Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 258 of 345
Found at i:76252715 original size:39 final size:40
Alignment explanation
Indices: 76252601--76252777 Score: 218
Period size: 40 Copynumber: 4.5 Consensus size: 40
76252591 GCTACTCGTT
* *
76252601 CAAATGCCTTCGGGACATAGCCCGG-TTATAGCAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
76252641 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
76252681 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
76252720 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
76252761 CAAA-GCCTTCGGGACTT
1 CAAATGCCTTCGGGACTT
76252778 GTCCCGAACA
Statistics
Matches: 121, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.02
39 34 0.28
40 72 0.60
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:76252745 original size:79 final size:81
Alignment explanation
Indices: 76252601--76252775 Score: 216
Period size: 79 Copynumber: 2.2 Consensus size: 81
76252591 GCTACTCGTT
*
76252601 CAAATGCCTTCGGGACATAGCCCGGTTATAGCAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
76252666 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
* * **
76252681 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGCAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
76252743 GGATATGGTCACTTAGCA
64 GGATATAGTAACTTAGCA
76252761 CAAA-GCCTTCGGGAC
1 CAAATGCCTTCGGGAC
76252776 TTGTCCCGAA
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 4 0.05
79 55 0.67
80 23 0.28
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (81 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:76276528 original size:42 final size:41
Alignment explanation
Indices: 76276453--76276606 Score: 193
Period size: 42 Copynumber: 3.7 Consensus size: 41
76276443 CGAGGATTAT
*
76276453 GTGTAAGACCATATCT-GGATATGGCATTGATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTC
*
76276494 GTGTAAGACCATATCTGGGATATGACATCGATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTC
* * * * *
76276536 GTGTAAGACTATAGCTAGGCTATTGGCATCGATACGAGATTAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATT-C
*
76276579 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
76276607 TGGTATGGTA
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
41 16 0.17
42 48 0.50
43 32 0.33
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTC
Found at i:76276625 original size:85 final size:83
Alignment explanation
Indices: 76276453--76276625 Score: 188
Period size: 85 Copynumber: 2.1 Consensus size: 83
76276443 CGAGGATTAT
* * * *
76276453 GTGTAAGACCATATCTGGATATGGCATTGATATGAGACTTCGTGTAAGACCATATCTGGGATATG
1 GTGTAAGACCATAGCTGGATATGGCATCGATACGAGACTTCATGTAAGACCATATCTGGGATATG
* **
76276518 ACATCGATATGAGATTTC
66 ACATCGATATGAGACTGA
* *
76276536 GTGTAAGACTATAGCTAGGCTATTGGCATCGATACGAGA-TTACATGTAAGACCATATCTGGGAT
1 GTGTAAGACCATAGCT-GGATA-TGGCATCGATACGAGACTT-CATGTAAGACCATATCTGGGAT
* * *
76276600 ATGGCATTGGTATG-GTACTGA
63 ATGACATCGATATGAG-ACTGA
76276621 GTGTA
1 GTGTA
76276626 CGGGGCTCCT
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
83 14 0.19
84 7 0.09
85 53 0.72
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (83 bp):
GTGTAAGACCATAGCTGGATATGGCATCGATACGAGACTTCATGTAAGACCATATCTGGGATATG
ACATCGATATGAGACTGA
Found at i:76276659 original size:22 final size:22
Alignment explanation
Indices: 76276631--76276675 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
76276621 GTGTACGGGG
76276631 CTCCTAAATATCCTTTAGTATT
1 CTCCTAAATATCCTTTAGTATT
76276653 CTCCTAAATATCCTTTAGTATT
1 CTCCTAAATATCCTTTAGTATT
76276675 C
1 C
76276676 CAAGTGGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.24, G:0.04, T:0.44
Consensus pattern (22 bp):
CTCCTAAATATCCTTTAGTATT
Found at i:76281636 original size:718 final size:716
Alignment explanation
Indices: 76280257--76282396 Score: 3915
Period size: 718 Copynumber: 3.0 Consensus size: 716
76280247 TGCAGTCCTG
* *
76280257 AATCATATGGTCTTTGACTAGAGTACCAGGTTTTTGTTGGGCATTCATCAAACTAATTATAGCCG
1 AATCATATGGTCTTTGACTAGAGTACTAGGTTTTTATTGGGCATTCATCAAACTAATTATAGCCG
* *
76280322 ACTGTCATGCCAAGGCAGTTTGGCCTCCAAACATGTCCTCTAGTTTATCTAGAGTAACTTTGGCA
66 ACTGTCATGCCAAGGCAGTTTGGCCTCCAAACATGTCCTCTAGTTTGTCTAGAATAACTTTGGCA
*
76280387 ACCTTACATTTCTCCAATTGCTTATAAAGAGTGTTGGTCACACTTGCCAGCATATGATAGCGAGC
131 ACCTTACATTTCTCCAATTGCTTATAAAGAGTGTTGGTCACACTTGCCAGCATATGACAGCGAGC
* * *
76280452 TATCCCATCAAACTCCTCCTAGTGTTTTCTAGCCTTATTTTGAGTGGTCGTGGGAATCTATTATC
196 TATCCCATCAAACTCCTCCCAATGTTTTCTAGCCTTATTTTGAGTGGTCGTGGGCATCTATTATC
*
76280517 AAGAAATGTTTTGAGTTTCTCATAGCTTAGGACAATCATGATGTTCCTTTACCATTCATTATAGT
261 AAGAAATGTTTTGAGTTTCTCATAGCTTAGGACAATCATGATGTTCCTTTTCCATTCATTATAGT
* *
76280582 TATTTTCGTTTAGTTTGTTCTTAATAAGTATGTTTAGTAAGAGAGTAGGTGTCATTTTTTTGAAC
326 TATTTTCGTTTAGTTTATTCTCAATAAGTATGTTTAGTAAGAGAGTAGGTGTCATTTTTTTGAAC
76280647 TAAAAATAAAACATCCATTCATTAATATTTTTGTATTAAGGAAATATTATAAAACTTTTTGCAAC
391 TAAAAATAAAACATCCATTCATTAATATTTTTGTATTAAGGAAATATTATAAAACTTTTTGCAAC
*
76280712 AAACGATATGCATTAAGATAATGCATGCGTCTTACATTAAATCTTAGAAAATATTTGTAAGTCAT
456 AAACGATATGCATTAAGATAATGCATGCGTCTTACATTAAATCTTGGAAAATATTTGTAAGTCAT
*
76280777 TGCAATGATAATCCCTATACTCATTGAATTAAATCACCTTAGGGCAATCTTAATCAACTAGCAAG
521 TGCAATGATAATCCCTATACTCATTGAATTAAATCACCTTAGGGCAATCTTAATCAACTAGTAAG
76280842 AAAATGAATTTTCATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAAT
586 AAAATGAATTTTCATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAAT
*
76280907 CGCTTCACGTTTGGTCATAATCCAATTAATACGTGAACCTAATTCCTTAGGTATTCACATGTAAG
651 CGCTTCACGTTTGGTCATAATCCAATTAATACGTGAACCTGATTCCTTAGGTATTCAC--GTAAG
76280972 AGC
714 AGC
76280975 AATCATATGGTCTTTGACTAGAGTACTAGGTTTTTATTGGGCATTCATCAAACTAATTATAGCCG
1 AATCATATGGTCTTTGACTAGAGTACTAGGTTTTTATTGGGCATTCATCAAACTAATTATAGCCG
*
76281040 ACTGTCATGCCAAGGCAATTTGGCCTCCAAACATGTCCTCTAGTTTGTCTAGAATAACTTTGGCA
66 ACTGTCATGCCAAGGCAGTTTGGCCTCCAAACATGTCCTCTAGTTTGTCTAGAATAACTTTGGCA
* * * * *
76281105 ACCTTACATTTCTCTAATTTCTTATAAAGAGTGTTGGTCATACTTTCCAGCATATGACAACGAGC
131 ACCTTACATTTCTCCAATTGCTTATAAAGAGTGTTGGTCACACTTGCCAGCATATGACAGCGAGC
* *
76281170 TATCCCATCAAACTCCTCCCAATGTTTTCTAGCATTATTTTGAGTGGTTGTGGGCATCTATTATC
196 TATCCCATCAAACTCCTCCCAATGTTTTCTAGCCTTATTTTGAGTGGTCGTGGGCATCTATTATC
76281235 AAGAAATGTTTTGAGTTTCTCATAGCTTAGGACAATCATGATGTTCCTTTTCCATTCATTATAGT
261 AAGAAATGTTTTGAGTTTCTCATAGCTTAGGACAATCATGATGTTCCTTTTCCATTCATTATAGT
*
76281300 TATTTTCGTTTAGTTTATTCTCAATAAGTATGTTTAGTAAGAGAGTAGATGTCATTTTTTTGAAC
326 TATTTTCGTTTAGTTTATTCTCAATAAGTATGTTTAGTAAGAGAGTAGGTGTCATTTTTTTGAAC
*
76281365 TAAAAATAAAACATCCATTCATTAATATTTTTGTATTAAGGAAATATTATAAAACCTTTTGCAAC
391 TAAAAATAAAACATCCATTCATTAATATTTTTGTATTAAGGAAATATTATAAAACTTTTTGCAAC
76281430 AAACGATATGCATTAAGATAATGCATGCGTCTTACATTAAATCTTGGAAAATATTTGTAAGTCAT
456 AAACGATATGCATTAAGATAATGCATGCGTCTTACATTAAATCTTGGAAAATATTTGTAAGTCAT
* *
76281495 TGCAATGATAATCCCTATACTCATTGAATTAAGTCACCTTAGGGCAATCTTAATCAATTAGTAAG
521 TGCAATGATAATCCCTATACTCATTGAATTAAATCACCTTAGGGCAATCTTAATCAACTAGTAAG
*
76281560 AAAATGAATTTTCAGCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAAT
586 AAAATGAATTTTCATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAAT
* * *
76281625 CGCTCCACGTTTGGTCATAATCCAATTAATACTTGAACCTGATTTCTTAGGTATT--CGTAAGAG
651 CGCTTCACGTTTGGTCATAATCCAATTAATACGTGAACCTGATTCCTTAGGTATTCACGTAAGAG
76281688 C
716 C
* *
76281689 AATCATATGGTCTTTGACTAGAGTACTAGGTTTTTACTGGGCATTTATCAAACTAATTATAGCCG
1 AATCATATGGTCTTTGACTAGAGTACTAGGTTTTTATTGGGCATTCATCAAACTAATTATAGCCG
76281754 ACTGTCATGCCAAGGCAGTTTGGCCTCCAAACATGTCCTCTAGTTTGTCTAGAATAACTTTGGCA
66 ACTGTCATGCCAAGGCAGTTTGGCCTCCAAACATGTCCTCTAGTTTGTCTAGAATAACTTTGGCA
76281819 ACCTTACATTTCTCCAATTGCTTATAAAGAGTGTTGGTCACACTTGCCAGCATATGACAGCGAGC
131 ACCTTACATTTCTCCAATTGCTTATAAAGAGTGTTGGTCACACTTGCCAGCATATGACAGCGAGC
*
76281884 TATCCCATCAAACTCCTCCCAATGTTTTCTAGCCTTATTTTGATTGGTCGTGGGCATCTATTATC
196 TATCCCATCAAACTCCTCCCAATGTTTTCTAGCCTTATTTTGAGTGGTCGTGGGCATCTATTATC
76281949 AAGAAATGTTTTGAGTTTCTCATAGCTTAGGACAATCATGATGTTCCTTTTTCCATTCATTATAG
261 AAGAAATGTTTTGAGTTTCTCATAGCTTAGGACAATCATGATGTTCC-TTTTCCATTCATTATAG
76282014 TTATTTTCGTTTAGTTTATTCTCAATAAGTATGTTTAGTAAGAGAGTAGGTGTCATTTTTTTGAA
325 TTATTTTCGTTTAGTTTATTCTCAATAAGTATGTTTAGTAAGAGAGTAGGTGTCATTTTTTTGAA
*
76282079 CTAAAAATAAAACATCCATTCATTAATATTTTTGAATTAAGGAAATATTATAAAACTTTTTGCAA
390 CTAAAAATAAAACATCCATTCATTAATATTTTTGTATTAAGGAAATATTATAAAACTTTTTGCAA
*
76282144 CAAACGATATGCATTAAGATAATGCATGCGTCTGACATTAAATCTTGGAAAATATTTGTAAGTCA
455 CAAACGATATGCATTAAGATAATGCATGCGTCTTACATTAAATCTTGGAAAATATTTGTAAGTCA
76282209 TTGCAATGATAATCCCTATACTCATTGAATTAAATCACCTTAGGGCAATCTTAATCAACTAGTAA
520 TTGCAATGATAATCCCTATACTCATTGAATTAAATCACCTTAGGGCAATCTTAATCAACTAGTAA
76282274 GAAAATGAATTTTCATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAA
585 GAAAATGAATTTTCATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAA
*
76282339 TCGCTTCACGTTTGGTCATAATCCAATTAATATGTGAACCTGATTCCTTAGGTATTCA
650 TCGCTTCACGTTTGGTCATAATCCAATTAATACGTGAACCTGATTCCTTAGGTATTCA
76282397 TACGTACTAA
Statistics
Matches: 1367, Mismatches: 52, Indels: 7
0.96 0.04 0.00
Matches are distributed among these distances:
714 304 0.22
715 387 0.28
716 1 0.00
718 675 0.49
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (716 bp):
AATCATATGGTCTTTGACTAGAGTACTAGGTTTTTATTGGGCATTCATCAAACTAATTATAGCCG
ACTGTCATGCCAAGGCAGTTTGGCCTCCAAACATGTCCTCTAGTTTGTCTAGAATAACTTTGGCA
ACCTTACATTTCTCCAATTGCTTATAAAGAGTGTTGGTCACACTTGCCAGCATATGACAGCGAGC
TATCCCATCAAACTCCTCCCAATGTTTTCTAGCCTTATTTTGAGTGGTCGTGGGCATCTATTATC
AAGAAATGTTTTGAGTTTCTCATAGCTTAGGACAATCATGATGTTCCTTTTCCATTCATTATAGT
TATTTTCGTTTAGTTTATTCTCAATAAGTATGTTTAGTAAGAGAGTAGGTGTCATTTTTTTGAAC
TAAAAATAAAACATCCATTCATTAATATTTTTGTATTAAGGAAATATTATAAAACTTTTTGCAAC
AAACGATATGCATTAAGATAATGCATGCGTCTTACATTAAATCTTGGAAAATATTTGTAAGTCAT
TGCAATGATAATCCCTATACTCATTGAATTAAATCACCTTAGGGCAATCTTAATCAACTAGTAAG
AAAATGAATTTTCATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAAT
CGCTTCACGTTTGGTCATAATCCAATTAATACGTGAACCTGATTCCTTAGGTATTCACGTAAGAG
C
Found at i:76282376 original size:71 final size:71
Alignment explanation
Indices: 76282288--76282454 Score: 280
Period size: 71 Copynumber: 2.4 Consensus size: 71
76282278 ATGAATTTTC
76282288 ATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAATCGCTTCACGTTTG
1 ATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAATCGCTTCACGTTTG
76282353 GTCATA
66 GTCATA
* * * * *
76282359 ATCCAATTAATATGTGAACCTGATTCCTTAGGTATTCATACGTACTAATGATCGCTTCACGTTTG
1 ATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAATCGCTTCACGTTTG
76282424 GTCATA
66 GTCATA
*
76282430 ATCCAATTAATACATGAACCTAATT
1 ATCCAATTAATACGTGAACCTAATT
76282455 TATGCTTGAT
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 88 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.34
Consensus pattern (71 bp):
ATCCAATTAATACGTGAACCTAATTCCTTAGGCATTCACACGTACTAATAATCGCTTCACGTTTG
GTCATA
Found at i:76293650 original size:18 final size:18
Alignment explanation
Indices: 76293627--76293701 Score: 73
Period size: 18 Copynumber: 4.2 Consensus size: 18
76293617 ATATAGTTTA
76293627 GATATGAAGTTTTGTTAT
1 GATATGAAGTTTTGTTAT
* * *
76293645 GATATGAAGATCTGTTCT
1 GATATGAAGTTTTGTTAT
*
76293663 GATATTG-AGTTTTGATAT
1 GATA-TGAAGTTTTGTTAT
*
76293681 GATATGGAA-TTTTGTTGT
1 GATAT-GAAGTTTTGTTAT
76293699 GAT
1 GAT
76293702 TTAGAGTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
17 1 0.02
18 41 0.91
19 3 0.07
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.47
Consensus pattern (18 bp):
GATATGAAGTTTTGTTAT
Found at i:76293709 original size:36 final size:36
Alignment explanation
Indices: 76293634--76293733 Score: 89
Period size: 36 Copynumber: 2.8 Consensus size: 36
76293624 TTAGATATGA
* * * *
76293634 AGTTTTGTTATGATAT-GAAGATCTGTTCTGATATTG
1 AGTTTTGATATGATATGGAA-TTTTGTTGTGATATTG
76293670 AGTTTTGATATGATATGGAATTTTGTTGTGAT-TTAG
1 AGTTTTGATATGATATGGAATTTTGTTGTGATATT-G
* * *
76293706 AGTTCT-ATTATCATCTGGAATTTTGTTG
1 AGTTTTGA-TATGATATGGAATTTTGTTG
76293734 CCTTCGGGCT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
35 3 0.06
36 48 0.89
37 3 0.06
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.49
Consensus pattern (36 bp):
AGTTTTGATATGATATGGAATTTTGTTGTGATATTG
Found at i:76293824 original size:34 final size:34
Alignment explanation
Indices: 76293775--76293839 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
76293765 GATACCTTAG
* *
76293775 CACTTACGTGTTCTCTGGTGTTTTGGA-GGATTAA
1 CACTTACGTGCTCTCTAGTG-TTTGGATGGATTAA
*
76293809 CACTTATGTGCTCTCTAGTGTTTGGATGGAT
1 CACTTACGTGCTCTCTAGTGTTTGGATGGAT
76293840 CCTATACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 6 0.22
34 21 0.78
ACGTcount: A:0.17, C:0.15, G:0.26, T:0.42
Consensus pattern (34 bp):
CACTTACGTGCTCTCTAGTGTTTGGATGGATTAA
Found at i:76294901 original size:29 final size:29
Alignment explanation
Indices: 76294859--76294917 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
76294849 GTCTCTTGCA
76294859 ACATCGCGACATTAAGCCTACAATAAGTG
1 ACATCGCGACATTAAGCCTACAATAAGTG
76294888 ACATCGCGACATTAAGCCTACAATAAGTG
1 ACATCGCGACATTAAGCCTACAATAAGTG
76294917 A
1 A
76294918 TGTCATGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (29 bp):
ACATCGCGACATTAAGCCTACAATAAGTG
Found at i:76302999 original size:18 final size:19
Alignment explanation
Indices: 76302978--76303014 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
76302968 AAAAAAAGGT
76302978 TAAAAA-TGAAAAAAAAAC
1 TAAAAATTGAAAAAAAAAC
76302996 TAAAAATTTGAAAAAAAAA
1 TAAAAA-TTGAAAAAAAAA
76303015 AAAGAATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (19 bp):
TAAAAATTGAAAAAAAAAC
Found at i:76303022 original size:19 final size:19
Alignment explanation
Indices: 76302984--76303024 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
76302974 AGGTTAAAAA
76302984 TGAAAAAAAAACTAAAAATT
1 TGAAAAAAAAAC-AAAAATT
76303004 TGAAAAAAAAA-AAAGAATT
1 TGAAAAAAAAACAAA-AATT
76303023 TG
1 TG
76303025 CCTGACAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 3 0.15
19 6 0.30
20 11 0.55
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.20
Consensus pattern (19 bp):
TGAAAAAAAAACAAAAATT
Found at i:76303346 original size:21 final size:22
Alignment explanation
Indices: 76303309--76303352 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
76303299 ATAATTAAAG
76303309 TGTTAAAAATATAAATTT-TTT
1 TGTTAAAAATATAAATTTGTTT
*
76303330 TGTTATAAAAT-TTAATTTGTTT
1 TGTTA-AAAATATAAATTTGTTT
76303352 T
1 T
76303353 TATTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (22 bp):
TGTTAAAAATATAAATTTGTTT
Found at i:76303352 original size:23 final size:22
Alignment explanation
Indices: 76303309--76303358 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
76303299 ATAATTAAAG
76303309 TGTTA-AAAATATAAATTTTTT
1 TGTTATAAAATATAAATTTTTT
* *
76303330 TGTTATAAAATTTAATTTGTTTT
1 TGTTATAAAATATAAATT-TTTT
*
76303353 TATTAT
1 TGTTAT
76303359 TATTGTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.21
22 10 0.42
23 9 0.38
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (22 bp):
TGTTATAAAATATAAATTTTTT
Found at i:76303391 original size:7 final size:7
Alignment explanation
Indices: 76303379--76303408 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
76303369 TTAATTTGAA
76303379 TTTAATT
1 TTTAATT
76303386 TTTAATT
1 TTTAATT
76303393 TTTAATT
1 TTTAATT
76303400 TTTAATT
1 TTTAATT
76303407 TT
1 TT
76303409 ATTTTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTAATT
Found at i:76303484 original size:21 final size:19
Alignment explanation
Indices: 76303458--76303506 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
76303448 GGTATGTTTG
*
76303458 TATTTATTTTATATTTTTAT
1 TATTTATTTT-TATTTTTAA
*
76303478 TGATTTATAATTTATTTTTAA
1 T-ATTTAT-TTTTATTTTTAA
76303499 TATTTATT
1 TATTTATT
76303507 GGAGTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 7 0.29
21 15 0.62
22 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TATTTATTTTTATTTTTAA
Found at i:76303759 original size:31 final size:31
Alignment explanation
Indices: 76303721--76303780 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
76303711 ATTATGAGTT
* *
76303721 AAAAAATTATATCAACTTTTAAAATAACATA
1 AAAAAATTATACCAACATTTAAAATAACATA
*
76303752 AAAAAATTATACCGACATTTAAAATAACA
1 AAAAAATTATACCAACATTTAAAATAACA
76303781 ATACATACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (31 bp):
AAAAAATTATACCAACATTTAAAATAACATA
Found at i:76304095 original size:8 final size:8
Alignment explanation
Indices: 76304082--76304113 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
76304072 CTATCTCTTC
76304082 TTTCTTTT
1 TTTCTTTT
76304090 TTTCTTTT
1 TTTCTTTT
76304098 TTTCTTTT
1 TTTCTTTT
*
76304106 CTTCTTTT
1 TTTCTTTT
76304114 CTTTTCCGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTCTTTT
Found at i:76304107 original size:13 final size:13
Alignment explanation
Indices: 76304079--76304119 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
76304069 TCCCTATCTC
*
76304079 TTCTTTCTTT-TT
1 TTCTTTTTTTCTT
76304091 TTCTTTTTTTCTT
1 TTCTTTTTTTCTT
*
76304104 TTCTTCTTTTCTT
1 TTCTTTTTTTCTT
76304117 TTC
1 TTC
76304120 CGCTGCCCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTCTTTTTTTCTT
Found at i:76305996 original size:47 final size:48
Alignment explanation
Indices: 76305925--76306087 Score: 144
Period size: 46 Copynumber: 3.5 Consensus size: 48
76305915 TTGTGTGTGG
* * * *
76305925 GCTAATGTAATACATGTCTAGGACATGCATCGGCCACATT-ATA-AGA
1 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCACATTGAGACAAA
*
76305971 GCTAATTTAAGACCATGTCTGGGACATGGCATC-G--ACATTGAGACGAAA
1 GCTAATGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTGAGAC-AAA
* * *
76306019 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-TCGAGACGTAA
1 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCACATTGAGAC-AAA
* *
76306065 GCCAGTGTAAGACATGTCTGGGA
1 GCTAATGTAAGACATGTCTGGGA
76306088 TATGTATTGG
Statistics
Matches: 100, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
45 5 0.05
46 48 0.48
47 30 0.30
48 17 0.17
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (48 bp):
GCTAATGTAAGACATGTCTGGGACATGCATCGGCCACATTGAGACAAA
Found at i:76306072 original size:46 final size:48
Alignment explanation
Indices: 76305978--76306192 Score: 201
Period size: 46 Copynumber: 4.6 Consensus size: 48
76305968 AGAGCTAATT
* * * * *
76305978 TAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAAAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGTAAGCCAGTG
76306026 TAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTAAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGTAAGCCAGTG
* * * * *
76306072 TAAGA-CATGTCTGGGATAT-GTATTGG-CTACGAGATG-ATAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGACGTA-AGCCAGTG
* * * ** * *
76306118 TAAGACCATGTCTGGGACATGGCAT-TGACTTGAGATATGAGCCTGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGTAAGCCAGTG
*
76306165 TAAGACCGTGTCTGGGACATGGCATCGG
1 TAAGACCATGTCTGGGACATGGCATCGG
76306193 TACCTTACCC
Statistics
Matches: 140, Mismatches: 20, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
45 3 0.02
46 63 0.45
47 63 0.45
48 11 0.08
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGTAAGCCAGTG
Found at i:76306153 original size:47 final size:48
Alignment explanation
Indices: 76305978--76306189 Score: 206
Period size: 47 Copynumber: 4.5 Consensus size: 48
76305968 AGAGCTAATT
* * *
76305978 TAAGACCATGTCTGGGACATGGCATCGACATTGAGACGA-AAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATTGAC-TCGAGACGATAAGCCAGTG
* *
76306026 TAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACG-TAAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCAT-TGACTCGAGACGATAAGCCAGTG
* * * * *
76306072 TAAGA-CATGTCTGGGATAT-GTATTGGCTACGAGATGAT-AGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATTGACT-CGAGACGATAAGCCAGTG
* * * *
76306118 TAAGACCATGTCTGGGACATGGCATTGACTTGAGA-TATGAGCCTGTG
1 TAAGACCATGTCTGGGACATGGCATTGACTCGAGACGATAAGCCAGTG
*
76306165 TAAGACCGTGTCTGGGACATGGCAT
1 TAAGACCATGTCTGGGACATGGCAT
76306190 CGGTACCTTA
Statistics
Matches: 139, Mismatches: 18, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
45 3 0.02
46 60 0.43
47 64 0.46
48 12 0.09
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATTGACTCGAGACGATAAGCCAGTG
Found at i:76312496 original size:40 final size:40
Alignment explanation
Indices: 76312437--76312578 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
76312427 AAATTGAATA
* * *
76312437 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
76312477 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
76312517 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
76312557 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
76312579 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:76312579 original size:40 final size:39
Alignment explanation
Indices: 76312476--76312604 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
76312466 TGCTGGAAAT
* * *
76312476 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
76312516 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
76312556 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
76312596 TATATCCGG
1 TATATCCGG
76312605 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:76317289 original size:25 final size:25
Alignment explanation
Indices: 76317261--76317310 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
76317251 CATTGAGTTG
76317261 GTATCAATCAATATCGTTCAATTTC
1 GTATCAATCAATATCGTTCAATTTC
*
76317286 GTATCAATCAATATTGTTCAATTTC
1 GTATCAATCAATATCGTTCAATTTC
76317311 ACATACTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (25 bp):
GTATCAATCAATATCGTTCAATTTC
Found at i:76319865 original size:17 final size:19
Alignment explanation
Indices: 76319823--76319866 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
76319813 AAGAAATTTT
*
76319823 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
76319842 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
76319860 AA-TATTA
1 AATTATTA
76319867 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:76329657 original size:30 final size:30
Alignment explanation
Indices: 76329621--76329721 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
76329611 GACAAGATTG
* * *
76329621 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
76329651 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
76329679 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
76329708 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
76329722 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:76329733 original size:29 final size:28
Alignment explanation
Indices: 76329650--76329725 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
76329640 AAAATTGTAC
* *
76329650 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
76329678 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
76329707 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
76329726 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:76331695 original size:11 final size:11
Alignment explanation
Indices: 76331675--76331711 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
76331665 CGGTCAACAG
76331675 TGGT-TGGCGA
1 TGGTCTGGCGA
76331685 TGGTCTGGCGA
1 TGGTCTGGCGA
*
76331696 TGGTCTGACGA
1 TGGTCTGGCGA
76331707 TGGTC
1 TGGTC
76331712 GAAGGCAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 4 0.16
11 21 0.84
ACGTcount: A:0.11, C:0.16, G:0.43, T:0.30
Consensus pattern (11 bp):
TGGTCTGGCGA
Found at i:76335164 original size:48 final size:48
Alignment explanation
Indices: 76335088--76335486 Score: 717
Period size: 48 Copynumber: 8.3 Consensus size: 48
76335078 TGTACAAGAT
* * * *
76335088 AAATATATATGAGATATGTATATATGGTAATGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
76335136 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
* *
76335184 AAATATATATGAGATATGTATATGTGGTAAAGCCGGATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
76335232 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
76335280 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
76335328 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
76335376 AAATATGTATGAGATATGTATATGTGGTAAAGCTGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
76335424 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
76335472 AAATATGTAGGAGAT
1 AAATATGTATGAGAT
76335487 GTGTGTATAT
Statistics
Matches: 340, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 340 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
Found at i:76335681 original size:37 final size:37
Alignment explanation
Indices: 76335627--76335729 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
76335617 GGAAATATAT
*
76335627 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
76335664 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
76335701 TCCGGGTAAGACCCGATAACTATGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
76335730 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:76337701 original size:11 final size:11
Alignment explanation
Indices: 76337671--76337704 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
76337661 AATATTGTAT
76337671 TTATTAATTT-
1 TTATTAATTTA
76337681 TTATTAATTTA
1 TTATTAATTTA
*
76337692 TTATTTATTTA
1 TTATTAATTTA
76337703 TT
1 TT
76337705 CCAAATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTAATTTA
Found at i:76342652 original size:24 final size:25
Alignment explanation
Indices: 76342591--76342658 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 25
76342581 CGTCCCGTAT
* **
76342591 TAGCTCTCTTGAGCTTCCTGTTATA
1 TAGCTCTTTTGAGCTTCCCATTATA
* * *
76342616 TGGTTCTTGTGAGCTTCCCATTA-A
1 TAGCTCTTTTGAGCTTCCCATTATA
*
76342640 TAGCTCTTTTGAGCATCCC
1 TAGCTCTTTTGAGCTTCCC
76342659 GATTGGTTGT
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
24 16 0.48
25 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (25 bp):
TAGCTCTTTTGAGCTTCCCATTATA
Found at i:76342751 original size:26 final size:26
Alignment explanation
Indices: 76342722--76342819 Score: 110
Period size: 26 Copynumber: 3.8 Consensus size: 26
76342712 TCTATTATAT
76342722 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* * *
76342748 GGCTTTTTGTAAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
*** * *
76342774 GGCTCTTTAAGAGCTTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCCGATTAAA
76342800 GGCTC-TC-TGAGCTTCCCGAT
1 GGCTCTTCGTGAGCTTCCCGAT
76342820 ATTGGCTCTC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
24 11 0.18
25 1 0.02
26 48 0.80
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:76342838 original size:24 final size:24
Alignment explanation
Indices: 76342798--76342851 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
76342788 TTCCTGATTA
* *
76342798 ATGGCTCTCTGAGCTTCCCGATAT
1 ATGGCTCTCTGAACTTCCCAATAT
76342822 -TGGCTCTCTTGAACTTCCCAATAT
1 ATGGCTCTC-TGAACTTCCCAATAT
76342846 ATGGCT
1 ATGGCT
76342852 ATCTAAAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 8 0.31
24 13 0.50
25 5 0.19
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.35
Consensus pattern (24 bp):
ATGGCTCTCTGAACTTCCCAATAT
Found at i:76342863 original size:25 final size:25
Alignment explanation
Indices: 76342809--76342864 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
76342799 TGGCTCTCTG
* * *
76342809 AGCTTCCCGATATTGGCTCTCTTGA
1 AGCTTCCCAATATTGGCTATCTTAA
76342834 A-CTTCCCAATATATGGCTATC-TAA
1 AGCTTCCCAATAT-TGGCTATCTTAA
76342858 AGCTTCC
1 AGCTTCC
76342865 TGATTAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (25 bp):
AGCTTCCCAATATTGGCTATCTTAA
Found at i:76342921 original size:73 final size:73
Alignment explanation
Indices: 76342785--76342926 Score: 189
Period size: 73 Copynumber: 1.9 Consensus size: 73
76342775 GCTCTTTAAG
* * *
76342785 AGCTTCCTGATTAATGGCTCTCTGAGCTTCCCGATATTGGCTCTCTTGAACTTCCCAATATATGG
1 AGCTTCCTGATTAATGGCTCTCAGAGCTACCCGATATTGGCTCTCATGAACTTCCCAATATATGG
76342850 CTATCTAA
66 CTATCTAA
* * **
76342858 AGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGTTATTGGCT-TGCATGAGCTTCCTGA-ATAT
1 AGCTTCCTGATTAATGGCTC-TCAGAGCTACCCGATATTGGCTCT-CATGAACTTCCCAATATAT
76342921 GGCTAT
64 GGCTAT
76342927 TATGAGCTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
73 31 0.52
74 29 0.48
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (73 bp):
AGCTTCCTGATTAATGGCTCTCAGAGCTACCCGATATTGGCTCTCATGAACTTCCCAATATATGG
CTATCTAA
Found at i:76345777 original size:46 final size:49
Alignment explanation
Indices: 76345642--76345905 Score: 222
Period size: 46 Copynumber: 5.6 Consensus size: 49
76345632 GTAAGGTGCT
* * * * * *
76345642 GATGCCATGTCCTAGACATGGTCTTACACAGGCTTTAGCATATC-TATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TTA-CATCTCGTAGGCC
*
76345692 GATGCCATGTCCCAGACATGGTCTTACGCTGAC--ACATCTCGTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTTACATCTCGTAGGCC
76345738 GATG-CATGTCCCAGACAT-GTCTTACACTGACTTACATCTCG-AGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTTACATCTCGTAGGCC
* * * * *
76345784 AATG-TATGTCCTAGACAT-GTCTTACACTAGCAC-T-CATCTC-AAGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACTTACATCTCGTAGGCC
*
76345830 GATGCCATGTCCCAGACATGGTCTTACACT-AGCTCT-CATAAT-GT-GGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CT-TACAT-CTCGTAGGCC
76345878 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
76345906 AGCTCACAAT
Statistics
Matches: 183, Mismatches: 17, Indels: 32
0.79 0.07 0.14
Matches are distributed among these distances:
44 12 0.07
45 16 0.09
46 71 0.39
47 31 0.17
48 23 0.13
49 1 0.01
50 29 0.16
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTTACATCTCGTAGGCC
Found at i:76345855 original size:94 final size:92
Alignment explanation
Indices: 76345697--76345908 Score: 238
Period size: 94 Copynumber: 2.3 Consensus size: 92
76345687 ATGTCGATGC
* * * *
76345697 CATGTCCCAGACATGGTCTTACGCT-G-ACACATCTCGTA-GCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTC-AAGGTCGATGCATGTCCCAGACATGTC
*
76345759 TTACACT-GACT-TACAT-CTCGAGGCCAATG
64 TTACACTAG-CTCT-CATAAT-GAGGCCAATG
* *
76345788 TATGTCCTAGACATGTCTTACACTAGCACTCATCTCAAGGTCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAAGGTCGATG-CATGTCCCAGACAT-GTC
* *
76345853 TTACACTAGCTCTCATAATGTGGCCGATG
64 TTACACTAGCTCTCATAATGAGGCCAATG
76345882 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
76345909 TCACAATAGC
Statistics
Matches: 102, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
90 9 0.09
91 14 0.14
92 14 0.14
93 14 0.14
94 48 0.47
95 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAAGGTCGATGCATGTCCCAGACATGTCTT
ACACTAGCTCTCATAATGAGGCCAATG
Found at i:76345910 original size:46 final size:46
Alignment explanation
Indices: 76345691--76345910 Score: 227
Period size: 46 Copynumber: 4.7 Consensus size: 46
76345681 ATATCTATGT
* * *
76345691 CGATGCCATGTCCCAGACATGGTCTTACGCT-G-ACACATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCG-AGGC
76345737 CGATGCATGTCCCAGACATGTCTTACACT-GACT-TACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAG-CTCT-CATCTCGAGGC
* * * * * *
76345783 CAATGTATGTCCTAGACATGTCTTACACTAGCACTCATCTCAAGGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAGGC
* *
76345829 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGAGGC
76345877 CGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTC
76345911 ACAATAGCCC
Statistics
Matches: 148, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 69 0.47
47 28 0.19
48 25 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAGGC
Found at i:76347564 original size:28 final size:28
Alignment explanation
Indices: 76347516--76347606 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
76347506 GTGACAGAGT
*
76347516 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
76347545 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
76347573 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
76347601 CACCAG
1 CACCAG
76347607 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:76347759 original size:28 final size:28
Alignment explanation
Indices: 76347712--76347776 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
76347702 AAATTAACCC
*
76347712 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
76347740 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
76347768 TAGGGGTAT
1 TAGGGGTAT
76347777 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:76348045 original size:16 final size:16
Alignment explanation
Indices: 76348024--76348063 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
76348014 AAATACCGAT
76348024 TTTTCGGCATTTCGGC
1 TTTTCGGCATTTCGGC
76348040 TTTTCGGCATTTCGGC
1 TTTTCGGCATTTCGGC
76348056 TTTTCGGC
1 TTTTCGGC
76348064 TTTTGCCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.05, C:0.25, G:0.25, T:0.45
Consensus pattern (16 bp):
TTTTCGGCATTTCGGC
Found at i:76348064 original size:8 final size:8
Alignment explanation
Indices: 76348024--76348067 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
76348014 AAATACCGAT
76348024 TTTTCGGC
1 TTTTCGGC
*
76348032 ATTTCGGC
1 TTTTCGGC
76348040 TTTTCGGC
1 TTTTCGGC
*
76348048 ATTTCGGC
1 TTTTCGGC
76348056 TTTTCGGC
1 TTTTCGGC
76348064 TTTT
1 TTTT
76348068 GCCGATCTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.05, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
TTTTCGGC
Found at i:76351834 original size:40 final size:40
Alignment explanation
Indices: 76351775--76351982 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
76351765 CATTGGAATG
* * *
76351775 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
76351815 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
76351855 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * * *
76351895 AAATCCAGGTTAAGACCTGAAGGCAATTGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
76351935 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
76351975 ATATCCGG
1 ATATCCGG
76351983 TTAAATTCCG
Statistics
Matches: 137, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
39 3 0.02
40 132 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:76358650 original size:28 final size:29
Alignment explanation
Indices: 76358577--76358664 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
76358567 AGCATGGCTG
* * * *
76358577 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
76358604 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
76358633 CCAGA-ACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
76358661 CCAG
1 CCAG
76358665 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.24
28 25 0.49
29 14 0.27
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:76358816 original size:27 final size:28
Alignment explanation
Indices: 76358770--76358833 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
76358760 AAATTAACCC
*
76358770 TAGGGGTATAAAGGTCA-TTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
76358797 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
76358825 TAGGGGTAT
1 TAGGGGTAT
76358834 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 15 0.44
28 19 0.56
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:76361459 original size:17 final size:17
Alignment explanation
Indices: 76361437--76361513 Score: 74
Period size: 17 Copynumber: 4.7 Consensus size: 17
76361427 ATCTACAAGA
76361437 TAAATATTAAATTAAAT
1 TAAATATTAAATTAAAT
76361454 TAAATATTAAATT--AT
1 TAAATATTAAATTAAAT
*
76361469 TAAA-A-TACTATTAAGA-
1 TAAATATTA-AATTAA-AT
*
76361485 TAAGTATTAAATTAAAT
1 TAAATATTAAATTAAAT
*
76361502 TTAATATTAAAT
1 TAAATATTAAAT
76361514 CTATTAAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
13 2 0.04
14 4 0.08
15 6 0.12
16 4 0.08
17 30 0.62
18 2 0.04
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.42
Consensus pattern (17 bp):
TAAATATTAAATTAAAT
Found at i:76371512 original size:23 final size:23
Alignment explanation
Indices: 76371486--76371597 Score: 118
Period size: 23 Copynumber: 4.9 Consensus size: 23
76371476 TAATCACTAT
*
76371486 TGAGTTGAATCAGTAAGCTCCAA
1 TGAGCTGAATCAGTAAGCTCCAA
* **
76371509 TGAGCTGAAACAGTAAGCT-TTA
1 TGAGCTGAATCAGTAAGCTCCAA
*
76371531 TCGAGCTGAATCGGTAAGCTCCAA
1 T-GAGCTGAATCAGTAAGCTCCAA
* * **
76371555 TGAGCTAAAACAGTAAGCTCTTA
1 TGAGCTGAATCAGTAAGCTCCAA
*
76371578 TGAGCTGAATCGGTAAGCTC
1 TGAGCTGAATCAGTAAGCTC
76371598 ATACGAGTTG
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
22 2 0.03
23 67 0.94
24 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (23 bp):
TGAGCTGAATCAGTAAGCTCCAA
Found at i:76371548 original size:46 final size:46
Alignment explanation
Indices: 76371486--76371597 Score: 181
Period size: 46 Copynumber: 2.4 Consensus size: 46
76371476 TAATCACTAT
* * *
76371486 TGAGTTGAATCAGTAAGCTCCAATGAGCTGAAACAGTAAGCT-TTA
1 TGAGCTGAATCGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCTTA
76371531 TCGAGCTGAATCGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCTTA
1 T-GAGCTGAATCGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCTTA
76371578 TGAGCTGAATCGGTAAGCTC
1 TGAGCTGAATCGGTAAGCTC
76371598 ATACGAGTTG
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
45 1 0.02
46 57 0.92
47 4 0.06
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (46 bp):
TGAGCTGAATCGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCTTA
Found at i:76391090 original size:20 final size:20
Alignment explanation
Indices: 76391065--76391113 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
76391055 TCGCATAAGT
*
76391065 TGTAAAATAGGTAATAAATG
1 TGTAAAATAAGTAATAAATG
*
76391085 TGTAAAATAAGTTATAAATG
1 TGTAAAATAAGTAATAAATG
*
76391105 TGTGAAATA
1 TGTAAAATA
76391114 TTGAGAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (20 bp):
TGTAAAATAAGTAATAAATG
Found at i:76391655 original size:46 final size:47
Alignment explanation
Indices: 76391588--76391899 Score: 181
Period size: 46 Copynumber: 6.7 Consensus size: 47
76391578 ATTGTGTGCT
* *
76391588 AGTGTAAGACGTGTCAGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *
76391634 AGTGTAAGACATGTCTGGGACATGGCATCGG---CATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATT---ATGAGAGCC
* * * * *
76391681 AGTTTAAGACATGTTTGGGACAT-GCATCAGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-ATTATG-AGAGCC
* *
76391727 AGTGTGAA-ACATGTCTGGGACAT-GCATCGGCTACA--A-GATGTGCC
1 AGTGT-AAGACATGTCTGGGACATGGCATCGGCCACATTATGA-GAGCC
* * * * *
76391771 AGTATAAGACCATGTCTGGGACATGGCATTGGCCTCAATT-TCGATAGTC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCAC-ATTAT-GAGAGCC
** * * *
76391820 AGTGTAAGACCATGTCCAGGACATGGCATC-G--A-GTTGATAGATGTGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACATT-AT-GA-GAGCC
76391867 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC
76391900 ATTACACCCT
Statistics
Matches: 205, Mismatches: 36, Indels: 47
0.71 0.12 0.16
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 15 0.07
45 15 0.07
46 69 0.34
47 68 0.33
48 2 0.01
49 29 0.14
50 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:76391689 original size:47 final size:48
Alignment explanation
Indices: 76391627--76391902 Score: 191
Period size: 47 Copynumber: 5.9 Consensus size: 48
76391617 GCCACATTAT
76391627 GAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
* * * * * * *
76391674 GAGAGCTAGTTTAAGA-CATGTTTGGGACAT-GCATCAGCCTCGAGAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
* *
76391720 GTA-AGCCAGTGTGAA-A-CATGTCTGGGACAT-GCATCGGC--T-ACAA
1 G-AGAGCCAGTGT-AAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
* * * * ** **
76391763 GATGTGCCAGTATAAGACCATGTCTGGGACATGGCATTGGCCTCAATTTC
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GAC
* * ** *
76391813 GATAGTCAGTGTAAGACCATGTCCAGGACATGGCATC-G-AGTTGATA-
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TTGAGAC
* *
76391859 GATGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
76391903 ACACCCTCTG
Statistics
Matches: 176, Mismatches: 38, Indels: 29
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 8 0.05
45 14 0.08
46 50 0.28
47 60 0.34
48 6 0.03
49 30 0.17
50 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
Found at i:76392344 original size:41 final size:41
Alignment explanation
Indices: 76392296--76392380 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
76392286 GTTAGATCTC
76392296 TTATTTTGATTATGGCATGTATAGGACTCTTTGATCTTGTT
1 TTATTTTGATTATGGCATGTATAGGACTCTTTGATCTTGTT
76392337 TTATTTTGATTATGGCATGTATAGGACTCTTTGATCTTGTT
1 TTATTTTGATTATGGCATGTATAGGACTCTTTGATCTTGTT
76392378 TTA
1 TTA
76392381 GTGTCACATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.20, C:0.09, G:0.19, T:0.52
Consensus pattern (41 bp):
TTATTTTGATTATGGCATGTATAGGACTCTTTGATCTTGTT
Found at i:76398572 original size:13 final size:13
Alignment explanation
Indices: 76398554--76398578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76398544 GTAAGTGATT
76398554 TTGATGATTTTTC
1 TTGATGATTTTTC
76398567 TTGATGATTTTT
1 TTGATGATTTTT
76398579 GCACTTTTAG
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:76401527 original size:24 final size:24
Alignment explanation
Indices: 76401495--76401541 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
76401485 CTGTCAGGAG
**
76401495 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
76401519 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
76401542 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:76402783 original size:27 final size:27
Alignment explanation
Indices: 76402744--76402854 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
76402734 GGAAGCGTCT
*
76402744 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
*
76402771 TGGTGGCTCTGCCACATATT-TCT-ATTT
1 TGGTGGCTCTGCCACA-ATTATCTGA-TC
*
76402798 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCACAATTATCTG-ATC
* * *
76402826 TGGTGACTCTGTCAC-ATTATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGATC
76402852 TGG
1 TGG
76402855 CAGTCATGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
26 9 0.12
27 45 0.62
28 17 0.24
29 1 0.01
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:76403971 original size:43 final size:43
Alignment explanation
Indices: 76403923--76404092 Score: 186
Period size: 43 Copynumber: 4.0 Consensus size: 43
76403913 ATTGCCAAGA
* *
76403923 TGTGATTACATGTAAAACCATGTCTGGGACATTGACATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
*
76403966 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCAT-TA-
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAT
* * * * *
76404009 TATGATTTCGTGTAAGACCATGTCTGGGAAATTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * *
76404051 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
76404093 CAAGCTATGT
Statistics
Matches: 107, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 96 0.90
44 2 0.02
45 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:76406668 original size:39 final size:39
Alignment explanation
Indices: 76406551--76406732 Score: 220
Period size: 39 Copynumber: 4.6 Consensus size: 39
76406541 CGTTCAAACA
* * ** * **
76406551 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* * * *
76406591 CCTTCGGGACTTAACCCGGATATCACAATTTGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
76406631 CCTTCGGGCTTAGCCCGGATATCATAACACGCCCAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
76406670 CCTTCGGGCTTAGCCCGAATATCATAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
76406709 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
76406733 CTCGAACATT
Statistics
Matches: 121, Mismatches: 21, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
39 84 0.69
40 37 0.31
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:76411210 original size:42 final size:42
Alignment explanation
Indices: 76411119--76411215 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 42
76411109 CATGTAAGAC
* * * * * *
76411119 GATATGGCGTTGATATGAGATTTCATGTAAGACTACATCTAG
1 GATATGGCGTCGAAATGAGAATCCATATAAGACCACATCTAG
* * * *
76411161 GACATGGCGTCGAAATGAGAATCCGTATAAGACCATATCTGG
1 GATATGGCGTCGAAATGAGAATCCATATAAGACCACATCTAG
*
76411203 GATATGGCATCGA
1 GATATGGCGTCGA
76411216 TGTGAAATCC
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (42 bp):
GATATGGCGTCGAAATGAGAATCCATATAAGACCACATCTAG
Found at i:76415020 original size:20 final size:20
Alignment explanation
Indices: 76414995--76415035 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
76414985 GTAAATGCAA
76414995 AAATAT-TTTTAAGATTTTTT
1 AAATATATTTT-AGATTTTTT
*
76415015 AAATATATTTTATATTTTTT
1 AAATATATTTTAGATTTTTT
76415035 A
1 A
76415036 GAATTAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
AAATATATTTTAGATTTTTT
Found at i:76415250 original size:12 final size:12
Alignment explanation
Indices: 76415233--76415274 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
76415223 AAAATAGAGT
76415233 AATTAAATAAAA
1 AATTAAATAAAA
*
76415245 AATT-AATAATAT
1 AATTAAATAA-AA
76415257 AATTAAATAAAA
1 AATTAAATAAAA
76415269 AATTAA
1 AATTAA
76415275 TAGTTTGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 5 0.19
12 16 0.62
13 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATTAAATAAAA
Found at i:76417279 original size:16 final size:17
Alignment explanation
Indices: 76417258--76417290 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
76417248 ATGCATCTAG
76417258 GTGCTAA-ATGCAGCTC
1 GTGCTAAGATGCAGCTC
76417274 GTGCTAAGATGCAGCTC
1 GTGCTAAGATGCAGCTC
76417291 ATATCAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (17 bp):
GTGCTAAGATGCAGCTC
Found at i:76422136 original size:29 final size:29
Alignment explanation
Indices: 76422103--76422234 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
76422093 GTGACGAGAT
*
76422103 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
76422132 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
76422161 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
76422190 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
76422219 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
76422235 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:76429910 original size:29 final size:29
Alignment explanation
Indices: 76429877--76430008 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
76429867 GTGACGAGAT
*
76429877 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
76429906 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
76429935 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
76429964 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
76429993 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
76430009 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:76434114 original size:12 final size:12
Alignment explanation
Indices: 76434097--76434122 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
76434087 AAAATAGGGC
76434097 TTTAGCGGCGTT
1 TTTAGCGGCGTT
76434109 TTTAGCGGCGTT
1 TTTAGCGGCGTT
76434121 TT
1 TT
76434123 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:76434203 original size:40 final size:41
Alignment explanation
Indices: 76434158--76434245 Score: 106
Period size: 41 Copynumber: 2.2 Consensus size: 41
76434148 AAACACATAA
* * *
76434158 CAATAGCGGCATTTTA-CCAAAAACGCCACTAAAAATAGAG
1 CAATAGCGACATTTTAGCAAAAAACGCCACAAAAAATAGAG
* * *
76434198 CAATAGCGACGTTTTAGTAAAAAACGCCGCAAAAAATAGAG
1 CAATAGCGACATTTTAGCAAAAAACGCCACAAAAAATAGAG
*
76434239 CATTAGC
1 CAATAGC
76434246 AGCGCTTCTG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 14 0.35
41 26 0.65
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.18
Consensus pattern (41 bp):
CAATAGCGACATTTTAGCAAAAAACGCCACAAAAAATAGAG
Found at i:76434272 original size:81 final size:82
Alignment explanation
Indices: 76434177--76434354 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 82
76434167 CATTTTACCA
* * * *
76434177 AAAACGCCACTAAAAA-TAGAGCAATAGCGACG-TTTTAGTAAAAAACGCCGC-AAAAAATAGAG
1 AAAACGCCGCTAAAAACCAGAGCAATAGCGACGCTTTT-G-AAAAAACGCCGCTAAAAAACAAAG
76434239 CATTAGCAGCGCTTCT-GT
64 CATTAGCAGCGCTTCTGGT
* * * *
76434257 CAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCTAAAAACCAAAGC
1 -AAAACGCCGCTAAAAACCAGAGCAATAGCGACGCTTTTGAAAAAACGCCGCTAAAAAACAAAGC
* *
76434322 ATTAGCGGCGCTTTTGGT
65 ATTAGCAGCGCTTCTGGT
76434340 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
76434355 GTCATATAAC
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
81 26 0.31
82 51 0.61
83 6 0.07
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.17
Consensus pattern (82 bp):
AAAACGCCGCTAAAAACCAGAGCAATAGCGACGCTTTTGAAAAAACGCCGCTAAAAAACAAAGCA
TTAGCAGCGCTTCTGGT
Found at i:76434273 original size:41 final size:40
Alignment explanation
Indices: 76434177--76434354 Score: 191
Period size: 41 Copynumber: 4.4 Consensus size: 40
76434167 CATTTTACCA
* * * *
76434177 AAAACGCCACTAAAAA-TAGAGCAATAGCGACG-TTTTAGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-GT
** * *
76434216 AAAAAACGCCGC-AAAAAATAGAGCATTAGCAGCGCTTCTGT
1 --AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGT
*
76434257 CAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGA
1 -AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-GT
*
76434299 AAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-GT
76434340 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
76434355 GTCATATAAC
Statistics
Matches: 120, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
40 15 0.12
41 101 0.84
42 4 0.03
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.17
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGT
Found at i:76434526 original size:7 final size:7
Alignment explanation
Indices: 76434511--76434571 Score: 68
Period size: 7 Copynumber: 8.7 Consensus size: 7
76434501 TTAATTATCA
*
76434511 TTATAGT
1 TTATGGT
76434518 TTATGGT
1 TTATGGT
76434525 TTATGGT
1 TTATGGT
76434532 TTATGGT
1 TTATGGT
* *
76434539 TTAAGAT
1 TTATGGT
*
76434546 ATATGGT
1 TTATGGT
*
76434553 TTAGGGT
1 TTATGGT
*
76434560 TTAAGGT
1 TTATGGT
76434567 TTATG
1 TTATG
76434572 AGTTAACTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (7 bp):
TTATGGT
Found at i:76434535 original size:21 final size:21
Alignment explanation
Indices: 76434511--76434661 Score: 104
Period size: 21 Copynumber: 6.8 Consensus size: 21
76434501 TTAATTATCA
* *
76434511 TTATAGTTTATGGTTTATGGT
1 TTATGGTTTAAGGTTTATGGT
* *
76434532 TTATGGTTTAAGATATATGGT
1 TTATGGTTTAAGGTTTATGGT
*
76434553 TTAGGGTTTAAGGTTTATGAGT
1 TTATGGTTTAAGGTTTATG-GT
* ** *
76434575 TAACTATAGTTTAATATATATGGT
1 T---TATGGTTTAAGGTTTATGGT
*
76434599 TTAGGGTTTAAGGTTTATGAGT
1 TTATGGTTTAAGGTTTATG-GT
* * *
76434621 TAACTATAGTTTAAGATATATGGT
1 T---TATGGTTTAAGGTTTATGGT
*
76434645 TTAGGGTTTAAGGTTTA
1 TTATGGTTTAAGGTTTA
76434662 GGAGTTAACT
Statistics
Matches: 97, Mismatches: 25, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
21 58 0.60
22 6 0.06
24 6 0.06
25 27 0.28
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.47
Consensus pattern (21 bp):
TTATGGTTTAAGGTTTATGGT
Found at i:76434596 original size:25 final size:25
Alignment explanation
Indices: 76434558--76434642 Score: 79
Period size: 25 Copynumber: 3.6 Consensus size: 25
76434548 ATGGTTTAGG
* *
76434558 GTTTAAGGTTTATGAGTTAACTATA
1 GTTTAAGATATATGAGTTAACTATA
* **
76434583 GTTTAATATATATG-GTT---TAGG
1 GTTTAAGATATATGAGTTAACTATA
* *
76434604 GTTTAAGGTTTATGAGTTAACTATA
1 GTTTAAGATATATGAGTTAACTATA
76434629 GTTTAAGATATATG
1 GTTTAAGATATATG
76434643 GTTTAGGGTT
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
21 13 0.30
22 3 0.07
24 3 0.07
25 25 0.57
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (25 bp):
GTTTAAGATATATGAGTTAACTATA
Found at i:76434596 original size:46 final size:46
Alignment explanation
Indices: 76434537--76434672 Score: 254
Period size: 46 Copynumber: 3.0 Consensus size: 46
76434527 ATGGTTTATG
76434537 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAACTATA
1 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAACTATA
*
76434583 GTTTAATATATATGGTTTAGGGTTTAAGGTTTATGAGTTAACTATA
1 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAACTATA
*
76434629 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAACTA
1 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAACTA
76434673 GTATTTGAAG
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 87 1.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.43
Consensus pattern (46 bp):
GTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAACTATA
Found at i:76434728 original size:7 final size:7
Alignment explanation
Indices: 76434699--76434832 Score: 110
Period size: 7 Copynumber: 19.1 Consensus size: 7
76434689 GATGAATTAT
76434699 GGGTTTA
1 GGGTTTA
*
76434706 GGGATTA
1 GGGTTTA
* *
76434713 TGATTTA
1 GGGTTTA
76434720 GGGTTTA
1 GGGTTTA
*
76434727 GGGGTTA
1 GGGTTTA
76434734 GGG-TT-
1 GGGTTTA
76434739 GGAGTTTA
1 GG-GTTTA
* *
76434747 TGGTGTAA
1 GGGT-TTA
*
76434755 GGGTTTG
1 GGGTTTA
*
76434762 GGGTTAA
1 GGGTTTA
*
76434769 GGGTTAA
1 GGGTTTA
76434776 GGGTTTA
1 GGGTTTA
*
76434783 GAGTTTA
1 GGGTTTA
*
76434790 GTGTTTA
1 GGGTTTA
*
76434797 GTGTTTA
1 GGGTTTA
*
76434804 GTGTTTA
1 GGGTTTA
76434811 GGGTTTA
1 GGGTTTA
76434818 GGGTTTA
1 GGGTTTA
*
76434825 AGGTTTA
1 GGGTTTA
76434832 G
1 G
76434833 TGGCATTTTT
Statistics
Matches: 103, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 92 0.89
8 6 0.06
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:76435128 original size:14 final size:14
Alignment explanation
Indices: 76435105--76435149 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
76435095 TTAATTATCA
76435105 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
76435119 TTAT-GATTTAGGGT
1 TTATAG-TTTAGGGT
*
76435133 ATATAGTTTAGGGT
1 TTATAGTTTAGGGT
76435147 TTA
1 TTA
76435150 AGGTGTAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:76435191 original size:29 final size:29
Alignment explanation
Indices: 76435159--76435217 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
76435149 AAGGTGTAGG
76435159 AATTACTAATTTACGGGTTACAATTATGT
1 AATTACTAATTTACGGGTTACAATTATGT
76435188 AATTACTAATTTACGGGTTACAATTATGT
1 AATTACTAATTTACGGGTTACAATTATGT
76435217 A
1 A
76435218 GTACTTTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.41
Consensus pattern (29 bp):
AATTACTAATTTACGGGTTACAATTATGT
Found at i:76440218 original size:24 final size:24
Alignment explanation
Indices: 76440185--76440244 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
76440175 TGAAATATTC
76440185 TCGTCCGTTTTATCACAAACATTA
1 TCGTCCGTTTTATCACAAACATTA
*
76440209 TTC-TCCGTTTTATCACAAATATTA
1 -TCGTCCGTTTTATCACAAACATTA
76440233 TCGTCCGTTTTA
1 TCGTCCGTTTTA
76440245 CCGTTTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 2 0.06
24 29 0.88
25 2 0.06
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.43
Consensus pattern (24 bp):
TCGTCCGTTTTATCACAAACATTA
Found at i:76440578 original size:9 final size:9
Alignment explanation
Indices: 76440566--76440686 Score: 118
Period size: 9 Copynumber: 13.6 Consensus size: 9
76440556 TATTTGATAT
*
76440566 CATAATTTA
1 CATAACTTA
76440575 CATAACTTA
1 CATAACTTA
* *
76440584 TATAACATA
1 CATAACTTA
*
76440593 TATAACTTA
1 CATAACTTA
76440602 CATAACTTA
1 CATAACTTA
* *
76440611 TATAACATA
1 CATAACTTA
76440620 CATAACTTA
1 CATAACTTA
* * *
76440629 TATAGCATA
1 CATAACTTA
76440638 CATAACTTA
1 CATAACTTA
*
76440647 TATAACTTA
1 CATAACTTA
* *
76440656 GATAA-ATA
1 CATAACTTA
*
76440664 TATAACTTA
1 CATAACTTA
76440673 CATAACTTA
1 CATAACTTA
76440682 CATAA
1 CATAA
76440687 TACTTAAATA
Statistics
Matches: 90, Mismatches: 21, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
8 6 0.07
9 84 0.93
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:76440588 original size:18 final size:18
Alignment explanation
Indices: 76440566--76440686 Score: 145
Period size: 18 Copynumber: 6.8 Consensus size: 18
76440556 TATTTGATAT
* *
76440566 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
76440584 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
76440602 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
* *
76440620 CATAACTTATATAGCATA
1 CATAACTTATATAACTTA
76440638 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* *
76440656 GATAA-ATATATAACTTA
1 CATAACTTATATAACTTA
*
76440673 CATAACTTACATAA
1 CATAACTTATATAA
76440687 TACTTAAATA
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
17 15 0.17
18 72 0.83
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.36
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:76440597 original size:27 final size:27
Alignment explanation
Indices: 76440562--76440686 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
76440552 AATATATTTG
* *
76440562 ATATCATAATTTACATAACTTATATAAC
1 ATAT-ATAACTTACATAACATATATAAC
*
76440590 ATATATAACTTACATAACTTATATAAC
1 ATATATAACTTACATAACATATATAAC
* * * *
76440617 ATACATAACTTATATAGCATACATAAC
1 ATATATAACTTACATAACATATATAAC
* *
76440644 TTATATAACTTAGATAA-ATATATAAC
1 ATATATAACTTACATAACATATATAAC
* *
76440670 TTACATAACTTACATAA
1 ATATATAACTTACATAA
76440687 TACTTAAATA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 23 0.27
27 57 0.68
28 4 0.05
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (27 bp):
ATATATAACTTACATAACATATATAAC
Found at i:76446362 original size:21 final size:21
Alignment explanation
Indices: 76446329--76446379 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
76446319 ACAACTTAGA
*
76446329 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
76446350 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
76446371 GCAGAGGCA
1 GCAGAGGCA
76446380 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:76446679 original size:31 final size:31
Alignment explanation
Indices: 76446633--76446699 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
76446623 TGGTTGTATT
* *
76446633 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
76446664 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
76446695 TTTTA
1 TTTTA
76446700 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:76446824 original size:43 final size:43
Alignment explanation
Indices: 76446773--76446893 Score: 242
Period size: 43 Copynumber: 2.8 Consensus size: 43
76446763 TGTAAAAAAG
76446773 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
76446816 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
76446859 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
76446894 TTCCAATAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 78 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:76448380 original size:28 final size:26
Alignment explanation
Indices: 76448290--76448398 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 26
76448280 GAAGCGTCCT
* * * *
76448290 GTGGCTATGCCACAAATACCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
76448317 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGTTCTG
76448344 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTGT-TCTG
* *
76448372 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGTTCTG
76448398 G
1 G
76448399 CAGTCATGCT
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.68
28 17 0.23
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGTTCTG
Found at i:76448391 original size:54 final size:54
Alignment explanation
Indices: 76448290--76448398 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 54
76448280 GAAGCGTCCT
*
76448290 GTGGCTATGCCACAAATACCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCACAAATACCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
* * * * *
76448344 GTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCTG
1 GTGGCTATGCCACAAATACCTG-ATCTGGTGACTCTGCCACATATATCTGTTCTG
76448398 G
1 G
76448399 CAGTCATGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 30 0.62
55 18 0.38
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
GTGGCTATGCCACAAATACCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
Found at i:76461624 original size:26 final size:26
Alignment explanation
Indices: 76461593--76461655 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
76461583 ATTATGTATG
*
76461593 ATGAAATAGTTGGCCATGGAAGAATT
1 ATGAAATAGTCGGCCATGGAAGAATT
76461619 ATGAAATAGTCGGCCATGGAAGAATT
1 ATGAAATAGTCGGCCATGGAAGAATT
76461645 ATGAAATAGTC
1 ATGAAATAGTC
76461656 ATTGTTGCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (26 bp):
ATGAAATAGTCGGCCATGGAAGAATT
Found at i:76462916 original size:42 final size:42
Alignment explanation
Indices: 76462847--76462972 Score: 148
Period size: 42 Copynumber: 3.0 Consensus size: 42
76462837 GGGATCACAT
* **
76462847 ATATCGATGCCGATAG-CCCAG-CTATGGTCTTACACGATATCTC
1 ATATCGATGCC-AT-GTCCCAGAC-ATGGTCTTACACGAAATCAA
*
76462890 GTATCGATGCCATGTCCCAGACATGGTCTTACACGAAATCAA
1 ATATCGATGCCATGTCCCAGACATGGTCTTACACGAAATCAA
* * *
76462932 ATATCGATGCCATATCTCAGATATGGTCTTACACGAAATCA
1 ATATCGATGCCATGTCCCAGACATGGTCTTACACGAAATCA
76462973 CACATAACCT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
41 1 0.01
42 61 0.84
43 11 0.15
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
ATATCGATGCCATGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:76465851 original size:43 final size:43
Alignment explanation
Indices: 76465803--76465916 Score: 185
Period size: 43 Copynumber: 2.7 Consensus size: 43
76465793 CTATTCAAGC
76465803 CTTCGAGCCTAGCAGGCTATAATGCCGGTAAGTTAATATCAGG
1 CTTCGAGCCTAGCAGGCTATAATGCCGGTAAGTTAATATCAGG
* * *
76465846 CTTCGAGCCTAGCAGGCTATAATGCCAGTGAGTTAATATCGGG
1 CTTCGAGCCTAGCAGGCTATAATGCCGGTAAGTTAATATCAGG
*
76465889 CTTCGAGCCTAGCAGG-TGTAATGCCGGT
1 CTTCGAGCCTAGCAGGCTATAATGCCGGT
76465917 GAATGAGTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 10 0.15
43 56 0.85
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (43 bp):
CTTCGAGCCTAGCAGGCTATAATGCCGGTAAGTTAATATCAGG
Found at i:76466514 original size:16 final size:18
Alignment explanation
Indices: 76466483--76466515 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
76466473 AACTCGTCAC
76466483 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
76466501 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
76466516 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:76467517 original size:17 final size:17
Alignment explanation
Indices: 76467495--76467544 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
76467485 CATTGATATG
76467495 CATATAATATATATACA
1 CATATAATATATATACA
*
76467512 CATATAATATATACACA
1 CATATAATATATATACA
76467529 CAATTATAATA-ATATA
1 C-A-TATAATATATATA
76467545 AAAATAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 17 0.59
18 5 0.17
19 7 0.24
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (17 bp):
CATATAATATATATACA
Found at i:76475962 original size:15 final size:15
Alignment explanation
Indices: 76475917--76475965 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
76475907 TCGACTTGTT
*
76475917 GTTCTTCCCAAACTC
1 GTTCTTCCTAAACTC
*
76475932 ATTCTT-CTCAAACTC
1 GTTCTTCCT-AAACTC
76475947 GTTCTTCCTAAACTC
1 GTTCTTCCTAAACTC
76475962 GTTC
1 GTTC
76475966 CACGTAGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 1 0.03
15 26 0.90
16 2 0.07
ACGTcount: A:0.20, C:0.35, G:0.06, T:0.39
Consensus pattern (15 bp):
GTTCTTCCTAAACTC
Found at i:76480161 original size:36 final size:36
Alignment explanation
Indices: 76480092--76480175 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 36
76480082 CTATTCCTTA
* * *
76480092 TTCCTCACCTGTATCTTCTTTATCGACTGCATCTTG
1 TTCCTCACCTGTATCTACTTTATCGACTACATCTTC
* *
76480128 TTCCTCACTTGTATCTACTTTATC-AGTCACATCTTC
1 TTCCTCACCTGTATCTACTTTATCGACT-ACATCTTC
*
76480164 TTCCTCATCTGT
1 TTCCTCACCTGT
76480176 GGTCTTATTG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 2 0.05
36 38 0.95
ACGTcount: A:0.15, C:0.31, G:0.08, T:0.45
Consensus pattern (36 bp):
TTCCTCACCTGTATCTACTTTATCGACTACATCTTC
Found at i:76486314 original size:53 final size:53
Alignment explanation
Indices: 76486257--76486359 Score: 138
Period size: 53 Copynumber: 1.9 Consensus size: 53
76486247 GATTTTCTTC
* *
76486257 TCTATTGATTCATTATGGTATTC-TCCCATGATTCTTTGTG-TTTTTCTTTCTCT
1 TCTATTGATTCATTATAGT-TTCTTCCC-TGATTCTCTGTGATTTTTCTTTCTCT
* *
76486310 TCTATTGGTTCCTTATAGTTTCTTCCCTGATTCTCTGTGATTTTTCTTTC
1 TCTATTGATTCATTATAGTTTCTTCCCTGATTCTCTGTGATTTTTCTTTC
76486360 CTACGTCTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
52 14 0.32
53 30 0.68
ACGTcount: A:0.12, C:0.20, G:0.12, T:0.56
Consensus pattern (53 bp):
TCTATTGATTCATTATAGTTTCTTCCCTGATTCTCTGTGATTTTTCTTTCTCT
Found at i:76491075 original size:26 final size:26
Alignment explanation
Indices: 76491039--76491090 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
76491029 CAGTTAGTCT
76491039 CGATTAAAGCTTTTGAAATATTCATA
1 CGATTAAAGCTTTTGAAATATTCATA
76491065 CGATTAAAGCTTTTGAAATATTCATA
1 CGATTAAAGCTTTTGAAATATTCATA
76491091 GTCCTTGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (26 bp):
CGATTAAAGCTTTTGAAATATTCATA
Found at i:76494109 original size:46 final size:45
Alignment explanation
Indices: 76494053--76494220 Score: 194
Period size: 46 Copynumber: 3.6 Consensus size: 45
76494043 ACTCGTAGTC
*
76494053 GATGCATGTCCCAGACATGTTTTACACTGGCTTATGTCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-TGTCTCGAGGCT
* * *
76494099 GATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCT-TTGTCTCGAGGCT
* * * *
76494145 GATGCCATGTCCCAGACATGGCCTTACACTGGTTCTTGTAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TTGT-CTCGAGGCT
*
76494193 GATGCATGTCCAAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
76494221 AGCTCACAAT
Statistics
Matches: 105, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
46 53 0.50
47 28 0.27
48 23 0.22
49 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTTGTCTCGAGGCT
Found at i:76498906 original size:43 final size:42
Alignment explanation
Indices: 76498859--76498957 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
76498849 TCCCAGATGT
* * *
76498859 GGTCTTACATGTAATCAAATATCGATGCCACTGTC-CTAGATAG
1 GGTCTTACACGTAATCAAATA-CGATGCCAATGTCGC-AGACAG
* * * *
76498902 GGTCTTATACGAAATCATATACGATGCCAATGTCGCAGACAT
1 GGTCTTACACGTAATCAAATACGATGCCAATGTCGCAGACAG
76498944 GGTCTTACACGTAA
1 GGTCTTACACGTAA
76498958 ATTACAAATT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 28 0.61
43 18 0.39
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGCCAATGTCGCAGACAG
Found at i:76498948 original size:42 final size:44
Alignment explanation
Indices: 76498859--76499003 Score: 133
Period size: 44 Copynumber: 3.3 Consensus size: 44
76498849 TCCCAGATGT
* * *
76498859 GGTCTTACATGT-AATCAAATATCGATGCCACTGTCCTAGATAG
1 GGTCTTACACGTAAATCAAATATCGATGCCAATGTCCTAGACAG
* * *
76498902 GGTCTTATACG-AAATCATATA-CGATGCCAATGTCGC-AGACAT
1 GGTCTTACACGTAAATCAAATATCGATGCCAATGTC-CTAGACAG
*
76498944 GGTCTTACACGTAAATTACAAAT-T-GATGCCAACGTCCTAGAC-G
1 GGTCTTACACGTAAA-T-CAAATATCGATGCCAATGTCCTAGACAG
76498987 TGGTCTTACACGATAAA
1 -GGTCTTACACG-TAAA
76499004 ACATATTGGA
Statistics
Matches: 83, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
42 26 0.31
43 22 0.27
44 27 0.33
45 8 0.10
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
GGTCTTACACGTAAATCAAATATCGATGCCAATGTCCTAGACAG
Found at i:76502471 original size:20 final size:21
Alignment explanation
Indices: 76502428--76502473 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
76502418 ACTGTTTTGT
76502428 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
76502448 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
76502467 TATGGGC
1 TATGGGC
76502474 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:76502592 original size:28 final size:27
Alignment explanation
Indices: 76502502--76502607 Score: 81
Period size: 28 Copynumber: 3.7 Consensus size: 27
76502492 ACTTGTAATA
* * *
76502502 GGGCTACGACCCAGATTGATACTGATAT
1 GGGCTA-GGCCCAGATTAATATTGATAT
*
76502530 GGGCTAGGCCCAGTATACTTTGATATTG-TAAT
1 GGGCTAGGCCCAG---A--TTAATATTGAT-AT
76502562 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTA-GGCCCAGATTAATATTGATAT
76502590 GGGCTAAGGCCCAG-TTAA
1 GGGCT-AGGCCCAGATTAA
76502608 CTCTGATTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 19
0.75 0.03 0.22
Matches are distributed among these distances:
27 10 0.15
28 28 0.42
29 2 0.03
30 2 0.03
31 1 0.02
32 16 0.24
33 7 0.11
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTAATATTGATAT
Found at i:76504178 original size:93 final size:93
Alignment explanation
Indices: 76504066--76504237 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
76504056 CGCCCATAAG
* *
76504066 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
76504131 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
76504159 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
76504224 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
76504238 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:76504234 original size:46 final size:46
Alignment explanation
Indices: 76504059--76504234 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
76504049 TGTAACCCGC
* * *
76504059 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
76504105 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
76504155 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
76504198 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
76504235 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:76511757 original size:93 final size:93
Alignment explanation
Indices: 76511645--76511816 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
76511635 CGCCCATAAG
* *
76511645 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
76511710 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
76511738 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
76511803 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
76511817 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:76511813 original size:46 final size:46
Alignment explanation
Indices: 76511638--76511813 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
76511628 TGTAACCCGC
* * *
76511638 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
76511684 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
76511734 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
76511777 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
76511814 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:76520505 original size:28 final size:28
Alignment explanation
Indices: 76520471--76520527 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
76520461 AACAAAAGTT
76520471 AGTATAAAAAAAGAAATAAAGAAAGATA
1 AGTATAAAAAAAGAAATAAAGAAAGATA
76520499 AGTATAAAAAAAGAAATAAAGAAAGATA
1 AGTATAAAAAAAGAAATAAAGAAAGATA
76520527 A
1 A
76520528 AAACATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (28 bp):
AGTATAAAAAAAGAAATAAAGAAAGATA
Found at i:76520537 original size:20 final size:20
Alignment explanation
Indices: 76520504--76520562 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
76520494 AGATAAGTAT
76520504 AAAAAAAGAA-ATAAAGAAAG
1 AAAAAAA-AATATAAAGAAAG
* * **
76520524 ATAAAAACATATAAATTAAG
1 AAAAAAAAATATAAAGAAAG
*
76520544 AAAAAAAAATAGAAAGAAA
1 AAAAAAAAATATAAAGAAA
76520563 AAGAGAAAGA
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (20 bp):
AAAAAAAAATATAAAGAAAG
Found at i:76520539 original size:24 final size:23
Alignment explanation
Indices: 76520479--76520546 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
76520469 TTAGTATAAA
*
76520479 AAAAGAAATAAAGAAAGATAAGTAT
1 AAAA-AAATAAATAAAGA-AAGTAT
*
76520504 AAAAAAAGAAATAAAGAAAG-AT
1 AAAAAAATAAATAAAGAAAGTAT
*
76520526 AAAAACATATAAATTAAGAAA
1 AAAAA-A-ATAAATAAAGAAA
76520547 AAAAAATAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 7 0.19
23 4 0.11
24 22 0.59
25 4 0.11
ACGTcount: A:0.72, C:0.01, G:0.12, T:0.15
Consensus pattern (23 bp):
AAAAAAATAAATAAAGAAAGTAT
Found at i:76522855 original size:15 final size:15
Alignment explanation
Indices: 76522835--76522865 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
76522825 CTATTCAAAT
76522835 TCCATATACCATATA
1 TCCATATACCATATA
*
76522850 TCCATATATCATATA
1 TCCATATACCATATA
76522865 T
1 T
76522866 AAATCATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (15 bp):
TCCATATACCATATA
Found at i:76523085 original size:25 final size:25
Alignment explanation
Indices: 76523057--76523145 Score: 108
Period size: 25 Copynumber: 3.6 Consensus size: 25
76523047 GAATTAGTAT
*
76523057 GCTCTCACGAGCTGTA-AATCGGTAA
1 GCTCACACGAGCTG-AGAATCGGTAA
* *
76523082 GCTCACATGAGCTGAGAATCGATAA
1 GCTCACACGAGCTGAGAATCGGTAA
*
76523107 GCTAACACGAGCTGAGAATCGGTAA
1 GCTCACACGAGCTGAGAATCGGTAA
* *
76523132 GCTCATATGAGCTG
1 GCTCACACGAGCTG
76523146 TAGTGTGTCT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 1 0.02
25 53 0.98
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (25 bp):
GCTCACACGAGCTGAGAATCGGTAA
Found at i:76524985 original size:2 final size:2
Alignment explanation
Indices: 76524978--76525021 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
76524968 GTTCGTTTGG
76524978 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
76525020 TA
1 TA
76525022 AACATGTGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:76534339 original size:29 final size:29
Alignment explanation
Indices: 76534306--76534466 Score: 223
Period size: 29 Copynumber: 5.6 Consensus size: 29
76534296 GTGACGAGAT
76534306 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
76534335 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
76534364 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
76534393 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
76534422 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
76534451 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
76534467 GGCTTAAATT
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 118 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:76542377 original size:29 final size:29
Alignment explanation
Indices: 76542344--76542504 Score: 223
Period size: 29 Copynumber: 5.6 Consensus size: 29
76542334 GTGACGAGAT
76542344 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
76542373 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
76542402 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
76542431 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
76542460 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
76542489 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
76542505 GGCTTAAATT
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 118 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:76546911 original size:39 final size:40
Alignment explanation
Indices: 76546853--76546953 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
76546843 AAATTGAATG
* *
76546853 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
76546892 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
76546932 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
76546954 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:76546946 original size:40 final size:40
Alignment explanation
Indices: 76546853--76547034 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
76546843 AAATTGAATG
* * * * *
76546853 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
76546892 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
76546932 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
76546972 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
76547012 ATATCCGGG-TAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
76547035 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 44 0.36
40 75 0.62
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:76548681 original size:15 final size:15
Alignment explanation
Indices: 76548663--76548693 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
76548653 ATGCCACAGG
76548663 CAATTGAGACTGGGT
1 CAATTGAGACTGGGT
76548678 CAATTGAGACTGGGT
1 CAATTGAGACTGGGT
76548693 C
1 C
76548694 TTATGATCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (15 bp):
CAATTGAGACTGGGT
Found at i:76554862 original size:20 final size:20
Alignment explanation
Indices: 76554837--76554903 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
76554827 GTTTTGATAT
76554837 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
*
76554857 ACATGATATGTATGATATAC
1 ACATGATATGTATGATATGC
76554877 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
76554897 ACATGAT
1 ACATGAT
76554904 GTATTCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:76554864 original size:11 final size:11
Alignment explanation
Indices: 76554848--76554903 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
76554838 CATGATTGAT
76554848 ATGATATGCAC
1 ATGATATGCAC
*
76554859 ATGATATG--T
1 ATGATATGCAC
*
76554868 ATGATATACAC
1 ATGATATGCAC
*
76554879 ATGATATG--T
1 ATGATATGCAC
76554888 ATGATATGCAC
1 ATGATATGCAC
76554899 ATGAT
1 ATGAT
76554904 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:76555020 original size:24 final size:24
Alignment explanation
Indices: 76554951--76555033 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 24
76554941 AGGAAGTGCA
76554951 AAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGC-TTTGCCCCAGTTTATT
* * *
76554976 AAAAGGGTTTTTGCCCTAGTTTATC
1 AAAAGGG-CTTTGCCCCAGTTTATT
76555001 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATT
76555024 AAAAGAGGCT
1 AAAAG-GGCT
76555034 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 9 0.18
24 13 0.26
25 28 0.56
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATT
Found at i:76555283 original size:31 final size:33
Alignment explanation
Indices: 76555242--76555330 Score: 92
Period size: 38 Copynumber: 2.6 Consensus size: 33
76555232 CGTTTACAAT
*
76555242 AAAGGTTTCGGCCCA-AT-AATATAAAATATGA
1 AAAGGCTTCGGCCCATATAAATATAAAATATGA
*
76555273 AAAGGCTTCGGCCCAGTGTTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCA----TAT-AAATATAAAATATGA
76555311 AAAGGCTTCGGCCCAGTATA
1 AAAGGCTTCGGCCCA-TATA
76555331 TGCTGAGATG
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
31 14 0.29
34 1 0.02
35 3 0.06
36 2 0.04
38 28 0.58
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (33 bp):
AAAGGCTTCGGCCCATATAAATATAAAATATGA
Found at i:76556723 original size:30 final size:30
Alignment explanation
Indices: 76556673--76556735 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
76556663 AAAACTTTTT
*
76556673 ATTTTCCCCCAAAATTTTTACTCCC-TCCC
1 ATTTTCCCCCAAAACTTTTACTCCCTTCCC
*
76556702 ATTTTCTCCCTAAAACTTTTACTCCCTTCCC
1 ATTTTC-CCCCAAAACTTTTACTCCCTTCCC
76556733 ATT
1 ATT
76556736 CCACCTCCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 6 0.20
30 17 0.57
31 7 0.23
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.41
Consensus pattern (30 bp):
ATTTTCCCCCAAAACTTTTACTCCCTTCCC
Done.