Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 177 of 318
Found at i:55646405 original size:38 final size:37
Alignment explanation
Indices: 55646361--55646480 Score: 132
Period size: 38 Copynumber: 3.1 Consensus size: 37
55646351 TTTAAACTTA
55646361 GATATAATACCAGCATTAGGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCATTA-GCCTGCGGGATTTAACCCG
** *
55646399 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCA
1 GATATAATACCAGCA-TTAGCCTGCGGGATTTAACCCG
*** *
55646437 GATATAATTTTAGCATATAGCCTGCGGGTCTTTAAGCCCG
1 GATATAATACCAGCAT-TAGCCTGCGGG-ATTTAA-CCCG
55646477 GATA
1 GATA
55646481 CACATCAAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
38 55 0.81
39 6 0.09
40 7 0.10
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (37 bp):
GATATAATACCAGCATTAGCCTGCGGGATTTAACCCG
Found at i:55646461 original size:76 final size:80
Alignment explanation
Indices: 55646324--55646480 Score: 189
Period size: 78 Copynumber: 2.0 Consensus size: 80
55646314 AAACCCAAAC
**
55646324 ATAACACCAGCACGAAGCCTACAGGACTTTAAACTTAGATATAATACCAGCATTAGGCCTGCGGG
1 ATAACACCAGCACGAAGCCTACAGGACTTTAAACCCAGATATAATACCAGCATTAGGCCTGCGGG
55646389 -ATTTAA-CCCGGAT
66 TATTTAAGCCCGGAT
* * * ***
55646402 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCAGATATAATTTTAGCATATA-GCCTGCGG
1 ATAACACCAGCACGAAGCCTACAGGACTTTAAACCCAGATATAATACCAGCAT-TAGGCCTGCGG
*
55646464 GTCTTTAAGCCCGGAT
65 GTATTTAAGCCCGGAT
55646480 A
1 A
55646481 CACATCAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
76 26 0.39
77 10 0.15
78 31 0.46
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (80 bp):
ATAACACCAGCACGAAGCCTACAGGACTTTAAACCCAGATATAATACCAGCATTAGGCCTGCGGG
TATTTAAGCCCGGAT
Found at i:55653971 original size:15 final size:17
Alignment explanation
Indices: 55653951--55653989 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
55653941 CTCCTTTCAA
55653951 CAAAAAAATT-G-TTTT
1 CAAAAAAATTAGATTTT
55653966 CAAAAAAATTAGATTTTT
1 CAAAAAAATTAGA-TTTT
55653984 CAAAAA
1 CAAAAA
55653990 TACCCTCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 1 0.05
18 10 0.48
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (17 bp):
CAAAAAAATTAGATTTT
Found at i:55657855 original size:13 final size:13
Alignment explanation
Indices: 55657837--55657861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55657827 AATATTGCAT
55657837 GAAAATTTTTATA
1 GAAAATTTTTATA
55657850 GAAAATTTTTAT
1 GAAAATTTTTAT
55657862 CAATTATGTG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
GAAAATTTTTATA
Found at i:55658342 original size:20 final size:22
Alignment explanation
Indices: 55658319--55658359 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
55658309 GCTGTAAACA
*
55658319 GAAAGTTTA-TGATA-AGAAAT
1 GAAAGGTTATTGATAGAGAAAT
55658339 GAAAGGTTATTGATAGAGAAA
1 GAAAGGTTATTGATAGAGAAA
55658360 CCACTTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (22 bp):
GAAAGGTTATTGATAGAGAAAT
Found at i:55659027 original size:32 final size:32
Alignment explanation
Indices: 55658991--55659052 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
55658981 AAAGGGTGAT
* *
55658991 ACTTGAAAAGGTTACGTGCACTTTGTGTGTAC
1 ACTTGAAAAGGTTACGTACACATTGTGTGTAC
55659023 ACTTGAAAAGGTTACGTACACATTGTGTGT
1 ACTTGAAAAGGTTACGTACACATTGTGTGT
55659053 GTAACACCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (32 bp):
ACTTGAAAAGGTTACGTACACATTGTGTGTAC
Found at i:55672143 original size:20 final size:20
Alignment explanation
Indices: 55672077--55672143 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
55672067 ATTTTAGTAA
*
55672077 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
55672097 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
*
55672117 GCATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
55672137 ACATGAT
1 ACATGAT
55672144 GTATTCAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:55672224 original size:23 final size:23
Alignment explanation
Indices: 55672194--55672242 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
55672184 AGGAAGTGCA
55672194 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
55672217 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
55672240 AAA
1 AAA
55672243 AGAGGCTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:55672492 original size:31 final size:31
Alignment explanation
Indices: 55672457--55672516 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
55672447 CGTTTACAGT
55672457 AAAGGCTTCGGCCCAGTAATATGAAATATAA
1 AAAGGCTTCGGCCCAGTAATATGAAATATAA
**
55672488 AAAGGCTTCGGCCCAGTGTTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
55672517 GAAATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATAA
Found at i:55676582 original size:40 final size:40
Alignment explanation
Indices: 55676481--55676692 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
55676471 TATTCGAATG
* * *
55676481 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * *
55676522 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
55676562 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
55676602 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
55676642 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
55676681 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55676693 ATCCTGAAGA
Statistics
Matches: 145, Mismatches: 26, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
38 6 0.04
39 15 0.10
40 96 0.66
41 28 0.19
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:55683483 original size:20 final size:20
Alignment explanation
Indices: 55683416--55683483 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
55683406 GATTTTAGTA
*
55683416 AACATGGTATGTATGATATG
1 AACATGATATGTATGATATG
* * * *
55683436 CACATGACATTTATGCTATG
1 AACATGATATGTATGATATG
*
55683456 CACATGATATGTATGATATG
1 AACATGATATGTATGATATG
55683476 AACATGAT
1 AACATGAT
55683484 GTATTCATAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (20 bp):
AACATGATATGTATGATATG
Found at i:55683564 original size:23 final size:23
Alignment explanation
Indices: 55683534--55683606 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
55683524 AGGAAGTGCA
55683534 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
55683557 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
55683580 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
55683604 AAA
1 AAA
55683607 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:55683623 original size:25 final size:24
Alignment explanation
Indices: 55683533--55683627 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
55683523 GAGGAAGTGC
55683533 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
55683557 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
55683580 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
55683604 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
55683628 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.35
24 31 0.48
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:55683856 original size:31 final size:31
Alignment explanation
Indices: 55683821--55683880 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
55683811 CGTTTACAGT
55683821 AAAGGCTTCGGCCCAGTAATATGAAATATAA
1 AAAGGCTTCGGCCCAGTAATATGAAATATAA
**
55683852 AAAGGCTTCGGCCCAGTGTTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
55683881 GAAATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATAA
Found at i:55687312 original size:131 final size:131
Alignment explanation
Indices: 55687078--55687339 Score: 497
Period size: 131 Copynumber: 2.0 Consensus size: 131
55687068 TTTTGCCAAG
*
55687078 CCTAAGCACCATCAACAACACATGTTAGTGCATCAACTAACAGTTCACTTGAACTGACATAAGGT
1 CCTAAGCACCATCAACAACACATGTTAGTGCATCAACTAACAATTCACTTGAACTGACATAAGGT
55687143 AAGTCATTATACATGAAAAAATTCATTTGAAATCATCATTTTCATGAACATATATATACTTTCAT
66 AAGTCATTATACATGAAAAAATTCATTTGAAATCATCATTTTCATGAACATATATATACTTTCAT
55687208 T
131 T
*
55687209 CCTAAGCACCATCAACAACACATGTTAGTGCATCAACTAACAATTCACTTGAATTGACATAAGGT
1 CCTAAGCACCATCAACAACACATGTTAGTGCATCAACTAACAATTCACTTGAACTGACATAAGGT
*
55687274 AAGTCATTATACATGAACAAATTCATTTGAAATCATCATTTTCATGAACATATATATACTTTCAT
66 AAGTCATTATACATGAAAAAATTCATTTGAAATCATCATTTTCATGAACATATATATACTTTCAT
55687339 T
131 T
55687340 GAACATTTCC
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 128 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (131 bp):
CCTAAGCACCATCAACAACACATGTTAGTGCATCAACTAACAATTCACTTGAACTGACATAAGGT
AAGTCATTATACATGAAAAAATTCATTTGAAATCATCATTTTCATGAACATATATATACTTTCAT
T
Found at i:55689291 original size:27 final size:27
Alignment explanation
Indices: 55689259--55689562 Score: 256
Period size: 27 Copynumber: 11.3 Consensus size: 27
55689249 TTAGTTTACC
*
55689259 AAATTACCAAAATACCCTCGATTAGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
55689286 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
*** * * * *
55689313 AAATTATTGAAATAACATTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
55689340 AAATTACCAAAATACCCTCAATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
55689367 AAATTACAAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
55689394 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
55689421 AAATTACCAAAATACCC-CTGATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
** * *
55689448 AAATTACTGAAATACCCCCGATTTGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
55689475 AAATTATCGAAATA-CCTCGATTTGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* * ** *
55689501 AAATTACTAAAATACCATTAACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
55689528 AAATTACGAAAGTACCCCCAATTT-TCA
1 AAATTACCAAAATACCCTCGATTTGT-A
55689555 AAATTACC
1 AAATTACC
55689563 GTTTTACCTT
Statistics
Matches: 223, Mismatches: 50, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
26 23 0.10
27 199 0.89
28 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:55689397 original size:81 final size:81
Alignment explanation
Indices: 55689259--55689560 Score: 304
Period size: 81 Copynumber: 3.7 Consensus size: 81
55689249 TTAGTTTACC
* * *
55689259 AAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCTCGATTAGCAAAATTATTGAA
1 AAATTACCAAAATACCCTCGATTAGTAAAATTACAAAAATACCCTCGATTTGCAAAATTATCGAA
*
55689324 ATAACATTGGTTTGTA
66 ATAACCTTGGTTTGTA
* * * * * * *
55689340 AAATTACCAAAATACCCTCAATTAGCAAAATTACAAAAATACCCTTGGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCGATTAGTAAAATTACAAAAATACCCTCGATTTGCAAAATTATCGAA
* *
55689405 ATACCCCTGGTTTGTA
66 ATAACCTTGGTTTGTA
* ** *
55689421 AAATTACCAAAATACCC-CTGATTTGTAAAATTACTGAAATACCCCCGATTTGCAAAATTATCGA
1 AAATTACCAAAATACCCTC-GATTAGTAAAATTACAAAAATACCCTCGATTTGCAAAATTATCGA
* * *
55689485 AAT-ACCTCGATTTGCA
65 AATAACCTTGGTTTGTA
* * ** * * * * *
55689501 AAATTACTAAAATACCATTAACTT-GTAAAATTACGAAAGTACCCCCAATTTTCAAAATTA
1 AAATTACCAAAATACCCTCGA-TTAGTAAAATTACAAAAATACCCTCGATTTGCAAAATTA
55689561 CCGTTTTACC
Statistics
Matches: 180, Mismatches: 38, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
80 56 0.31
81 124 0.69
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGATTAGTAAAATTACAAAAATACCCTCGATTTGCAAAATTATCGAA
ATAACCTTGGTTTGTA
Found at i:55689531 original size:53 final size:52
Alignment explanation
Indices: 55689416--55689561 Score: 139
Period size: 53 Copynumber: 2.7 Consensus size: 52
55689406 TACCCCTGGT
* * * * * *
55689416 TTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTGAAATACCCCCGAT
1 TTGTAAAATTA-CGAAATACCCC-GATTTGCAAAATTACTAAAATACCACCAAC
* * **
55689470 TTGCAAAATTATCGAAATACCTCGATTTGCAAAATTACTAAAATACCATTAAC
1 TTGTAAAATTA-CGAAATACCCCGATTTGCAAAATTACTAAAATACCACCAAC
* *
55689523 TTGTAAAATTACGAAAGTACCCCCAATTTTCAAAATTAC
1 TTGTAAAATTACGAAA-TA-CCCCGATTTGCAAAATTAC
55689562 CGTTTTACCT
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
52 5 0.07
53 35 0.47
54 35 0.47
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (52 bp):
TTGTAAAATTACGAAATACCCCGATTTGCAAAATTACTAAAATACCACCAAC
Found at i:55689650 original size:27 final size:27
Alignment explanation
Indices: 55689583--55689668 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 27
55689573 CGGTTTACAA
* * *
55689583 AATTATCGAAACAACCCTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
55689610 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * * *
55689637 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTATCGAAATACCCCTGTAGGGTAG
55689664 AATTA
1 AATTA
55689669 CCATTTTTCC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:55690052 original size:22 final size:22
Alignment explanation
Indices: 55690027--55690076 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
55690017 GATGGCTCTG
55690027 TGCCAACCTAAATATGGCTTCA
1 TGCCAACCTAAATATGGCTTCA
* * * * *
55690049 TGCCATCTTGACTATGGCTTCG
1 TGCCAACCTAAATATGGCTTCA
55690071 TGCCAA
1 TGCCAA
55690077 ACGTATTTAC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (22 bp):
TGCCAACCTAAATATGGCTTCA
Found at i:55690314 original size:27 final size:26
Alignment explanation
Indices: 55690234--55690341 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
55690224 ATTCTGTTAA
* * * *
55690234 GTGGCTTTGCCACATTATCTGATTCTA
1 GTGGCTCTGCCAAAATATCTG-TTCTG
*
55690261 GTGGCTATGCCAAAAATATCTGTTCTG
1 GTGGCTCTGCC-AAAATATCTGTTCTG
55690288 GTGGCTCTGCCAAAATATCTGTATCTG
1 GTGGCTCTGCCAAAATATCTGT-TCTG
* ** *
55690315 GTGACTCTATCACAATATCTGTTCTG
1 GTGGCTCTGCCAAAATATCTGTTCTG
55690341 G
1 G
55690342 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 16 0.23
27 46 0.66
28 8 0.11
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCAAAATATCTGTTCTG
Found at i:55690490 original size:6 final size:6
Alignment explanation
Indices: 55690459--55690549 Score: 87
Period size: 6 Copynumber: 14.8 Consensus size: 6
55690449 TTGCATTCAC
* *
55690459 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
55690508 ATTCTG ATTC-G GTCACCTG ATTCTG ATTCTG ATTTTG ATTCT
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
55690550 AGTTTTGATA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
5 4 0.06
6 58 0.84
7 4 0.06
8 3 0.04
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:55690510 original size:37 final size:37
Alignment explanation
Indices: 55690459--55690549 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
55690449 TTGCATTCAC
55690459 ATTCTGATTTTGATTCTG-TTACCTGAT-A-CTGATTCTG
1 ATTCTGATTTTGATTCTGATT--C-GATCACCTGATTCTG
* *
55690496 ATTCTGATTCTGATTCTGATTCGGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGATTCGATCACCTGATTCTG
55690533 ATTCTGATTTTGATTCT
1 ATTCTGATTTTGATTCT
55690550 AGTTTTGATA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
35 2 0.04
36 2 0.04
37 42 0.88
38 2 0.04
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (37 bp):
ATTCTGATTTTGATTCTGATTCGATCACCTGATTCTG
Found at i:55690526 original size:43 final size:43
Alignment explanation
Indices: 55690459--55690549 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 43
55690449 TTGCATTCAC
* * *
55690459 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGATTCTGATTCGGTCACCTGATACTGATTCTGATTCTG
* *
55690502 ATTCTGATTCTGATTCGGTCACCTGATTCTGATTCTGATTTTG
1 ATTCTGATTCTGATTCGGTCACCTGATACTGATTCTGATTCTG
55690545 ATTCT
1 ATTCT
55690550 AGTTTTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (43 bp):
ATTCTGATTCTGATTCGGTCACCTGATACTGATTCTGATTCTG
Found at i:55692529 original size:27 final size:27
Alignment explanation
Indices: 55692490--55692850 Score: 291
Period size: 27 Copynumber: 13.4 Consensus size: 27
55692480 TTAGTTTACC
* *
55692490 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCGAAATACCCTCGATTTGCA
** * * *
55692517 AAATTATTGAAATACCAT-TAGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTGCA
* *
55692544 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCGAAATACCCTCGATTTGCA
* * * *
55692571 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCGAAATACCCTCGATTTGCA
* * *
55692598 AAATTACCAAAATACCCTAG-TTTGTA
1 AAATTACCGAAATACCCTCGATTTGCA
* * *
55692624 AAATTACCAAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGCA
* * * *
55692651 AACTTACTGAAATACCCCCAATTTAG-A
1 AAATTACCGAAATACCCTCGATTT-GCA
55692678 AAATTACCGAAATACCCTCGATTTGCA
1 AAATTACCGAAATACCCTCGATTTGCA
**
55692705 AAATTACCGAAATACTTTCGATTTGCA
1 AAATTACCGAAATACCCTCGATTTGCA
** * *
55692732 AAATTATTGAAATACCC-CAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGCA
** * * *
55692758 AAATTACTAAAATACCTTCGACTTGTA
1 AAATTACCGAAATACCCTCGATTTGCA
* *
55692785 AAATTACC-AAAGTACCCCCGATTTACA
1 AAATTACCGAAA-TACCCTCGATTTGCA
*** * *
55692812 AAATTACCGTTTTACCCTCAATTTACA
1 AAATTACCGAAATACCCTCGATTTGCA
55692839 AAATTACCGAAA
1 AAATTACCGAAA
55692851 CAACCCTATA
Statistics
Matches: 269, Mismatches: 57, Indels: 16
0.79 0.17 0.05
Matches are distributed among these distances:
26 51 0.19
27 216 0.80
28 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGCA
Found at i:55692718 original size:134 final size:134
Alignment explanation
Indices: 55692490--55692850 Score: 388
Period size: 134 Copynumber: 2.7 Consensus size: 134
55692480 TTAGTTTACC
* * * * *** * *
55692490 AAATTACCAAAATACCCTCGATTAGCAAAATTATTGAAATACCATTAGTTT-GTAAAATTACCAA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACTGAAATACCCCCAATTTAG-AAAATTACCGA
* * * * * *
55692554 AATACCCTCGATTAGCAAAATTACCAAAATACCCTT-GGTTTGTAAAATTACCAAAATACCCTAG
65 AATACCCTCGATTTGCAAAATTACCGAAATA-CCTTCGATTTGCAAAATTACCAAAATACCCCAA
55692618 TTTGTA
129 TTTGTA
*
55692624 AAATTACCAAAATACCCTTGATTTGTAAACTTACTGAAATACCCCCAATTTAGAAAATTACCGAA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACTGAAATACCCCCAATTTAGAAAATTACCGAA
* ***
55692689 ATACCCTCGATTTGCAAAATTACCGAAATACTTTCGATTTGCAAAATTATTGAAATACCCCAATT
66 ATACCCTCGATTTGCAAAATTACCGAAATACCTTCGATTTGCAAAATTACCAAAATACCCCAATT
55692754 TGTA
131 TGTA
* * * * *
55692758 AAATTACTAAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTTACAAAATTACCG
1 AAATTACCAAAATACCCTT-GATTTGTAAAATTACTGAAA-TACCCCCAATTTAGAAAATTACCG
*** * *
55692821 TTTTACCCTCAATTTACAAAATTACCGAAA
64 AAATACCCTCGATTTGCAAAATTACCGAAA
55692851 CAACCCTATA
Statistics
Matches: 192, Mismatches: 31, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
133 10 0.05
134 181 0.94
135 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (134 bp):
AAATTACCAAAATACCCTTGATTTGTAAAATTACTGAAATACCCCCAATTTAGAAAATTACCGAA
ATACCCTCGATTTGCAAAATTACCGAAATACCTTCGATTTGCAAAATTACCAAAATACCCCAATT
TGTA
Found at i:55692828 original size:80 final size:81
Alignment explanation
Indices: 55692484--55692846 Score: 313
Period size: 80 Copynumber: 4.5 Consensus size: 81
55692474 AATACTTTAG
* * * * * *** * *
55692484 TTTACCAAATTACCAAAATACCCTCGATTAGCAAAATTATTGAAATACCAT-TAGTTTGTAAAAT
1 TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGA-TTTGTAAAAT
55692548 TACCAAAATACCCTCGA
65 TACCAAAATACCCTCGA
* *** *
55692565 -TTAGCAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTAG-TTTGTAAAAT
1 TTTA-CAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAAT
*
55692628 TACCAAAATACCCTTGA
65 TACCAAAATACCCTCGA
** * * * * *
55692645 TTTGTAAACTTACTGAAATACCCCCAATTTAG-AAAATTACCGAAATACCCTCGATTTGCAAAAT
1 TTTACAAAATTACCGAAATACCCTCAATTT-GTAAAATTACCAAAATACCCTCGATTTGTAAAAT
* **
55692709 TACCGAAATACTTTCGA
65 TACCAAAATACCCTCGA
* ** * * *
55692726 TTTGCAAAATTATTGAAATACCC-CAATTTGTAAAATTACTAAAATACCTTCGACTTGTAAAATT
1 TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATT
* *
55692790 ACCAAAGTACCCCCGA
66 ACCAAAATACCCTCGA
*** **
55692806 TTTACAAAATTACCGTTTTACCCTCAATTTACAAAATTACC
1 TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACC
55692847 GAAACAACCC
Statistics
Matches: 226, Mismatches: 49, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
79 1 0.00
80 128 0.57
81 97 0.43
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATT
ACCAAAATACCCTCGA
Found at i:55692870 original size:27 final size:27
Alignment explanation
Indices: 55692840--55693089 Score: 304
Period size: 27 Copynumber: 9.3 Consensus size: 27
55692830 CAATTTACAA
* * *
55692840 AATTACCGAAACAACCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
***
55692867 AATTACCGAAATACCCCTGTAGAACAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
55692894 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
55692921 AATTACCAAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
55692948 AATTACTGAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
55692975 AATTATCGAAATACCCCTCTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
55693002 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
55693029 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
55693056 AATTACCGAGATA-CCCTCGTGGGGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
55693083 AATTACC
1 AATTACC
55693090 ATTTTGCCCC
Statistics
Matches: 188, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 4 0.02
27 184 0.98
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:55692871 original size:134 final size:133
Alignment explanation
Indices: 55692597--55692883 Score: 301
Period size: 134 Copynumber: 2.1 Consensus size: 133
55692587 CTTGGTTTGT
* * * * * *
55692597 AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAACTTACTGAA
1 AAAATTACCGAAATACCCCAATTTGTAAAATTACCAAAATACCCTTGACTTGTAAAATTACTCAA
* * * * *
55692662 ATACCCCCAATTTAGAAAATTACCGAAATACCCTCGATTTGCAAAATTACCGAAATACTTTCGAT
66 ATACCCCCAATTTACAAAATTACCGAAATACCCTCAATTTACAAAATTACCGAAAAAC-TCCGAT
**
55692727 TTGC
130 GGGC
** *
55692731 AAAATTATTGAAATACCCCAATTTGTAAAATTACTAAAATA-CCTTCGACTTGTAAAATTAC-CA
1 AAAATTACCGAAATACCCCAATTTGTAAAATTACCAAAATACCCTT-GACTTGTAAAATTACTCA
* *** *
55692794 AAGTACCCCCGATTTACAAAATTACCGTTTTACCCTCAATTTACAAAATTACCGAAACAAC-CCT
65 AA-TACCCCCAATTTACAAAATTACCGAAATACCCTCAATTTACAAAATTACCGAAA-AACTCCG
*
55692858 ATAGGGT
128 AT-GGGC
*
55692865 AGAATTACCGAAATACCCC
1 AAAATTACCGAAATACCCC
55692884 TGTAGAACAG
Statistics
Matches: 124, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
133 10 0.08
134 112 0.90
135 2 0.02
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (133 bp):
AAAATTACCGAAATACCCCAATTTGTAAAATTACCAAAATACCCTTGACTTGTAAAATTACTCAA
ATACCCCCAATTTACAAAATTACCGAAATACCCTCAATTTACAAAATTACCGAAAAACTCCGATG
GGC
Found at i:55693470 original size:22 final size:23
Alignment explanation
Indices: 55693437--55693497 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
55693427 CATGTTATTG
55693437 ATGGC-TCTGTGCCAAAC-TAAAT
1 ATGGCTTC-GTGCCAAACTTAAAT
* * *
55693459 ATGGCTTCGTGCC-ATCTTGACT
1 ATGGCTTCGTGCCAAACTTAAAT
55693481 ATGGCTTCGTGCCAAAC
1 ATGGCTTCGTGCCAAAC
55693498 GTATTTACCT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 2 0.06
22 26 0.81
23 4 0.12
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (23 bp):
ATGGCTTCGTGCCAAACTTAAAT
Found at i:55693692 original size:27 final size:26
Alignment explanation
Indices: 55693662--55693760 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 26
55693652 AGTGGCTTTC
*
55693662 CCACATTATCTGATTCTGGTGACTATG
1 CCACAATATCTG-TTCTGGTGACTATG
* *
55693689 CCACAAATATCTGTTCTGGTGGCTCTG
1 CCAC-AATATCTGTTCTGGTGACTATG
* * *
55693716 CCAAAATATCTGTATCTGGTGACTCTA
1 CCACAATATCTGT-TCTGGTGACTATG
*
55693743 TCACAATATCTGTTCTGG
1 CCACAATATCTGTTCTGG
55693761 CAGCCATGCT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
26 14 0.23
27 41 0.66
28 7 0.11
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (26 bp):
CCACAATATCTGTTCTGGTGACTATG
Found at i:55693712 original size:54 final size:53
Alignment explanation
Indices: 55693653--55693760 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 53
55693643 ATTCTGTTAA
* * * *
55693653 GTGGCTTTCCCACATTATCTG-ATTCTGGTGACTATGCCACAAATATCTGTTCTG
1 GTGGCTCTCCCAAAATATCTGTA-TCTGGTGACTATACCAC-AATATCTGTTCTG
* * *
55693707 GTGGCTCTGCCAAAATATCTGTATCTGGTGACTCTATCACAATATCTGTTCTG
1 GTGGCTCTCCCAAAATATCTGTATCTGGTGACTATACCACAATATCTGTTCTG
55693760 G
1 G
55693761 CAGCCATGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
53 14 0.30
54 31 0.67
55 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (53 bp):
GTGGCTCTCCCAAAATATCTGTATCTGGTGACTATACCACAATATCTGTTCTG
Found at i:55693912 original size:31 final size:31
Alignment explanation
Indices: 55693877--55693943 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
55693867 TTGCATTCAC
* * *
55693877 ATTCTGATTTTGATTCTGTTACCTAATACTG
1 ATTCTGATTCTGATACTGTCACCTAATACTG
* *
55693908 ATTCTGATTCTGATACTGTCACCTGATTCTG
1 ATTCTGATTCTGATACTGTCACCTAATACTG
55693939 ATTCT
1 ATTCT
55693944 AGTTCTAGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.46
Consensus pattern (31 bp):
ATTCTGATTCTGATACTGTCACCTAATACTG
Found at i:55698995 original size:55 final size:55
Alignment explanation
Indices: 55698891--55699009 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
55698881 CGTGTGTGAC
* * * * **
55698891 ACTGACTTTAGGGCACGGCCATGACACATGCCCGTGTGGCCTACCCGTGGGCAAT
1 ACTGACTTTAGGACACGGCCATGACACACGCCCGTATGGCCTAACCGTGGAAAAT
* * *
55698946 ACTGACTTATA-GACACGGCTATGGCACACGCCCGTATGGCCTAATCGTGGAAAAT
1 ACTGACTT-TAGGACACGGCCATGACACACGCCCGTATGGCCTAACCGTGGAAAAT
55699001 ACTGA-TTTA
1 ACTGACTTTA
55699010 AAGGTTTAAG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 48 0.89
56 2 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (55 bp):
ACTGACTTTAGGACACGGCCATGACACACGCCCGTATGGCCTAACCGTGGAAAAT
Found at i:55708432 original size:40 final size:40
Alignment explanation
Indices: 55708375--55708592 Score: 282
Period size: 40 Copynumber: 5.5 Consensus size: 40
55708365 TGGATGATAA
* * *
55708375 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGCGCGAGTTACTA-TAT
* * *
55708415 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGCGCGAGTTACTATAT
*
55708455 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGCGCGAGTTACTATAT
55708495 CCGGGCTAAGTCCCGAAGGCATTCGTC-CGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCG-CGCGAGTTACTATAT
* *
55708535 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGCGCGAGTTA-CTATAT
* *
55708575 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
55708593 TACTTGGCTT
Statistics
Matches: 162, Mismatches: 12, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
39 16 0.10
40 146 0.90
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGCGCGAGTTACTATAT
Found at i:55716552 original size:40 final size:39
Alignment explanation
Indices: 55716494--55716657 Score: 197
Period size: 40 Copynumber: 4.1 Consensus size: 39
55716484 TGGATGATAA
* * *
55716494 CCGGGCTAAGTCCTGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTTACTA-TAT
55716534 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATAT
*
55716574 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
* * *
55716614 CCGGGCTATGTCACGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTA-CTATAT
55716654 CCGG
1 CCGG
55716658 TTAAATCCCG
Statistics
Matches: 113, Mismatches: 6, Indels: 10
0.88 0.05 0.08
Matches are distributed among these distances:
39 5 0.04
40 105 0.93
41 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:55724605 original size:40 final size:40
Alignment explanation
Indices: 55724550--55724832 Score: 435
Period size: 40 Copynumber: 7.1 Consensus size: 40
55724540 TGGATGATAA
* * * *
55724550 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
*
55724590 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
55724630 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
55724670 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
55724710 CTGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
55724750 CCGGGCTAAGTCCCGAAGGCATTCATGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
55724790 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
55724830 CCG
1 CCG
55724833 ATTAAATCCC
Statistics
Matches: 227, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
39 3 0.01
40 224 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:55731766 original size:20 final size:20
Alignment explanation
Indices: 55731737--55731781 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
55731727 AGCACACGTA
* *
55731737 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
55731757 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
55731777 TTCAT
1 TTCAT
55731782 TTTAGTCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:55739630 original size:27 final size:27
Alignment explanation
Indices: 55739569--55739731 Score: 150
Period size: 27 Copynumber: 6.0 Consensus size: 27
55739559 ATAAACATAC
* * **
55739569 ATCACATAGGGGCAAAACAGTCATCCT
1 ATCACATAAGGGCAAAATAGTCATTTT
*
55739596 ACCACATAAGGGCAAAATAGTCATTTT
1 ATCACATAAGGGCAAAATAGTCATTTT
** *
55739623 ATTTCATAAGGGCAAAACT-GTTATTTT
1 ATCACATAAGGGCAAAA-TAGTCATTTT
* *
55739650 AACACATAAGGGTAAAATAGTCATTTT
1 ATCACATAAGGGCAAAATAGTCATTTT
* * *
55739677 -TCCACATAAAGGCAAAATCGTCTTTTT
1 AT-CACATAAGGGCAAAATAGTCATTTT
* * *
55739704 ATCACATAAGGGAAAAACAGTTATTTT
1 ATCACATAAGGGCAAAATAGTCATTTT
55739731 A
1 A
55739732 CCTTACAAGG
Statistics
Matches: 107, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.97
28 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (27 bp):
ATCACATAAGGGCAAAATAGTCATTTT
Found at i:55739755 original size:81 final size:81
Alignment explanation
Indices: 55739597--55739757 Score: 187
Period size: 81 Copynumber: 2.0 Consensus size: 81
55739587 AGTCATCCTA
* ** * * *
55739597 CCACATAAGGGCAAAATAGTCATTTTATTTCATAAGGGCAAAACTGTTATTTTAACACATAAGGG
1 CCACATAAAGGCAAAATAGTCATTTTATCACATAAGGGAAAAACAGTTATTTTAACACACAAGGG
* *
55739662 TAAAATAGTCATTTTT
66 TAAAACAATCATTTTT
* * * **
55739678 CCACATAAAGGCAAAATCGTCTTTTTATCACATAAGGGAAAAACAGTTATTTTACCTTACAAGGG
1 CCACATAAAGGCAAAATAGTCATTTTATCACATAAGGGAAAAACAGTTATTTTAACACACAAGGG
**
55739743 TATTACAATCATTTT
66 TAAAACAATCATTTT
55739758 ACCCTACAGG
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (81 bp):
CCACATAAAGGCAAAATAGTCATTTTATCACATAAGGGAAAAACAGTTATTTTAACACACAAGGG
TAAAACAATCATTTTT
Found at i:55746267 original size:27 final size:26
Alignment explanation
Indices: 55746208--55746396 Score: 150
Period size: 27 Copynumber: 7.0 Consensus size: 26
55746198 AAACATACAT
* **
55746208 CACAT-AGGGACAAAACAGTCATCCTA
1 CACATAAGGG-CAAAATAGTCATTTTA
55746234 CCACATAAGGGCAAAATAGTCATTTTA
1 -CACATAAGGGCAAAATAGTCATTTTA
* * *
55746261 CTTCATAAAGGCAAAATCGTCATTTTA
1 C-ACATAAGGGCAAAATAGTCATTTTA
* * *
55746288 CCACATAATGGAAAAACCA-TCATTTTAA
1 -CACATAAGGGCAAAA-TAGTCATTTT-A
* * *
55746316 CACATAAGGGCAAAAAAGTTATTTTTC
1 CACATAAGGGCAAAATAGTCA-TTTTA
*
55746343 CATATAAGGGCAAAACT-GTCATTTTAA
1 CACATAAGGGCAAAA-TAGTCATTTT-A
*
55746370 CACATAAGGGCAAAACAGTCATTTTA
1 CACATAAGGGCAAAATAGTCATTTTA
55746396 C
1 C
55746397 CTTACAGGGG
Statistics
Matches: 130, Mismatches: 22, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
26 8 0.06
27 112 0.86
28 10 0.08
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (26 bp):
CACATAAGGGCAAAATAGTCATTTTA
Found at i:55746311 original size:54 final size:53
Alignment explanation
Indices: 55746208--55746397 Score: 170
Period size: 54 Copynumber: 3.5 Consensus size: 53
55746198 AAACATACAT
** * *
55746208 CACAT-AGGGACAAAACAGTCATCCTACCACATAAGGGCAAAA-TAGTCATTTT-A
1 CACATAAGGG-CAAAAC-GTCATTTTACCACATAAGGGAAAAACCA-TCATTTTAA
* * *
55746261 CTTCATAAAGGCAAAATCGTCATTTTACCACATAATGGAAAAACCATCATTTTAA
1 C-ACATAAGGGCAAAA-CGTCATTTTACCACATAAGGGAAAAACCATCATTTTAA
* * * * * **
55746316 CACATAAGGGCAAAAAAGTTATTTTTCCATATAAGGGCAAAACTGTCATTTTAA
1 CACATAAGGGC-AAAACGTCATTTTACCACATAAGGGAAAAACCATCATTTTAA
55746370 CACATAAGGGCAAAACAGTCATTTTACC
1 CACATAAGGGCAAAAC-GTCATTTTACC
55746398 TTACAGGGGG
Statistics
Matches: 110, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
53 5 0.05
54 94 0.85
55 11 0.10
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (53 bp):
CACATAAGGGCAAAACGTCATTTTACCACATAAGGGAAAAACCATCATTTTAA
Found at i:55746355 original size:81 final size:80
Alignment explanation
Indices: 55746208--55746395 Score: 213
Period size: 81 Copynumber: 2.3 Consensus size: 80
55746198 AAACATACAT
** * * *
55746208 CACAT-AGGGACAAAACAGTCATCCTACCACATAAGGGCAAAATAGTCATTTTACTTCATAAAGG
1 CACATAAGGGA-AAAACAGTCATTTTAACACATAAGGGCAAAAAAGTCATTTTA-TCCATAAAGG
*
55746272 CAAAA-TCGTCATTTTAC
64 CAAAACT-GTCATTTTAA
* *
55746289 CACATAATGGAAAAACCA-TCATTTTAACACATAAGGGCAAAAAAGTTATTTT-TCCATATAAGG
1 CACATAAGGGAAAAA-CAGTCATTTTAACACATAAGGGCAAAAAAGTCATTTTATCCATA-AA-G
55746352 GCAAAACTGTCATTTTAA
63 GCAAAACTGTCATTTTAA
*
55746370 CACATAAGGGCAAAACAGTCATTTTA
1 CACATAAGGGAAAAACAGTCATTTTA
55746396 CCTTACAGGG
Statistics
Matches: 91, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
79 5 0.05
80 4 0.04
81 75 0.82
82 7 0.08
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.26
Consensus pattern (80 bp):
CACATAAGGGAAAAACAGTCATTTTAACACATAAGGGCAAAAAAGTCATTTTATCCATAAAGGCA
AAACTGTCATTTTAA
Found at i:55746420 original size:28 final size:28
Alignment explanation
Indices: 55746384--55746479 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 28
55746374 TAAGGGCAAA
55746384 ACAGTCATTTTACCTTACAGGGGGTATT
1 ACAGTCATTTTACCTTACAGGGGGTATT
* *
55746412 ACAGTCATTTTACCCTACA-GGTGTATT
1 ACAGTCATTTTACCTTACAGGGGGTATT
* * * *
55746439 TCATTCATTTTATCTT-CTGGGGGGTATT
1 ACAGTCATTTTACCTTAC-AGGGGGTATT
* *
55746467 TCGGTCATTTTAC
1 ACAGTCATTTTAC
55746480 AAGTAAATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
26 1 0.02
27 19 0.35
28 35 0.64
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (28 bp):
ACAGTCATTTTACCTTACAGGGGGTATT
Found at i:55747960 original size:10 final size:10
Alignment explanation
Indices: 55747947--55747972 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
55747937 CAGCTAACAA
55747947 CAAACTTATT
1 CAAACTTATT
55747957 CAAACTTATT
1 CAAACTTATT
55747967 CAAACT
1 CAAACT
55747973 CTGGGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (10 bp):
CAAACTTATT
Found at i:55750575 original size:28 final size:29
Alignment explanation
Indices: 55750525--55750676 Score: 136
Period size: 29 Copynumber: 5.3 Consensus size: 29
55750515 ACCCCTACAT
* *
55750525 ACATGCATATGACCCA-CTTGGCCCAA-TC
1 ACATTCATATGACCCATC-AGGCCCAATTC
* * *
55750553 TCATTTATATGACCCATCCGGCCCAATTC
1 ACATTCATATGACCCATCAGGCCCAATTC
55750582 ACATTCATATTG-CCCATCAGGCCCAATTC
1 ACATTCATA-TGACCCATCAGGCCCAATTC
*
55750611 ACATTCATAT-AGCCCATTAGGCCCAA-TC
1 ACATTCATATGA-CCCATCAGGCCCAATTC
* * * * *
55750639 TCGTTCATATGGCCCATCTGGCCCAAATC
1 ACATTCATATGACCCATCAGGCCCAATTC
55750668 ACATT-ATAT
1 ACATTCATAT
55750677 TCATGCTCAC
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
28 47 0.46
29 53 0.52
30 2 0.02
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.28
Consensus pattern (29 bp):
ACATTCATATGACCCATCAGGCCCAATTC
Found at i:55750597 original size:29 final size:28
Alignment explanation
Indices: 55750544--55750677 Score: 137
Period size: 29 Copynumber: 4.7 Consensus size: 28
55750534 TGACCCACTT
* * *
55750544 GGCCCAATCTCATTTATA-TGACCCATCC
1 GGCCCAATCACATTCATATTG-CCCATCA
55750572 GGCCCAATTCACATTCATATTGCCCATCA
1 GGCCCAA-TCACATTCATATTGCCCATCA
* *
55750601 GGCCCAATTCACATTCATATAGCCCATTA
1 GGCCCAA-TCACATTCATATTGCCCATCA
* * * *
55750630 GGCCCAATCTCGTTCATATGGCCCATCT
1 GGCCCAATCACATTCATATTGCCCATCA
55750658 GGCCCAAATCACATT-ATATT
1 GGCCC-AATCACATTCATATT
55750678 CATGCTCACA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
28 32 0.36
29 56 0.62
30 2 0.02
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.28
Consensus pattern (28 bp):
GGCCCAATCACATTCATATTGCCCATCA
Found at i:55750890 original size:16 final size:16
Alignment explanation
Indices: 55750869--55750911 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
55750859 GTAGCCAAAC
55750869 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
*
55750885 TTTCAGCTTTTTGGCA
1 TTTCAGCTTTTCGGCA
* *
55750901 ATTCGGCTTTT
1 TTTCAGCTTTT
55750912 GTCGATCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:55752815 original size:28 final size:28
Alignment explanation
Indices: 55752775--55752830 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
55752765 AGGGAATCAG
55752775 TATACCAACCCCAAAGTCAAATTCTTTC
1 TATACCAACCCCAAAGTCAAATTCTTTC
55752803 TATACCAACCCCAAAGTCAAATTCTTTC
1 TATACCAACCCCAAAGTCAAATTCTTTC
55752831 CCCCAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.32, G:0.04, T:0.29
Consensus pattern (28 bp):
TATACCAACCCCAAAGTCAAATTCTTTC
Found at i:55759465 original size:22 final size:22
Alignment explanation
Indices: 55759437--55759480 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
55759427 CTTATAGTTA
*
55759437 GGTATATTTGATTGTTTGTGTT
1 GGTATATTTGATAGTTTGTGTT
55759459 GGTATATTTGATAGTTTGTGTT
1 GGTATATTTGATAGTTTGTGTT
55759481 TGCGGTGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.27, T:0.57
Consensus pattern (22 bp):
GGTATATTTGATAGTTTGTGTT
Found at i:55763169 original size:50 final size:49
Alignment explanation
Indices: 55763051--55763226 Score: 172
Period size: 50 Copynumber: 3.5 Consensus size: 49
55763041 CTGGTACGCA
* * ** *
55763051 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
**
55763100 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTTATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACG
** * ** * * ** *
55763150 TAGTAGTTTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CCATCCGATACACG
55763201 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
55763227 TGCGAAAAAA
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 31 0.30
50 42 0.40
51 31 0.30
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
Found at i:55770601 original size:25 final size:24
Alignment explanation
Indices: 55770545--55770606 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 24
55770535 ATTTAATTAA
55770545 TAAAAATTATTAATGATTAAATAAAT
1 TAAAAATTA--AATGATTAAATAAAT
55770571 TGAAAAATTAAAT-ATTAGAATAAAAT
1 T-AAAAATTAAATGATTA-AAT-AAAT
*
55770597 TAAAATTTAA
1 TAAAAATTAA
55770607 GAGCAAATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
24 4 0.12
25 14 0.44
26 6 0.19
27 8 0.25
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (24 bp):
TAAAAATTAAATGATTAAATAAAT
Found at i:55772818 original size:60 final size:60
Alignment explanation
Indices: 55772745--55772858 Score: 210
Period size: 60 Copynumber: 1.9 Consensus size: 60
55772735 GCCTGCGGGA
*
55772745 CTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCCGGATATCGCAGG
1 CTTTAACCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTGGCCCGGATATCGCAGG
*
55772805 CTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTGGCCCGGATAT
1 CTTTAACCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTGGCCCGGATAT
55772859 ATTTCCAGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.23
Consensus pattern (60 bp):
CTTTAACCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTGGCCCGGATATCGCAGG
Found at i:55772864 original size:39 final size:39
Alignment explanation
Indices: 55772805--55773022 Score: 382
Period size: 39 Copynumber: 5.6 Consensus size: 39
55772795 ATATCGCAGG
*
55772805 CTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGA
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
* *
55772844 CTTTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGA
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
*
55772883 CTTTAGCCCGAATACATTTCCAGCACGAAGCCTGCGGGA
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
* *
55772922 CTTTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGA
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
55772961 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
55773000 CTTTAGCCCGGATACATTTCCAG
1 CTTTAGCCCGGATACATTTCCAG
55773023 TGTCTTGCAT
Statistics
Matches: 168, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 168 1.00
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (39 bp):
CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
Found at i:55778693 original size:39 final size:39
Alignment explanation
Indices: 55778635--55778745 Score: 177
Period size: 39 Copynumber: 2.8 Consensus size: 39
55778625 ATTATATTAT
* * *
55778635 CAGCACAAAGCCTGTGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
55778674 CAGCATGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55778713 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATA
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATA
55778746 TCGCAGGCTT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:55778792 original size:60 final size:60
Alignment explanation
Indices: 55778693--55778806 Score: 192
Period size: 60 Copynumber: 1.9 Consensus size: 60
55778683 GCCTGCGGGA
* *
55778693 CTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATATCGCAGG
1 CTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATCGCAGG
* *
55778753 CTTTAGCCCGGATACATTTCCAGCACAAAGCCTGTGGGACTTTGGCCCGGATAT
1 CTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATAT
55778807 ATTTCCAGCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.24
Consensus pattern (60 bp):
CTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATCGCAGG
Found at i:55778812 original size:39 final size:39
Alignment explanation
Indices: 55778753--55778970 Score: 373
Period size: 39 Copynumber: 5.6 Consensus size: 39
55778743 ATATCGCAGG
* *
55778753 CTTTAGCCCGGATACATTTCCAGCACAAAGCCTGTGGGA
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
* *
55778792 CTTTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGA
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
55778831 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
* *
55778870 CTTTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGA
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
*
55778909 CTTTAGACCGGATACATTTCCAGCACGAAGCCTGCGGGA
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
55778948 CTTTAGCCCGGATACATTTCCAG
1 CTTTAGCCCGGATACATTTCCAG
55778971 TGTCTTGCAT
Statistics
Matches: 167, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 167 1.00
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (39 bp):
CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
Found at i:55778825 original size:99 final size:99
Alignment explanation
Indices: 55778654--55778844 Score: 337
Period size: 99 Copynumber: 1.9 Consensus size: 99
55778644 GCCTGTGGGA
**
55778654 CTTTAACCCGGATACATTTCCAGCATGAAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCAC
1 CTTTAACCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCAC
55778719 GAAGCCTGCGGGACTTTAGCCCGGATATCGCAGG
66 GAAGCCTGCGGGACTTTAGCCCGGATATCGCAGG
* * *
55778753 CTTTAGCCCGGATACATTTCCAGCACAAAGCCTGTGGGACTTTGGCCCGGATATATTTCCAGCAC
1 CTTTAACCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCAC
55778818 GAAGCCTGCGGGACTTTAGCCCGGATA
66 GAAGCCTGCGGGACTTTAGCCCGGATA
55778845 CATTTCCAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 87 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.23
Consensus pattern (99 bp):
CTTTAACCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCAC
GAAGCCTGCGGGACTTTAGCCCGGATATCGCAGG
Found at i:55778883 original size:138 final size:138
Alignment explanation
Indices: 55778635--55778884 Score: 446
Period size: 138 Copynumber: 1.8 Consensus size: 138
55778625 ATTATATTAT
* *
55778635 CAGCACAAAGCCTGTGGGACTTTAACCCGGATACATTTCCAGCATGAAGCCTGCGGGACTTTGGC
1 CAGCACAAAGCCTGTGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
55778700 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATATCGCAGGCTTTAGCCCGGA
66 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATATCGCAGGCTTTAGCCCGGA
55778765 TACATTTC
131 TACATTTC
** *
55778773 CAGCACAAAGCCTGTGGGACTTTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGC
1 CAGCACAAAGCCTGTGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
*
55778838 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCCGGATAT
66 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATAT
55778885 ATTTCCAGCA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
138 106 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (138 bp):
CAGCACAAAGCCTGTGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATATCGCAGGCTTTAGCCCGGA
TACATTTC
Found at i:55784617 original size:39 final size:39
Alignment explanation
Indices: 55784563--55784673 Score: 186
Period size: 39 Copynumber: 2.8 Consensus size: 39
55784553 ATTATATTAT
* * *
55784563 CAGCACAAAGCCTGCGGGACTTTAACCCAGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
55784602 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55784641 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATA
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATA
55784674 TCGCAGGCTT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:55784719 original size:60 final size:60
Alignment explanation
Indices: 55784621--55784734 Score: 210
Period size: 60 Copynumber: 1.9 Consensus size: 60
55784611 GCCTGCGGGA
*
55784621 CTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATATCGCAGG
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATATCGCAGG
*
55784681 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCCGGATAT
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATAT
55784735 ATTTCTAGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.20, C:0.30, G:0.27, T:0.23
Consensus pattern (60 bp):
CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATATCGCAGG
Found at i:55784745 original size:39 final size:39
Alignment explanation
Indices: 55784681--55784898 Score: 364
Period size: 39 Copynumber: 5.6 Consensus size: 39
55784671 ATATCGCAGG
55784681 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
* * *
55784720 CTTTGGCCCGGATATATTTCTAGCACGAAGCCTGCGGGA
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
*
55784759 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTACGGGA
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
* * *
55784798 CTTTGGCCCGTATATATTTCCAGCACGAAGCCTGCGGGA
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
55784837 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
1 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
*
55784876 CTTTATCCCGGATACATTTCCAG
1 CTTTAGCCCGGATACATTTCCAG
55784899 TGTCTTGCAT
Statistics
Matches: 164, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 164 1.00
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
Found at i:55784753 original size:99 final size:99
Alignment explanation
Indices: 55784582--55784772 Score: 346
Period size: 99 Copynumber: 1.9 Consensus size: 99
55784572 GCCTGCGGGA
55784582 CTTTAACCCAGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCAC
1 CTTTAACCCAGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCAC
55784647 GAAGCCTGCGGGACTTTAGCCCGGATATCGCAGG
66 GAAGCCTGCGGGACTTTAGCCCGGATATCGCAGG
* * * *
55784681 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTCTAGCAC
1 CTTTAACCCAGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCAC
55784746 GAAGCCTGCGGGACTTTAGCCCGGATA
66 GAAGCCTGCGGGACTTTAGCCCGGATA
55784773 CATTTCCAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 88 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.23
Consensus pattern (99 bp):
CTTTAACCCAGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCAC
GAAGCCTGCGGGACTTTAGCCCGGATATCGCAGG
Found at i:55792206 original size:35 final size:35
Alignment explanation
Indices: 55792167--55792236 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
55792157 GTCTAGGATC
* *
55792167 ACATATCTTTGAAGATCCCCTTCCATATTTTCCAA
1 ACATATCTTTAAAGATCACCTTCCATATTTTCCAA
* *
55792202 ACATATCTTTAAAGATTACTTTCCATATTTTCCAA
1 ACATATCTTTAAAGATCACCTTCCATATTTTCCAA
55792237 GCTCCGGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.40
Consensus pattern (35 bp):
ACATATCTTTAAAGATCACCTTCCATATTTTCCAA
Found at i:55793374 original size:27 final size:26
Alignment explanation
Indices: 55793343--55793410 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
55793333 AAACATATAT
**
55793343 CACATAGGGGCAAAACAATCATTTTGC
1 CACATA-GGGCAAAACAATCATTTTAA
* * **
55793370 CACATAAGGCAAACCTGTCATTTTAA
1 CACATAGGGCAAAACAATCATTTTAA
55793396 CACATAAGGGCAAAA
1 CACAT-AGGGCAAAA
55793411 TAGTTATTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (26 bp):
CACATAGGGCAAAACAATCATTTTAA
Found at i:55793382 original size:26 final size:27
Alignment explanation
Indices: 55793343--55793437 Score: 75
Period size: 27 Copynumber: 3.6 Consensus size: 27
55793333 AAACATATAT
* **
55793343 CACATAGGGGCAAAACAATCATTTTGC
1 CACATAAGGGCAAAACAATCATTTTAA
* **
55793370 CACATAA-GGCAAACCTGTCATTTTAA
1 CACATAAGGGCAAAACAATCATTTTAA
* * * *
55793396 CACATAAGGGCAAAATAGTTATTTTTA
1 CACATAAGGGCAAAACAATCATTTTAA
* *
55793423 TACATAAGGGAAAAA
1 CACATAAGGGCAAAA
55793438 TTGTCATTTT
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 21 0.39
27 33 0.61
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAATCATTTTAA
Found at i:55793419 original size:27 final size:27
Alignment explanation
Indices: 55793386--55793448 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
55793376 AGGCAAACCT
*
55793386 GTCATTTTAACACATAAGGGCAAAATA
1 GTCATTTTAACACATAAGGGAAAAATA
* * * *
55793413 GTTATTTTTATACATAAGGGAAAAATT
1 GTCATTTTAACACATAAGGGAAAAATA
55793440 GTCATTTTA
1 GTCATTTTA
55793449 CCCTATAGGG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (27 bp):
GTCATTTTAACACATAAGGGAAAAATA
Found at i:55793499 original size:27 final size:27
Alignment explanation
Indices: 55793440--55793492 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
55793430 GGGAAAAATT
* *
55793440 GTCATTTTACCCTATAGGGGTATTACA
1 GTCATTTTACCCGACAGGGGTATTACA
*
55793467 GTCATTTTACTCGACAGGGGTATTAC
1 GTCATTTTACCCGACAGGGGTATTAC
55793493 GATCATTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCGACAGGGGTATTACA
Found at i:55795693 original size:17 final size:18
Alignment explanation
Indices: 55795666--55795701 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
55795656 AATCAAACAT
55795666 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
55795684 ATGC-TATTAATTTATTA
1 ATGCATATTAAATTATTA
55795701 A
1 A
55795702 AACAAGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:55799493 original size:27 final size:27
Alignment explanation
Indices: 55799476--55799537 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
55799466 GGAAAATTAT
55799476 CGAAATACCCCTGGTTTGAAAAATAAC
1 CGAAATACCCCTGGTTTGAAAAATAAC
* *
55799503 CGAAATACCCCTGG-TTCAAAAATTAC
1 CGAAATACCCCTGGTTTGAAAAATAAC
*
55799529 TGAAATACC
1 CGAAATACC
55799538 TTGGTACTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 18 0.56
27 14 0.44
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.23
Consensus pattern (27 bp):
CGAAATACCCCTGGTTTGAAAAATAAC
Found at i:55799533 original size:26 final size:27
Alignment explanation
Indices: 55799468--55799537 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
55799458 TTCAATTTGG
*
55799468 AAAATTA-TCGAAATACCCCTGGTTTGA
1 AAAATTACT-GAAATACCCCTGGTTTCA
* *
55799495 AAAATAACCGAAATACCCCTGG-TTCA
1 AAAATTACTGAAATACCCCTGGTTTCA
55799521 AAAATTACTGAAATACC
1 AAAATTACTGAAATACC
55799538 TTGGTACTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 18 0.49
27 19 0.51
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.24
Consensus pattern (27 bp):
AAAATTACTGAAATACCCCTGGTTTCA
Found at i:55799615 original size:53 final size:53
Alignment explanation
Indices: 55799546--55799669 Score: 142
Period size: 53 Copynumber: 2.3 Consensus size: 53
55799536 CCTTGGTACT
* *
55799546 GTAAATAACCATAATACACTTGAAGTGTAAAATGA-CTGTAAGGCCACTATAAG
1 GTAAATAACCGTAATACACTTGAAGGGTAAAATGATC-GTAAGGCCACTATAAG
* * * * * *
55799599 GTAATTAACCGTAATACCCTTGTAGGGTAAAATGATCGTAATGCCCCTATAGG
1 GTAAATAACCGTAATACACTTGAAGGGTAAAATGATCGTAAGGCCACTATAAG
*
55799652 GTAAAATGACCGTAATAC
1 GT-AAATAACCGTAATAC
55799670 CCCTGTGTGG
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
53 45 0.76
54 14 0.24
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.26
Consensus pattern (53 bp):
GTAAATAACCGTAATACACTTGAAGGGTAAAATGATCGTAAGGCCACTATAAG
Found at i:55799681 original size:27 final size:27
Alignment explanation
Indices: 55799606--55799675 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
55799596 AAGGTAATTA
*
55799606 ACCGTAATACCCTTGTAGGGTAAAATG
1 ACCGTAATACCCCTGTAGGGTAAAATG
* * *
55799633 ATCGTAATGCCCCTATAGGGTAAAATG
1 ACCGTAATACCCCTGTAGGGTAAAATG
55799660 ACCGTAATACCCCTGT
1 ACCGTAATACCCCTGT
55799676 GTGGTAGAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (27 bp):
ACCGTAATACCCCTGTAGGGTAAAATG
Found at i:55803389 original size:28 final size:26
Alignment explanation
Indices: 55803331--55803407 Score: 66
Period size: 28 Copynumber: 2.8 Consensus size: 26
55803321 GATGGGTCAT
* *
55803331 AAATACCCTTGGTTTGGAAAATTACTGA
1 AAATACCC-CGGTTTGTAAAATTACT-A
*
55803359 AATATCCCCCGGTTTGTAAAATTA-TCA
1 AA-ATACCCCGGTTTGTAAAATTACT-A
*
55803386 AAATACCCCGGTAGTGTAAAAT
1 AAATACCCCGGT-TTGTAAAAT
55803408 GAGCGTAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
26 9 0.22
27 12 0.29
28 15 0.37
29 5 0.12
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (26 bp):
AAATACCCCGGTTTGTAAAATTACTA
Found at i:55803417 original size:27 final size:27
Alignment explanation
Indices: 55803387--55803517 Score: 138
Period size: 27 Copynumber: 4.9 Consensus size: 27
55803377 AAATTATCAA
* * *
55803387 AATACCCCGGTAGTGTAAAATGAGCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* * *
55803414 AATATCCTTGTAGGGTAAAATGACTGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* * *
55803441 AATGCCCCTGTAAGGT-AATTGACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
*
55803467 AATACCCTTGTAGGGTAAAATGACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* * *
55803494 AATACTCCTGTATGGTAGAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
55803518 GATTATGCCC
Statistics
Matches: 83, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
26 21 0.25
27 62 0.75
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:55813705 original size:12 final size:11
Alignment explanation
Indices: 55813678--55813713 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
55813668 GAAAATAACC
55813678 AAAATTAA-TA
1 AAAATTAATTA
55813688 AAAATTAATTA
1 AAAATTAATTA
55813699 TAAAATTAATTA
1 -AAAATTAATTA
55813711 AAA
1 AAA
55813714 TTCAACATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.33
11 5 0.21
12 11 0.46
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATTAATTA
Found at i:55815988 original size:20 final size:20
Alignment explanation
Indices: 55815963--55816006 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
55815953 TGGTCACACA
55815963 CGCCCGTGTAACATGGGACT
1 CGCCCGTGTAACATGGGACT
* *
55815983 CGCCCGTGTGACATGGGTCT
1 CGCCCGTGTAACATGGGACT
55816003 CGCC
1 CGCC
55816007 TATGTAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.34, G:0.32, T:0.20
Consensus pattern (20 bp):
CGCCCGTGTAACATGGGACT
Found at i:55817521 original size:21 final size:21
Alignment explanation
Indices: 55817452--55817521 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
55817442 CACAAATATT
55817452 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
** * * *
55817473 ATGAGTTCGGATGGCACATATATC-
1 ATGAACTCAGA--CCACA-A-CTCA
55817497 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
55817518 ATGA
1 ATGA
55817522 GTTCATATTA
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 2 0.06
21 13 0.38
22 4 0.12
23 4 0.12
24 9 0.26
25 2 0.06
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.20
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTCA
Found at i:55818477 original size:31 final size:31
Alignment explanation
Indices: 55818408--55818478 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
55818398 TGACCCTTGG
*
55818408 AATTTTGGC-ACAAGCAAGAAGAAGATGGACA
1 AATTTT-GCTACAAGAAAGAAGAAGATGGACA
55818439 AATTTTGCTACAAGAAAGAAGAAGATGGACA
1 AATTTTGCTACAAGAAAGAAGAAGATGGACA
55818470 AATTTTGCT
1 AATTTTGCT
55818479 TTCTTTTTCC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 2 0.05
31 36 0.95
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.23
Consensus pattern (31 bp):
AATTTTGCTACAAGAAAGAAGAAGATGGACA
Found at i:55825654 original size:85 final size:85
Alignment explanation
Indices: 55825511--55825689 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
55825501 GGCCGGCCAT
55825511 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
55825576 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
55825596 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
55825661 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
55825681 GGGCATGGG
1 GAGCATGGG
55825690 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:55827926 original size:47 final size:47
Alignment explanation
Indices: 55827875--55828169 Score: 374
Period size: 47 Copynumber: 6.1 Consensus size: 47
55827865 TTAGGATTTT
* *
55827875 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
55827922 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
** *
55827973 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
*
55828026 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
55828073 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
55828120 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
55828167 ATG
1 ATG
55828170 CGAAACGTGT
Statistics
Matches: 224, Mismatches: 17, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
47 131 0.58
49 1 0.00
50 2 0.01
51 43 0.19
52 1 0.00
53 46 0.21
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:55828046 original size:151 final size:147
Alignment explanation
Indices: 55827875--55828146 Score: 445
Period size: 151 Copynumber: 1.8 Consensus size: 147
55827865 TTAGGATTTT
*
55827875 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
* * * * *
55827940 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATG
64 C--ATACATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATATATG
55828005 CGTGATAAGGCCGAATGGCCA
127 CGTGATAAGGCCGAATGGCCA
55828026 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
55828091 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATAT
66 TACATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATAT
55828147 GTGGTAAGGC
Statistics
Matches: 114, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
147 51 0.45
149 1 0.01
151 62 0.54
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (147 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TACATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATATATGCGTG
ATAAGGCCGAATGGCCA
Found at i:55828232 original size:46 final size:46
Alignment explanation
Indices: 55828143--55828233 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
55828133 GAACATGAAT
* * * *
55828143 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
55828189 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
55828234 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:55828525 original size:37 final size:37
Alignment explanation
Indices: 55828380--55828524 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
55828370 GGAAATATAT
55828380 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
55828417 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
55828454 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
55828491 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
55828525 TCGTCTGAGC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:55830137 original size:199 final size:200
Alignment explanation
Indices: 55829791--55830181 Score: 658
Period size: 199 Copynumber: 2.0 Consensus size: 200
55829781 GAGAATTAAG
*
55829791 AGTGATATATTCGGGCTAAGTCCAGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCAGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
*
55829856 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGTGATATAT
66 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
** *
55829921 CCGGGCTAAGTCCCGAAGAGAATTCGTGCTAGTGATATATCCGGGCTAAGT-CCGAGGAGCATTC
131 CCGGGCTAAACCCCGAAGAGAATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTC
55829985 GTGCT
196 GTGCT
*
55829990 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCAGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
* *
55830055 AGGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATAT
66 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * * * *
55830120 CCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
131 CCGGGCTAAACCCCGAAGAGAATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCA
55830182 ATCATGCTGG
Statistics
Matches: 178, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
199 169 0.95
200 9 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (200 bp):
AGTGATATATCCGGGCTAAGTCCAGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
CCGGGCTAAACCCCGAAGAGAATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTC
GTGCT
Found at i:55830193 original size:40 final size:40
Alignment explanation
Indices: 55829791--55830181 Score: 640
Period size: 40 Copynumber: 9.8 Consensus size: 40
55829781 GAGAATTAAG
* *
55829791 AGTGATATATTCGGGCTAAGTCCAGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55829831 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55829871 AGTGATATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55829911 AGTGATATATCCGGGCTAAGTCCCGAAGAGAATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55829951 AGTGATATATCCGGGCTAAGT-CCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55829990 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55830030 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
55830070 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
55830110 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
55830150 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
55830182 ATCATGCTGG
Statistics
Matches: 327, Mismatches: 23, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
39 37 0.11
40 290 0.89
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:55830466 original size:58 final size:57
Alignment explanation
Indices: 55830393--55830501 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 57
55830383 CGAATGATTA
* *
55830393 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGCGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGCGTGCGAAATCGGTAATT
* * * *
55830451 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGCGTGCGAAATCG
55830502 ATCAGTGGGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 25 0.56
58 20 0.44
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGCGTGCGAAATCGGTAATT
Found at i:55832094 original size:85 final size:85
Alignment explanation
Indices: 55831951--55832129 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
55831941 GGCCAGCCAT
55831951 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
55832016 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
55832036 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
55832101 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
55832121 GGGCATGGG
1 GAGCATGGG
55832130 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:55834361 original size:47 final size:47
Alignment explanation
Indices: 55834310--55834702 Score: 468
Period size: 47 Copynumber: 8.1 Consensus size: 47
55834300 TTAGGATTTT
* *
55834310 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
55834357 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
*
55834408 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
55834455 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
** *
55834508 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCC-
1 ATGTGATGAATGTGAA-C---ATGCATATGTGTGATAAGGCCGAATGGCCA
*
55834558 ATGTGATG-ATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
55834604 ATGTGATGAATGTGAACATGCGTAT-AGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
55834650 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
55834697 ATGTGA
1 ATGTGA
55834703 AACGTGTATG
Statistics
Matches: 309, Mismatches: 24, Indels: 26
0.86 0.07 0.07
Matches are distributed among these distances:
45 25 0.08
46 50 0.16
47 97 0.31
48 2 0.01
49 9 0.03
50 8 0.03
51 74 0.24
53 44 0.14
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:55834412 original size:24 final size:24
Alignment explanation
Indices: 55834384--55834459 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
55834374 CCGTATATAT
55834384 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
55834408 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
55834431 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
55834455 ATGTG
1 ATGTG
55834460 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:55834421 original size:98 final size:97
Alignment explanation
Indices: 55834310--55834702 Score: 516
Period size: 98 Copynumber: 4.1 Consensus size: 97
55834300 TTAGGATTTT
*
55834310 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
55834375 CGTATATATATGTGTGATAAGGCCGAATGGCCA
66 CG-ATATATATGTGTGATAAGGCCGAATGGCCA
55834408 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
55834473 TGTATATATATATGCGTGATAAGGCCGAATGGCCA
66 CG---ATATATATGTGTGATAAGGCCGAATGGCCA
*** *
55834508 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCC-ATGTGATG-ATGTG
1 ATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
***
55834571 AA--C-ATGCGTATGTGTGATAAGGCCGAATGGCCA
62 AACCCGATATATATGTGTGATAAGGCCGAATGGCCA
* * *
55834604 ATGTGATGAATGTGAACATGCGTAT-AGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
55834668 TGA-ATATATGTG-G-TAAGGCCGAATGGCTA
66 CGATATATATGTGTGATAAGGCCGAATGGCCA
55834697 ATGTGA
1 ATGTGA
55834703 AACGTGTATG
Statistics
Matches: 262, Mismatches: 22, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
91 18 0.07
92 13 0.05
93 28 0.11
94 1 0.00
95 7 0.03
96 43 0.16
98 65 0.25
100 46 0.18
101 1 0.00
102 7 0.03
103 8 0.03
104 25 0.10
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (97 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
CGATATATATGTGTGATAAGGCCGAATGGCCA
Found at i:55834513 original size:151 final size:145
Alignment explanation
Indices: 55834310--55834702 Score: 568
Period size: 151 Copynumber: 2.7 Consensus size: 145
55834300 TTAGGATTTT
* * * *
55834310 ATGTGATGGATGTGAACATGCGTATGT-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAACATACATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
*
55834374 CCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGA
66 CTGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATG-ATGTGAACATGCGTATGTGTGA
55834439 TAAGGCCGAATGGCCA
130 TAAGGCCGAATGGCCA
*
55834455 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 ATGTGATGAATGTGAA-C---ATACATATATG-GTGATAAGGCCGAATGGCCAATGTGATGAATG
*
55834520 TGAACCTGTATATATATGCGTGATAAGGCCGAATGGCC-ATGTGATGATGTGAACATGCGTATGT
61 TGAACCTGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGATGTGAACATGCGTATGT
55834584 GTGATAAGGCCGAATGGCCA
126 GTGATAAGGCCGAATGGCCA
* * *
55834604 ATGTGATGAATGTGAACATGCGTATA--GAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAACATACATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* *
55834667 ATG-A-ATATATGTG-G-TAAGGCCGAATGGCTAATGTGA
66 CTGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGA
55834703 AACGTGTATG
Statistics
Matches: 227, Mismatches: 14, Indels: 20
0.87 0.05 0.08
Matches are distributed among these distances:
138 14 0.06
139 7 0.03
140 8 0.04
141 1 0.00
142 38 0.17
145 21 0.09
146 1 0.00
148 1 0.00
149 60 0.26
150 8 0.04
151 68 0.30
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (145 bp):
ATGTGATGAATGTGAACATACATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
CTGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGATGTGAACATGCGTATGTGTGAT
AAGGCCGAATGGCCA
Found at i:55834740 original size:93 final size:91
Alignment explanation
Indices: 55834541--55834708 Score: 214
Period size: 93 Copynumber: 1.8 Consensus size: 91
55834531 ATATATGCGT
* * ** *
55834541 GATAAGGCCGAATGGCC-ATGTGATGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
1 GATAAAGCCAAATGGCCAATGTGATGATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAA
*
55834605 TGTGATGAATGTGAACATGCGTATAGA
66 TGTGA-GAACGTGAACATGCGTATAGA
* * * *
55834632 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 GATAAAGCCAAATGGCCAATGTGATG-ATGTGAACATGAATATATGTGATAAGGCCGAATGGCCA
55834697 ATGTGA-AACGTG
65 ATGTGAGAACGTG
55834709 TATGAGATGG
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
91 22 0.32
92 8 0.12
93 39 0.57
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (91 bp):
GATAAAGCCAAATGGCCAATGTGATGATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAA
TGTGAGAACGTGAACATGCGTATAGA
Found at i:55834762 original size:46 final size:46
Alignment explanation
Indices: 55834673--55834763 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
55834663 GAACATGAAT
* * * *
55834673 ATATGTGGTAAGGCCGAATGGCTAATGTGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGTGAAACATGTACGAGATGG
* *
55834719 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGTGAAACATGTACGAGATG
55834764 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGTGAAACATGTACGAGATGG
Found at i:55835092 original size:37 final size:37
Alignment explanation
Indices: 55834910--55835074 Score: 303
Period size: 37 Copynumber: 4.5 Consensus size: 37
55834900 GGAAATATAT
*
55834910 TCCGGGTAAGACCAGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
55834947 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
55834984 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
55835021 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
55835058 TCCGGGTAAGACCCGAT
1 TCCGGGTAAGACCCGAT
55835075 AACTTCATGT
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 124 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:55851131 original size:14 final size:15
Alignment explanation
Indices: 55851101--55851133 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
55851091 GCATAAACAA
55851101 ACACCCAAAACAGCC
1 ACACCCAAAACAGCC
*
55851116 ACACCC-AAACATCC
1 ACACCCAAAACAGCC
55851130 ACAC
1 ACAC
55851134 ATCAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.45, C:0.48, G:0.03, T:0.03
Consensus pattern (15 bp):
ACACCCAAAACAGCC
Found at i:55851926 original size:48 final size:47
Alignment explanation
Indices: 55851866--55851993 Score: 152
Period size: 48 Copynumber: 2.7 Consensus size: 47
55851856 CAAAGTGCTG
* *
55851866 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCGTCTCAA-T-GCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--AT-AAGTGGCCA
* * * *
55851914 ATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATAATGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAA-GTGGCCA
55851962 ATGCCATGTCCCAGACATGGTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
55851994 ACACGTATCA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
45 2 0.03
46 1 0.01
47 1 0.01
48 64 0.94
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAGTGGCCA
Found at i:55857528 original size:50 final size:50
Alignment explanation
Indices: 55857460--55857556 Score: 194
Period size: 50 Copynumber: 1.9 Consensus size: 50
55857450 GAAGCATAAG
55857460 CTATTACTTTGTCATTTTGCATAAGCACACAACCCAGTCCATTTAAGCGA
1 CTATTACTTTGTCATTTTGCATAAGCACACAACCCAGTCCATTTAAGCGA
55857510 CTATTACTTTGTCATTTTGCATAAGCACACAACCCAGTCCATTTAAG
1 CTATTACTTTGTCATTTTGCATAAGCACACAACCCAGTCCATTTAAG
55857557 GACGCATCGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (50 bp):
CTATTACTTTGTCATTTTGCATAAGCACACAACCCAGTCCATTTAAGCGA
Found at i:55863617 original size:28 final size:28
Alignment explanation
Indices: 55863564--55863618 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
55863554 CAACGGTTTT
*
55863564 CACACGGCCAAGCACATGCCCGTGTCCCG
1 CACACGGCCAA-CACAAGCCCGTGTCCCG
55863593 CACACGGCCTAA-ACAAGCCCGTGTCC
1 CACACGGCC-AACACAAGCCCGTGTCC
55863619 TCGCCCGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 13 0.54
29 9 0.38
30 2 0.08
ACGTcount: A:0.24, C:0.44, G:0.22, T:0.11
Consensus pattern (28 bp):
CACACGGCCAACACAAGCCCGTGTCCCG
Found at i:55865574 original size:25 final size:25
Alignment explanation
Indices: 55865539--55865633 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
55865529 CTCCTTTAAT
55865539 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* * *
55865564 AATTGGGGCAAGGCCCTTTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTGA-TA
*
55865590 AACTGGGGCAAAGCCCTTTTTGCTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
55865615 AACT-GGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
55865634 AGCACTTCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
24 14 0.23
25 26 0.43
26 21 0.34
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:55865885 original size:27 final size:27
Alignment explanation
Indices: 55865836--55866027 Score: 242
Period size: 27 Copynumber: 7.1 Consensus size: 27
55865826 GGGGCAAAAT
* *
55865836 GGTAATTTTTACCCCACAAGGGTATCTC
1 GGTAA-TTTTACCCTACAAGGGTATTTC
*
55865864 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
55865891 AGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
55865918 GGTAATTCTACTCTAC-AGGCGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
* *
55865945 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
55865972 GGTAATTCTACCCTACAAGGTTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
55865999 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
55866026 GG
1 GG
55866028 CATGTCATGT
Statistics
Matches: 141, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
26 3 0.02
27 131 0.93
28 7 0.05
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:55865909 original size:54 final size:54
Alignment explanation
Indices: 55865837--55866027 Score: 283
Period size: 54 Copynumber: 3.5 Consensus size: 54
55865827 GGGCAAAATG
* * *
55865837 GTAATTTTTACCCCACAAGGGTATCTCGGTAATTTTACCCTACAGGGGTATTTCA
1 GTAA-TTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
55865892 GTATTTTTACCCTACAAGGGTATTTCGGTAATTCTACTCTACAGGCGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
55865946 GTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGTTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
55866000 GTAATTCTACCCTACAAGGGTATTTCGG
1 GTAATTTTACCCTACAAGGGTATTTCGG
55866028 CATGTCATGT
Statistics
Matches: 122, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 119 0.98
55 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (54 bp):
GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:55866243 original size:27 final size:27
Alignment explanation
Indices: 55866194--55866385 Score: 267
Period size: 27 Copynumber: 7.1 Consensus size: 27
55866184 GGGGCAAAAT
* * * *
55866194 GGTAATTTTTACCCCACAAGGGTATCTC
1 GGTAA-TTCTACCCTACAGGGGTATTTC
55866222 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
55866249 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55866276 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55866303 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55866330 GGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
55866357 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
55866384 GG
1 GG
55866386 CATGTCATGT
Statistics
Matches: 145, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
27 140 0.97
28 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:55866270 original size:54 final size:54
Alignment explanation
Indices: 55866203--55866385 Score: 312
Period size: 54 Copynumber: 3.4 Consensus size: 54
55866193 TGGTAATTTT
* * *
55866203 TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
*
55866257 TACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
* *
55866311 TACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTCAGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
55866365 TACCCTACAAGGGTATTTCGG
1 TACCCTACAAGGGTATTTCGG
55866386 CATGTCATGT
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 121 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (54 bp):
TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
Found at i:55866327 original size:358 final size:358
Alignment explanation
Indices: 55865670--55868891 Score: 6210
Period size: 358 Copynumber: 9.0 Consensus size: 358
55865660 ACCCATACAA
55865670 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
1 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
*
55865735 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTTAGTCACTTGCCCACAA
66 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
55865800 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
131 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
* * *
55865865 GTAATTTTACCCTACAGGGGTATTTCAGTATTTTTACCCTACAAGGGTATTTCGGTAATTCTACT
196 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
* * *
55865930 CTACAGGCGTATTTCAGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGTTA
261 CTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
55865995 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
326 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
55866028 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
1 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
55866093 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
66 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
*
55866158 GGGCAAAATAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
131 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
55866223 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
196 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
*
55866288 CTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
261 CTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
55866353 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
326 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
55866386 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
1 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
55866451 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
66 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
*
55866516 GGGCAAAACAGTCATTTAACACCCTAAGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
131 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
55866581 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
196 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
* *
55866646 CTACAGGGGTATTTTAGTAATTCTACCCTACAGGAGTATTTCGGTAATTCTACCCTACAGGGTTA
261 CTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
*
55866711 TTTTAGTAATTCTACCCTACAAGGGTATTTCGG
326 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
*
55866744 CATGTCATGTTTGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
1 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
55866809 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
66 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
55866874 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
131 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
*
55866939 GTAATTCTACCCTACAGGGGTATTTCAGTATTTTTACCCTACAAGGGTATTTCGGTAATTCTACC
196 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
*
55867004 CTACAGGGGTATTTCAGTCATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
261 CTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
55867069 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
326 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
55867102 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
1 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
55867167 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
66 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
55867232 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
131 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
55867297 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
196 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
55867362 CTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
261 CTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
55867427 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
326 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
55867460 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
1 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
55867525 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
66 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
55867590 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
131 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
55867655 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
196 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
55867720 CTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
261 CTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
55867785 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
326 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
*
55867818 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATTGTCAAGTCATTCATA
1 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
*
55867883 TCACCAACATATATTCACAATCAAATCCGTCAACCACACAGTCCAAGTCAGTCACTTGCCCACAA
66 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
55867948 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
131 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
*
55868013 GTAATTCTACCCTACAGGGGTATTTCAGTATTTTTACCCTACAAGGGTATTTCGGTAATTCTACC
196 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
* *
55868078 CTACAGGGGTATTTCAGTCATTCTACCCTACAGGGGAATTTCGGTAATTCTACCCTACAGGGTTA
261 CTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
55868143 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
326 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
55868176 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
1 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
55868241 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
66 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
55868306 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
131 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
55868371 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
196 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
*
55868436 CTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
261 CTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
55868501 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
326 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
*
55868534 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATTGTCAAGTCATTCATA
1 CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
*
55868599 TCACCAACATATATTCACAATCAAATCCGTCAACCACACAGTCCAAGTCAGTCACTTGCCCACAA
66 TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
55868664 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
131 GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
*
55868729 GTAATTCTACCCTACAGGGGTATTTCAGTATTTTTACCCTACAAGGGTATTTCGGTAATTCTACC
196 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
*
55868794 CTACAGGGGTATTTCAGTCATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
261 CTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
55868859 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
326 TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
55868892 TAATTCTACC
Statistics
Matches: 2823, Mismatches: 41, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
358 2823 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (358 bp):
CATGTCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCATAGTCAAGTCATTCATA
TCACCAACATATATTCACAATCAAATCCGTCAACCACACGGTCCAAGTCAGTCACTTGCCCACAA
GGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTTACCCCACAAGGGTATCTCG
GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
CTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTA
TTTCAGTAATTCTACCCTACAAGGGTATTTCGG
Found at i:55866601 original size:27 final size:27
Alignment explanation
Indices: 55866552--55866743 Score: 249
Period size: 27 Copynumber: 7.1 Consensus size: 27
55866542 AGGGCAAAAT
* * * *
55866552 GGTAATTTTTACCCCACAAGGGTATCTC
1 GGTAA-TTCTACCCTACAGGGGTATTTC
55866580 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
55866607 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55866634 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
55866661 AGTAATTCTACCCTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
55866688 GGTAATTCTACCCTACAGGGTTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
55866715 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
55866742 GG
1 GG
55866744 CATGTCATGT
Statistics
Matches: 141, Mismatches: 23, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 136 0.96
28 5 0.04
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:55866625 original size:54 final size:54
Alignment explanation
Indices: 55866561--55866743 Score: 305
Period size: 54 Copynumber: 3.4 Consensus size: 54
55866551 TGGTAATTTT
* * * *
55866561 TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTC
55866615 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTC
*
55866669 TACCCTAC-AGGAGTATTTCGGTAATTCTACCCTACAGGGTTATTTTAGTAATTC
1 TACCCTACAAGG-GTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTC
55866723 TACCCTACAAGGGTATTTCGG
1 TACCCTACAAGGGTATTTCGG
55866744 CATGTCATGT
Statistics
Matches: 122, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
53 3 0.02
54 116 0.95
55 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (54 bp):
TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTC
Found at i:55866959 original size:27 final size:27
Alignment explanation
Indices: 55866910--55867101 Score: 258
Period size: 27 Copynumber: 7.1 Consensus size: 27
55866900 GGGGCAAAAT
* * * *
55866910 GGTAATTTTTACCCCACAAGGGTATCTC
1 GGTAA-TTCTACCCTACAGGGGTATTTC
55866938 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
55866965 AGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
55866992 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
55867019 AGTCATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55867046 GGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
55867073 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
55867100 GG
1 GG
55867102 CATGTCATGT
Statistics
Matches: 143, Mismatches: 21, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
27 138 0.97
28 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:55866983 original size:54 final size:54
Alignment explanation
Indices: 55866914--55867101 Score: 297
Period size: 54 Copynumber: 3.5 Consensus size: 54
55866904 CAAAATGGTA
* * *
55866914 ATTTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
*
55866968 ATTTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* *
55867022 CA-TTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTCAGT
1 -ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
*
55867076 AATTCTACCCTACAAGGGTATTTCGG
1 ATTTCTACCCTACAAGGGTATTTCGG
55867102 CATGTCATGT
Statistics
Matches: 126, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
53 1 0.01
54 124 0.98
55 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
Found at i:55867317 original size:27 final size:27
Alignment explanation
Indices: 55867268--55867459 Score: 276
Period size: 27 Copynumber: 7.1 Consensus size: 27
55867258 GGGGCAAAAT
* * * *
55867268 GGTAATTTTTACCCCACAAGGGTATCTC
1 GGTAA-TTCTACCCTACAGGGGTATTTC
55867296 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
55867323 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
55867350 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55867377 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55867404 GGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
55867431 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
55867458 GG
1 GG
55867460 CATGTCATGT
Statistics
Matches: 147, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
27 142 0.97
28 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:55867344 original size:54 final size:54
Alignment explanation
Indices: 55867277--55867459 Score: 321
Period size: 54 Copynumber: 3.4 Consensus size: 54
55867267 TGGTAATTTT
* * *
55867277 TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
55867331 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
* *
55867385 TACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTCAGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
55867439 TACCCTACAAGGGTATTTCGG
1 TACCCTACAAGGGTATTTCGG
55867460 CATGTCATGT
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 123 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (54 bp):
TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
Found at i:55867675 original size:27 final size:27
Alignment explanation
Indices: 55867626--55867817 Score: 276
Period size: 27 Copynumber: 7.1 Consensus size: 27
55867616 GGGGCAAAAT
* * * *
55867626 GGTAATTTTTACCCCACAAGGGTATCTC
1 GGTAA-TTCTACCCTACAGGGGTATTTC
55867654 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
55867681 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
55867708 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55867735 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55867762 GGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
55867789 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
55867816 GG
1 GG
55867818 CATGTCATGT
Statistics
Matches: 147, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
27 142 0.97
28 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:55867702 original size:54 final size:54
Alignment explanation
Indices: 55867635--55867817 Score: 321
Period size: 54 Copynumber: 3.4 Consensus size: 54
55867625 TGGTAATTTT
* * *
55867635 TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
55867689 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
* *
55867743 TACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTCAGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
55867797 TACCCTACAAGGGTATTTCGG
1 TACCCTACAAGGGTATTTCGG
55867818 CATGTCATGT
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 123 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (54 bp):
TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
Found at i:55868033 original size:27 final size:27
Alignment explanation
Indices: 55867984--55868175 Score: 249
Period size: 27 Copynumber: 7.1 Consensus size: 27
55867974 GGGGCAAAAT
* * * *
55867984 GGTAATTTTTACCCCACAAGGGTATCTC
1 GGTAA-TTCTACCCTACAGGGGTATTTC
55868012 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
55868039 AGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
55868066 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
55868093 AGTCATTCTACCCTACAGGGGAATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55868120 GGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
55868147 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
55868174 GG
1 GG
55868176 CATGTCATGT
Statistics
Matches: 141, Mismatches: 23, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 136 0.96
28 5 0.04
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:55868057 original size:54 final size:54
Alignment explanation
Indices: 55867988--55868175 Score: 288
Period size: 54 Copynumber: 3.5 Consensus size: 54
55867978 CAAAATGGTA
* * *
55867988 ATTTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
*
55868042 ATTTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* * *
55868096 CA-TTCTACCCTACAGGGGAATTTCGGTAATTCTACCCTACAGGGTTATTTCAGT
1 -ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
*
55868150 AATTCTACCCTACAAGGGTATTTCGG
1 ATTTCTACCCTACAAGGGTATTTCGG
55868176 CATGTCATGT
Statistics
Matches: 124, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.98
55 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
Found at i:55868391 original size:27 final size:27
Alignment explanation
Indices: 55868342--55868533 Score: 267
Period size: 27 Copynumber: 7.1 Consensus size: 27
55868332 GGGGCAAAAT
* * * *
55868342 GGTAATTTTTACCCCACAAGGGTATCTC
1 GGTAA-TTCTACCCTACAGGGGTATTTC
55868370 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
55868397 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55868424 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55868451 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55868478 GGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
55868505 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
55868532 GG
1 GG
55868534 CATGTCATGT
Statistics
Matches: 145, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
27 140 0.97
28 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:55868418 original size:54 final size:54
Alignment explanation
Indices: 55868351--55868533 Score: 312
Period size: 54 Copynumber: 3.4 Consensus size: 54
55868341 TGGTAATTTT
* * *
55868351 TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
*
55868405 TACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
* *
55868459 TACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTCAGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
55868513 TACCCTACAAGGGTATTTCGG
1 TACCCTACAAGGGTATTTCGG
55868534 CATGTCATGT
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 121 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (54 bp):
TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTC
Found at i:55868749 original size:27 final size:27
Alignment explanation
Indices: 55868700--55868915 Score: 297
Period size: 27 Copynumber: 8.0 Consensus size: 27
55868690 GGGGCAAAAT
* * * *
55868700 GGTAATTTTTACCCCACAAGGGTATCTC
1 GGTAA-TTCTACCCTACAGGGGTATTTC
55868728 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
55868755 AGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
55868782 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
55868809 AGTCATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55868836 GGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
55868863 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55868890 GGTAATTCTACCGTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
55868916 TGATATTTTA
Statistics
Matches: 165, Mismatches: 23, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
27 160 0.97
28 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:55868773 original size:54 final size:54
Alignment explanation
Indices: 55868704--55868915 Score: 336
Period size: 54 Copynumber: 3.9 Consensus size: 54
55868694 CAAAATGGTA
* * *
55868704 ATTTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
*
55868758 ATTTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* *
55868812 CA-TTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTCAGT
1 -ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* *
55868866 AATTCTACCCTACAAGGGTATTTCGGTAATTCTACCGTACAGGGGTATTT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
55868916 TGATATTTTA
Statistics
Matches: 148, Mismatches: 8, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
53 1 0.01
54 146 0.99
55 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
Found at i:55868973 original size:27 final size:27
Alignment explanation
Indices: 55868906--55869171 Score: 238
Period size: 27 Copynumber: 9.8 Consensus size: 27
55868896 TCTACCGTAC
*
55868906 AGGGGTATTTTGAT-ATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * * * *
55868931 -TGAGTATTTCGATAATTTCACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * *
55868956 CAGTGGTATTTTGGTAATTTTACAAGCC
1 -AGGGGTATTTTGGTAATTTTACAAACT
*
55868984 AAGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
*
55869011 AGGGGTATTTTAGTAA-TTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
55869037 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
*
55869064 AGGGGTATTTTAGTAATTTTAATTTTACAAACT
1 AGGGGTATTTT-G-----GTAATTTTACAAACT
**
55869097 AGGGGTATTTTGGTAATTTTACTGA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* ** *
55869123 CGAGGGTATTTTGGTAATTTTGTAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACT
* *
55869151 AAGGGTATTTTAGTAATTTTA
1 AGGGGTATTTTGGTAATTTTA
55869172 TAAATCGAGG
Statistics
Matches: 195, Mismatches: 33, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
24 10 0.05
25 10 0.05
26 27 0.14
27 121 0.62
28 1 0.01
32 1 0.01
33 25 0.13
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Done.