCC
* * * *
162665 TACTCTTTAAGGACTAAAAGGATAAAAAGTGCCATCAGCTTGTGTGGGGTTT-AAAAGAAAAAAG
1 TACTCTTTAAAGACTAAAA-GATAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAA-
* *
162729 GTATCCTGATCTTTAAGGACTAAAAAAGACAAAAAGGGTACCACTAGCTTGTGTGGGTTTTAAAA
64 G-ATCCTGATCTTTAAGGACTAAAAAAGACAAAAAGGGTACCACCAGCTTATGTGGGTTTTAAAA
*
162794 GAAAAAGTTTCT
128 GAAAAAGTATCT
* * *
162806 TACTCTTTAAAGACTAAAAAGGATAAAAGAGGTGCCAGCAAGCGTGTGTGGACTTTAAAAAGAAA
1 TACTCTTTAAAGACT-AAAA-GAT-AAA-AGGTGCCA-CCAGCTTGTGTGGGCTTTAAAAAGAAA
* * * * * *
162871 AAA-ATCTTGATCTTTTAGGACTAAAAAGGATAAAAGGGGTGCCACCAGCTTATGTGGGTTTTAA
61 AAAGATCCTGATCTTTAAGGACTAAAAAAGACAAAAAGGGTACCACCAGCTTATGTGGGTTTT-A
162935 AAAGAAAAAGGTGAAGCATCAT
125 AAAGAAAAA-GT-----ATC-T
* *
162957 T-CTCTTTAAAGACT-AAA-ATAAAAGGTACCACCAGCTTATGTGGGCTTTGAAAAAGAAAAAAG
1 TACTCTTTAAAGACTAAAAGATAAAAGGTGCCACCAGCTTGTGTGGGCTTT-AAAAAGAAAAAAG
163019 A
65 A
163020 AAAATGTCTT
Statistics
Matches: 178, Mismatches: 21, Indels: 26
0.79 0.09 0.12
Matches are distributed among these distances:
141 14 0.08
142 8 0.04
143 68 0.38
144 36 0.20
145 19 0.11
146 13 0.07
148 3 0.02
150 15 0.08
151 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (139 bp):
TACTCTTTAAAGACTAAAAGATAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAAGA
TCCTGATCTTTAAGGACTAAAAAAGACAAAAAGGGTACCACCAGCTTATGTGGGTTTTAAAAGAA
AAAGTATCT
Found at i:163036 original size:73 final size:73
Alignment explanation
Indices: 162862--163124 Score: 253
Period size: 73 Copynumber: 3.5 Consensus size: 73
162852 TGTGGACTTT
** * * *
162862 AAAAAGAAAAAAATCTTGATCTTTTAGGACTAAAAAGGATAAAAGGGGTGCCACCAGCTTATGTG
1 AAAAAGAAAAACGTCTTGCTCTTTAAGGACT--AAA--ATAAAA--GGTACCACCAGCTTATGTG
*
162927 GG-TTTTAAAAAGA
60 GGCTTTGAAAAAGA
* ** * * *
162940 AAAAGGTGAAGCATCATT-CTCTTTAAAGACTAAAATAAAAGGTACCACCAGCTTATGTGGGCTT
1 AAAAAGAAAAACGTC-TTGCTCTTTAAGGACTAAAATAAAAGGTACCACCAGCTTATGTGGGCTT
163004 TGAAAAAGA
65 TGAAAAAGA
* * * * * *
163013 AAAAAGAAAAATGTCTTGCTCTTTGAGGACTAAAATAAAAGGTGCCACCAACTTGTGTCGGCTTT
1 AAAAAGAAAAACGTCTTGCTCTTTAAGGACTAAAATAAAAGGTACCACCAGCTTATGTGGGCTTT
163078 GAAAAAG-
66 GAAAAAGA
* *
163085 AAAAAGAAAAAGCGTCCTGCTCTTTTAGGACTAAAATAAA
1 AAAAAGAAAAA-CGTCTTGCTCTTTAAGGACTAAAATAAA
163125 GGGTTTAAGT
Statistics
Matches: 156, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
72 33 0.21
73 92 0.59
74 6 0.04
76 3 0.02
78 20 0.13
79 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (73 bp):
AAAAAGAAAAACGTCTTGCTCTTTAAGGACTAAAATAAAAGGTACCACCAGCTTATGTGGGCTTT
GAAAAAGA
Found at i:167683 original size:13 final size:13
Alignment explanation
Indices: 167665--167689 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
167655 CATAAAGTGT
167665 TGTATCGATACAA
1 TGTATCGATACAA
167678 TGTATCGATACA
1 TGTATCGATACA
167690 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:167683 original size:33 final size:33
Alignment explanation
Indices: 167645--167711 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
167635 TTCAACAATT
167645 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
167678 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
167711 T
1 T
167712 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:167770 original size:13 final size:13
Alignment explanation
Indices: 167752--167776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
167742 ATCACTTAAA
167752 TGTATCGATACAT
1 TGTATCGATACAT
167765 TGTATCGATACA
1 TGTATCGATACA
167777 CTAATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:167841 original size:52 final size:52
Alignment explanation
Indices: 167785--167913 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
167775 CACTAATCTT
*
167785 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
167837 TGTATCGATACATGCAGGCAAATTTGTCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
167889 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
167914 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:176163 original size:31 final size:31
Alignment explanation
Indices: 176125--176546 Score: 288
Period size: 31 Copynumber: 13.7 Consensus size: 31
176115 ATACCTTTTT
176125 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
176156 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
* * *
176186 GAAGTCCACGACTTAGTGGC-ATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCAAT-CTCTTC-TC
* * * * * *
176218 AAAGCCCACGAATCAGTGGCATTTTGTCCT-
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* * *
176248 AAAGTCCACGACTCCGTGGCACCTTTTCTTCTC
1 AAAGTCCACGACTCAGTGGCA--ATCTCTTCTC
* * * * * *
176281 AAAGCCCACGACTCAGTGGCATTTTGTCCTA
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* * * *
176312 AAAGTCCACAATTCAGTGGC-ATCCCTTCTT
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* * *
176342 AAAGTCCACGACTCCGTGGCACCTTTTCTTCTC
1 AAAGTCCACGACTCAGTGGCA--ATCTCTTCTC
* * * * * *
176375 AAAGCCCACGACTCAGTGGCATTTTGTCCTA
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* * * *
176406 AAAGTCCAC-ATTTTAGTGGC-ATCCCTTCTT
1 AAAGTCCACGA-CTCAGTGGCAATCTCTTCTC
176436 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* * * * * *
176467 AAAGCCCACGACTCAGTGGCATTTTGTCCTA
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* * *
176498 AAAGTCCACAATTCAGTGGC-ATCCCTT-T-
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
176526 TAAGTCCACGACTCAGTGGCA
1 AAAGTCCACGACTCAGTGGCA
176547 TCAAAGTTCA
Statistics
Matches: 304, Mismatches: 72, Indels: 32
0.75 0.18 0.08
Matches are distributed among these distances:
28 17 0.06
29 3 0.01
30 88 0.29
31 120 0.39
32 31 0.10
33 45 0.15
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:176350 original size:94 final size:92
Alignment explanation
Indices: 176125--176547 Score: 543
Period size: 94 Copynumber: 4.6 Consensus size: 92
176115 ATACCTTTTT
* * * * * *
176125 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATTTT-GTCTCGAA
1 AAAGTCCACAATTCAGTGGC-ATCCCTTCTTAAAGTCCACGACTCAGTGGCATTTTCTTCTCAAA
* * * *
176189 GTCCACGACTTAGTGGCATCCTTT-TCTTC
65 GCCCACGACTCAGTGGCAT--TTTGTCCTA
* ** * *
176218 AAAGCCCACGAA-TCAGTGGCAT-TTTGTCCTAAAGTCCACGACTCCGTGGCACCTTTTCTTCTC
1 AAAGTCCAC-AATTCAGTGGCATCCCT-TCTTAAAGTCCACGACTCAGTGGCA--TTTTCTTCTC
176281 AAAGCCCACGACTCAGTGGCATTTTGTCCTA
62 AAAGCCCACGACTCAGTGGCATTTTGTCCTA
*
176312 AAAGTCCACAATTCAGTGGCATCCCTTCTTAAAGTCCACGACTCCGTGGCACCTTTTCTTCTCAA
1 AAAGTCCACAATTCAGTGGCATCCCTTCTTAAAGTCCACGACTCAGTGGCA--TTTTCTTCTCAA
176377 AGCCCACGACTCAGTGGCATTTTGTCCTA
64 AGCCCACGACTCAGTGGCATTTTGTCCTA
* * * *
176406 AAAGTCCACATTTTAGTGGCATCCCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAG
1 AAAGTCCACAATTCAGTGGCATCCCTTCTTAAAGTCCACGACTCAGTGGCATTTTCTTCTCAAAG
176471 CCCACGACTCAGTGGCATTTTGTCCTA
66 CCCACGACTCAGTGGCATTTTGTCCTA
176498 AAAGTCCACAATTCAGTGGCATCCCTT-TT-AAGTCCACGACTCAGTGGCAT
1 AAAGTCCACAATTCAGTGGCATCCCTTCTTAAAGTCCACGACTCAGTGGCAT
176548 CAAAGTTCAC
Statistics
Matches: 298, Mismatches: 24, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
90 20 0.07
91 4 0.01
92 88 0.30
93 21 0.07
94 141 0.47
95 24 0.08
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (92 bp):
AAAGTCCACAATTCAGTGGCATCCCTTCTTAAAGTCCACGACTCAGTGGCATTTTCTTCTCAAAG
CCCACGACTCAGTGGCATTTTGTCCTA
Found at i:176468 original size:186 final size:184
Alignment explanation
Indices: 176125--176547 Score: 543
Period size: 186 Copynumber: 2.3 Consensus size: 184
176115 ATACCTTTTT
* * * * *
176125 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATTTTGTCTCGAAG
1 AAAGTCCACAATTCAGTGGC-ATCCCTTCTTAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAG
* * * * **
176190 TCCACGACTTAGTGGCATCCTTTTCTTCAAAGCCCACGAATCAGTGGCATTTTGTCCTAAAGTCC
65 CCCACGACTCAGTGGCAT-CTTTTCCTAAAAGCCCACGAATCAGTGGCATCCTGTCCTAAAGTCC
* * *
176255 ACGACTCCGTGGCACCTTTTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCCTA
129 ACGACTCAGTGGCA-CATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCCTA
* *
176312 AAAGTCCACAATTCAGTGGCATCCCTTCTTAAAGTCCACGACTCCGTGGCACCTTTTCTTCTCAA
1 AAAGTCCACAATTCAGTGGCATCCCTTCTTAAAGTCCACGACTCAGTGGCA--TTTT-GTCTCAA
* * * *
176377 AGCCCACGACTCAGTGGCAT-TTTGTCCTAAAAGTCCAC-ATTTTAGTGGCATCCCT-TCTTAAA
63 AGCCCACGACTCAGTGGCATCTTT-TCCTAAAAGCCCACGA-ATCAGTGGCAT-CCTGTCCTAAA
176439 GTCCACGACTCAGTGGCA-ATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCCTA
125 GTCCACGACTCAGTGGCACATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCCTA
176498 AAAGTCCACAATTCAGTGGCATCCCTT-TT-AAGTCCACGACTCAGTGGCAT
1 AAAGTCCACAATTCAGTGGCATCCCTTCTTAAAGTCCACGACTCAGTGGCAT
176548 CAAAGTTCAC
Statistics
Matches: 209, Mismatches: 21, Indels: 17
0.85 0.09 0.07
Matches are distributed among these distances:
182 1 0.00
184 19 0.09
185 2 0.01
186 94 0.45
187 22 0.11
188 47 0.22
189 24 0.11
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (184 bp):
AAAGTCCACAATTCAGTGGCATCCCTTCTTAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGC
CCACGACTCAGTGGCATCTTTTCCTAAAAGCCCACGAATCAGTGGCATCCTGTCCTAAAGTCCAC
GACTCAGTGGCACATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCCTA
Found at i:176651 original size:34 final size:34
Alignment explanation
Indices: 176547--176906 Score: 312
Period size: 34 Copynumber: 10.9 Consensus size: 34
176537 CTCAGTGGCA
* * *
176547 TCAAAGTTCACGACTCTGTGGCACCTTTTTC-TT
1 TCAAAGCTCACAACTCCGTGGCACCTTTTTCTTT
* *
176580 TCAAAG-TCCACAACTCCGTGGTACC---TCCTTT
1 TCAAAGCT-CACAACTCCGTGGCACCTTTTTCTTT
176611 TCAAAGCTCACAACTCCGTGGCACCTTTTTCTTT
1 TCAAAGCTCACAACTCCGTGGCACCTTTTTCTTT
* * * * *
176645 TTAAAGCCCACGACCCCGTGGCACCTTGTTCTTT
1 TCAAAGCTCACAACTCCGTGGCACCTTTTTCTTT
*
176679 TCAAAG-TCCATAACTCCGTGGCACC---TTCTTT
1 TCAAAGCT-CACAACTCCGTGGCACCTTTTTCTTT
176710 TCAAAG-TCCACAA-TCCCGTGGCACC-----CTTT
1 TCAAAGCT-CACAACT-CCGTGGCACCTTTTTCTTT
176739 T--AAG-TCCACAACTCCGTGGCACCTTTTTCTTT
1 TCAAAGCT-CACAACTCCGTGGCACCTTTTTCTTT
* *
176771 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTT
1 TCAAAGCTCACAACTCCGTGGCACCTTTTTCT-TT
* *
176806 T-AAAGCCCACAACTCCATGGCACTCTTTTTCCCTTT
1 TCAAAGCTCACAACTCCGTGGCAC-CTTTTT--CTTT
* * *
176842 TCAAAGCCCACAACTCTGTGGCACTTTTTTCTTT
1 TCAAAGCTCACAACTCCGTGGCACCTTTTTCTTT
*
176876 T-AAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCTCACAACTCCGTGGCAC-CTTTTTC
176907 CGTTTTAAGT
Statistics
Matches: 280, Mismatches: 24, Indels: 45
0.80 0.07 0.13
Matches are distributed among these distances:
27 20 0.07
28 1 0.00
29 5 0.02
30 3 0.01
31 52 0.19
32 7 0.03
33 41 0.15
34 112 0.40
35 9 0.03
36 8 0.03
37 22 0.08
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (34 bp):
TCAAAGCTCACAACTCCGTGGCACCTTTTTCTTT
Found at i:176766 original size:126 final size:131
Alignment explanation
Indices: 176559--176906 Score: 397
Period size: 126 Copynumber: 2.6 Consensus size: 131
176549 AAAGTTCACG
* * *
176559 ACTCTGTGGCACCTTTTTCTTTCAAAGTCCACAACTCCGTGGTACCTCCTTTTCAAAGCTCACAA
1 ACTCCGTGGCACCTTTCTCTTTCAAAGTCCACAACTCCGTGGCACCTCCTTTT-AAAGCTCACAA
* *
176624 CTCCGTGGCACCTTTTTCTTTTTAAAGCCCACGACCCCGTGGCACCTTGTTCT-TTTCAAAGTCC
65 CTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACCCCGTGGCACCTTGTTCTGTTT-AAAGCCC
*
176688 ATA
129 ACA
176691 ACTCCGTGGCACC-TTCT-TTTCAAAGTCCACAA-TCCCGTGGCA-C-CCTTTT-AAG-TCCACA
1 ACTCCGTGGCACCTTTCTCTTTCAAAGTCCACAACT-CCGTGGCACCTCCTTTTAAAGCT-CACA
* *
176749 ACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCC
64 ACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACCCCGTGGCACCTTGTTCTGTTTAAAGCCC
176814 ACA
129 ACA
* * * * * *
176817 ACTCCATGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTGTGGCACTTTTTTCTTTTAAAGC
1 ACTCCGTGGCAC-C--TTTCTC-TTTCAAAGTCCACAACTCCGTGGCAC---CTCCTTTTAAAGC
*
176882 CCACAACTCCGTGGCACTCTTTTTC
59 TCACAACTCCGTGGCAC-CTTTTTC
176907 CGTTTTAAGT
Statistics
Matches: 183, Mismatches: 15, Indels: 29
0.81 0.07 0.13
Matches are distributed among these distances:
125 1 0.01
126 77 0.42
127 4 0.02
128 6 0.03
129 2 0.01
130 25 0.14
131 3 0.02
132 33 0.18
133 1 0.01
137 5 0.03
138 19 0.10
139 7 0.04
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.33
Consensus pattern (131 bp):
ACTCCGTGGCACCTTTCTCTTTCAAAGTCCACAACTCCGTGGCACCTCCTTTTAAAGCTCACAAC
TCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACCCCGTGGCACCTTGTTCTGTTTAAAGCCCAC
A
Found at i:176796 original size:160 final size:159
Alignment explanation
Indices: 176583--176904 Score: 409
Period size: 160 Copynumber: 2.0 Consensus size: 159
176573 TTTTCTTTCA
* * *
176583 AAGTCCACAACTCCGTGGTACCTCCTTTTCAAAGCTCACAACTCCGTGGCACCTTTTTCTTTTTA
1 AAGTCCACAACTCCGTGGCACCTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
* * * *
176648 AAGCCCACGACCCCGTGGCAC-CTTGTT-CTTTTCAAAGTCCATAACTCCGTGGCAC-CTTCTTT
66 AAGCCCACAACCCCATGGCACTCTTGTTCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTCTTT
*
176710 TCAAAGTCCACAA-TCCCGTGGCACCCTTTT
131 T-AAAGCCCACAACT-CCGTGGCACCCTTTT
* *
176740 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGT
1 AAGTCCACAACTCCGTGGCACC---TCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGT
* * * *
176805 TTAAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTGTGGCACTTTT
63 TTAAAGCCCACAACCCCATGGCACTCTTGTT-CCTTTTCAAAGCCCACAACTCCGTGGCAC--TC
*
176870 TTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
125 TTCTTTTAAAGCCCACAACTCCGTGGCACCCTTTT
176905 TCCGTTTTAA
Statistics
Matches: 140, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
157 21 0.15
160 57 0.41
161 5 0.04
163 25 0.18
165 24 0.17
166 8 0.06
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (159 bp):
AAGTCCACAACTCCGTGGCACCTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
AAGCCCACAACCCCATGGCACTCTTGTTCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTCTTT
TAAAGCCCACAACTCCGTGGCACCCTTTT
Found at i:176850 original size:71 final size:70
Alignment explanation
Indices: 176559--176912 Score: 328
Period size: 65 Copynumber: 5.4 Consensus size: 70
176549 AAAGTTCACG
* * * *
176559 ACTCTGTGGCAC-CTTTTT--C-TTTCAAAGTCCACAACTCCGTGGTACC---TCCTTTTCAAAG
1 ACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAG
*
176617 CTCACA
65 CCCACA
* * * *
176623 ACTCCGTGGCAC-CTTTTT--CTTTTTAAAGCCCACGACCCCGTGGCACCTTGTTCTTTTCAAAG
1 ACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAG
* *
176685 TCCATA
65 CCCACA
*
176691 ACTCCGTGGCAC-C---TT--CTTTTCAAAGTCCACAA-TCCCGTGGCACC-----CTTTT-AAG
1 ACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACT-CCGTGGCACCTTTTTCTTTTAAAG
*
176743 TCCACA
65 CCCACA
*
176749 ACTCCGTGGCAC-CTTTTT--CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAG
1 ACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAG
176811 CCCACA
65 CCCACA
* * *
176817 ACTCCATGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTGTGGCACTTTTTTCTTTTAAAGC
1 ACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGC
176882 CCACA
66 CCACA
*
176887 ACTCCGTGGCACTCTTTTTCCGTTTT
1 ACTCCGTGGCACTCTTTTTCCCTTTT
176913 AAGTCCACCG
Statistics
Matches: 247, Mismatches: 24, Indels: 32
0.82 0.08 0.11
Matches are distributed among these distances:
58 21 0.09
60 5 0.02
61 27 0.11
62 1 0.00
64 18 0.07
65 48 0.19
66 2 0.01
67 3 0.01
68 46 0.19
69 6 0.02
70 37 0.15
71 33 0.13
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (70 bp):
ACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGC
CCACA
Found at i:176980 original size:33 final size:35
Alignment explanation
Indices: 176937--177006 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 35
176927 ATCTTTCTCC
*
176937 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCAAACAAGTCGGTGGCAACCCTT
176971 CTTCC-AAAGCCCAAACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCAAACAAGTCGGTGGCAACCCTT
177005 CT
1 CT
177007 AAGCCCAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 23 0.68
34 11 0.32
ACGTcount: A:0.27, C:0.36, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCAAACAAGTCGGTGGCAACCCTT
Found at i:177068 original size:49 final size:48
Alignment explanation
Indices: 177006--177554 Score: 643
Period size: 49 Copynumber: 11.6 Consensus size: 48
176996 GCAACCCTTC
* *
177006 TAAGCCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTT
177055 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTT
* * * *
177104 TAAATCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTT
* *
177153 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
*
177196 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTT
* *
177245 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
* *
177288 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTT
* *
177337 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
* * * * *
177380 TAAGCCCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTT
* * *
177429 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-A----ACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
177472 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT--ATCTT
* *
177524 TAAGTTCAATGTAGCTGGCCTTGAATCAGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCA
177555 CGTTGACATC
Statistics
Matches: 434, Mismatches: 38, Indels: 53
0.83 0.07 0.10
Matches are distributed among these distances:
43 153 0.35
44 4 0.01
48 6 0.01
49 238 0.55
52 33 0.08
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (48 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
Found at i:177213 original size:43 final size:43
Alignment explanation
Indices: 177150--177515 Score: 435
Period size: 43 Copynumber: 8.1 Consensus size: 43
177140 GCACCTTCAT
*
177150 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
177193 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C
*
177237 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
177285 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
177332 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * * * *
177377 CTTTAAGCCCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
177424 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGAAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
177469 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
177512 CTTT
1 CTTT
177516 TCCATCTTTA
Statistics
Matches: 277, Mismatches: 28, Indels: 36
0.81 0.08 0.11
Matches are distributed among these distances:
43 158 0.57
44 1 0.00
45 2 0.01
47 2 0.01
48 1 0.00
49 113 0.41
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:177247 original size:92 final size:92
Alignment explanation
Indices: 177101--177555 Score: 757
Period size: 92 Copynumber: 4.9 Consensus size: 92
177091 GCACCTTTAT
* * * * *
177101 CTTTAAATCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
177166 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
177193 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
177258 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
177285 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
177350 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
177377 CTTTAAGCCCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
177442 GCTGGCCTTGAATCAGCACATTGGAAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
177469 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAAT
177534 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
177556 GTTGACATCC
Statistics
Matches: 342, Mismatches: 18, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
92 303 0.89
94 2 0.01
95 37 0.11
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:177401 original size:184 final size:184
Alignment explanation
Indices: 177001--177555 Score: 858
Period size: 184 Copynumber: 3.0 Consensus size: 184
176991 CGGTGGCAAC
* * *
177001 CCTTCTAAGCCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATA
1 CCTT-TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
* * * *
177066 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAATCCAATGTAGCTGGCCTTGACTC
65 TAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATATAGCTGGCCTTGAATC
* *
177131 AGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
124 AGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
*
177192 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
*
177257 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
177322 TGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
131 TGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * * *
177376 CCTTTAAGCCCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
*
177441 AGCTGGCCTTGAATCAGCACATTGGAACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* *
177506 TGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
131 TGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
177556 GTTGACATCC
Statistics
Matches: 341, Mismatches: 20, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
184 213 0.62
186 3 0.01
187 37 0.11
189 1 0.00
190 83 0.24
191 4 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (184 bp):
CCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
TGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:177547 original size:52 final size:53
Alignment explanation
Indices: 177469--177622 Score: 175
Period size: 52 Copynumber: 2.9 Consensus size: 53
177459 ACATTGGAAC
177469 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * ** *
177521 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
** * * * * *
177576 CTTTAAACCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
177623 ATCACTTTTC
Statistics
Matches: 82, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
52 37 0.45
53 5 0.06
54 6 0.07
55 34 0.41
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:178512 original size:13 final size:13
Alignment explanation
Indices: 178494--178518 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
178484 CATAAAGTGT
178494 TGTATCGATACAA
1 TGTATCGATACAA
178507 TGTATCGATACA
1 TGTATCGATACA
178519 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:178516 original size:33 final size:33
Alignment explanation
Indices: 178474--178540 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
178464 TTCAACGATT
178474 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
178507 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
178540 T
1 T
178541 ATAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:178599 original size:13 final size:13
Alignment explanation
Indices: 178581--178605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
178571 ATTACTTAAA
178581 TGTATCGATACAT
1 TGTATCGATACAT
178594 TGTATCGATACA
1 TGTATCGATACA
178606 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:178672 original size:52 final size:52
Alignment explanation
Indices: 178616--178742 Score: 218
Period size: 52 Copynumber: 2.4 Consensus size: 52
178606 CTGATCTTTG
*
178616 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAATA
1 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATA
* *
178668 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAATG
1 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATA
*
178720 TATCGATACATGCAGGTAAATTT
1 TATCGATACATGCAGGCAAATTT
178743 TCATATTTCG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATA
Found at i:179760 original size:29 final size:29
Alignment explanation
Indices: 179727--179943 Score: 140
Period size: 29 Copynumber: 7.5 Consensus size: 29
179717 AAGTTCCTAG
** *
179727 ACTTTTCAAAATCGCACATTGACCCTTAA
1 ACTTTTCAAAATTACACATTGACCCTCAA
*
179756 ACTTTTCAAAATTACACTTTGACCCTCAA
1 ACTTTTCAAAATTACACATTGACCCTCAA
** *
179785 ACTCCTCAAAATTACACATTGA-CCTCTAG
1 ACTTTTCAAAATTACACATTGACCCTC-AA
* *
179814 GCATTTCAAAATTACA-AGTT-AGCACCT-AA
1 ACTTTTCAAAATTACACA-TTGA-C-CCTCAA
** ** * *
179843 ACTTCGCAAAATTACATTTTAACCCTTAA
1 ACTTTTCAAAATTACACATTGACCCTCAA
* * * *
179872 ACTTTTCACAATTACATATTGACCGTAAA
1 ACTTTTCAAAATTACACATTGACCCTCAA
* **
179901 ATTTTTCAAAATTATGCATTGATCCCT-AA
1 ACTTTTCAAAATTACACATTGA-CCCTCAA
179930 ACGTTTT-AAAATTA
1 AC-TTTTCAAAATTA
179944 TGCATTGAGC
Statistics
Matches: 146, Mismatches: 32, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
28 9 0.06
29 126 0.86
30 8 0.05
31 3 0.02
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (29 bp):
ACTTTTCAAAATTACACATTGACCCTCAA
Found at i:188810 original size:20 final size:20
Alignment explanation
Indices: 188785--188822 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
188775 GTTCTTTTCA
188785 AAAAAAAAAAAAGAAGAAAC
1 AAAAAAAAAAAAGAAGAAAC
*
188805 AAAAAAAAAAGAGAAGAA
1 AAAAAAAAAAAAGAAGAA
188823 GAAGGGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAGAAGAAAC
Found at i:189805 original size:31 final size:31
Alignment explanation
Indices: 189764--190382 Score: 213
Period size: 34 Copynumber: 19.9 Consensus size: 31
189754 CTTCAAATAC
* *
189764 CTTCTTAAAGTCCATGACTCCGTGGCACCTT
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
*
189795 CTTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 CTTCTCAAAGTCCACGACTCCGTGGCA-CCTT
* *
189827 -TTCTTCAAAGTCCACGACTCAGTGGCA-ATCT
1 CTTC-TCAAAGTCCACGACTCCGTGGCACCT-T
* *
189858 CTGCTCAAAGTCCACGACTCCGTGGCACCTCC
1 CTTCTCAAAGTCCACGACTCCGTGGCACCT-T
* *
189890 CTT-TCTAAG-CCTACAACTCCGTGGCACTCTT
1 CTTCTCAAAGTCC-ACGACTCCGTGGCAC-CTT
* *
189921 TTTCCCTTTTAAAGTCCACGACTCCGTGGCACCTT
1 CTT--C--TCAAAGTCCACGACTCCGTGGCACCTT
* * *
189956 CTTTTCAAAGCCCACAACTCCGTGGCACC--
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
* * * *
189985 CTT-T-TAAGCCCACAACTCCGTGGCACTTT
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
* * **
190014 TTTCATCTTTAAGTCCATAACTCCGTGGCACC--
1 CTTC-TC--AAAGTCCACGACTCCGTGGCACCTT
* * *
190046 CTTCT--AAGCCCACAACTCCGTGGCACTTT
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
* * * *
190075 TTTCATCTTTAAGTCCACAACTCTGTGGCACCTTTTT
1 CTTC-TC--AAAGTCCACGACTCCGTGGCACC---TT
* * * *
190112 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
1 CTTCTCAAAGTCCACGACTCCGTGGCACC---TT
* * *
190146 CTTTTTAAAGCCCAC-AGCTCCGTGGCACTCTT
1 CTTCTCAAAGTCCACGA-CTCCGTGGCAC-CTT
** * *
190178 -TTCCCGTTTAAGCCCACAACTCCGTGGCACC--
1 CTT--C-TCAAAGTCCACGACTCCGTGGCACCTT
* ** *
190209 CTT-T-TAAGTCCATAACTCAGTGGCACCTT
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
* *
190238 C-TCATCAAAGTCCACAACTTCGTGGCACC--
1 CTTC-TCAAAGTCCACGACTCCGTGGCACCTT
* * * *
190267 CTT-TTAAAGCCCACAACTTCGTGGCACTCGTT
1 CTTCTCAAAGTCCACGACTCCGTGGCAC-C-TT
* *
190299 -TTCCTTCTAAGTCCACAACTCCGTGGCACC--
1 CTT-C-TCAAAGTCCACGACTCCGTGGCACCTT
* * *
190329 CGTT-T--AAGCCCACAACTCTGTGGCACC--
1 C-TTCTCAAAGTCCACGACTCCGTGGCACCTT
*
190356 CTT-T-TAAGTCCACGACTCCGTGGCACC
1 CTTCTCAAAGTCCACGACTCCGTGGCACC
190383 CTTTTTTCCT
Statistics
Matches: 474, Mismatches: 61, Indels: 110
0.73 0.09 0.17
Matches are distributed among these distances:
26 3 0.01
27 100 0.21
28 25 0.05
29 12 0.03
30 6 0.01
31 118 0.25
32 44 0.09
33 3 0.01
34 131 0.28
35 7 0.01
36 19 0.04
37 6 0.01
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.29
Consensus pattern (31 bp):
CTTCTCAAAGTCCACGACTCCGTGGCACCTT
Found at i:189869 original size:63 final size:62
Alignment explanation
Indices: 189765--189884 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 62
189755 TTCAAATACC
* * *
189765 TTCTTAAAGTCCATGACTCCGTGGCACCTTCTTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 TTCTTAAAGTCCACGACTCAGTGGCACCTTCTGCTCAAAGTCCACGACTCAGTGGCATCCTT
* *
189827 TTCTTCAAAGTCCACGACTCAGTGGCA-ATCTCTGCTCAAAGTCCACGACTCCGTGGCA
1 TTCTT-AAAGTCCACGACTCAGTGGCACCT-TCTGCTCAAAGTCCACGACTCAGTGGCA
189885 CCTCCCTTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
62 6 0.12
63 45 0.88
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.28
Consensus pattern (62 bp):
TTCTTAAAGTCCACGACTCAGTGGCACCTTCTGCTCAAAGTCCACGACTCAGTGGCATCCTT
Found at i:189940 original size:67 final size:67
Alignment explanation
Indices: 189864--189989 Score: 207
Period size: 67 Copynumber: 1.9 Consensus size: 67
189854 ATCTCTGCTC
* * *
189864 AAAGTCCACGACTCCGTGGCACCTCCCTTTCTAAGCCTACAACTCCGTGGCACTCTTTTTCCCTT
1 AAAGTCCACGACTCCGTGGCACCTCCCTTTCAAAGCCCACAACTCCGTGGCACCCTTTTTCCCTT
189929 TT
66 TT
* *
189931 AAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTT
1 AAAGTCCACGACTCCGTGGCACCTCCCTTTCAAAGCCCACAACTCCGTGGCACCCTTTT
189990 AAGCCCACAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.20, C:0.37, G:0.14, T:0.29
Consensus pattern (67 bp):
AAAGTCCACGACTCCGTGGCACCTCCCTTTCAAAGCCCACAACTCCGTGGCACCCTTTTTCCCTT
TT
Found at i:189955 original size:27 final size:28
Alignment explanation
Indices: 189924--190387 Score: 256
Period size: 34 Copynumber: 15.2 Consensus size: 28
189914 CACTCTTTTT
* *
189924 CCCTTTTAAAGTCCACGACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
189952 CCTTCTTTTCAAAGCCCACAACTCCGTGGCA
1 CC--CTTTT-AAAGCCCACAACTCCGTGGCA
189983 CCCTTTT-AAGCCCACAACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
** * *
190010 CTTTTTTCATCTTTAAGTCCATAACTCCGTGGCA
1 CCCTTTT-A-----AAGCCCACAACTCCGTGGCA
*
190044 CCCTTCT-AAGCCCACAACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
** * *
190071 CTTTTTTCATCTTTAAGTCCACAACTCTGTGGCA
1 CCCTTTT-A-----AAGCCCACAACTCCGTGGCA
190105 CCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCA
1 CC-----C-TTTTAAAGCCCACAACTCCGTGGCA
*
190139 CCTTTTTCTTTTTAAAGCCCACAGCTCCGTGGCA
1 CC-----C-TTTTAAAGCCCACAACTCCGTGGCA
* *
190173 CTCTTTTCCCGTTTAAGCCCACAACTCCGTGGCA
1 C-C-CTT----TTAAAGCCCACAACTCCGTGGCA
* * *
190207 CCCTTTT-AAGTCCATAACTCAGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
* *
190234 -CCTTCTCATCAAAGTCCACAACTTCGTGGCA
1 CCCTT-T--T-AAAGCCCACAACTCCGTGGCA
*
190265 CCCTTTTAAAGCCCACAACTTCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
* * *
190293 CTCGTTTTCCTTCTAAGTCCACAACTCCGTGGCA
1 C-C--CTT--TT-AAAGCCCACAACTCCGTGGCA
* *
190327 CCCGTTT-AAGCCCACAACTCTGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
* *
190354 CCCTTTT-AAGTCCACGACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
190381 CCCTTTT
1 CCCTTTT
190388 TTCCTTTAAA
Statistics
Matches: 352, Mismatches: 44, Indels: 81
0.74 0.09 0.17
Matches are distributed among these distances:
26 4 0.01
27 113 0.32
28 25 0.07
29 10 0.03
30 7 0.02
31 43 0.12
32 6 0.02
33 4 0.01
34 134 0.38
35 1 0.00
39 1 0.00
40 4 0.01
ACGTcount: A:0.21, C:0.35, G:0.14, T:0.30
Consensus pattern (28 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCA
Found at i:190036 original size:34 final size:33
Alignment explanation
Indices: 189895--190207 Score: 262
Period size: 34 Copynumber: 9.7 Consensus size: 33
189885 CCTCCCTTTC
* *
189895 TAAGCCTACAACTCCGTGGCACTCTTTTTCCCTTT
1 TAAGCCCACAACTCCGTGGCACT-TTTTTCTC-TT
* * *
189930 TAAAGTCCACGACTCCGTGGCACCTTCTTT-TC--
1 T-AAGCCCACAACTCCGTGGCA-CTTTTTTCTCTT
* *
189962 AAAGCCCACAACTCCGTGGCAC-----CCT-TT
1 TAAGCCCACAACTCCGTGGCACTTTTTTCTCTT
189989 TAAGCCCACAACTCCGTGGCACTTTTTTCATCTT
1 TAAGCCCACAACTCCGTGGCACTTTTTTC-TCTT
* *
190023 TAAGTCCATAACTCCGTGGCAC------C-CTT
1 TAAGCCCACAACTCCGTGGCACTTTTTTCTCTT
190049 CTAAGCCCACAACTCCGTGGCACTTTTTTCATCTT
1 -TAAGCCCACAACTCCGTGGCACTTTTTTC-TCTT
* * * *
190084 TAAGTCCACAACTCTGTGGCACCTTTTTCTTTT
1 TAAGCCCACAACTCCGTGGCACTTTTTTCTCTT
* *
190117 TAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 T-AAGCCCACAACTCCGTGGCACTTTTTTCTCTT
* * *
190151 TAAAGCCCACAGCTCCGTGGCACTCTTTTCCCGTT
1 T-AAGCCCACAACTCCGTGGCACTTTTTTCTC-TT
190186 TAAGCCCACAACTCCGTGGCAC
1 TAAGCCCACAACTCCGTGGCAC
190208 CCTTTTAAGT
Statistics
Matches: 228, Mismatches: 27, Indels: 47
0.75 0.09 0.16
Matches are distributed among these distances:
26 4 0.02
27 41 0.18
28 1 0.00
30 1 0.00
31 18 0.08
32 1 0.00
33 6 0.03
34 125 0.55
35 8 0.04
36 21 0.09
37 2 0.01
ACGTcount: A:0.20, C:0.35, G:0.14, T:0.31
Consensus pattern (33 bp):
TAAGCCCACAACTCCGTGGCACTTTTTTCTCTT
Found at i:190043 original size:61 final size:61
Alignment explanation
Indices: 189967--190179 Score: 275
Period size: 61 Copynumber: 3.4 Consensus size: 61
189957 TTTTCAAAGC
189967 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
* *
190028 CCATAACTCCGTGGCACCCTTCTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
* * *
190089 CCACAACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTTA
1 CCACAACTCCGTGGCACC-----C-TTTT-AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT-
*
190153 AAGC
58 AAGT
* *
190157 CCACAGCTCCGTGGCACTCTTTT
1 CCACAACTCCGTGGCACCCTTTT
190180 CCCGTTTAAG
Statistics
Matches: 133, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
61 75 0.56
62 4 0.03
63 1 0.01
66 1 0.01
67 7 0.05
68 45 0.34
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (61 bp):
CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
Found at i:190213 original size:34 final size:34
Alignment explanation
Indices: 190044--190438 Score: 176
Period size: 34 Copynumber: 12.5 Consensus size: 34
190034 CTCCGTGGCA
* *
190044 CCCTTCTAAGCCCACAACTCCGTGGCA-CTTTTT
1 CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* * * *
190077 TCATCTTTAAGTCCACAACTCTGTGGCA-CCTTTT
1 CCCT-TTTAAGCCCACAACTCCGTGGCACCCTTTT
* *
190111 TCTTTTTAAAGCCCACAACTCCGTGGCA-CCTTTT
1 CCCTTTT-AAGCCCACAACTCCGTGGCACCCTTTT
* * * *
190145 TCTTTTTAAAGCCCACAGCTCCGTGGCACTCTTTT
1 CCCTTTT-AAGCCCACAACTCCGTGGCACCCTTTT
*
190180 CCCGTTTAAGCCCACAACTCCGTGGCA-------
1 CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* * *
190207 CCCTTTTAAGTCCATAACTCAGTGGCA-CC--TT
1 CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* * ** * *
190238 CTCATCAAAGTCCACAACTTCGTGGCACCC---T
1 CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* * *
190269 ---TTTAAAGCCCACAACTTCGTGGCACTCGTTTT
1 CCCTTTTAAGCCCACAACTCCGTGGCAC-CCTTTT
* *
190301 -CCTTCTAAGTCCACAACTCCGTGGCA-------
1 CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* *
190327 CCCGTTTAAGCCCACAACTCTGTGGCA-------
1 CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* *
190354 CCCTTTTAAGTCCACGACTCCGTGGCACCCTTTTT
1 CCCTTTTAAGCCCACAACTCCGTGGCACCC-TTTT
* * * *
190389 TCCTTTAAAGCCCACAACTACGTGGCACTCTTTT
1 CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
*
190423 -CCTTTTAAGTCCACAA
1 CCCTTTTAAGCCCACAA
190439 GTCGGTAGCA
Statistics
Matches: 289, Mismatches: 50, Indels: 46
0.75 0.13 0.12
Matches are distributed among these distances:
27 68 0.24
28 22 0.08
29 1 0.00
31 21 0.07
32 3 0.01
33 19 0.07
34 122 0.42
35 33 0.11
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.31
Consensus pattern (34 bp):
CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
Found at i:190324 original size:62 final size:61
Alignment explanation
Indices: 189865--190467 Score: 263
Period size: 61 Copynumber: 9.6 Consensus size: 61
189855 TCTCTGCTCA
* * *
189865 AAGTCCACGACTCCGTGGCACCTCCCTTTCT-AAGCCTACAACTCCGTGGCACTCTTTTTCCCTT
1 AAGTCCACAACTCCGTGGCA---CCCTTT-TAAAGCCCACAACTTCGTGGCACTC-TTTT-CCTT
*
189929 TT
60 CT
* * *
189931 AAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCA--C----CCTTTT
1 -AAGTCCACAACTCCGTGGCACC--CTTTT-AAAGCCCACAACTTCGTGGCACTCTTTTCCTTCT
* ** * * *
189990 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCATAACTCCGTGGCA--C----CCTT
1 AAGTCCACAACTCCGTGGCACCCTTTT-A-----AAGCCCACAACTTCGTGGCACTCTTTTCCTT
190049 CT
60 CT
* ** * *
190051 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAAC-TCTGTGGCAC-CTTTTTCT
1 AAGTCCACAACTCCGTGGCACCCTTTT-A-----AAGCCCACAACTTC-GTGGCACTC-TTTTCC
*
190114 TTTT
58 TTCT
* * *
190118 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAGCTCCGTGGCACTCTTTTCCC
1 -AAGTCCACAACTCCGTGGCACC-----C-TTTTAAAGCCCACAACTTCGTGGCACTCTTTT-CC
190183 GTT-T
58 -TTCT
* * * * * *
190187 AAGCCCACAACTCCGTGGCACCCTTTT-AAGTCCATAAC-TCAGTGGCAC-CTTCT-CATCA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTTC-GTGGCACTCTTTTCCTTCT
*
190245 AAGTCCACAACTTCGTGGCACCCTTTTAAAGCCCACAACTTCGTGGCACTCGTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTTCGTGGCACTC-TTTTCCTTCT
* *
190307 AAGTCCACAACTCCGTGGCACCCGTTT-AAGCCCACAAC-TCTGTGGCA--C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTTC-GTGGCACTCTTTTCCTTCT
* *
190361 AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCT
1 AAGTCCACAACTCCGTGGCACCC-----T--TTTAAAGCCCACAACTTCGTGGCACTCTTTTCCT
*
190426 TTT
59 TCT
* * * *
190429 AAGTCCACAAGTCGGTAGCAACCCTTCTCAAAGCCCACA
1 AAGTCCACAACTCCGTGGC-ACCCTT-TTAAAGCCCACA
190468 CAAGTCGGTG
Statistics
Matches: 441, Mismatches: 43, Indels: 108
0.74 0.07 0.18
Matches are distributed among these distances:
54 27 0.06
56 6 0.01
57 1 0.00
58 45 0.10
59 23 0.05
60 11 0.02
61 112 0.25
62 51 0.12
63 13 0.03
64 4 0.01
65 2 0.00
66 4 0.01
67 43 0.10
68 84 0.19
69 8 0.02
70 2 0.00
73 1 0.00
74 4 0.01
ACGTcount: A:0.21, C:0.35, G:0.14, T:0.30
Consensus pattern (61 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTTCGTGGCACTCTTTTCCTTCT
Found at i:190346 original size:120 final size:115
Alignment explanation
Indices: 189865--190438 Score: 358
Period size: 120 Copynumber: 4.6 Consensus size: 115
189855 TCTCTGCTCA
* * * *
189865 AAGTCCACGACTCCGTGGCACCTCCCTTTCT-AAGCCTACAACTCCGTGGCACTCTTTTTCCCTT
1 AAGTCCACAACTCCGTGGCA---CCCTTTTTAAAGCCCACAACTACGTGGCACTC-TTTT-CC-T
* * *
189929 TTAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTT
60 TT-AAGTCCACAACTCCGTGGCACC--CGTTT--AAGCCCACAACTCAGTGGCACCCTTTT
* * * * * *
189990 AAGCCCACAACTCCGTGGCA-CTTTTTTCATCTTTAAGTCCATAACTCCGTGGCAC-C-CTT-C-
1 AAGTCCACAACTCCGTGGCACCCTTTTT-A-----AAGCCCACAACTACGTGGCACTCTTTTCCT
* * *
190050 -TAAGCCCACAACTCCGTGGCACTTTTTTCATC-TTTAAGTCCACAACTCTGTGGCACCTTTTTC
60 TTAAGTCCACAACTCCGTGGCAC------C--CGTTTAAGCCCACAACTCAGTGGCACC-----C
190113 TTTTT
112 -TTTT
* * *
190118 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAGCTCCGTGGCACTCTTTTCCC
1 -AAGTCCACAACTCCGTGGCACC-----CTTTTTAAAGCCCACAACTACGTGGCACTCTTTT-CC
* * * *
190183 GTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCAGTGGCA-CCTTCTCAT
59 -TTTAAGTCCACAACTCCGTGGCACCCGTTTAAGCCCACAACTCAGTGGCACCCTT-T--T
* *
190243 CAAAGTCCACAACTTCGTGGCACCC-TTTTAAAGCCCACAACTTCGTGGCACTCGTTTTCCTTCT
1 --AAGTCCACAACTCCGTGGCACCCTTTTTAAAGCCCACAACTACGTGGCACTC-TTTTCCTT-T
*
190307 AAGTCCACAACTCCGTGGCACCCGTTTAAGCCCACAACTCTGTGGCACCCTTTT
62 AAGTCCACAACTCCGTGGCACCCGTTTAAGCCCACAACTCAGTGGCACCCTTTT
*
190361 AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCT
1 AAGTCCACAACTCCGTGGCACCC----TT--TTTAAAGCCCACAACTACGTGGCACTCTTTTCC-
190426 TTTAAGTCCACAA
59 TTTAAGTCCACAA
190439 GTCGGTAGCA
Statistics
Matches: 368, Mismatches: 32, Indels: 101
0.73 0.06 0.20
Matches are distributed among these distances:
116 21 0.06
118 1 0.00
119 21 0.06
120 73 0.20
121 15 0.04
122 39 0.11
123 31 0.08
124 3 0.01
125 24 0.07
126 21 0.06
127 2 0.01
128 24 0.07
129 59 0.16
130 3 0.01
131 2 0.01
133 1 0.00
134 1 0.00
135 5 0.01
136 22 0.06
ACGTcount: A:0.21, C:0.35, G:0.14, T:0.30
Consensus pattern (115 bp):
AAGTCCACAACTCCGTGGCACCCTTTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTTAAGT
CCACAACTCCGTGGCACCCGTTTAAGCCCACAACTCAGTGGCACCCTTTT
Found at i:190360 original size:89 final size:89
Alignment explanation
Indices: 190249--190416 Score: 225
Period size: 89 Copynumber: 1.9 Consensus size: 89
190239 TCATCAAAGT
* * *
190249 CCACAACTTCGTGGCACCCTTTTAAAGCCCACAACTTCGTGGCACTC-GTTTTCCTTCT-AAGTC
1 CCACAACTTCGTGGCACCCTTTT-AAGCCCACAACTCCGTGGCACCCTGTTTTCCTT-TAAAGCC
*
190312 CACAACTCCGTGGCACCCGTTTAAGC
64 CACAACTACGTGGCACCCGTTTAAGC
* * *
190338 CCACAAC-TCTGTGGCACCCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTAAAGCCC
1 CCACAACTTC-GTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCCTGTTTTCCTTTAAAGCCC
190402 ACAACTACGTGGCAC
65 ACAACTACGTGGCAC
190417 TCTTTTCCTT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
88 22 0.32
89 47 0.68
ACGTcount: A:0.21, C:0.36, G:0.15, T:0.27
Consensus pattern (89 bp):
CCACAACTTCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCCTGTTTTCCTTTAAAGCCCA
CAACTACGTGGCACCCGTTTAAGC
Found at i:190413 original size:35 final size:33
Alignment explanation
Indices: 190355--190438 Score: 105
Period size: 35 Copynumber: 2.5 Consensus size: 33
190345 TCTGTGGCAC
* * *
190355 CCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTT
1 CCTTTTAAGTCCACAACTACGTGGCA--CTCTTTT
* *
190390 CCTTTAAAGCCCACAACTACGTGGCACTCTTTT
1 CCTTTTAAGTCCACAACTACGTGGCACTCTTTT
190423 CCTTTTAAGTCCACAA
1 CCTTTTAAGTCCACAA
190439 GTCGGTAGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 20 0.48
35 22 0.52
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.33
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTACGTGGCACTCTTTT
Found at i:190500 original size:33 final size:32
Alignment explanation
Indices: 190434--190528 Score: 149
Period size: 33 Copynumber: 3.0 Consensus size: 32
190424 CTTTTAAGTC
*
190434 CACAAGTCGGTAGCAACCCTTCTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTCAAAGCCCA
*
190466 CACAAGTCGGTGGCAACCATTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTC-AAAGCCCA
190499 CACAAGTCGGTGGCAACCCTTCT--AAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTCAAAGCCCA
190529 ATATAGCTGG
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
30 7 0.12
32 22 0.37
33 30 0.51
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCTTCTCAAAGCCCA
Found at i:190648 original size:49 final size:49
Alignment explanation
Indices: 190521--191132 Score: 797
Period size: 49 Copynumber: 12.7 Consensus size: 49
190511 GCAACCCTTC
* *
190521 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
190570 CTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCATCTT
1 -TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
190620 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
190669 TAAGGCCAATGTAGCTGGCCTTGAATTAGCACATTGGCA----C-T-TT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
190712 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAACTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
190761 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
190810 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
190859 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
190908 TAAGTCCAATGTTGCTGGCCTTGACTCAACACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
190957 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
191005 TAAGTCCAATGTA---GGCCTTGAATCAGCACACTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
191045 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* *
191097 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTG
191133 ACATCTTTTT
Statistics
Matches: 498, Mismatches: 46, Indels: 34
0.86 0.08 0.06
Matches are distributed among these distances:
40 15 0.03
42 1 0.00
43 57 0.11
44 1 0.00
45 23 0.05
47 1 0.00
48 19 0.04
49 296 0.59
50 49 0.10
52 36 0.07
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:191054 original size:40 final size:41
Alignment explanation
Indices: 190999--191088 Score: 128
Period size: 43 Copynumber: 2.2 Consensus size: 41
190989 ATTGGCACCT
*
190999 CACCTTTAAGTCCAATGTA-GGCCTTGAATCAGCACACTGG
1 CACCTTTAAGTCCAATATACGGCCTTGAATCAGCACACTGG
* *
191039 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATA-C-GGCCTTGAATCAGCACACTGG
191082 CACCTTT
1 CACCTTT
191089 TCCATCTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
40 18 0.41
43 26 0.59
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (41 bp):
CACCTTTAAGTCCAATATACGGCCTTGAATCAGCACACTGG
Found at i:191081 original size:88 final size:91
Alignment explanation
Indices: 190954--191129 Score: 259
Period size: 88 Copynumber: 1.9 Consensus size: 91
190944 GCACCTTCAT
*
190954 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-T-CACCTTTAAGTCCAATGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCCACCTTTAAGTCCAATGT
191017 A-GGCCTTGAATCAGCACACTGGCAC
66 ACGGCCTTGAATCAGCACACTGGCAC
* * *
191042 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TTCCACCTTTAAGTCCAAT
191107 GTAGCTGGCCTTGAATCAGCACA
64 GTA-C-GGCCTTGAATCAGCACA
191130 TTGACATCTT
Statistics
Matches: 77, Mismatches: 4, Indels: 7
0.88 0.05 0.08
Matches are distributed among these distances:
88 42 0.55
91 1 0.01
92 17 0.22
95 17 0.22
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (91 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCCACCTTTAAGTCCAATGT
ACGGCCTTGAATCAGCACACTGGCAC
Found at i:191120 original size:52 final size:53
Alignment explanation
Indices: 191042--191195 Score: 184
Period size: 52 Copynumber: 2.9 Consensus size: 53
191032 ACACTGGCAC
191042 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * * *
191094 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-CTTTTCTCAT
* * * * * *
191149 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
191196 ATCACTTTTC
Statistics
Matches: 83, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
52 38 0.46
53 4 0.05
54 5 0.06
55 36 0.43
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:191177 original size:55 final size:54
Alignment explanation
Indices: 191042--191195 Score: 195
Period size: 55 Copynumber: 2.9 Consensus size: 54
191032 ACACTGGCAC
*
191042 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-CTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCCAT
* * * *
191094 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTC-CAT
* * * * *
191149 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTT
191196 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 38 0.45
53 1 0.01
54 5 0.06
55 41 0.48
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCCAT
Found at i:191253 original size:67 final size:68
Alignment explanation
Indices: 191145--191271 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
191135 ATCTTTTTTC
* * *
191145 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
191209 TCT
66 TCT
* * * *
191212 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
191272 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:191986 original size:21 final size:21
Alignment explanation
Indices: 191936--191986 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
191926 TCACATTTTA
**
191936 GTCCAAATGTATCGATACATT
1 GTCCAAATGTATCGATACAAG
* *
191957 GTTCTAATGTATCGATACAAG
1 GTCCAAATGTATCGATACAAG
*
191978 GTCCCAATG
1 GTCCAAATG
191987 GTCAAAAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (21 bp):
GTCCAAATGTATCGATACAAG
Found at i:195528 original size:13 final size:13
Alignment explanation
Indices: 195512--195536 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
195502 TTCTTCTTTC
195512 TTTTTTAATTTTA
1 TTTTTTAATTTTA
195525 TTTTTTAATTTT
1 TTTTTTAATTTT
195537 TCTCTTTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTAATTTTA
Found at i:203322 original size:104 final size:104
Alignment explanation
Indices: 203137--203329 Score: 307
Period size: 104 Copynumber: 1.9 Consensus size: 104
203127 GAAAATTTAT
*
203137 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGA
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGA
***
203202 TACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
66 TACATAAGATAATGTATCGATACATCTGGGCAAATTTGC
*
203241 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGA
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGA
**
203306 TACA-AAGATCGGTGTATCGATACA
66 TACATAAGAT-AATGTATCGATACA
203330 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 2 0.02
104 79 0.98
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (104 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGA
TACATAAGATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:203329 original size:52 final size:52
Alignment explanation
Indices: 203137--203309 Score: 328
Period size: 52 Copynumber: 3.3 Consensus size: 52
203127 GAAAATTTAT
* *
203137 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
203189 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
203241 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
203293 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
203310 AAGATCGGTG
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 119 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:203336 original size:13 final size:13
Alignment explanation
Indices: 203318--203342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
203308 CAAAGATCGG
203318 TGTATCGATACAA
1 TGTATCGATACAA
203331 TGTATCGATACA
1 TGTATCGATACA
203343 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:203410 original size:21 final size:20
Alignment explanation
Indices: 203382--203420 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
203372 GCAGTAGCTT
203382 AAATTGTATCGATACAAAAA
1 AAATTGTATCGATACAAAAA
203402 AAATATGTATCGATACAAA
1 AAAT-TGTATCGATACAAA
203421 TCGTTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (20 bp):
AAATTGTATCGATACAAAAA
Found at i:206181 original size:22 final size:22
Alignment explanation
Indices: 206147--206188 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
206137 ATTTTTTGAT
206147 TTGACAAAAGGGGAGAAATACG
1 TTGACAAAAGGGGAGAAATACG
* *
206169 TTGATAAAGGGGGAGAAATA
1 TTGACAAAAGGGGAGAAATA
206189 TGAGAAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.33, T:0.17
Consensus pattern (22 bp):
TTGACAAAAGGGGAGAAATACG
Found at i:206823 original size:20 final size:19
Alignment explanation
Indices: 206777--206833 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
206767 TTGTATCGAT
* *
206777 ACATTTTATCGATACATGT
1 ACATTGTATCGATACATGG
*
206796 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
206815 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
206834 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:206901 original size:13 final size:13
Alignment explanation
Indices: 206883--206907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
206873 CATAGGACAT
206883 TGTATCGATACAA
1 TGTATCGATACAA
206896 TGTATCGATACA
1 TGTATCGATACA
206908 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:206905 original size:33 final size:33
Alignment explanation
Indices: 206863--206927 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
206853 TACCACTGTT
206863 TGTATCGATACAT-AGGACATTGTATCGATACAA
1 TGTATCGATACATGAGGA-ATTGTATCGATACAA
*
206896 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGAGGAATTGTATCGATACA
206928 TTGATTATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGAGGAATTGTATCGATACAA
Found at i:210776 original size:13 final size:13
Alignment explanation
Indices: 210758--210782 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
210748 CATAAAATGT
210758 TGTATCGATACAA
1 TGTATCGATACAA
210771 TGTATCGATACA
1 TGTATCGATACA
210783 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:210863 original size:13 final size:13
Alignment explanation
Indices: 210845--210869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
210835 ATTACTCAAA
210845 TGTATCGATACAT
1 TGTATCGATACAT
210858 TGTATCGATACA
1 TGTATCGATACA
210870 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:210934 original size:52 final size:52
Alignment explanation
Indices: 210878--211002 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
210868 CACTGATCTT
*
210878 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
210930 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
210982 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
211003 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:216698 original size:13 final size:13
Alignment explanation
Indices: 216680--216705 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
216670 CATTGAAGCA
216680 TGTATCGATACAT
1 TGTATCGATACAT
216693 TGTATCGATACAT
1 TGTATCGATACAT
216706 GGGTTACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:220446 original size:156 final size:153
Alignment explanation
Indices: 219956--220580 Score: 587
Period size: 156 Copynumber: 4.0 Consensus size: 153
219946 TAATTTTTCT
* * * * **
219956 GTCATTTAGGCTTACTAGGATATTTTCATATCGAAAGTATACATATAGAAGCATTTTCATAATTT
1 GTCATTTAGG-TTACCAAGATATTTTCATATCGAAGGTATACCTATAGGGGCATTTTCATAATTT
*
220021 TTTCAAAATCGAGT-TCTAGGTTGTCACGGGATGCTTTTATGCAAAAGGTGAG-ATTTAGGATAG
65 TTTCAAAACCGAGTCT-TAGGTTGTCACGGGATGCTTTTATGCAAAAGGT-AGTATTTAGGATAG
* *
220084 GTTTATCGCATTTATGATCCTTTTTAA
128 GTTCATCCCATTTATGAT-CTTTTTAA
* * *
220111 GT-ACTTTAAGGTTACCAAGATACTTTCATGTCGAAGGTATACCCATAGGGGCATTTTCATAATT
1 GTCA-TTT-AGGTTACCAAGATATTTTCATATCGAAGGTATACCTATAGGGGCATTTTCATAA-T
* * * * * *
220175 TTTTTCAGAACCGAGTCCTAGATTGTTACCAGGATGCTTTTATGCTAAAGGTAGATATTTAGGAT
63 TTTTTCAAAACCGAGTCTTAGGTTGTCA-CGGGATGCTTTTATGCAAAAGGTAG-TATTTAGGAT
* * * *
220240 AGGCTCATCCCATCTATAACCTTTTTAA
126 AGGTTCATCCCATTTATGATCTTTTTAA
* * * *
220268 GTCCTTTAGGGTTACCAAGATATTTTCATGTCGAAGGTATACCTTTGGGGGCATTTTCATAATTT
1 GTCATTTA-GGTTACCAAGATATTTTCATATCGAAGGTATACCTATAGGGGCATTTTCATAATTT
* * * * * *
220333 TTACAAAACCAAGTCTTAGGTTGTCATTGGGATGCTTTTATACCAAAGGTAAGTATTTATGATAG
65 TTTCAAAACCGAGTCTTAGGTTGTCA-CGGGATGCTTTTATGCAAAAGGT-AGTATTTAGGATAG
*
220398 GTTCATCTCATTTATGATCTTTTTCAA
128 GTTCATCCCATTTATGATCTTTTT-AA
** * * ** *
220425 GTCATTTAGGATTA-CTGGATATTTTCATATCAAAGGTATACTTATAGAAAGCATTTTCGTAA-T
1 GTCATTTAGG-TTACCAAGATATTTTCATATCGAAGGTATACCTATAG-GGGCATTTTCATAATT
* * * * * * *
220488 TTTTCAGAACTGAGTCTTAAGCTATCACTGGGATGCTTTTATGTCAAAAGTGT-GCATCTAGGAT
64 TTTTCAAAACCGAGTCTTAGGTTGTCAC-GGGATGCTTTTATG-CAAAAG-GTAGTATTTAGGAT
* * *
220552 AGGTTCGTCCTATTTATGCTCATTTTTAA
126 AGGTTCATCCCATTTATGATC-TTTTTAA
220581 AGTCCATTAG
Statistics
Matches: 381, Mismatches: 72, Indels: 33
0.78 0.15 0.07
Matches are distributed among these distances:
154 1 0.00
155 47 0.12
156 190 0.50
157 118 0.31
158 25 0.07
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (153 bp):
GTCATTTAGGTTACCAAGATATTTTCATATCGAAGGTATACCTATAGGGGCATTTTCATAATTTT
TTCAAAACCGAGTCTTAGGTTGTCACGGGATGCTTTTATGCAAAAGGTAGTATTTAGGATAGGTT
CATCCCATTTATGATCTTTTTAA
Found at i:220552 original size:312 final size:311
Alignment explanation
Indices: 219960--220554 Score: 668
Period size: 312 Copynumber: 1.9 Consensus size: 311
219950 TTTTCTGTCA
* * *
219960 TTTAGGCTTACTAGGATATTTTCATATCGAAAGTATACATATAGAAGCATTTTCATAATTTTTTC
1 TTTAGGCTTACCAAGATATTTTCATATCGAAAGTATACATATAGAAGCATTTTCATAATTTTTAC
* * * * *
220025 AAAATCGAGTTCTAGGTTGTCACGGGATGCTTTTATGCAAAAGGTGAGATTTAGGATAGGTTTAT
66 AAAACCAAGTTCTAGGTTGTCACGGGATGCTTTTATACAAAAGGTAAGATTTAGGATAGGTTCAT
* *
220090 CGCATTTATGATCCTTTTTAAGTACTTTAAGGTTACCAAGATACTTTCATGTCGAAGGTATACCC
131 CGCATTTATGATCCTTTTTAAGTACTTTAAGGTTACCAAGATACTTTCATATCAAAGGTATACCC
** * * *
220155 ATAGGGGCATTTTCATAATTTTTTTCAGAACCGAGTCCTAGATTGTTACCAGGATGCTTTTATGC
196 ATAGAAGCATTTTCATAA-TTTTTTCAGAACCGAGTCCTAGACTATCACCAGGATGCTTTTATGC
* * *
220220 TAAAGGTAGATATTTAGGATAGGCTCATCCCATCTATAACCTTTTTAAGTCC
260 AAAAGGTAGACATCTAGGATAGGCTCATCCCATCTATAACCTTTTTAAGTCC
* * * * * * **
220272 TTTAGGGTTACCAAGATATTTTCATGTCGAAGGTATACCTTTGGGGGCATTTTCATAATTTTTAC
1 TTTAGGCTTACCAAGATATTTTCATATCGAAAGTATACATATAGAAGCATTTTCATAATTTTTAC
* * *
220337 AAAACCAAG-TCTTAGGTTGTCATTGGGATGCTTTTATACCAAAGGTAAGTATTTATGATAGGTT
66 AAAACCAAGTTC-TAGGTTGTCA-CGGGATGCTTTTATACAAAAGGTAAG-ATTTAGGATAGGTT
* ** *
220401 CATCTCATTTATGAT-CTTTTTCAAGT-CATTT-AGGATTA-CTGGATATTTTCATATCAAAGGT
128 CATCGCATTTATGATCCTTTTT-AAGTAC-TTTAAGG-TTACCAAGATACTTTCATATCAAAGGT
** * * * **
220462 ATACTTATAGAAAGCATTTTCGTAA-TTTTTCAGAACTGAGTCTTA-AGCTATCACTGGGATGCT
190 ATACCCATAG-AAGCATTTTCATAATTTTTTCAGAACCGAGTCCTAGA-CTATCACCAGGATGCT
220525 TTTATGTCAAAAGTGT-G-CATCTAGGATAGG
253 TTTATG-CAAAAG-GTAGACATCTAGGATAGG
220555 TTCGTCCTAT
Statistics
Matches: 233, Mismatches: 40, Indels: 20
0.80 0.14 0.07
Matches are distributed among these distances:
311 3 0.01
312 117 0.50
313 64 0.27
314 49 0.21
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (311 bp):
TTTAGGCTTACCAAGATATTTTCATATCGAAAGTATACATATAGAAGCATTTTCATAATTTTTAC
AAAACCAAGTTCTAGGTTGTCACGGGATGCTTTTATACAAAAGGTAAGATTTAGGATAGGTTCAT
CGCATTTATGATCCTTTTTAAGTACTTTAAGGTTACCAAGATACTTTCATATCAAAGGTATACCC
ATAGAAGCATTTTCATAATTTTTTCAGAACCGAGTCCTAGACTATCACCAGGATGCTTTTATGCA
AAAGGTAGACATCTAGGATAGGCTCATCCCATCTATAACCTTTTTAAGTCC
Found at i:225167 original size:20 final size:20
Alignment explanation
Indices: 225123--225180 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
225113 TAAAAAACCC
* * *
225123 AAATGTATTGATACAATGAT
1 AAATGTATCGATACATTTAT
225143 AAATGTATCGATACATTTAT
1 AAATGTATCGATACATTTAT
* *
225163 TAATGTATCAATACATTT
1 AAATGTATCGATACATTT
225181 CCTTAGCAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (20 bp):
AAATGTATCGATACATTTAT
Found at i:226412 original size:16 final size:17
Alignment explanation
Indices: 226391--226423 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
226381 AAAAATACAT
226391 CACAAAAAA-GACTATA
1 CACAAAAAATGACTATA
226407 CACAAAAAATGACTATA
1 CACAAAAAATGACTATA
226424 ATAAATTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.61, C:0.18, G:0.06, T:0.15
Consensus pattern (17 bp):
CACAAAAAATGACTATA
Found at i:227416 original size:23 final size:23
Alignment explanation
Indices: 227367--227416 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
227357 TTATTTAAAT
* * *
227367 TAAATAAATTTATTCAGGAATAT
1 TAAATAAATATATTCAGGAACAA
* *
227390 TAAATAAATATATTTATGAACAA
1 TAAATAAATATATTCAGGAACAA
227413 TAAA
1 TAAA
227417 CAAACAATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (23 bp):
TAAATAAATATATTCAGGAACAA
Found at i:227492 original size:15 final size:15
Alignment explanation
Indices: 227472--227532 Score: 54
Period size: 15 Copynumber: 4.0 Consensus size: 15
227462 TTTAATTTTT
227472 AATATAAAATAATAA
1 AATATAAAATAATAA
* *
227487 AATATAATATAATTAT
1 AATATAAAATAA-TAA
*
227503 GA-AT-AAATGAAATAA
1 AATATAAAAT--AATAA
227518 AATATAAAATAATAA
1 AATATAAAATAATAA
227533 TTTTATTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
14 3 0.09
15 21 0.60
16 7 0.20
17 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:227583 original size:23 final size:22
Alignment explanation
Indices: 227553--227604 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
227543 AAAATATAAT
227553 TAAA-TAATAAATAAACTTTTAA
1 TAAATTAATAAATAAA-TTTTAA
*
227575 TAAATTAATAAATGAATTTTAA
1 TAAATTAATAAATAAATTTTAA
*
227597 -ATATTAAT
1 TAAATTAAT
227605 TCATGAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 7 0.26
22 10 0.37
23 10 0.37
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAATTAATAAATAAATTTTAA
Found at i:227945 original size:14 final size:13
Alignment explanation
Indices: 227926--227986 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
227916 TAAAAAAAAT
227926 TAAATTTAATATCA
1 TAAATTTAATAT-A
*
227940 TAAATTAAATATA
1 TAAATTTAATATA
*
227953 TTAATTTAAT-TAA
1 TAAATTTAATAT-A
227966 TAAATTT-ATATA
1 TAAATTTAATATA
227978 -AAATTTAAT
1 TAAATTTAAT
227987 TAATTTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.15
12 6 0.15
13 17 0.43
14 11 0.28
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAATTTAATATA
Found at i:228078 original size:21 final size:20
Alignment explanation
Indices: 228053--228114 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
228043 TTTACATTTT
228053 TTAAAAATTAATTACTTATA
1 TTAAAAATTAATTACTTATA
* *
228073 TCTAAAAATTACTCA-TTAATA
1 T-TAAAAATTAATTACTT-ATA
228094 TTAAAAATTAAAATTACTTAT
1 TTAAAAATT--AATTACTTAT
228115 TTATTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
20 11 0.33
21 15 0.45
22 5 0.15
23 2 0.06
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAAAAATTAATTACTTATA
Found at i:228126 original size:26 final size:26
Alignment explanation
Indices: 228077--228125 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
228067 CTTATATCTA
228077 AAAATTACTCATTAATATTAAAAATT
1 AAAATTACTCATTAATATTAAAAATT
* *
228103 AAAATTACTTATTTAT-TTAAAAA
1 AAAATTACTCATTAATATTAAAAA
228126 AAATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (26 bp):
AAAATTACTCATTAATATTAAAAATT
Found at i:228138 original size:21 final size:22
Alignment explanation
Indices: 228076--228147 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 22
228066 ACTTATATCT
* *
228076 AAAAATTACTCATTAATATTAAAA
1 AAAAATTACTTATTTA-ATT-AAA
*
228100 ATTAAAATTACTTATTTATTTAAA
1 A--AAAATTACTTATTTAATTAAA
*
228124 AAAAATTA-TTTTTTAATTAAA
1 AAAAATTACTTATTTAATTAAA
228145 AAA
1 AAA
228148 TTACTCACAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
21 14 0.34
22 7 0.17
24 5 0.12
25 2 0.05
26 13 0.32
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAAATTACTTATTTAATTAAA
Found at i:228194 original size:19 final size:19
Alignment explanation
Indices: 228103--228194 Score: 51
Period size: 19 Copynumber: 4.4 Consensus size: 19
228093 ATTAAAAATT
228103 AAAATTACTTATTTATTTAAAA
1 AAAATTA-TT-TTTATTT-AAA
*
228125 AAAATTATTTTTTAATT-AA
1 AAAATTA-TTTTTATTTAAA
* ***
228144 AAAATTACTCACATTTTATAA
1 AAAATTATTTTTA-TTTA-AA
228165 AAATATTTTATTTTTATTTAAA
1 AAA-A--TTATTTTTATTTAAA
228187 AAAATTAT
1 AAAATTAT
228195 AAATTTTTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 15
0.67 0.14 0.19
Matches are distributed among these distances:
18 2 0.04
19 15 0.28
21 12 0.23
22 15 0.28
23 4 0.08
24 5 0.09
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (19 bp):
AAAATTATTTTTATTTAAA
Found at i:230074 original size:16 final size:17
Alignment explanation
Indices: 230047--230084 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
230037 ATTTGTCTCA
230047 TAATTA-ATTATAT-TT
1 TAATTATATTATATCTT
230062 TAATTATATTATATCTT
1 TAATTATATTATATCTT
230079 T-ATTAT
1 TAATTAT
230085 GAAAATTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.29
16 12 0.57
17 3 0.14
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATTATATTATATCTT
Found at i:231640 original size:13 final size:13
Alignment explanation
Indices: 231622--231646 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
231612 CATTTTAGGG
231622 TGTATCGATACAA
1 TGTATCGATACAA
231635 TGTATCGATACA
1 TGTATCGATACA
231647 TATTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:231662 original size:32 final size:33
Alignment explanation
Indices: 231599--231666 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
231589 CGTTACAAGC
*
231599 CAATGTATCGATACATTTTAGGGTGTATCGATA
1 CAATGTATCGATACATATTAGGGTGTATCGATA
*
231632 CAATGTATCGATACATATT-GTGTGTATCGATA
1 CAATGTATCGATACATATTAGGGTGTATCGATA
231664 CAA
1 CAA
231667 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 15 0.45
33 18 0.55
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATATTAGGGTGTATCGATA
Found at i:232448 original size:30 final size:30
Alignment explanation
Indices: 232376--232451 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 30
232366 CAAATTCGCA
232376 TTCTCCCCTTTAATCATAAACACTTATCTCT
1 TTCTCCCC-TTAATCATAAACACTTATCTCT
*
232407 TTCTCCCCCTTAATCATAAACTCTTATCTCT
1 TTCT-CCCCTTAATCATAAACACTTATCTCT
232438 TTCTCCCCTTAATC
1 TTCTCCCCTTAATC
232452 TATCTCTTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
30 10 0.23
31 29 0.67
32 4 0.09
ACGTcount: A:0.22, C:0.36, G:0.00, T:0.42
Consensus pattern (30 bp):
TTCTCCCCTTAATCATAAACACTTATCTCT
Found at i:232457 original size:21 final size:22
Alignment explanation
Indices: 232431--232472 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
232421 CATAAACTCT
232431 TATCTCTTTCT-CCCCTTAATC
1 TATCTCTTTCTCCCCCTTAATC
232452 TATCTCTTTCTCCCCCTTAAT
1 TATCTCTTTCTCCCCCTTAAT
232473 AAAAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.14, C:0.38, G:0.00, T:0.48
Consensus pattern (22 bp):
TATCTCTTTCTCCCCCTTAATC
Found at i:232711 original size:9 final size:9
Alignment explanation
Indices: 232697--232724 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
232687 ACTCAACATC
232697 ACTCGAACT
1 ACTCGAACT
232706 ACTCGAACT
1 ACTCGAACT
232715 ACTCGAACT
1 ACTCGAACT
232724 A
1 A
232725 GAACAAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.32, G:0.11, T:0.21
Consensus pattern (9 bp):
ACTCGAACT
Found at i:240432 original size:33 final size:32
Alignment explanation
Indices: 240390--240453 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
240380 GTTACAAGCC
*
240390 AATGTATCGATACATTTTAGGGTGTATCGATAT
1 AATGTATCGATACATATT-GGGTGTATCGATAT
*
240423 AATGTATCGATACATATTGTGTGTATCGATA
1 AATGTATCGATACATATTGGGTGTATCGATA
240454 AAAATTAGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (32 bp):
AATGTATCGATACATATTGGGTGTATCGATAT
Found at i:241890 original size:20 final size:20
Alignment explanation
Indices: 241843--241896 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
241833 TTTTAAGGTG
* *
241843 AATGTATCGATGCATTCCTT
1 AATGTATCGATACATTCATT
* *
241863 AATCTATCAATACATTCATT
1 AATGTATCGATACATTCATT
*
241883 TATGTATCGATACA
1 AATGTATCGATACA
241897 CTTAGGTACG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTCATT
Found at i:242390 original size:78 final size:78
Alignment explanation
Indices: 242303--242450 Score: 201
Period size: 78 Copynumber: 1.9 Consensus size: 78
242293 ACACAACCTT
* *
242303 AGACTCAATTTTAAGGTACTATTA-TCAAAATGATCTTAATGGACATATTTTGACAT-AAAGATT
1 AGACTCAATTTTAAGGTACTATTACT-AAAATAATCCTAATGGACATATTTTGACATAAAAG-TT
242366 CTCACATGACAATAA
64 CTCACATGACAATAA
* * * * *
242381 AGACTCAATTTTAAGGTGCTTTTACTTAAATAATCCTAATGGACATGTTTTGATATAAAAGTTCT
1 AGACTCAATTTTAAGGTACTATTACTAAAATAATCCTAATGGACATATTTTGACATAAAAGTTCT
242446 CACAT
66 CACAT
242451 AACCGTAAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
78 56 0.92
79 5 0.08
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (78 bp):
AGACTCAATTTTAAGGTACTATTACTAAAATAATCCTAATGGACATATTTTGACATAAAAGTTCT
CACATGACAATAA
Found at i:242677 original size:59 final size:59
Alignment explanation
Indices: 242592--242756 Score: 155
Period size: 59 Copynumber: 2.8 Consensus size: 59
242582 ATCCTAAAAG
* * * * * *
242592 TGAT-GAAAATTCCTATAATGACCTTAGATTATACAAAATACTCTAAAT-AGACCTAAAA
1 TGATAGAAAATTACTAAAATGGCCTTAGATTATAAAAAATAATCTAAATCA-ACCTAAGA
* *
242650 T-AT-GTAAAAATTACTAAAATGGCCTTAGATTTTAAAAAATAAT-TGAAATCATCCTAAGA
1 TGATAG--AAAATTACTAAAATGGCCTTAGATTATAAAAAATAATCT-AAATCAACCTAAGA
*
242709 TGATAGAAAA-TAC-AAAATGGTCCTTAGATTATATAAAATAATCTAAAT
1 TGATAGAAAATTACTAAAATGG-CCTTAGATTATAAAAAATAATCTAAAT
242757 TGCACTGAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
57 10 0.11
58 28 0.31
59 47 0.53
60 3 0.03
61 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.31
Consensus pattern (59 bp):
TGATAGAAAATTACTAAAATGGCCTTAGATTATAAAAAATAATCTAAATCAACCTAAGA
Found at i:242869 original size:18 final size:18
Alignment explanation
Indices: 242846--242882 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
242836 TGCAAAATGG
*
242846 TCCCTAAATCATGGAAAA
1 TCCCTAAATCATGAAAAA
242864 TCCCTAAATCATGAAAAA
1 TCCCTAAATCATGAAAAA
242882 T
1 T
242883 AACTAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.24
Consensus pattern (18 bp):
TCCCTAAATCATGAAAAA
Found at i:242888 original size:18 final size:18
Alignment explanation
Indices: 242849--242889 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
242839 AAAATGGTCC
* **
242849 CTAAATCATGGAAAATCC
1 CTAAATCATGAAAAATAA
242867 CTAAATCATGAAAAATAA
1 CTAAATCATGAAAAATAA
242885 CTAAA
1 CTAAA
242890 ATGGTCTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.17, G:0.07, T:0.22
Consensus pattern (18 bp):
CTAAATCATGAAAAATAA
Found at i:242925 original size:58 final size:58
Alignment explanation
Indices: 242862--243151 Score: 262
Period size: 57 Copynumber: 5.0 Consensus size: 58
242852 AATCATGGAA
* *
242862 AATCCCTAAATCATGAAAAATAACTAAAATGGTCTTAAAATGAATTAAATTACACAAT
1 AATCCCTAAATCATGAAAAATAACTAAAATGGTCTTAAAATGCATGAAATTACACAAT
* * * * * *
242920 AATCCCTTAATCATGGAAAATGACAAAAATAGTCTT-TAATGCATGAAATTACATC-AT
1 AATCCCTAAATCATGAAAAATAACTAAAATGGTCTTAAAATGCATGAAATTACA-CAAT
* * ** * *
242977 GATCCCTAAATCATGGAAAATAACTAAAATAATCTTAAAATGCATGAAAAATACATAAT
1 AATCCCTAAATCATGAAAAATAACTAAAATGGTCTTAAAATGCATG-AAATTACACAAT
** * * * * * *
243036 AATCTTTAAATCATGAAAAATTACTCAAAGGGTCCTAAAATGCATGAAGTTACATAAT
1 AATCCCTAAATCATGAAAAATAACTAAAATGGTCTTAAAATGCATGAAATTACACAAT
** * * * * * * *
243094 GGTACCTAAATCTTCAAAAATGACT-AAATGGTCTTAAAATGTATGAAGTTACATAAT
1 AATCCCTAAATCATGAAAAATAACTAAAATGGTCTTAAAATGCATGAAATTACACAAT
243151 A
1 A
243152 GTCTCTAATA
Statistics
Matches: 188, Mismatches: 40, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
57 76 0.40
58 67 0.36
59 45 0.24
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (58 bp):
AATCCCTAAATCATGAAAAATAACTAAAATGGTCTTAAAATGCATGAAATTACACAAT
Found at i:243015 original size:29 final size:28
Alignment explanation
Indices: 242983--243056 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 28
242973 TCATGATCCC
*
242983 TAAATCATGGAAAATAACTAAAATAATCTT
1 TAAATCATGAAAAAT-AC-AAAATAATCTT
* *
243013 AAAATGCATGAAAAATACATAATAATCTT
1 TAAAT-CATGAAAAATACAAAATAATCTT
243042 TAAATCATGAAAAAT
1 TAAATCATGAAAAAT
243057 TACTCAAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 10 0.26
29 14 0.36
30 6 0.15
31 9 0.23
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.28
Consensus pattern (28 bp):
TAAATCATGAAAAATACAAAATAATCTT
Found at i:244452 original size:20 final size:21
Alignment explanation
Indices: 244423--244463 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
244413 ATACTATATA
* *
244423 ATATTTATACATTTTG-AATT
1 ATATTGATACAATTTGCAATT
244443 ATATTGATACAATTTGCAATT
1 ATATTGATACAATTTGCAATT
244464 GTACTAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (21 bp):
ATATTGATACAATTTGCAATT
Done.