Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
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: 7027529
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 26
Found at i:4908206 original size:62 final size:62
Alignment explanation
Indices: 4908136--4908440 Score: 260
Period size: 62 Copynumber: 4.9 Consensus size: 62
4908126 ATTAGTTCCT
* *
4908136 CTGAGGAGTCATAAATAATAAATACTGAC-TCTTCTTCATGAGAAAGTCAAA-ATTTGACTCTA
1 CTGAGGAGTCATAAATAATAAAGACTGACTTC-TCTTCACGAGAAAGTCAAAGA-TTGACTCTA
* * ** ** * * *
4908198 TTGGGGAGTCAGGAATAATAAAGGTTGTCTTCTCTTCACGAGGAAGTTAAAGATTGACTCTA
1 CTGAGGAGTCATAAATAATAAAGACTGACTTCTCTTCACGAGAAAGTCAAAGATTGACTCTA
* * * * *
4908260 CTGAGGAGTCATAAATAATAAA-AGTTGAATTCTCTTCACGATG-ATGTCAAA-ATTTGATTATA
1 CTGAGGAGTCATAAATAATAAAGA-CTGACTTCTCTTCACGA-GAAAGTCAAAGA-TTGACTCTA
* ** * ** * *
4908322 CTGGGGAGTCAGGAATAATATAGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTAACTCTA
1 CTGAGGAGTCATAAATAATAAAGACTGACTTCTCTTCACGAGAAAGTCAAAGATTGACTCTA
* * ** * *
4908384 CTAAGGAGTCAGAAATAATAAAGGTTGACTTCTCTTCACGAGGAAGTCAAAAATTGA
1 CTGAGGAGTCATAAATAATAAAGACTGACTTCTCTTCACGAGAAAGTCAAAGATTGA
4908441 TTATAGGAAA
Statistics
Matches: 197, Mismatches: 38, Indels: 16
0.78 0.15 0.06
Matches are distributed among these distances:
61 2 0.01
62 190 0.96
63 5 0.03
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (62 bp):
CTGAGGAGTCATAAATAATAAAGACTGACTTCTCTTCACGAGAAAGTCAAAGATTGACTCTA
Found at i:4908347 original size:124 final size:123
Alignment explanation
Indices: 4908136--4908445 Score: 417
Period size: 124 Copynumber: 2.5 Consensus size: 123
4908126 ATTAGTTCCT
* * * * * *
4908136 CTGAGGAGTCATAAATAATAAATA-CTG-ACTCTTCTTCATGAGAAAGTCAAAATTTGACTCTAT
1 CTGAGGAGTCATAAATAATAAA-AGTTGAATTC-TCTTCACGAG-AAGTCAAAATTTGATTATAC
* * *
4908199 TGGGGAGTCAGGAATAATAAAGGTTGTCTTCTCTTCACGAGGAAGTTAAAGATTGACTCTA
63 TGGGGAGTCAGGAATAATAAAGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTAACTCTA
*
4908260 CTGAGGAGTCATAAATAATAAAAGTTGAATTCTCTTCACGATGATGTCAAAATTTGATTATACTG
1 CTGAGGAGTCATAAATAATAAAAGTTGAATTCTCTTCACGA-GAAGTCAAAATTTGATTATACTG
*
4908325 GGGAGTCAGGAATAATATAGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTAACTCTA
65 GGGAGTCAGGAATAATAAAGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTAACTCTA
* * * * *
4908384 CTAAGGAGTCAGAAATAATAAAGGTTGACTTCTCTTCACGAGGAAGTCAAAAATTGATTATA
1 CTGAGGAGTCATAAATAATAAAAGTTGAATTCTCTTCACGA-GAAGTCAAAATTTGATTATA
4908446 GGAAACAAGA
Statistics
Matches: 165, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
123 1 0.01
124 160 0.97
125 4 0.02
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (123 bp):
CTGAGGAGTCATAAATAATAAAAGTTGAATTCTCTTCACGAGAAGTCAAAATTTGATTATACTGG
GGAGTCAGGAATAATAAAGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTAACTCTA
Found at i:4915584 original size:80 final size:80
Alignment explanation
Indices: 4915445--4915599 Score: 265
Period size: 80 Copynumber: 1.9 Consensus size: 80
4915435 CCGATCATCG
*
4915445 AACTTTATCCAAAAATGAATAAGGAATATCATTTTGAAAATAGGTGAAAGAATTCATCAAATAAC
1 AACTTTATCCAAAAATGAATAAGGAATATCATTTTGAAAATAGGTGAAAGAATTCATCAAACAAC
*
4915510 ATAAGATCAATATCA
66 ATAAAATCAATATCA
* * *
4915525 AACTTTATCCAAAAATGATTAAGGAATATCATTTTGAAAATAGGTGAAAGAGTTTATCAAACAAC
1 AACTTTATCCAAAAATGAATAAGGAATATCATTTTGAAAATAGGTGAAAGAATTCATCAAACAAC
4915590 ATAAAATCAA
66 ATAAAATCAA
4915600 CATTCGACTG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.50, C:0.11, G:0.12, T:0.28
Consensus pattern (80 bp):
AACTTTATCCAAAAATGAATAAGGAATATCATTTTGAAAATAGGTGAAAGAATTCATCAAACAAC
ATAAAATCAATATCA
Found at i:4918743 original size:238 final size:239
Alignment explanation
Indices: 4918324--4918803 Score: 953
Period size: 238 Copynumber: 2.0 Consensus size: 239
4918314 GGCAGTTCAC
4918324 TTATTGCATGATATTGCACCGAGGGCAACTTCTAGAAATAGGATGAAGCAAGGCTTCATATGGTC
1 TTATTGCATGATATTGCACCGAGGGCAACTTCTAGAAATAGGATGAAGCAAGGCTTCATATGGTC
4918389 TACTGGTCATTGGTTCAAGACTGTTAGCAGCAGATAATATTGGTTTCTTCTTCGATATTTTCTCT
66 TACTGGTCATTGGTTCAAGACTGTTAGCAGCAGATAATATTGGTTTCTTCTTCGATATTTTCTCT
4918454 AATTATCTTTCATTTAGTTAACATGAAAGTTCAATTGATTACCGACATTGATAATAGTAGTAGCA
131 AATTATCTTTCATTTAGTTAACATGAAAGTTCAATTGATTACCGACATTGATAATAGTAGTAGCA
4918519 CAAAAATCTGATCAATGATTTTTCTTTCCTGCAACATTATTCTT
196 CAAAAATCTGATCAATGATTTTTCTTTCCTGCAACATTATTCTT
4918563 TTATTGCATGATATTGCACCGAGGGCAAC-TCTAGAAATAGGATGAAGCAAGGCTTCATATGGTC
1 TTATTGCATGATATTGCACCGAGGGCAACTTCTAGAAATAGGATGAAGCAAGGCTTCATATGGTC
4918627 TACTGGTCATTGGTTCAAGACTGTTAGCAGCAGATAATATTGGTTTCTTCTTCGATATTTTCTCT
66 TACTGGTCATTGGTTCAAGACTGTTAGCAGCAGATAATATTGGTTTCTTCTTCGATATTTTCTCT
4918692 AATTATCTTTCATTTAGTTAACATGAAAGTTCAATTGATTACCGACATTGATAATAGTAGTAGCA
131 AATTATCTTTCATTTAGTTAACATGAAAGTTCAATTGATTACCGACATTGATAATAGTAGTAGCA
4918757 CAAAAATCTGATCAATGATTTTTCTTTCCTGCAACATTATTCTT
196 CAAAAATCTGATCAATGATTTTTCTTTCCTGCAACATTATTCTT
4918801 TTA
1 TTA
4918804 CATGGGCCTC
Statistics
Matches: 241, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
238 212 0.88
239 29 0.12
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (239 bp):
TTATTGCATGATATTGCACCGAGGGCAACTTCTAGAAATAGGATGAAGCAAGGCTTCATATGGTC
TACTGGTCATTGGTTCAAGACTGTTAGCAGCAGATAATATTGGTTTCTTCTTCGATATTTTCTCT
AATTATCTTTCATTTAGTTAACATGAAAGTTCAATTGATTACCGACATTGATAATAGTAGTAGCA
CAAAAATCTGATCAATGATTTTTCTTTCCTGCAACATTATTCTT
Found at i:4920785 original size:2 final size:2
Alignment explanation
Indices: 4920778--4920844 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
4920768 TCAATCTACA
4920778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4920820 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4920845 ATTTATGAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4922459 original size:36 final size:36
Alignment explanation
Indices: 4922400--4922754 Score: 275
Period size: 36 Copynumber: 9.9 Consensus size: 36
4922390 TAACTAGTAC
* *
4922400 ATGTATCTCATGCATATACTCATCAATAGCAAG-AA
1 ATGTATATCATGCATATAATCATCAATAGCAAGCAA
* *
4922435 ATCATATATCATGCATATAATCATCAATGGCAAG-AA
1 AT-GTATATCATGCATATAATCATCAATAGCAAGCAA
* * * *
4922471 TATGTATACCATGAATATAATCATCAATTGCAAGCAT
1 -ATGTATATCATGCATATAATCATCAATAGCAAGCAA
* * * *
4922508 ATGTATATCATTCATATAATCATCAGTAGCAAACAC
1 ATGTATATCATGCATATAATCATCAATAGCAAGCAA
* * * * *
4922544 ATGTATATCATGCATAAAATCATCAGTAGAAAGTAC
1 ATGTATATCATGCATATAATCATCAATAGCAAGCAA
* * * **
4922580 ATGTATATGATGCATAAAATCATCTATAGCAAGCGT
1 ATGTATATCATGCATATAATCATCAATAGCAAGCAA
* * * ** **
4922616 ATTTATATCATGCATATAAT-ATTTAGTATTAAGCGC
1 ATGTATATCATGCATATAATCA-TCAATAGCAAGCAA
** * * *
4922652 ATAAATATCATGCATATAATCATCAGTAGAAAGCAC
1 ATGTATATCATGCATATAATCATCAATAGCAAGCAA
* * * * * **
4922688 ATGTGTATCAGGCACATAATCATTAGTAGCAAGCGC
1 ATGTATATCATGCATATAATCATCAATAGCAAGCAA
* *
4922724 ATGCATATCATGCATATAATCATCAGTAGCA
1 ATGTATATCATGCATATAATCATCAATAGCA
4922755 GTATATCATG
Statistics
Matches: 259, Mismatches: 56, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
35 3 0.01
36 252 0.97
37 4 0.02
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (36 bp):
ATGTATATCATGCATATAATCATCAATAGCAAGCAA
Found at i:4922584 original size:108 final size:108
Alignment explanation
Indices: 4922400--4922754 Score: 365
Period size: 108 Copynumber: 3.3 Consensus size: 108
4922390 TAACTAGTAC
* * * *
4922400 ATGTATCTCATGCATATACTCATCAATAGCAAGA-A-ATCATATATCATGCATATAATCATCAAT
1 ATGTATATCATGCATATAATCATCAGTAGCAA-ACACAT-ATATATCATGCATATAATCATCAGT
* * * * * * *
4922463 GGCAAGAATATGTATACCATGAATATAATCATCAATTGCAAGCAT
64 AGAAAGAACATGTATATCATGCATATAATCATCAATAGCAAGCGT
* * *
4922508 ATGTATATCATTCATATAATCATCAGTAGCAAACACATGTATATCATGCATAAAATCATCAGTAG
1 ATGTATATCATGCATATAATCATCAGTAGCAAACACATATATATCATGCATATAATCATCAGTAG
* * * *
4922573 AAAGTACATGTATATGATGCATAAAATCATCTATAGCAAGCGT
66 AAAGAACATGTATATCATGCATATAATCATCAATAGCAAGCGT
* * ** * * *
4922616 ATTTATATCATGCATATAAT-ATTTAGTATTAAGCGCATAAATATCATGCATATAATCATCAGTA
1 ATGTATATCATGCATATAATCA-TCAGTAGCAAACACATATATATCATGCATATAATCATCAGTA
* * * * * * *
4922680 GAAAGCACATGTGTATCAGGCACATAATCATTAGTAGCAAGCGC
65 GAAAGAACATGTATATCATGCATATAATCATCAATAGCAAGCGT
*
4922724 ATGCATATCATGCATATAATCATCAGTAGCA
1 ATGTATATCATGCATATAATCATCAGTAGCA
4922755 GTATATCATG
Statistics
Matches: 200, Mismatches: 43, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
107 2 0.01
108 195 0.98
109 3 0.01
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (108 bp):
ATGTATATCATGCATATAATCATCAGTAGCAAACACATATATATCATGCATATAATCATCAGTAG
AAAGAACATGTATATCATGCATATAATCATCAATAGCAAGCGT
Found at i:4923980 original size:22 final size:20
Alignment explanation
Indices: 4923933--4923979 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
4923923 CGGTTGAAAT
*
4923933 GAAAAAAGCTTGTATATGTA
1 GAAAAAAGCTTGTATATATA
4923953 GAAAAAAGCTTGTATATATA
1 GAAAAAAGCTTGTATATATA
4923973 GAAAAAA
1 GAAAAAA
4923980 ATTAAGGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.53, C:0.04, G:0.17, T:0.26
Consensus pattern (20 bp):
GAAAAAAGCTTGTATATATA
Found at i:4927782 original size:21 final size:20
Alignment explanation
Indices: 4927754--4927792 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4927744 CATTATAGGA
*
4927754 ATTTATGGCCTCGACAAAAG
1 ATTTATGGCCTCAACAAAAG
*
4927774 ATTTCATGGCTTCAACAAA
1 ATTT-ATGGCCTCAACAAA
4927793 GACCCTGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:4942970 original size:21 final size:20
Alignment explanation
Indices: 4942915--4942976 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
4942905 TGATACATGA
*
4942915 AGGGGTATCGATACCCTTA-C
1 AGGGGTATCGATA-CCTAAGC
*
4942935 AGGGTAGTGTCGATACCATAAGC
1 AGGG--GTATCGATACC-TAAGC
4942958 AGGGGTATCGATACCTAAG
1 AGGGGTATCGATACCTAAG
4942977 GGCCAGAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
20 8 0.23
21 12 0.34
22 10 0.29
23 5 0.14
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (20 bp):
AGGGGTATCGATACCTAAGC
Found at i:4943533 original size:45 final size:45
Alignment explanation
Indices: 4943484--4943703 Score: 253
Period size: 45 Copynumber: 4.9 Consensus size: 45
4943474 AAATGATGCC
* *
4943484 AGAGTTGAAATGCATATGGGTGCATTATCAACATAAAAATATACT
1 AGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAATTATACT
* **
4943529 AGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGTT
1 AGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAATTATACT
* * * * *
4943574 ATAATTGAAATGTATATGGGTACATTCTCAACAGAAAAGTTATACT
1 AGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAA-TTATACT
* * * * *
4943620 ATG-CTTGAAATGTATATGGGTACATTATCAACATAGAATTATACT
1 A-GAGTTGAAATGCATATGGGTGCATTATCAACAGAAAATTATACT
* * *
4943665 AGATTTGAAATGCATATGGGTGCATTATTAATAGAAAAT
1 AGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAT
4943704 ATGTTATAGT
Statistics
Matches: 148, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
44 1 0.01
45 111 0.75
46 36 0.24
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.32
Consensus pattern (45 bp):
AGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAATTATACT
Found at i:4943646 original size:91 final size:90
Alignment explanation
Indices: 4943488--4943702 Score: 243
Period size: 91 Copynumber: 2.4 Consensus size: 90
4943478 GATGCCAGAG
* * * *
4943488 TTGAAATGCATATGGGTGCATTATCAACATAAAAATATACTAGAGTTGAAATGCATATGGGTGCA
1 TTGAAATGCATATGGGTACATTATCAACAGAAAAATATACTAGACTTGAAATGCATATGGGTACA
4943553 TTATCAACAGAAAAGTATGTTATAA
66 TTATCAACAGAAAAGTATGTTATAA
* * * *
4943578 TTGAAATGTATATGGGTACATTCTCAACAGAAAAGTTATACTATG-CTTGAAATGTATATGGGTA
1 TTGAAATGCATATGGGTACATTATCAACAGAAAA-ATATACTA-GACTTGAAATGCATATGGGTA
* * * ** * *
4943642 CATTATCAACATAGAATTATACTAGAT
64 CATTATCAACAGAAAAGTATGTTATAA
* * *
4943669 TTGAAATGCATATGGGTGCATTATTAATAGAAAA
1 TTGAAATGCATATGGGTACATTATCAACAGAAAA
4943703 TATGTTATAG
Statistics
Matches: 103, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
90 30 0.29
91 72 0.70
92 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (90 bp):
TTGAAATGCATATGGGTACATTATCAACAGAAAAATATACTAGACTTGAAATGCATATGGGTACA
TTATCAACAGAAAAGTATGTTATAA
Found at i:4951462 original size:20 final size:20
Alignment explanation
Indices: 4951398--4951467 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
4951388 ATAAATGTTT
* *
4951398 TATGAATAGTAATG-TACTA
1 TATGAATAGTAACGATACTG
* * *
4951417 TATGAATAGTATCAATATTG
1 TATGAATAGTAACGATACTG
4951437 TATGAATAGTAACGATACTG
1 TATGAATAGTAACGATACTG
* *
4951457 TGTGAACAGTA
1 TATGAATAGTA
4951468 GTATCGATAC
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 11 0.28
20 29 0.73
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (20 bp):
TATGAATAGTAACGATACTG
Found at i:4952788 original size:19 final size:20
Alignment explanation
Indices: 4952764--4952811 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
4952754 AATGATTTTC
* * *
4952764 TTTTGAAAGCTAAAATG-GA
1 TTTTGAAAACCAAAATGAAA
4952783 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACCAAAATGAAA
4952803 TTTTGAAAA
1 TTTTGAAAA
4952812 ACAATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACCAAAATGAAA
Found at i:4960065 original size:18 final size:18
Alignment explanation
Indices: 4960022--4960057 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4960012 TCTACAACTA
4960022 AAGCTGAATACATGGCAG
1 AAGCTGAATACATGGCAG
4960040 AAGCTGAATACATGGCAG
1 AAGCTGAATACATGGCAG
4960058 CGGCTGAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.17
Consensus pattern (18 bp):
AAGCTGAATACATGGCAG
Found at i:4964885 original size:19 final size:18
Alignment explanation
Indices: 4964825--4964912 Score: 55
Period size: 17 Copynumber: 5.1 Consensus size: 18
4964815 TTTATGTTAG
4964825 TATTTTT-TTAAATAGTTA
1 TATTTTTATTAAATA-TTA
4964843 T-TATTTT-TT--ATATTAA
1 TAT-TTTTATTAAATATT-A
*
4964859 TATATTTATGTAAATATTA
1 TATTTTTAT-TAAATATTA
*
4964878 TATTTTTATTAAA-ATAA
1 TATTTTTATTAAATATTA
* *
4964895 TATTTATA-TAATTATTA
1 TATTTTTATTAAATATTA
4964912 T
1 T
4964913 TTATTTAGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
15 2 0.04
16 11 0.20
17 17 0.30
18 12 0.21
19 9 0.16
20 5 0.09
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TATTTTTATTAAATATTA
Found at i:4964918 original size:36 final size:33
Alignment explanation
Indices: 4964831--4964919 Score: 85
Period size: 34 Copynumber: 2.7 Consensus size: 33
4964821 TTAGTATTTT
* *
4964831 TTTAAATAGTTATTATTT-TTTATATTAATATA
1 TTTATATAATTATTATTTATTTATATTAATATA
* * *
4964863 TTTATGTAAATATTATATT-TTTAT-TAAAATAATA
1 TTTATATAATTATTAT-TTATTTATAT-TAAT-ATA
4964897 TTTATATAATTATTATTTATTTA
1 TTTATATAATTATTATTTATTTA
4964920 GAATTATTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
32 13 0.28
33 12 0.26
34 21 0.46
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.58
Consensus pattern (33 bp):
TTTATATAATTATTATTTATTTATATTAATATA
Found at i:4966670 original size:21 final size:21
Alignment explanation
Indices: 4966640--4966687 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
4966630 GCAGGGGTAC
* *
4966640 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
4966661 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
4966682 ATGCCA
1 ATGCCA
4966688 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:4966717 original size:21 final size:21
Alignment explanation
Indices: 4966691--4966784 Score: 145
Period size: 21 Copynumber: 4.5 Consensus size: 21
4966681 TATGCCATCT
4966691 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
4966712 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
4966733 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
* *
4966754 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCGAGC
4966775 CCGCAGGGTT
1 CCGCAGGGTT
4966785 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.34, G:0.28, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCGAGC
Found at i:4967362 original size:33 final size:34
Alignment explanation
Indices: 4967305--4967399 Score: 122
Period size: 33 Copynumber: 2.9 Consensus size: 34
4967295 AAATGTTTTT
*
4967305 AAATACAAATTAT-TTATTCGAAATTTAAAATAA
1 AAATAAAAATTATATTATTCGAAATTTAAAATAA
* * *
4967338 AAATAAAAATAATATTATTC-AAATTTAAATTTA
1 AAATAAAAATTATATTATTCGAAATTTAAAATAA
* *
4967371 AAATATAAATTATAGTATTCGAAATTTAA
1 AAATAAAAATTATATTATTCGAAATTTAA
4967400 CATTAAATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
33 39 0.74
34 14 0.26
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (34 bp):
AAATAAAAATTATATTATTCGAAATTTAAAATAA
Found at i:4968248 original size:254 final size:255
Alignment explanation
Indices: 4967799--4968403 Score: 1081
Period size: 254 Copynumber: 2.4 Consensus size: 255
4967789 TTACCTGATT
*
4967799 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * **
4967864 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCTCCTTCATGTCCCCTGAGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCAATGAGAAATAATAGGTA
4967929 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
4967994 ATGAAATAATGGAAGGCGCGCCCCC-GGAACGCGCCTTCATGTGAATAGTG-AATAATAGG
196 ATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATA-G
4968053 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * * *
4968118 TGACGAAATAATGGAAGGTGCGCCCCCGGGGACGCGCCTTCATGT-GAATAGTGAAATAATAGGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCAAT-GAGAAATAATAGGT
4968182 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
130 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
4968247 GATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAG
195 GATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAG
*
4968308 TACTGATATATCTAGTGTCCCAGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
4968373 TGACGAAATAATGGAAGGCGCGCCCCCGGGA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGA
4968404 CAATTGTTGA
Statistics
Matches: 336, Mismatches: 12, Indels: 5
0.95 0.03 0.01
Matches are distributed among these distances:
253 1 0.00
254 209 0.62
255 119 0.35
256 7 0.02
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (255 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCAATGAGAAATAATAGGTA
CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
ATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAG
Found at i:4968381 original size:127 final size:128
Alignment explanation
Indices: 4967799--4968403 Score: 1065
Period size: 128 Copynumber: 4.8 Consensus size: 128
4967789 TTACCTGATT
*
4967799 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *** *
4967864 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCTCCTTCATGTCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
4967927 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
4967992 TGATGAAATAATGGAAGGCGCGCCCCC-GGAACGCGCCTTCATGTGAATAGTG-AATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
4968053 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
4968118 TGACGAAATAATGGAAGGTGCGCCCCCGGGGACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
4968181 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
4968246 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATA-G
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
4968308 TACTGATATATCTAGTGTCCCAGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
4968373 TGACGAAATAATGGAAGGCGCGCCCCCGGGA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGA
4968404 CAATTGTTGA
Statistics
Matches: 458, Mismatches: 16, Indels: 7
0.95 0.03 0.01
Matches are distributed among these distances:
126 100 0.22
127 137 0.30
128 221 0.48
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:4971133 original size:31 final size:31
Alignment explanation
Indices: 4971098--4971157 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
4971088 ATATAATATT
* *
4971098 TGATCACTTTCGTTTTTATTTAATTAAGACG
1 TGATCACTTTCATTTTTATCTAATTAAGACG
*
4971129 TGATCACTTTTATTTTTATCTAATTAAGA
1 TGATCACTTTCATTTTTATCTAATTAAGA
4971158 TTTGGTCATT
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:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (31 bp):
TGATCACTTTCATTTTTATCTAATTAAGACG
Found at i:4972550 original size:85 final size:85
Alignment explanation
Indices: 4972441--4972596 Score: 251
Period size: 85 Copynumber: 1.8 Consensus size: 85
4972431 ATTTTGAACA
*
4972441 TTATATTTGTTTTAAGTATTTTAGTTTAAATAGGTTTT-AGTATTTCAATTAGGATTTAGGATAT
1 TTATATTTGTTTTAAGTATTTTAGTTTAAATA-GTTTTAAGTATTTCAATTAGGATTTAAGATAT
4972505 TATTTTAAATATTATTTTATT
65 TATTTTAAATATTATTTTATT
* * * *
4972526 TTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTGTTTTAATTAGGATTTAAGATATT
1 TTATATTTGTTTTAAGTATTTTAGTTTAAATAGTTTTAAGTATTTCAATTAGGATTTAAGATATT
4972591 ATTTTA
66 ATTTTA
4972597 GGAATTATCT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
84 5 0.08
85 60 0.92
ACGTcount: A:0.29, C:0.01, G:0.13, T:0.56
Consensus pattern (85 bp):
TTATATTTGTTTTAAGTATTTTAGTTTAAATAGTTTTAAGTATTTCAATTAGGATTTAAGATATT
ATTTTAAATATTATTTTATT
Found at i:4973294 original size:10 final size:10
Alignment explanation
Indices: 4973269--4973347 Score: 55
Period size: 10 Copynumber: 8.3 Consensus size: 10
4973259 AAAAATAACT
*
4973269 TTTATCATTA
1 TTTATTATTA
4973279 -TTATTATTA
1 TTTATTATTA
4973288 TTTATTA-T-
1 TTTATTATTA
4973296 TTTATTATT-
1 TTTATTATTA
*
4973305 TTTCCCTT-TTA
1 TTT--ATTATTA
*
4973316 TGTATTATTA
1 TTTATTATTA
4973326 TTTATT-TTA
1 TTTATTATTA
4973335 TTTTATTA-TA
1 -TTTATTATTA
4973345 TTT
1 TTT
4973348 TTTCAACTTC
Statistics
Matches: 56, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
8 7 0.12
9 21 0.38
10 24 0.43
11 4 0.07
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (10 bp):
TTTATTATTA
Found at i:4973300 original size:15 final size:16
Alignment explanation
Indices: 4973275--4973305 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4973265 AACTTTTATC
4973275 ATTATTATTATTATTT
1 ATTATTATTATTATTT
4973291 ATTATT-TTATTATTT
1 ATTATTATTATTATTT
4973306 TTCCCTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTATTATTATTATTT
Found at i:4980812 original size:73 final size:73
Alignment explanation
Indices: 4980724--4980860 Score: 204
Period size: 73 Copynumber: 1.9 Consensus size: 73
4980714 ACATTATTTA
* *
4980724 TGTTTTAAGTATTTTAGTTTAAATAGGTTTT-AGTATTTCAATTAGGAGTTAGGATATTATTTTA
1 TGTTTTAAGTATTTTAGTTTAAATA-GTTTTAAATATTTCAATTAGGAGTTAAGATATTATTTTA
4980788 TTTTATCTT
65 TTTTATCTT
* * * *
4980797 TGTTTTAGGTATTTTAGTTTAAATAGTTTTAAATGTTTTAATTAGGATTTAAGATATTATTTTA
1 TGTTTTAAGTATTTTAGTTTAAATAGTTTTAAATATTTCAATTAGGAGTTAAGATATTATTTTA
4980861 GGAATTAGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 5 0.09
73 52 0.91
ACGTcount: A:0.29, C:0.01, G:0.15, T:0.55
Consensus pattern (73 bp):
TGTTTTAAGTATTTTAGTTTAAATAGTTTTAAATATTTCAATTAGGAGTTAAGATATTATTTTAT
TTTATCTT
Found at i:4981204 original size:42 final size:42
Alignment explanation
Indices: 4981158--4981243 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
4981148 TCTGTTTTCT
4981158 GAGCTTACTTTTTCAAATCAAAACAATTTCGACATTGGTCTG
1 GAGCTTACTTTTTCAAATCAAAACAATTTCGACATTGGTCTG
4981200 GAGCTTACTTTTTCAAATCAAAACAATTTCGACATTGGTCTG
1 GAGCTTACTTTTTCAAATCAAAACAATTTCGACATTGGTCTG
4981242 GA
1 GA
4981244 TGTTGTTATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (42 bp):
GAGCTTACTTTTTCAAATCAAAACAATTTCGACATTGGTCTG
Found at i:4981560 original size:19 final size:18
Alignment explanation
Indices: 4981523--4981566 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
4981513 CTTTAAATTA
*
4981523 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCT
*
4981541 TTTATTTAAATTCTTATCT
1 TTTATTT-AATTATTATCT
4981560 TTTATTT
1 TTTATTT
4981567 TAAAAATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:4988703 original size:20 final size:20
Alignment explanation
Indices: 4988656--4988730 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
4988646 AAGAGGTAAC
* *
4988656 AAATTTCACAAAATTGGTTGG
1 AAATTTGACAAAATCGGTT-G
*
4988677 TAA-TTGACAAAATCGGTTG
1 AAATTTGACAAAATCGGTTG
* *
4988696 AAATTTGACTAAATCGGTTT
1 AAATTTGACAAAATCGGTTG
* *
4988716 TAATTTGATAAAATC
1 AAATTTGACAAAATC
4988731 AGTAAAGAGC
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 3 0.07
20 39 0.89
21 2 0.05
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (20 bp):
AAATTTGACAAAATCGGTTG
Found at i:4990084 original size:18 final size:18
Alignment explanation
Indices: 4990009--4990084 Score: 98
Period size: 18 Copynumber: 4.2 Consensus size: 18
4989999 CGAGACGCAG
* * *
4990009 TTCTTCTCAACCAAAGCC
1 TTCTTCTCAACTAAGGTC
4990027 TTCTTCTCAACTAAGGTC
1 TTCTTCTCAACTAAGGTC
* *
4990045 ATCTTCTCAACTAAGGTT
1 TTCTTCTCAACTAAGGTC
*
4990063 TTCTTCTCAAGTAAGGTC
1 TTCTTCTCAACTAAGGTC
4990081 TTCT
1 TTCT
4990085 GATCAAATCA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.38
Consensus pattern (18 bp):
TTCTTCTCAACTAAGGTC
Found at i:4990933 original size:18 final size:18
Alignment explanation
Indices: 4990910--4990952 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
4990900 TGTAACCCCC
*
4990910 TAGACCCGGCCTGAACGT
1 TAGACCCGACCTGAACGT
*
4990928 TAGACCCGACCTTAACGT
1 TAGACCCGACCTGAACGT
4990946 TAGACCC
1 TAGACCC
4990953 AAACCTAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.35, G:0.21, T:0.19
Consensus pattern (18 bp):
TAGACCCGACCTGAACGT
Found at i:4991418 original size:31 final size:31
Alignment explanation
Indices: 4991380--4991442 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
4991370 ACCGTCAAGT
* * *
4991380 CCAGTAAGGCCCTGAGCACACAGCCGAGGAG
1 CCAGTAAGGCCATGAACACAAAGCCGAGGAG
* *
4991411 CCAGTAAGGTCATGAACACAAAGTCGAGGAG
1 CCAGTAAGGCCATGAACACAAAGCCGAGGAG
4991442 C
1 C
4991443 ATCCAGGTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.30, T:0.10
Consensus pattern (31 bp):
CCAGTAAGGCCATGAACACAAAGCCGAGGAG
Found at i:4992531 original size:28 final size:29
Alignment explanation
Indices: 4992415--4992542 Score: 195
Period size: 29 Copynumber: 4.4 Consensus size: 29
4992405 AACTAATTAA
* * *
4992415 AAAACGAACACCTTTTTAAAATTATTTAC
1 AAAACTAACACCCTTTTAAAAATATTTAC
*
4992444 AAAAATAACACCCTTTTAAAAATATTTAC
1 AAAACTAACACCCTTTTAAAAATATTTAC
* *
4992473 AAAACAAACAACCTTTTAAAAATATTTAC
1 AAAACTAACACCCTTTTAAAAATATTTAC
4992502 AAAACTAACACCCTTTT-AAAATATTTAC
1 AAAACTAACACCCTTTTAAAAATATTTAC
4992530 AAAACTAACACCC
1 AAAACTAACACCC
4992543 GAGTCAACGG
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 24 0.27
29 66 0.73
ACGTcount: A:0.50, C:0.20, G:0.01, T:0.29
Consensus pattern (29 bp):
AAAACTAACACCCTTTTAAAAATATTTAC
Found at i:4999258 original size:23 final size:22
Alignment explanation
Indices: 4999221--4999293 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 22
4999211 CGACGAGTGT
* *
4999221 ATCGATGCAAATTCAAGGAAAGC
1 ATCGATGCATATTCAAGG-ATGC
* * *
4999244 ATCGATGCATCTTC-ATGATGT
1 ATCGATGCATATTCAAGGATGC
4999265 ATCGATGCATATTCAAGGGATGC
1 ATCGATGCATATTCAA-GGATGC
4999288 ATCGAT
1 ATCGAT
4999294 ACACTGAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 15 0.38
22 3 0.08
23 22 0.55
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (22 bp):
ATCGATGCATATTCAAGGATGC
Found at i:5003128 original size:22 final size:21
Alignment explanation
Indices: 5003086--5003125 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
5003076 AAGACTATTT
5003086 TCATTTTTTAATTTTGAAATA
1 TCATTTTTTAATTTTGAAATA
5003107 TCATTTTTGT-ATTTTGAAA
1 TCATTTTT-TAATTTTGAAA
5003126 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
TCATTTTTTAATTTTGAAATA
Found at i:5005111 original size:65 final size:64
Alignment explanation
Indices: 5005057--5005212 Score: 242
Period size: 65 Copynumber: 2.4 Consensus size: 64
5005047 TACACTAGGG
* *
5005057 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-ACAAGCCTAGAGTGTATCGATGCATGGTC
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAAAAGCCT-GAGTGCATCGATGCATGGT-
5005121 T
64 T
* * *
5005122 GTGCATCAATGCATAAAATGCATTCGATGTTTCAATAAAATCCTTAGTGCATCGATGCATGGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAAAAGCCTGAGTGCATCGATGCATGGTT
5005186 GTGCATCGATGCATAAAATGCATTCGA
1 GTGCATCGATGCATAAAATGCATTCGA
5005213 AATGGGGTGT
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
64 27 0.32
65 51 0.61
66 6 0.07
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAAAAGCCTGAGTGCATCGATGCATGGTT
Found at i:5009225 original size:28 final size:29
Alignment explanation
Indices: 5009202--5009333 Score: 178
Period size: 29 Copynumber: 4.6 Consensus size: 29
5009192 CATAAATTAA
5009202 TTACAAAACTAACA-CCTTTTTAAAACTAT
1 TTACAAAACTAACACCCTTTTTAAAA-TAT
* *
5009231 TTACAAAAATAACACCCCTTTTAAAATAT
1 TTACAAAACTAACACCCTTTTTAAAATAT
* *
5009260 TTACAAAACAAACACCCTTTTAAAAATAT
1 TTACAAAACTAACACCCTTTTTAAAATAT
*
5009289 TTACAAAACTAACATCC-TTTTAAAATAT
1 TTACAAAACTAACACCCTTTTTAAAATAT
* *
5009317 TTACAAAGCTAATACCC
1 TTACAAAACTAACACCC
5009334 AATTCAACAG
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 24 0.27
29 56 0.62
30 10 0.11
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (29 bp):
TTACAAAACTAACACCCTTTTTAAAATAT
Found at i:5012587 original size:46 final size:46
Alignment explanation
Indices: 5012520--5012625 Score: 142
Period size: 46 Copynumber: 2.3 Consensus size: 46
5012510 TACACTAGGG
** * *
5012520 GTGCATCGATGCATAAAATGCATTTGATGTTTTAA-ACAAGCCTGGA
1 GTGCATCGATGCATAAAATGCATTCCATGTTTCAATAAAAGCCT-GA
**
5012566 GTGCATCGATGCATAAAATGCATTCCATGTTTCAATAAAATTCTGA
1 GTGCATCGATGCATAAAATGCATTCCATGTTTCAATAAAAGCCTGA
5012612 GTGCATCGATGCAT
1 GTGCATCGATGCAT
5012626 GGCTATGCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 48 0.91
47 5 0.09
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (46 bp):
GTGCATCGATGCATAAAATGCATTCCATGTTTCAATAAAAGCCTGA
Found at i:5016649 original size:29 final size:29
Alignment explanation
Indices: 5016616--5016742 Score: 193
Period size: 29 Copynumber: 4.4 Consensus size: 29
5016606 CAGAAATTAA
*
5016616 TTACAAAACTAACACCTTTTTAAAAATAT
1 TTACAAAACTAACACCCTTTTAAAAATAT
* *
5016645 TTACAAAAATAACAACCTTTTAAAAATAT
1 TTACAAAACTAACACCCTTTTAAAAATAT
* *
5016674 TTACAAAACAAACACCCTTTTCAAAATAT
1 TTACAAAACTAACACCCTTTTAAAAATAT
*
5016703 TTACAAAAATAACACCCTTTT-AAAATAT
1 TTACAAAACTAACACCCTTTTAAAAATAT
5016731 TTACAAAACTAA
1 TTACAAAACTAA
5016743 TACCTGAGTC
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 18 0.20
29 70 0.80
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (29 bp):
TTACAAAACTAACACCCTTTTAAAAATAT
Found at i:5017435 original size:103 final size:103
Alignment explanation
Indices: 5017256--5017455 Score: 364
Period size: 103 Copynumber: 1.9 Consensus size: 103
5017246 AATGATGAAC
*
5017256 ACGATGGTGGCTTCAAAACGATGATCGGAAATCAGACAGCTTCGGGATCGGTTTTGGAAGTTGGT
1 ACGATGGTGGCTTCAAAACGATGATCGGAAATCAGACAGCTTCGGGATCGGGTTTGGAAGTTGGT
*
5017321 GTTGGGGGAGGCAAATTATAAGCAATTGGTTTCTGTGA
66 CTTGGGGGAGGCAAATTATAAGCAATTGGTTTCTGTGA
* *
5017359 ACGATGGTGGCTTCAAAACGATGATCGGAGATCAGACAGCTTCGGGATTGGGTTTGGAAGTTGGT
1 ACGATGGTGGCTTCAAAACGATGATCGGAAATCAGACAGCTTCGGGATCGGGTTTGGAAGTTGGT
5017424 CTTGGGGGAGGCAAATTATAAGCAATTGGTTT
66 CTTGGGGGAGGCAAATTATAAGCAATTGGTTT
5017456 ATGTACCAAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 93 1.00
ACGTcount: A:0.26, C:0.12, G:0.34, T:0.28
Consensus pattern (103 bp):
ACGATGGTGGCTTCAAAACGATGATCGGAAATCAGACAGCTTCGGGATCGGGTTTGGAAGTTGGT
CTTGGGGGAGGCAAATTATAAGCAATTGGTTTCTGTGA
Found at i:5020868 original size:65 final size:64
Alignment explanation
Indices: 5020788--5020943 Score: 224
Period size: 65 Copynumber: 2.4 Consensus size: 64
5020778 TACACTAGGG
* * * *
5020788 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-ACAAGCCTGGAGTACATGGATGCATGGTC
1 GTGCATCGATGCATAAAATGCATTCGATGTTTAAATAAAAGCAT-GAGTACATCGATGCATGGT-
5020852 T
64 T
* * *
5020853 GTGCATCGATGCATAAAATGCATTCGATGTTTAAATAAAATCATGAGTGCCTCGATGCATGGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTAAATAAAAGCATGAGTACATCGATGCATGGTT
5020917 GTGCATCGATGCATAAAATGCATTCGA
1 GTGCATCGATGCATAAAATGCATTCGA
5020944 AATGAGGTGT
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
64 28 0.34
65 50 0.60
66 5 0.06
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTAAATAAAAGCATGAGTACATCGATGCATGGTT
Found at i:5023561 original size:23 final size:23
Alignment explanation
Indices: 5023530--5023584 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
5023520 CGACGAGTGT
*
5023530 ATCGATGCACATTTAAGGAATGC
1 ATCGGTGCACATTTAAGGAATGC
5023553 ATCGGTGCACATTTAAGGAATGC
1 ATCGGTGCACATTTAAGGAATGC
5023576 ATCGGTGCA
1 ATCGGTGCA
5023585 TCTTCATGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (23 bp):
ATCGGTGCACATTTAAGGAATGC
Found at i:5023627 original size:23 final size:23
Alignment explanation
Indices: 5023530--5023629 Score: 82
Period size: 23 Copynumber: 4.4 Consensus size: 23
5023520 CGACGAGTGT
*
5023530 ATCGATGCACATTTAAGGAATGC
1 ATCGATGCACATTCAAGGAATGC
* *
5023553 ATCGGTGCACATTTAAGGAATGC
1 ATCGATGCACATTCAAGGAATGC
* * *
5023576 ATCGGTGCATC-TTC-ATG-ATGT
1 ATCGATGCA-CATTCAAGGAATGC
* *
5023597 ATCAATGCATATTCAATGG-ATGC
1 ATCGATGCACATTCAA-GGAATGC
5023620 ATCGATGCAC
1 ATCGATGCAC
5023630 TGAATAATGT
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
21 13 0.21
22 3 0.05
23 45 0.73
24 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (23 bp):
ATCGATGCACATTCAAGGAATGC
Found at i:5026313 original size:19 final size:19
Alignment explanation
Indices: 5026289--5026338 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
5026279 CCAAGCTAGT
5026289 AGTTCTAGATGGCCCAAAA
1 AGTTCTAGATGGCCCAAAA
5026308 AGTTCTAGATGGCCCAAAA
1 AGTTCTAGATGGCCCAAAA
*
5026327 AGATCTAGATGG
1 AGTTCTAGATGG
5026339 ATCAATTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (19 bp):
AGTTCTAGATGGCCCAAAA
Found at i:5027446 original size:22 final size:21
Alignment explanation
Indices: 5027404--5027443 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5027394 AATACTATTT
5027404 TCATTTTTGAATTTTGAAATA
1 TCATTTTTGAATTTTGAAATA
*
5027425 TCATTTTTGTATTTTGAAA
1 TCATTTTTGAATTTTGAAA
5027444 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (21 bp):
TCATTTTTGAATTTTGAAATA
Found at i:5029312 original size:21 final size:21
Alignment explanation
Indices: 5029282--5029337 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
5029272 GGGAGCGTAT
*
5029282 GTGCAGCGATGCATAGTCAAG
1 GTGCATCGATGCATAGTCAAG
5029303 GTGCATCGATGCATAGTCAAG
1 GTGCATCGATGCATAGTCAAG
5029324 GTGCATCGATGCAT
1 GTGCATCGATGCAT
5029338 CAAGTGTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (21 bp):
GTGCATCGATGCATAGTCAAG
Found at i:5029446 original size:65 final size:64
Alignment explanation
Indices: 5029397--5029552 Score: 260
Period size: 65 Copynumber: 2.4 Consensus size: 64
5029387 TAAACTAGGG
* *
5029397 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-ACAAGCTTGGAGTGCATCGATGCATGGTC
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAAAAGCCT-GAGTGCATCGATGCATGG-C
5029461 T
64 T
*
5029462 GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAAAATCCTGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAAAAGCCTGAGTGCATCGATGCATGGCT
5029526 GTGCATCGATGCATAAAATGCATTCGA
1 GTGCATCGATGCATAAAATGCATTCGA
5029553 AATGGGGTGT
Statistics
Matches: 87, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
64 29 0.33
65 53 0.61
66 5 0.06
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAAAAGCCTGAGTGCATCGATGCATGGCT
Found at i:5033339 original size:29 final size:29
Alignment explanation
Indices: 5033306--5033439 Score: 166
Period size: 29 Copynumber: 4.6 Consensus size: 29
5033296 CGGAAATTAA
5033306 TTACAAAACTAACACCTTTTTAAAAATAT
1 TTACAAAACTAACACCTTTTTAAAAATAT
* * *
5033335 TTACAAAAATAACA-TTATTTTTAAAATAT
1 TTACAAAACTAACACCT-TTTTAAAAATAT
* *
5033364 TTACAAAAC-AATCACCCTTTTAAAAAAAT
1 TTACAAAACTAA-CACCTTTTTAAAAATAT
5033393 TTACAAAACTAACAGCC-TTTTAAAAATAT
1 TTACAAAACTAACA-CCTTTTTAAAAATAT
*
5033422 TTATAAAACTAACACCTT
1 TTACAAAACTAACACCTT
5033440 AGTTAACGAT
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
28 5 0.06
29 80 0.90
30 4 0.04
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (29 bp):
TTACAAAACTAACACCTTTTTAAAAATAT
Found at i:5034302 original size:3 final size:3
Alignment explanation
Indices: 5034294--5034352 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
5034284 CAATTTTTTC
*
5034294 ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT A-T ATT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5034340 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
5034353 AATAAAAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:5036530 original size:26 final size:27
Alignment explanation
Indices: 5036478--5036545 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
5036468 TAATTCTTTC
* *
5036478 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCATAATATTTATATATAC-TATTA
*
5036506 TTTTCATAATATTTATATGTA-TATTA
1 TTTTCATAATATTTATATATACTATTA
5036532 TTTT-ATTAATATTT
1 TTTTCA-TAATATTT
5036546 TTATTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 1 0.03
26 17 0.47
28 18 0.50
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (27 bp):
TTTTCATAATATTTATATATACTATTA
Found at i:5038933 original size:21 final size:22
Alignment explanation
Indices: 5038888--5038960 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
5038878 CATACATGCA
*
5038888 TTTACATTTTGTATCTGTGCAT
1 TTTACATTTTGTATCTGTACAT
*
5038910 TTT-CATTTTGTATTCT-TACTT
1 TTTACATTTTGTA-TCTGTACAT
* *
5038931 TTTACATCTTTGAAT-TGCACAT
1 TTTACAT-TTTGTATCTGTACAT
*
5038953 TTTGCATT
1 TTTACATT
5038961 CTTATTTTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 17 0.41
22 19 0.46
23 5 0.12
ACGTcount: A:0.19, C:0.15, G:0.10, T:0.56
Consensus pattern (22 bp):
TTTACATTTTGTATCTGTACAT
Found at i:5045573 original size:22 final size:22
Alignment explanation
Indices: 5045547--5045623 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
5045537 ATCTACACTC
5045547 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
5045569 TTCAAAGATGATGGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
5045591 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
5045613 TTCAAAGATGA
1 TTCAAAGATGA
5045624 AAGCTTTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:5046419 original size:166 final size:166
Alignment explanation
Indices: 5046137--5046629 Score: 828
Period size: 166 Copynumber: 3.0 Consensus size: 166
5046127 AAAATAAGCA
5046137 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAA-AATTTGAGAAAAC
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAA--TGAGAAAAC
*
5046201 GATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAATGATTT
64 GATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
* *
5046266 CCTTAGTTTTTTTACTTAGTAAACTATTTCCAATAGCC
129 TCTTAGTTTTTTTACTTAGTAAACTATTTCCAACAGCC
*
5046304 TTATCTTGATATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAGAAAACGA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAGAAAACGA
* *
5046369 TTTCCATAGTTTCTCATTTTATATTTTCTAAAATGAAATTGTTAAAAAGTAAGAAAACGATTTTC
66 TTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTC
5046434 TTAGTTTTTTTACTTAGTAAACTATTTCCAACAGCC
131 TTAGTTTTTTTACTTAGTAAACTATTTCCAACAGCC
** *
5046470 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAAAATAATGAGAAAATGA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAGAAAACGA
* *
5046534 TTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTATTGAAAAGTAAGAAAACAATTTTC
66 TTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTC
*
5046599 TTAGTTTTTTTTTACTTATTAAACTATTTCC
131 TTAG--TTTTTTTACTTAGTAAACTATTTCC
5046630 TACATCTGTA
Statistics
Matches: 308, Mismatches: 15, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
165 83 0.27
166 149 0.48
167 74 0.24
168 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (166 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAGAAAACGA
TTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTC
TTAGTTTTTTTACTTAGTAAACTATTTCCAACAGCC
Found at i:5046736 original size:76 final size:76
Alignment explanation
Indices: 5046632--5047207 Score: 922
Period size: 76 Copynumber: 7.6 Consensus size: 76
5046622 CTATTTCCTA
5046632 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5046697 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
5046708 CATCTGTAAGTCCTGCAGTGCATAATGTTTCCAAAAAGCCTTCGGGAGCTTTTTAATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5046773 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
5046784 CATCTGTAAGTCTTGCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5046849 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
5046860 CATCTGTAAGTCCTGCAGTGCAGGACGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
5046925 AACCTTAGGGT
66 AGCCTTAGGGT
* *
5046936 CATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTATTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5047001 AGCCTTAGGGT
66 AGCCTTAGGGT
*
5047012 CATCTGTAAGTCCTGCAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5047077 AGCCTTAGGGT
66 AGCCTTAGGGT
* * * * * *
5047088 CATCTGTAAGTCATACAGTACATGATGTTTCAAAAAAGCCTTCTGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
5047153 AGCCTTCGGGT
66 AGCCTTAGGGT
* * * * * *
5047164 CGTCTATAAGCCCTTCAGTGCATGATATTTTC-AAAA-CCTTCGGG
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
5047208 TCATCTATAA
Statistics
Matches: 461, Mismatches: 39, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
74 7 0.02
75 4 0.01
76 450 0.98
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:5047204 original size:45 final size:45
Alignment explanation
Indices: 5047141--5047243 Score: 170
Period size: 45 Copynumber: 2.3 Consensus size: 45
5047131 TGGAGCTTTT
* * *
5047141 TGATGTTTTTAAAGCCTTCGGGTCGTCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
*
5047186 TGATATTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
5047231 TGATGTTTTCAAA
1 TGATGTTTTCAAA
5047244 CATTTCCATC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
Found at i:5047369 original size:3 final size:3
Alignment explanation
Indices: 5047363--5047409 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
5047353 AATTTTTTTC
*
5047363 ATT ATT ATT ATT ATC ATT ATT A-T ATT A-T ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5047409 A
1 A
5047410 AATAAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:5049064 original size:129 final size:129
Alignment explanation
Indices: 5048815--5049058 Score: 316
Period size: 129 Copynumber: 1.9 Consensus size: 129
5048805 AATATTTATT
*
5048815 TTATTTATTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTCCTTTTCTGATATTCTT
1 TTATTTATTAATATCAAAGAAAAGAGCTGTCTTAAAGCAACTAGAAGTCCTTTTCTGATATTCTT
* * * * **
5048880 AAAATAAATAAATATCCTATTTTTATAAATTATATATTAATTATTTTTAGAATTTTTTTTTTAG
66 AAAATAAATAAATATCCTATTTATAAAAATAAGATATTAATTATTAATAGAATTTTTTTTTTAG
* *
5048944 TTATTTAGTT-ATATCGAAGAAAAGAGCTGTCTTAAGGCAACTAGAAGTCCTTTTCTGATATT-T
1 TTATTTA-TTAATATCAAAGAAAAGAGCTGTCTTAAAGCAACTAGAAGTCCTTTTCTGATATTCT
* *
5049007 CT-AAGTAAATAAATATCTTATTTATAAAAATAAAGATATGT-ATATATTAATA
65 -TAAAATAAATAAATATCCTATTTATAAAAAT-AAGATAT-TAAT-TATTAATA
5049059 TATTTTCTTA
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
128 26 0.26
129 64 0.65
130 9 0.09
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (129 bp):
TTATTTATTAATATCAAAGAAAAGAGCTGTCTTAAAGCAACTAGAAGTCCTTTTCTGATATTCTT
AAAATAAATAAATATCCTATTTATAAAAATAAGATATTAATTATTAATAGAATTTTTTTTTTAG
Found at i:5051992 original size:215 final size:214
Alignment explanation
Indices: 5051532--5052138 Score: 851
Period size: 215 Copynumber: 2.8 Consensus size: 214
5051522 TGAAGGATAC
* *
5051532 ACATGTATAAAGTATTGATACTTAGCTAAATTAACAATGTAAACGGTAAAAGTCTACCGGTGTAA
1 ACATGTATAAAGTATCGATACTTAGCTAAATTAACAATGTAAACGGTAAAAGTCTACCAGTGTAA
* ** * * * *
5051597 TGAAAATAGACGTAAATAACAAATATCATTACTTTTTATTTACGAC-AATTTGATTATAGCAGAA
66 TGAAAATAGACGTAAATAACAAGTATCGCTACTTGTTATTTACGACTATTTTCATTATACCAGAA
* *
5051661 CACTTTTATCCATTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAA
131 CACTTTTATCCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTCCAA
*
5051726 GTATCATTACTTGTTGTTT
196 GTATCATTACTTGTTATTT
**
5051745 ACATGTATAAAGTATCGATACCAAGCTAAATTAACAATGTAAACGGTAAAAGTCTACCAGTGTAA
1 ACATGTATAAAGTATCGATACTTAGCTAAATTAACAATGTAAACGGTAAAAGTCTACCAGTGTAA
* * * * * *
5051810 TGAAAATAGGCGTAAATGATAAGTATCGCTACTTGTTATTTAAGACTATTTTTATCATACCAGAA
66 TGAAAATAGACGTAAATAACAAGTATCGCTACTTGTTATTTACGACTATTTTCATTATACCAGAA
*
5051875 CACTTTTATCCGTTTACATTGTTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTTCA
131 CACTTTTATCCGTTTACATTGTT-AATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTCCA
*
5051940 AGTATCGA-TAGTTGTTATTT
195 AGTATC-ATTACTTGTTATTT
* * * * *
5051960 ACATGTATAAACTATCGATACTTAGGTAAATTAATAATGTAAATGATAAAAGTCTA-CAGGTGTA
1 ACATGTATAAAGTATCGATACTTAGCTAAATTAACAATGTAAACGGTAAAAGTCTACCA-GTGTA
* * * * *
5052024 ATGAAAACAGACATAAATAACAAGTATCGCTATTTGTTATTTACGGCTATTTTCATTATATCAGA
65 ATGAAAATAGACGTAAATAACAAGTATCGCTACTTGTTATTTACGACTATTTTCATTATACCAGA
* * *
5052089 ACATTTTTAACTGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATA
130 ACACTTTTATCCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATA
5052139 AAGCACCTAC
Statistics
Matches: 348, Mismatches: 42, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
213 99 0.28
214 64 0.18
215 184 0.53
216 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (214 bp):
ACATGTATAAAGTATCGATACTTAGCTAAATTAACAATGTAAACGGTAAAAGTCTACCAGTGTAA
TGAAAATAGACGTAAATAACAAGTATCGCTACTTGTTATTTACGACTATTTTCATTATACCAGAA
CACTTTTATCCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTCCAA
GTATCATTACTTGTTATTT
Found at i:5052419 original size:75 final size:77
Alignment explanation
Indices: 5052328--5052488 Score: 238
Period size: 77 Copynumber: 2.1 Consensus size: 77
5052318 CTTAACCAGT
* *
5052328 TAAAAT-AAAATAGGTGCTACCTATTTCGTTA-AATACATACCGGTTTGT-TTAAAGGTTACTAA
1 TAAAATAAAAATAGGTGCTACCTATTGCGTTATAATACATACCGGTTTGTATAAAAGGTTACTAA
*
5052390 TAATATAAATGG
66 TAATATAAACGG
* **
5052402 TAAAATAAAAATAGGTGCTACCTATTGCGTTATAATACCTATTGGTTTGTATAAAAGGTTACTAA
1 TAAAATAAAAATAGGTGCTACCTATTGCGTTATAATACATACCGGTTTGTATAAAAGGTTACTAA
*
5052467 TAATGTAAACGG
66 TAATATAAACGG
5052479 TAAAATAAAA
1 TAAAATAAAA
5052489 TAGACGTAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
74 6 0.08
75 24 0.31
76 14 0.18
77 33 0.43
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.34
Consensus pattern (77 bp):
TAAAATAAAAATAGGTGCTACCTATTGCGTTATAATACATACCGGTTTGTATAAAAGGTTACTAA
TAATATAAACGG
Found at i:5053058 original size:201 final size:200
Alignment explanation
Indices: 5052532--5053304 Score: 968
Period size: 200 Copynumber: 3.9 Consensus size: 200
5052522 TGCCTGAAAT
* * * * * * *
5052532 GATACTTTTATTCAAGTATGGTTCTTAAACAATTTGCCTGCAACAAAGAATCGGTACCCATATAT
1 GATACTTTTATTCCAGTATGTTTCTCAAACAATTTGAC-GCAACAAAGTATCGATACACATATAT
5052597 AAAGTATCGATAC-TGAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGAA
65 AAAGTATCGATACATG-GAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGAA
* * * * * * *
5052661 AATGGTAGAAGTTTATCGGTATAATGATAATAGACGTAAACATAAAATATCGATACTTTTTATAT
129 AACGGTAAAAGTCTACCGGTATAATGATAATAGGCGTAAACATAAAGTATCGATACTGTTTATAT
5052726 TGGTATC
194 TGGTATC
* * * * * *
5052733 GATACTTTTATTCTAGCATGCTTATCAAACAATTTGAAGACAA-AAAGTATCGATACACTTATAT
1 GATACTTTTATTCCAGTATGTTTCTCAAACAATTTGACG-CAACAAAGTATCGATACACATATAT
* * * *
5052797 AAAGTATTGATACTTGGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
65 AAAGTATCGATACATGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGAAA
* * ** *
5052862 ACGGTAAAAGTCTACTGGTATAACGATAATAGGCGTAAACATAAAGTATATATACTGTTTATATA
130 ACGGTAAAAGTCTACCGGTATAATGATAATAGGCGTAAACATAAAGTATCGATACTGTTTATATT
*
5052927 GATATC
195 GGTATC
* *
5052933 GATACTTTTATTCCAGTATGTTTCTCAAA-ATATTTGTACGTAACAAAGTATCGATAC-CAATAA
1 GATACTTTTATTCCAGTATGTTTCTCAAACA-ATTTG-ACGCAACAAAGTATCGATACAC-ATAT
*
5052996 ATAAAGTATCGATAC-TGGTAATTTCGAAACCTATTACTTTATAGTAATAGGTAAATTTACAATG
63 ATAAAGTATCGATACATGG-AATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATG
* * * * *
5053060 TAAATGGTAAAAGTCTACCAGTATAATTATAATAGGCGTAAA-TTATAAGTATCGATAC-GTTTT
127 AAAACGGTAAAAGTCTACCGGTATAATGATAATAGGCGTAAACATA-AAGTATCGATACTG-TTT
5053123 ATATTGGTATC
190 ATATTGGTATC
* * * * *
5053134 GATATTTTTATTCCAGAATGTTTTTCAAACAATTTACACGCAA-AACGTATCGATACACATATAT
1 GATACTTTTATTCCAGTATGTTTCTCAAACAATTT-GACGCAACAAAGTATCGATACACATATAT
** *
5053198 AAAGTATCGATACATATAATTTCGAAACCTATTACTTTAAAGTAATAGGTTAATTTACAATGAAA
65 AAAGTATCGATACATGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGAAA
* *
5053263 ACAGTAAAAGTCTACCGGTATAATGATAATAGGCATAAACAT
130 ACGGTAAAAGTCTACCGGTATAATGATAATAGGCGTAAACAT
5053305 CAACTATTGA
Statistics
Matches: 492, Mismatches: 66, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
199 1 0.00
200 283 0.58
201 207 0.42
202 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (200 bp):
GATACTTTTATTCCAGTATGTTTCTCAAACAATTTGACGCAACAAAGTATCGATACACATATATA
AAGTATCGATACATGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGAAAA
CGGTAAAAGTCTACCGGTATAATGATAATAGGCGTAAACATAAAGTATCGATACTGTTTATATTG
GTATC
Found at i:5053135 original size:401 final size:401
Alignment explanation
Indices: 5052532--5053304 Score: 1108
Period size: 401 Copynumber: 1.9 Consensus size: 401
5052522 TGCCTGAAAT
* * * * *
5052532 GATACTTTTATTCAAGTATGGTTCTTAAACAATTTGCCTGCAACAAAGAATCGGTACCCATATAT
1 GATACTTTTATTCAAGTATGGTTCTCAAACAATTTGACTGCAACAAAGAATCGATACCAATAAAT
5052597 AAAGTATCGATACTGAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGAAA
66 AAAGTATCGATACTGAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGAAA
* * * * *
5052662 ATGGTAGAAGTTTATCGGTATAATGATAATAGACGTAAACATAAAATATCGATACTTTTTATATT
131 ATGGTAAAAGTCTACCAGTATAATGATAATAGACGTAAACATAAAATATCGATACGTTTTATATT
* *
5052727 GGTATCGATACTTTTATTCTAGCATGCTTATCAAACAATTTGA-A-GACAAAAAGTATCGATACA
196 GGTATCGATACTTTTATTCCAGAATGCTTATCAAACAATTT-ACACG-CAAAAAGTATCGATACA
* * * *
5052790 CTTATATAAAGTATTGATACTTGGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTAC
259 CATATATAAAGTATCGATACATAGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTAC
* * * *
5052855 AATGTAAACGGTAAAAGTCTACTGGTATAACGATAATAGGCGTAAACATAAAGTATATATACTGT
324 AATGAAAACAGTAAAAGTCTACCGGTATAACGATAATAGGCATAAACATAAAGTATATATACTGT
5052920 TTATATAGATATC
389 TTATATAGATATC
* * * *
5052933 GATACTTTTATTCCAGTATGTTTCTCAAA-ATATTTGTAC-GTAACAAAGTATCGATACCAATAA
1 GATACTTTTATTCAAGTATGGTTCTCAAACA-ATTTG-ACTGCAACAAAGAATCGATACCAATAA
*
5052996 ATAAAGTATCGATACTG-GTAATTTCGAAACCTATTACTTTATAGTAATAGGTAAATTTACAATG
64 ATAAAGTATCGATACTGAG-AATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATG
* * * * *
5053060 TAAATGGTAAAAGTCTACCAGTATAATTATAATAGGCGTAAA-TTATAAGTATCGATACGTTTTA
128 AAAATGGTAAAAGTCTACCAGTATAATGATAATAGACGTAAACATA-AAATATCGATACGTTTTA
* * * *
5053124 TATTGGTATCGATATTTTTATTCCAGAATGTTTTTCAAACAATTTACACGCAAAACGTATCGATA
192 TATTGGTATCGATACTTTTATTCCAGAATGCTTATCAAACAATTTACACGCAAAAAGTATCGATA
* * *
5053189 CACATATATAAAGTATCGATACATATAATTTCGAAACCTATTACTTTAAAGTAATAGGTTAATTT
257 CACATATATAAAGTATCGATACATAGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTT
*
5053254 ACAATGAAAACAGTAAAAGTCTACCGGTATAATGATAATAGGCATAAACAT
322 ACAATGAAAACAGTAAAAGTCTACCGGTATAACGATAATAGGCATAAACAT
5053305 CAACTATTGA
Statistics
Matches: 328, Mismatches: 38, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
400 5 0.02
401 321 0.98
402 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (401 bp):
GATACTTTTATTCAAGTATGGTTCTCAAACAATTTGACTGCAACAAAGAATCGATACCAATAAAT
AAAGTATCGATACTGAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGAAA
ATGGTAAAAGTCTACCAGTATAATGATAATAGACGTAAACATAAAATATCGATACGTTTTATATT
GGTATCGATACTTTTATTCCAGAATGCTTATCAAACAATTTACACGCAAAAAGTATCGATACACA
TATATAAAGTATCGATACATAGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTACAA
TGAAAACAGTAAAAGTCTACCGGTATAACGATAATAGGCATAAACATAAAGTATATATACTGTTT
ATATAGATATC
Found at i:5071081 original size:23 final size:23
Alignment explanation
Indices: 5071051--5071102 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
5071041 CAATATGATA
5071051 GTGTATCGATGCATTCATTGAAT
1 GTGTATCGATGCATTCATTGAAT
5071074 GTGTATCGATGCATTCATTGAAT
1 GTGTATCGATGCATTCATTGAAT
5071097 GTGTAT
1 GTGTAT
5071103 TGATACACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (23 bp):
GTGTATCGATGCATTCATTGAAT
Found at i:5074796 original size:27 final size:27
Alignment explanation
Indices: 5074758--5074813 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
5074748 TATTGCCGGT
*
5074758 TATTATCATTATCATTGCCAACACAAA
1 TATTATCATTATCATTACCAACACAAA
5074785 TATTATCATTATCATTACCAACACAAA
1 TATTATCATTATCATTACCAACACAAA
5074812 TA
1 TA
5074814 ACATTCCGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.34
Consensus pattern (27 bp):
TATTATCATTATCATTACCAACACAAA
Found at i:5075131 original size:145 final size:146
Alignment explanation
Indices: 5074953--5075241 Score: 535
Period size: 145 Copynumber: 2.0 Consensus size: 146
5074943 AGAAAAGGCA
5074953 TCATATATCCAATAGTCAATGCAGAGGACGACACCTGTCTTCCTTTTGTTTGTTTTTCAATGTTG
1 TCATATATCCAATAGTCAATGCAGAGGACGACACCTGTCTTCCTTTTGTTTGTTTTTCAATGTTG
5075018 GATCCAATCATATATAACTTGGATTAATTAATTTAACCACCA-TGTTATCCTGATAATGAAATAT
66 GATCCAATCATATATAACTTGGATTAATTAATTTAACCACCAGTGTTATCCTGATAATGAAATAT
*
5075082 TATCGTAATGAGGGCT
131 TATCATAATGAGGGCT
*
5075098 TCATATATCCAATAGTCAATGCAGAGGACGACACCTGTCTTCCTTTTGTTTGTTTTTTAATGTTG
1 TCATATATCCAATAGTCAATGCAGAGGACGACACCTGTCTTCCTTTTGTTTGTTTTTCAATGTTG
5075163 GATCCAATCATATATAACTTGGATTAATTAATTTAACCACCAGGTTGTTATCCTGATAATGAAAT
66 GATCCAATCATATATAACTTGGATTAATTAATTTAACCACCA-G-TGTTATCCTGATAATGAAAT
5075228 ATTATCATAATGAG
129 ATTATCATAATGAG
5075242 ACCCTTTCAA
Statistics
Matches: 139, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
145 106 0.76
148 33 0.24
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (146 bp):
TCATATATCCAATAGTCAATGCAGAGGACGACACCTGTCTTCCTTTTGTTTGTTTTTCAATGTTG
GATCCAATCATATATAACTTGGATTAATTAATTTAACCACCAGTGTTATCCTGATAATGAAATAT
TATCATAATGAGGGCT
Found at i:5076990 original size:27 final size:27
Alignment explanation
Indices: 5076960--5077013 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
5076950 GATTGCTGAC
* *
5076960 GACATTGTGTAATGAGGTTGAAATGAA
1 GACAATGTGTAAGGAGGTTGAAATGAA
5076987 GACAATGTGTAAGGAGGTTGAAATGAA
1 GACAATGTGTAAGGAGGTTGAAATGAA
5077014 AGATAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.31, T:0.26
Consensus pattern (27 bp):
GACAATGTGTAAGGAGGTTGAAATGAA
Found at i:5077842 original size:23 final size:23
Alignment explanation
Indices: 5077816--5077881 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
5077806 ATTGCTGTTG
*
5077816 AATTGCAGCGTTCAACGCTCAAT
1 AATTGCAGCCTTCAACGCTCAAT
* *
5077839 AATTACAGCTTTCAACGCTCAAT
1 AATTGCAGCCTTCAACGCTCAAT
*
5077862 -ATCG-AGCCTTCAACGCTCAA
1 AATTGCAGCCTTCAACGCTCAA
5077882 ATTTATTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
21 15 0.39
22 2 0.05
23 21 0.55
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (23 bp):
AATTGCAGCCTTCAACGCTCAAT
Found at i:5078138 original size:21 final size:21
Alignment explanation
Indices: 5078113--5078156 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
5078103 AATTTAGTTA
5078113 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
*
5078134 ATTAGTTTGTTAGTATAAGTT
1 ATTAGTTTGTTAGTATAAATT
5078155 AT
1 AT
5078157 ATTATATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:5078166 original size:28 final size:28
Alignment explanation
Indices: 5078133--5078223 Score: 155
Period size: 28 Copynumber: 3.2 Consensus size: 28
5078123 TAGTATAAAT
*
5078133 TATTAGTTTGTTAGTATAAGTTATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATTA
5078161 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATTA
5078189 TATTAGTTTGTTAGTTTAAGTTATATATTA
1 TATTAGTTTGTTAGTTTAAG-T-TATATTA
5078219 TATTA
1 TATTA
5078224 TATAAAAAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
28 47 0.78
29 1 0.02
30 12 0.20
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (28 bp):
TATTAGTTTGTTAGTTTAAGTTATATTA
Found at i:5078737 original size:17 final size:17
Alignment explanation
Indices: 5078715--5078754 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
5078705 ATTTATTCCC
5078715 GTTTAAAAAAATATTGT
1 GTTTAAAAAAATATTGT
*
5078732 GTTTAAAAAAATATTTT
1 GTTTAAAAAAATATTGT
5078749 GTTTAA
1 GTTTAA
5078755 TTTATATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (17 bp):
GTTTAAAAAAATATTGT
Found at i:5081933 original size:35 final size:35
Alignment explanation
Indices: 5081892--5082241 Score: 142
Period size: 35 Copynumber: 10.0 Consensus size: 35
5081882 AATTATTAGT
5081892 TTATTAATATTTAATGATTTGATAGTAATGATTTA
1 TTATTAATATTTAATGATTTGATAGTAATGATTTA
5081927 TTATTAATATTTAATGATTTGATAGTAATGATTTAA
1 TTATTAATATTTAATGATTTGATAGTAATGATTT-A
* * *
5081963 TAATGATTAATA-ATAATGATTT-ATTATTAGT-ATTTAA
1 T--T-ATTAATATTTAATGATTTGA-TAGTAATGATTT-A
** * *
5082000 AGATTTGATA-GTAATGATTT-A-A-TAATGA-TTA
1 TTA-TTAATATTTAATGATTTGATAGTAATGATTTA
* * * * * *
5082031 GTAATAATGATTT-ATTA-TTAATATTTAATAATTTA
1 TTATTAAT-ATTTAATGATTTGATA-GTAATGATTTA
* * * * *
5082066 ATAGTAATGATTTAGTAATGATTAG-TAATAATGAAATTA
1 TTATTAAT-A-TT--TAATGATTTGATAGTAATG-ATTTA
5082105 TTATTAATATTTAATGATTTGATAGTAATGA-TTA
1 TTATTAATATTTAATGATTTGATAGTAATGATTTA
* * * * * *
5082139 GTAATAATGATTT-ATTA-TTAATATTTAATGATCTAA
1 TTATTAAT-ATTTAATGATTTGATA-GTAATGAT-TTA
* * * * * *
5082175 TGATT--TA-TTAATGATTAG-TAATGATTAAATTA
1 TTATTAATATTTAATGATTTGATAGT-AATGATTTA
5082207 TTATTAATATTTAATGATTTGATAGTAATGATTTA
1 TTATTAATATTTAATGATTTGATAGTAATGATTTA
5082242 ATAATGATTA
Statistics
Matches: 233, Mismatches: 50, Indels: 64
0.67 0.14 0.18
Matches are distributed among these distances:
30 5 0.02
31 7 0.03
32 16 0.07
33 16 0.07
34 28 0.12
35 90 0.39
36 18 0.08
37 9 0.04
38 21 0.09
39 22 0.09
40 1 0.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (35 bp):
TTATTAATATTTAATGATTTGATAGTAATGATTTA
Found at i:5081934 original size:14 final size:13
Alignment explanation
Indices: 5081902--5082278 Score: 82
Period size: 14 Copynumber: 30.8 Consensus size: 13
5081892 TTATTAATAT
5081902 TTAATGATTTGATA
1 TTAATGATTT-ATA
*
5081916 GTAATGATTTATTA
1 TTAATGATTTA-TA
5081930 TT-A--A--TAT-
1 TTAATGATTTATA
5081937 TTAATGATTTGATA
1 TTAATGATTT-ATA
*
5081951 GTAATGATTTA-A
1 TTAATGATTTATA
*
5081963 -TAATGATTAATA
1 TTAATGATTTATA
*
5081975 ATAATGATTTATTA
1 TTAATGATTTA-TA
5081989 TT-A-G---TAT-
1 TTAATGATTTATA
*
5081996 TTAAAGATTTGATA
1 TTAATGATTT-ATA
*
5082010 GTAATGATTTA-A
1 TTAATGATTTATA
5082022 -TAATGA-TTAGTA
1 TTAATGATTTA-TA
*
5082034 ATAATGATTTATTA
1 TTAATGATTTA-TA
5082048 TTAAT-ATTTA-A
1 TTAATGATTTATA
*
5082059 -TAAT--TTAATA
1 TTAATGATTTATA
*
5082069 GTAATGA-TT-TA
1 TTAATGATTTATA
*
5082080 GTAATGA-TTAGTA
1 TTAATGATTTA-TA
*
5082093 ATAATGA---A-A
1 TTAATGATTTATA
* *
5082102 TT-ATTATTAATA
1 TTAATGATTTATA
5082114 TTTAATGATTTGATA
1 -TTAATGATTT-ATA
*
5082129 GTAATGA-TTAGTA
1 TTAATGATTTA-TA
*
5082142 ATAATGATTTATTA
1 TTAATGATTTA-TA
5082156 TTAAT-ATTTAATGA
1 TTAATGATTT-AT-A
5082170 TCTAATGA-TT-TA
1 T-TAATGATTTATA
5082182 TTAATGA--T-TA
1 TTAATGATTTATA
* *
5082192 GTAATGA-TTAAA
1 TTAATGATTTATA
* *
5082204 TT-ATTATTAATA
1 TTAATGATTTATA
5082216 TTTAATGATTTGATA
1 -TTAATGATTT-ATA
*
5082231 GTAATGATTTA-A
1 TTAATGATTTATA
5082243 -TAATGA-TTAGTA
1 TTAATGATTTA-TA
* *
5082255 ATAATGAAATTATA
1 TTAATG-ATTTATA
*
5082269 ATAATGATTT
1 TTAATGATTT
5082279 TCTCCTAATG
Statistics
Matches: 280, Mismatches: 31, Indels: 105
0.67 0.07 0.25
Matches are distributed among these distances:
7 4 0.01
8 7 0.03
9 10 0.04
10 21 0.08
11 50 0.18
12 19 0.07
13 66 0.24
14 87 0.31
15 15 0.05
16 1 0.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (13 bp):
TTAATGATTTATA
Found at i:5081974 original size:10 final size:11
Alignment explanation
Indices: 5081938--5082278 Score: 81
Period size: 13 Copynumber: 27.8 Consensus size: 11
5081928 TATTAATATT
5081938 TAATGATTTGATA
1 TAATGATTT-A-A
5081951 GTAATGATTTAA
1 -TAATGATTTAA
5081963 TAATGATTAATAA
1 TAATGATT--TAA
*
5081976 TAATGATTTAT
1 TAATGATTTAA
*
5081987 TATTAGTATTT-A
1 TAAT-G-ATTTAA
5081999 -AA-GATTTGATA
1 TAATGATTT-A-A
5082010 GTAATGATTTAA
1 -TAATGATTTAA
5082022 TAATGATTAGTAA
1 TAATGATT--TAA
5082035 TAATGATTTATTA
1 TAATGATTTA--A
5082048 TTAAT-ATTTAA
1 -TAATGATTTAA
*
5082059 TAAT--TTAATAG
1 TAATGATT--TAA
*
5082070 TAATGATTTAG
1 TAATGATTTAA
5082081 TAATGATTAGTAA
1 TAATGATT--TAA
* *
5082094 TAATGAAATTAT
1 TAATG-ATTTAA
* *
5082106 TATTAATATT--
1 TAATGAT-TTAA
5082116 TAATGATTTGATA
1 TAATGATTT-A-A
5082129 GTAATGATTAGTAA
1 -TAATGATT--TAA
5082143 TAATGATTTATTA
1 TAATGATTTA--A
5082156 TTAAT-ATTTAATGA
1 -TAATGATTT-A--A
*
5082170 TCTAATGATTTAT
1 --TAATGATTTAA
*
5082183 TAATGA-TTAG
1 TAATGATTTAA
*
5082193 TAATGATTAAA
1 TAATGATTTAA
* * *
5082204 TTATTATTAATATT
1 TAATGATT--TA-A
5082218 TAATGATTTGATA
1 TAATGATTT-A-A
5082231 GTAATGATTTAA
1 -TAATGATTTAA
5082243 TAATGATTAGTAA
1 TAATGATT--TAA
5082256 TAATGAAATTATAA
1 TAATG--ATT-TAA
5082270 TAATGATTT
1 TAATGATTT
5082279 TCTCCTAATG
Statistics
Matches: 254, Mismatches: 27, Indels: 95
0.68 0.07 0.25
Matches are distributed among these distances:
8 4 0.02
9 5 0.02
10 18 0.07
11 69 0.27
12 15 0.06
13 70 0.28
14 59 0.23
15 9 0.04
16 5 0.02
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.46
Consensus pattern (11 bp):
TAATGATTTAA
Found at i:5081983 original size:59 final size:59
Alignment explanation
Indices: 5081903--5082150 Score: 370
Period size: 59 Copynumber: 4.1 Consensus size: 59
5081893 TATTAATATT
* *
5081903 TAATGATTTGATAGTAATGATTTATTATTAATATTTAATGATTTGATAGTAATGATTTAA
1 TAATGA-TTAATAATAATGATTTATTATTAATATTTAATGATTTGATAGTAATGATTTAA
* *
5081963 TAATGATTAATAATAATGATTTATTATTAGTATTTAAAGATTTGATAGTAATGATTTAA
1 TAATGATTAATAATAATGATTTATTATTAATATTTAATGATTTGATAGTAATGATTTAA
* * * *
5082022 TAATGATTAGTAATAATGATTTATTATTAATATTTAATAATTTAATAGTAATGATTTAG
1 TAATGATTAATAATAATGATTTATTATTAATATTTAATGATTTGATAGTAATGATTTAA
* *
5082081 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAA
1 TAATGATTAATAATAATG-ATTTATTATTAATATTTAATGATTTGATAGTAATGATT--TAA
5082143 TAATGATT
1 TAATGATT
5082151 TATTATTAAT
Statistics
Matches: 171, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
59 120 0.70
60 41 0.24
62 10 0.06
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (59 bp):
TAATGATTAATAATAATGATTTATTATTAATATTTAATGATTTGATAGTAATGATTTAA
Found at i:5082059 original size:21 final size:21
Alignment explanation
Indices: 5081976--5082170 Score: 88
Period size: 21 Copynumber: 9.3 Consensus size: 21
5081966 TGATTAATAA
* *
5081976 TAATGATTTATTATTAGTATT
1 TAATGATTTATTAGTAATATT
*
5081997 TAAAGATTTGA-TAGTAATGATT
1 TAATGATTT-ATTAGTAAT-ATT
* *
5082019 TAAT-AATGATTAGT-A-A--
1 TAATGATTTATTAGTAATATT
*
5082035 TAATGATTTATTATTAATATT
1 TAATGATTTATTAGTAATATT
* *
5082056 TAATAATTTAATAGTAATGATT
1 TAATGATTTATTAGTAAT-ATT
* * * *
5082078 TAGT-AATGATTAGTAATAAT
1 TAATGATTTATTAGTAATATT
* *
5082098 GAA--A-TTATTATTAATATT
1 TAATGATTTATTAGTAATATT
5082116 TAATGATTTGA-TAGTAATGATTAGT
1 TAATGATTT-ATTAGTAAT-A-T--T
*
5082141 AATAATGATTTATTATTAATATT
1 --TAATGATTTATTAGTAATATT
5082164 TAATGAT
1 TAATGAT
5082171 CTAATGATTT
Statistics
Matches: 129, Mismatches: 25, Indels: 40
0.66 0.13 0.21
Matches are distributed among these distances:
16 4 0.03
17 7 0.05
18 15 0.12
19 2 0.02
20 6 0.05
21 59 0.46
22 15 0.12
23 2 0.02
25 2 0.02
26 2 0.02
27 15 0.12
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (21 bp):
TAATGATTTATTAGTAATATT
Found at i:5082198 original size:21 final size:21
Alignment explanation
Indices: 5082172--5082256 Score: 72
Period size: 21 Copynumber: 4.2 Consensus size: 21
5082162 TTTAATGATC
5082172 TAATGATTTATTAATGATTAG
1 TAATGATTTATTAATGATTAG
* *
5082193 TAATGA-TTA--AATTATTAT
1 TAATGATTTATTAATGATTAG
* *
5082211 TAAT-ATTTAATGATTTGA-TAG
1 TAATGATTT-ATTA-ATGATTAG
*
5082232 TAATGATTTAATAATGATTAG
1 TAATGATTTATTAATGATTAG
5082253 TAAT
1 TAAT
5082257 AATGAAATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
17 1 0.02
18 13 0.27
19 1 0.02
20 6 0.12
21 22 0.45
22 6 0.12
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (21 bp):
TAATGATTTATTAATGATTAG
Found at i:5082214 original size:102 final size:106
Alignment explanation
Indices: 5082011--5082250 Score: 354
Period size: 102 Copynumber: 2.3 Consensus size: 106
5082001 GATTTGATAG
*
5082011 TAATGATTT-A-A-TAATGATTAGTAATAATGATTTATTATTAATATTTAATAATTTAATAGTAA
1 TAATGATTTGATAGTAATGATTAGTAATAATGATTTATTATTAATATTT-ATAA-TTAATACTAA
5082073 TGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
64 TGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
*
5082116 TAATGATTTGATAGTAATGATTAGTAATAATGATTTATTATTAATA-TT-TAA-TGAT-CTAATG
1 TAATGATTTGATAGTAATGATTAGTAATAATGATTTATTATTAATATTTATAATTAATACTAATG
* * *
5082177 ATTTATTAATGATTAGTAATGATTAAATTATTATTAATATT
66 ATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
5082218 TAATGATTTGATAGTAATGATT--TAATAATGATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGATT
5082251 AGTAATAATG
Statistics
Matches: 127, Mismatches: 5, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
100 11 0.09
102 65 0.51
103 3 0.02
105 12 0.09
106 1 0.01
107 3 0.02
108 32 0.25
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (106 bp):
TAATGATTTGATAGTAATGATTAGTAATAATGATTTATTATTAATATTTATAATTAATACTAATG
ATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
Found at i:5082322 original size:52 final size:51
Alignment explanation
Indices: 5082232--5082329 Score: 124
Period size: 52 Copynumber: 1.9 Consensus size: 51
5082222 GATTTGATAG
* **
5082232 TAATGATTTAATAATGATTAGTAATAATGAAATTATAATAATGATTTTCTCC
1 TAATGATTTAATAATGATTACTAATAATGAAAGAATAATAAT-ATTTTCTCC
* * **
5082284 TAATGATTTAATAATTATTACTAATAATTATGGAATAATAATATTT
1 TAATGATTTAATAATGATTACTAATAATGAAAGAATAATAATATTT
5082330 AATGATTTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
51 4 0.10
52 35 0.90
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (51 bp):
TAATGATTTAATAATGATTACTAATAATGAAAGAATAATAATATTTTCTCC
Found at i:5085129 original size:40 final size:40
Alignment explanation
Indices: 5085027--5085129 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 40
5085017 TTAACTAACT
* *
5085027 ACAAACTAATTAAAT-ATGTTTTATATATAAATAACGACTA
1 ACAAACTAATTAAATAAT-TTTTTTATATAAATAACGACAA
* * *
5085067 ACAAAC-AATCTAATTAATTTTTTTA-ATATATAACTATCAA
1 ACAAACTAAT-TAAATAATTTTTTTATATAAATAACGA-CAA
5085107 ACAAACTAATTAAATAATTTTTT
1 ACAAACTAATTAAATAATTTTTT
5085130 ATTTATGTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
39 12 0.23
40 36 0.68
41 5 0.09
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.39
Consensus pattern (40 bp):
ACAAACTAATTAAATAATTTTTTTATATAAATAACGACAA
Found at i:5085194 original size:21 final size:21
Alignment explanation
Indices: 5085141--5085180 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5085131 TTTATGTATG
*
5085141 ATATAATTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
5085162 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
5085181 ACTAATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:5085512 original size:24 final size:24
Alignment explanation
Indices: 5085453--5085527 Score: 107
Period size: 24 Copynumber: 3.2 Consensus size: 24
5085443 CAATAATTGC
*
5085453 TGCATGAAGCAACGAAAATGATGT
1 TGCATGAAGCAGCGAAAATGATGT
*
5085477 TGCATGAAGCAGCGAAAATGGTGT
1 TGCATGAAGCAGCGAAAATGATGT
* *
5085501 TGCATGAAGCAGTG-AAATGATGC
1 TGCATGAAGCAGCGAAAATGATGT
5085524 TGCA
1 TGCA
5085528 ATAATGCAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 11 0.24
24 35 0.76
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.21
Consensus pattern (24 bp):
TGCATGAAGCAGCGAAAATGATGT
Found at i:5088383 original size:2 final size:2
Alignment explanation
Indices: 5088376--5088455 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
5088366 GAATCAGATG
5088376 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5088418 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5088456 GTGTTTTGAG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5109107 original size:25 final size:27
Alignment explanation
Indices: 5109073--5109127 Score: 87
Period size: 25 Copynumber: 2.1 Consensus size: 27
5109063 TCCAGCAAAG
*
5109073 AAATTGAAGCACTC-AAAAGAAGAA-A
1 AAATTCAAGCACTCAAAAAGAAGAAGA
5109098 AAATTCAAGCACTCAAAAAGAAGAAGA
1 AAATTCAAGCACTCAAAAAGAAGAAGA
5109125 AAA
1 AAA
5109128 GAAAAGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 13 0.48
26 10 0.37
27 4 0.15
ACGTcount: A:0.62, C:0.13, G:0.15, T:0.11
Consensus pattern (27 bp):
AAATTCAAGCACTCAAAAAGAAGAAGA
Found at i:5109131 original size:5 final size:5
Alignment explanation
Indices: 5109113--5109167 Score: 94
Period size: 5 Copynumber: 11.0 Consensus size: 5
5109103 CAAGCACTCA
5109113 AAAAG AAGAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAG
1 AAAAG AA-AAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
5109163 AAAAG
1 AAAAG
5109168 TTGAAGCACT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.08
5 39 0.81
6 5 0.10
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:5111568 original size:21 final size:20
Alignment explanation
Indices: 5111534--5111576 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
5111524 TTTGATAACA
*
5111534 TTTCTTTCCCTTTCAATTCT
1 TTTCTTTCCATTTCAATTCT
*
5111554 TTTCATTTCCATTTCATTTCT
1 TTTC-TTTCCATTTCAATTCT
5111575 TT
1 TT
5111577 AATTATCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTCTTTCCATTTCAATTCT
Found at i:5111792 original size:6 final size:6
Alignment explanation
Indices: 5111767--5111823 Score: 53
Period size: 6 Copynumber: 9.0 Consensus size: 6
5111757 CTGCTGCAAC
* *
5111767 AAAAGCA AAAA-A AAAGAGA AAAAGA AAGAAGAA AAAAAA AAAAAA AAAAGA
1 AAAAG-A AAAAGA AAA-AGA AAAAGA AA-AAG-A AAAAGA AAAAGA AAAAGA
5111818 AAAAGA
1 AAAAGA
5111824 CTCCTACAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
5 4 0.09
6 24 0.55
7 13 0.30
8 3 0.07
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:5111807 original size:19 final size:19
Alignment explanation
Indices: 5111775--5111821 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 19
5111765 ACAAAAGCAA
5111775 AAAAAAAGAGAAAAAGAAAGAAG
1 AAAAAAA-A-AAAAA-AAA-AAG
5111798 AAAAAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAAAAG
5111817 AAAAA
1 AAAAA
5111822 GACTCCTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.33
20 3 0.12
21 5 0.21
22 1 0.04
23 7 0.29
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAAAAG
Found at i:5111992 original size:21 final size:22
Alignment explanation
Indices: 5111950--5112006 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
5111940 CTGCTGCAAC
*
5111950 AAAAGCAAA-AAAAAAGAGAAAA
1 AAAAG-AAAGAAAAAAGACAAAA
5111972 AGAAAG-AAGAAAAAA-ACAAAA
1 A-AAAGAAAGAAAAAAGACAAAA
5111993 AAAAGAAAGAAAAA
1 AAAAGAAAGAAAAA
5112007 GACTCCTACA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 16 0.52
22 7 0.23
23 4 0.13
ACGTcount: A:0.82, C:0.04, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAGAAAGAAAAAAGACAAAA
Found at i:5112027 original size:185 final size:182
Alignment explanation
Indices: 5111715--5112081 Score: 698
Period size: 183 Copynumber: 2.0 Consensus size: 182
5111705 TGGTTAGCCT
5111715 TACATCAAATGGTAATTAGAGCTTTGGTTGATTCACAATCAACTGCTGCAACAAAAGCAAAAAAA
1 TACATCAAATGGTAATTAGAGCTTTGGTTGATTCACAATCAACTGCTGCAACAAAAGCAAAAAAA
5111780 AAGAGAAAAAGAAAGAAGAAAAAAAAAAAAAAAAAAGAAAAAGACTCCTACAACAAATTTGGAGT
66 AAGAGAAAAAGAAAGAAGAAAAAAAAAAAAAAAAAAGAAAAAGACTCCTACAACAAATTTGGAGT
5111845 GCAAAAGAAGAAAAAAAGAAAAACAGAAATTCAAAGAAAGAAGCAAGCTGCAA
131 GCAAAAGAA-AAAAAAAGAAAAACAGAAATTCAAAGAAAGAAGCAAGCTGCAA
5111898 TACATCAAATGGTAATTAGAGCTTTGGTTGATTCACAATCAACTGCTGCAACAAAAGCAAAAAAA
1 TACATCAAATGGTAATTAGAGCTTTGGTTGATTCACAATCAACTGCTGCAACAAAAGCAAAAAAA
5111963 AAGAGAAAAAGAAAGAAGAAAAAAACAAAAAAAAGAAAGAAAAAGACTCCTACAACAAATTTGGA
66 AAGAGAAAAAGAAAGAAGAAAAAAA-AAAAAAAA-AAAGAAAAAGACTCCTACAACAAATTTGGA
*
5112028 GTGCAAAAGAAAGAAAAAGAAAAACAGAAATTCAAAGAAAGAAGCAAGCTGCAA
129 GTGCAAAAGAAAAAAAAAGAAAAACAGAAATTCAAAGAAAGAAGCAAGCTGCAA
5112082 AGTACACTCA
Statistics
Matches: 181, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
183 90 0.50
184 50 0.28
185 41 0.23
ACGTcount: A:0.57, C:0.12, G:0.17, T:0.14
Consensus pattern (182 bp):
TACATCAAATGGTAATTAGAGCTTTGGTTGATTCACAATCAACTGCTGCAACAAAAGCAAAAAAA
AAGAGAAAAAGAAAGAAGAAAAAAAAAAAAAAAAAAGAAAAAGACTCCTACAACAAATTTGGAGT
GCAAAAGAAAAAAAAAGAAAAACAGAAATTCAAAGAAAGAAGCAAGCTGCAA
Found at i:5138026 original size:17 final size:17
Alignment explanation
Indices: 5138004--5138075 Score: 99
Period size: 17 Copynumber: 4.2 Consensus size: 17
5137994 AATTAAGTGT
5138004 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
5138021 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
*
5138038 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
* * *
5138055 TAAATTTATTCAATGAAC
1 T-AGTTTAATAAATGAAC
5138073 TAG
1 TAG
5138076 AACTTTATTC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
17 35 0.71
18 14 0.29
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:5138084 original size:20 final size:19
Alignment explanation
Indices: 5138014--5138096 Score: 79
Period size: 17 Copynumber: 4.6 Consensus size: 19
5138004 TAGTTTAATA
* *
5138014 AATGAACTAG--TTTAATA
1 AATGAACTAGAATTTATTC
5138031 AATGAACTAG--TTTAATT-
1 AATGAACTAGAATTT-ATTC
5138048 AATGAACTA-AATTTATTC
1 AATGAACTAGAATTTATTC
5138066 AATGAACTAGAACTTTATTC
1 AATGAACTAGAA-TTTATTC
*
5138086 AAAGAACTAGA
1 AATGAACTAGA
5138097 TGCATGAATG
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
17 25 0.43
18 14 0.24
19 2 0.03
20 17 0.29
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.34
Consensus pattern (19 bp):
AATGAACTAGAATTTATTC
Found at i:5138385 original size:25 final size:25
Alignment explanation
Indices: 5138357--5138414 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
5138347 AAGTAAGGTA
*
5138357 GAACTTCTTTTGGATCAGCCTTGGC
1 GAACTTCTTTTGAATCAGCCTTGGC
* *
5138382 GAACCTCTTTTGAATCAGCCTTGGT
1 GAACTTCTTTTGAATCAGCCTTGGC
5138407 GAACTTCT
1 GAACTTCT
5138415 ATGATTCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (25 bp):
GAACTTCTTTTGAATCAGCCTTGGC
Found at i:5141749 original size:17 final size:17
Alignment explanation
Indices: 5141727--5141779 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
5141717 AATTAAGATT
5141727 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
5141744 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
*
5141761 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
5141778 TA
1 TA
5141780 ACTTTATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:5141792 original size:18 final size:18
Alignment explanation
Indices: 5141730--5141797 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 18
5141720 TAAGATTTAG
* *
5141730 TTTAATAAATGAACT-AG
1 TTTAATTAATGAACTAAC
* * *
5141747 TTTGATGAATGAACT-AG
1 TTTAATTAATGAACTAAC
5141764 TTTAATTAATGAACTAAC
1 TTTAATTAATGAACTAAC
5141782 TTT-ATTCAATGAACTA
1 TTTAATT-AATGAACTA
5141798 TATGCATGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
17 31 0.70
18 13 0.30
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (18 bp):
TTTAATTAATGAACTAAC
Found at i:5146546 original size:19 final size:20
Alignment explanation
Indices: 5146521--5146571 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
5146511 CGACCAAGAG
* *
5146521 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
*
5146540 GATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
5146560 CATGTATTTTCA
1 CATGTATTTTCA
5146572 AAGGGGTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:5150517 original size:19 final size:19
Alignment explanation
Indices: 5150493--5150542 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
5150483 CGGCCAAGAG
* *
5150493 CATGTATCTTCATTAAAAT
1 CATGTATTTTCATCAAAAT
5150512 CATGTATTTTCATCAAAAT
1 CATGTATTTTCATCAAAAT
5150531 CATGTATTTTCA
1 CATGTATTTTCA
5150543 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (19 bp):
CATGTATTTTCATCAAAAT
Found at i:5155316 original size:19 final size:20
Alignment explanation
Indices: 5155294--5155357 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 20
5155284 TTTGAACTTC
5155294 TCTTTTTCTT-TTCTTT-TCT
1 TCTTTTTCTTATT-TTTCTCT
5155313 TC-TTTTCTTATTTTTCTCT
1 TCTTTTTCTTATTTTTCTCT
* * *
5155332 TC-TTTTCTGACTTTTGTCT
1 TCTTTTTCTTATTTTTCTCT
5155351 TCTTTTT
1 TCTTTTT
5155358 GCACTCCAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
18 10 0.26
19 25 0.64
20 4 0.10
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.73
Consensus pattern (20 bp):
TCTTTTTCTTATTTTTCTCT
Found at i:5157231 original size:19 final size:19
Alignment explanation
Indices: 5157207--5157248 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
5157197 ATCCTTTCTT
5157207 TATTTCATTTCATT-CTTAA
1 TATTTCATTTCATTACTT-A
5157226 TATTTCATTTCATTACTTA
1 TATTTCATTTCATTACTTA
5157245 TATT
1 TATT
5157249 ATTATTCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTCATTTCATTACTTA
Found at i:5161739 original size:24 final size:21
Alignment explanation
Indices: 5161704--5161746 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
5161694 GGCTCATTCT
*
5161704 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
5161727 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
5161747 ATCTTGTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:5167732 original size:23 final size:24
Alignment explanation
Indices: 5167704--5167757 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
5167694 AAAATCAGCA
5167704 AAGAAAATAAAAGCACTC-AAAAG
1 AAGAAAATAAAAGCACTCGAAAAG
* *
5167727 AAGAAATTGAAAGCACTCGAAAAG
1 AAGAAAATAAAAGCACTCGAAAAG
5167751 AAGAAAA
1 AAGAAAA
5167758 AGAAAGAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.63, C:0.11, G:0.17, T:0.09
Consensus pattern (24 bp):
AAGAAAATAAAAGCACTCGAAAAG
Found at i:5167762 original size:24 final size:23
Alignment explanation
Indices: 5167704--5167763 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
5167694 AAAATCAGCA
5167704 AAGAAAATA-AAAGCACTCAAAAG
1 AAGAAAA-AGAAAGCACTCAAAAG
**
5167727 AAGAAATTGAAAGCACTCGAAAAG
1 AAGAAAAAGAAAGCACTC-AAAAG
5167751 AAGAAAAAGAAAG
1 AAGAAAAAGAAAG
5167764 AATGAAAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.63, C:0.10, G:0.18, T:0.08
Consensus pattern (23 bp):
AAGAAAAAGAAAGCACTCAAAAG
Found at i:5183816 original size:33 final size:33
Alignment explanation
Indices: 5183737--5183816 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 33
5183727 ATACAATCTG
* *
5183737 TCCATCACCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCA-TATCACGCCAATAACATCACC--AT
5183773 TCCATCACCATATCACGCCAATAACATCATCC-T
1 TCCATCACCATATCACGCCAATAACATCA-CCAT
*
5183806 TCCATTACCAT
1 TCCATCACCAT
5183817 TTCATCACCA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
33 11 0.28
35 17 0.43
36 12 0.30
ACGTcount: A:0.31, C:0.38, G:0.03, T:0.29
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCACCAT
Found at i:5184457 original size:16 final size:15
Alignment explanation
Indices: 5184431--5184482 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
5184421 GAGTTGTAAG
5184431 TTATC-TTCATTTTT
1 TTATCTTTCATTTTT
*
5184445 TTATCATTTCATTTCT
1 TTATC-TTTCATTTTT
5184461 TTATTCTTTCATCTTTT
1 TTA-TCTTTCAT-TTTT
5184478 CTTAT
1 -TTAT
5184483 TTCATTACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 5 0.16
16 17 0.55
17 6 0.19
18 3 0.10
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATCTTTCATTTTT
Found at i:5187622 original size:33 final size:33
Alignment explanation
Indices: 5187543--5187622 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 33
5187533 ATACAATCTG
* *
5187543 TCCATCACCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCA-TATCACGCCAATAACATCACC--AT
5187579 TCCATCACCATATCACGCCAATAACATCATCC-T
1 TCCATCACCATATCACGCCAATAACATCA-CCAT
*
5187612 TCCATTACCAT
1 TCCATCACCAT
5187623 TTCATCACCA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
33 11 0.28
35 17 0.43
36 12 0.30
ACGTcount: A:0.31, C:0.38, G:0.03, T:0.29
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCACCAT
Found at i:5188079 original size:19 final size:19
Alignment explanation
Indices: 5188048--5188089 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
5188038 AGGGGATAAT
5188048 AATATAAGTAATGAAATGA
1 AATATAAGTAATGAAATGA
5188067 AATATTAAG-AATGAAATGA
1 AATA-TAAGTAATGAAATGA
5188086 AATA
1 AATA
5188090 AAGAAAGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (19 bp):
AATATAAGTAATGAAATGA
Found at i:5193677 original size:19 final size:20
Alignment explanation
Indices: 5193631--5193679 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
5193621 TAATAAAGGG
5193631 AATAATAAT-ATAAGTAATGA
1 AATAA-AATAATAAGTAATGA
5193651 AA-ATAAATAATAAG-AATGA
1 AATA-AAATAATAAGTAATGA
5193670 AATAAAATAA
1 AATAAAATAA
5193680 ATAAAGGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (20 bp):
AATAAAATAATAAGTAATGA
Found at i:5204460 original size:25 final size:25
Alignment explanation
Indices: 5204409--5204460 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
5204399 TTTGCTTTTC
* * * *
5204409 TTCTTTTTGAGTGCTGGATTTTTTT
1 TTCTTTTGGAGTGCTGCAATTTCTT
*
5204434 TTCTTTTGGAGTGCTTCAATTTCTT
1 TTCTTTTGGAGTGCTGCAATTTCTT
5204459 TT
1 TT
5204461 TTGATTTTCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.10, C:0.12, G:0.17, T:0.62
Consensus pattern (25 bp):
TTCTTTTGGAGTGCTGCAATTTCTT
Found at i:5206704 original size:123 final size:123
Alignment explanation
Indices: 5206485--5206732 Score: 469
Period size: 123 Copynumber: 2.0 Consensus size: 123
5206475 TTATTGATGT
*
5206485 ACGAAGGATTGAATCCTTATGTTTTCCTCCAATAGATGATTCACAAGAAATCTTCAACCTCTTGG
1 ACGAAAGATTGAATCCTTATGTTTTCCTCCAATAGATGATTCACAAGAAATCTTCAACCTCTTGG
5206550 CTTCAATTCTGGTAACTTCACGTCCTTTGATGGGAGGACACAATGTTTGGGAACCATC
66 CTTCAATTCTGGTAACTTCACGTCCTTTGATGGGAGGACACAATGTTTGGGAACCATC
*
5206608 ACGAAAGATTGAATCCTTATGTTTTCCTCCAATAGATGATTCACAAGAAATGTTCAACCTCTTGG
1 ACGAAAGATTGAATCCTTATGTTTTCCTCCAATAGATGATTCACAAGAAATCTTCAACCTCTTGG
*
5206673 CTTCAATTCTGGTAACTTCACGTCCTTTGATGGGAGGACACAATGTTTGGGAACTATC
66 CTTCAATTCTGGTAACTTCACGTCCTTTGATGGGAGGACACAATGTTTGGGAACCATC
5206731 AC
1 AC
5206733 ATGTCCTTTA
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 122 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (123 bp):
ACGAAAGATTGAATCCTTATGTTTTCCTCCAATAGATGATTCACAAGAAATCTTCAACCTCTTGG
CTTCAATTCTGGTAACTTCACGTCCTTTGATGGGAGGACACAATGTTTGGGAACCATC
Found at i:5207316 original size:24 final size:24
Alignment explanation
Indices: 5207289--5207339 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
5207279 TGTGGATAAC
*
5207289 CAAAAGTCATGTTTATTGATTCTT
1 CAAAAGTCATGTTTATTGAATCTT
*
5207313 CAAAAGTCATGTTTCTTGAATCTT
1 CAAAAGTCATGTTTATTGAATCTT
5207337 CAA
1 CAA
5207340 CTTGAAGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (24 bp):
CAAAAGTCATGTTTATTGAATCTT
Found at i:5209134 original size:14 final size:13
Alignment explanation
Indices: 5209108--5209151 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
5209098 GTGCTTCAAC
5209108 TTTTTTTCTTTCTT
1 TTTTTTTC-TTCTT
5209122 TTCTTTTTCTTCTT
1 TT-TTTTTCTTCTT
5209136 TTTGTTTTCTTCTT
1 TTT-TTTTCTTCTT
5209150 TT
1 TT
5209152 GAGTGCTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.04
14 21 0.75
15 6 0.21
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (13 bp):
TTTTTTTCTTCTT
Found at i:5216486 original size:19 final size:19
Alignment explanation
Indices: 5216439--5216491 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
5216429 TGAAACCATT
**
5216439 TGAAAATACATGATTTTTGA
1 TGAAAATACATGA-TTTAAA
5216459 TGAAAATACATGATTTAAA
1 TGAAAATACATGATTTAAA
*
5216478 TGAAGATACATGAT
1 TGAAAATACATGAT
5216492 CTTGGCCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (19 bp):
TGAAAATACATGATTTAAA
Found at i:5218609 original size:10 final size:10
Alignment explanation
Indices: 5218584--5218616 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
5218574 AGTGCTTCAA
5218584 CTTTTC-TTT
1 CTTTTCATTT
5218593 C-TTTCATTT
1 CTTTTCATTT
5218602 CTTTTCATTT
1 CTTTTCATTT
5218612 CTTTT
1 CTTTT
5218617 TCTTTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.18
9 5 0.23
10 13 0.59
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (10 bp):
CTTTTCATTT
Found at i:5218620 original size:6 final size:6
Alignment explanation
Indices: 5218609--5218634 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
5218599 TTTCTTTTCA
5218609 TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TT
5218635 ATTCTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:5218667 original size:24 final size:25
Alignment explanation
Indices: 5218631--5218681 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
5218621 TTTCTTTTTC
* *
5218631 TTTTATTCTTTTTAAGTTCTTGAAT
1 TTTTATTCTTTTTAAGTGCTTCAAT
* *
5218656 TTTTCTTC-TTTTGAGTGCTTCAAT
1 TTTTATTCTTTTTAAGTGCTTCAAT
5218680 TT
1 TT
5218682 ATTTGTTGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.16, C:0.12, G:0.10, T:0.63
Consensus pattern (25 bp):
TTTTATTCTTTTTAAGTGCTTCAAT
Found at i:5225128 original size:24 final size:21
Alignment explanation
Indices: 5225094--5225136 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
5225084 TGCACAAGAT
*
5225094 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
5225116 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
5225137 AGAATGAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:5227989 original size:43 final size:47
Alignment explanation
Indices: 5227891--5227996 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 47
5227881 AGGATCATAT
* *
5227891 TTATTATTTTATTAGGAATTAAGGTTGGGTTAAAACAATATTTTAGGTTA
1 TTATTATTTTATTAGGAATTAA-G--GAGTTAAAACAATAGTTTAGGTTA
*
5227941 TTATTATTTTATTAGGAATT-A-GAGTTAAAAC-AT-GTTTAGTTTA
1 TTATTATTTTATTAGGAATTAAGGAGTTAAAACAATAGTTTAGGTTA
5227984 TTATTATTTTATT
1 TTATTATTTTATT
5227997 CTCTAGTTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
43 21 0.40
44 2 0.04
45 9 0.17
49 1 0.02
50 20 0.38
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (47 bp):
TTATTATTTTATTAGGAATTAAGGAGTTAAAACAATAGTTTAGGTTA
Found at i:5228296 original size:50 final size:49
Alignment explanation
Indices: 5228189--5228297 Score: 112
Period size: 50 Copynumber: 2.2 Consensus size: 49
5228179 CTTCACACTC
** * * * * *
5228189 CAATTTTCCTTTTCATTGTGACTAGGAGGGTTGGTTAGAGCCATATTAT
1 CAATTTTCCTTTTCATTAAGACTAGGAGGGCTCGATAGAGACATATCAT
*
5228238 CATGTTTTCCTTTTCATTAAGACTAGGAGGGCTCGATAG-GACATTATACAT
1 CA-ATTTTCCTTTTCATTAAGACTAGGAGGGCTCGATAGAGACA-TAT-CAT
5228289 CAATTTTCC
1 CAATTTTCC
5228298 ATATATCCAT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
49 5 0.10
50 39 0.81
51 4 0.08
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (49 bp):
CAATTTTCCTTTTCATTAAGACTAGGAGGGCTCGATAGAGACATATCAT
Found at i:5228790 original size:10 final size:10
Alignment explanation
Indices: 5228777--5228809 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
5228767 AAATAAAACA
5228777 AAAAAAAGGC
1 AAAAAAAGGC
5228787 AAAAAAA--C
1 AAAAAAAGGC
5228795 AAAAAAAGGC
1 AAAAAAAGGC
5228805 AAAAA
1 AAAAA
5228810 TCAAAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAGGC
Found at i:5228798 original size:18 final size:18
Alignment explanation
Indices: 5228771--5228826 Score: 73
Period size: 17 Copynumber: 3.2 Consensus size: 18
5228761 TTTCAAAAAT
5228771 AAAACAAAAAAAAGGCAAA
1 AAAAC-AAAAAAAGGCAAA
5228790 AAAACAAAAAAAGGC-AA
1 AAAACAAAAAAAGGCAAA
*
5228807 AAATCAAAAAAA--CAAA
1 AAAACAAAAAAAGGCAAA
5228823 AAAA
1 AAAA
5228827 AAGCCAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 1 0.03
16 5 0.15
17 13 0.38
18 10 0.29
19 5 0.15
ACGTcount: A:0.80, C:0.11, G:0.07, T:0.02
Consensus pattern (18 bp):
AAAACAAAAAAAGGCAAA
Found at i:5228817 original size:9 final size:8
Alignment explanation
Indices: 5228771--5228826 Score: 51
Period size: 8 Copynumber: 6.5 Consensus size: 8
5228761 TTTCAAAAAT
5228771 AAAACAAAA
1 AAAAC-AAA
5228780 AAAAGGCAAA
1 AAAA--CAAA
5228790 AAAACAAA
1 AAAACAAA
5228798 AAAAGGC-AA
1 AAAA--CAAA
*
5228807 AAATCAAA
1 AAAACAAA
5228815 AAAACAAA
1 AAAACAAA
5228823 AAAA
1 AAAA
5228827 AAGCCAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
7 1 0.03
8 21 0.52
9 9 0.22
10 8 0.20
11 1 0.03
ACGTcount: A:0.80, C:0.11, G:0.07, T:0.02
Consensus pattern (8 bp):
AAAACAAA
Done.