Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold172
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: 1975206
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.26
Warning! 344189 characters in sequence are not A, C, G, or T
File 9 of 11
Found at i:1602087 original size:13 final size:13
Alignment explanation
Indices: 1602069--1602093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1602059 ACAATACTTA
1602069 TGTATCGATACAT
1 TGTATCGATACAT
1602082 TGTATCGATACA
1 TGTATCGATACA
1602094 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1602091 original size:32 final size:32
Alignment explanation
Indices: 1602050--1602112 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1602040 TAGCTAATTA
*
1602050 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1602082 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1602113 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1602194 original size:21 final size:21
Alignment explanation
Indices: 1602170--1602225 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
1602160 CATTTGTAGG
1602170 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
1602191 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
1602212 ATGTATCGATACAT
1 ATGTATCGATACAT
1602226 CTAAATTTTT
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:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:1602237 original size:1 final size:1
Alignment explanation
Indices: 1602231--1602261 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
1602221 TACATCTAAA
1602231 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1602262 AAAACACTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1604408 original size:58 final size:56
Alignment explanation
Indices: 1604313--1604531 Score: 209
Period size: 58 Copynumber: 3.9 Consensus size: 56
1604303 TAGGCCCATA
* * *
1604313 AATATATGCAAATTGGGCTTTACTCTTCTTGGACATGTGAATTAGGCTCCAAGAAATG
1 AATACATGCAAATTAGGCTTCACTCTTCTTGGACATGTGAATTAGGCTCCAAG--ATG
*
1604371 AATACATGCAAATTAGGCTTCACTCTTCTTGGACATGTGAATT-GGCTCCAAGCT-
1 AATACATGCAAATTAGGCTTCACTCTTCTTGGACATGTGAATTAGGCTCCAAGATG
** * **** *
1604425 TCTTCATTGTTTTTTA----TC-CTCTTCTTAGACATGTGAATTAGGCTCCAAGCCATG
1 AATACA-TGCAAATTAGGCTTCACTCTTCTTGGACATGTGAATTAGGCTCCAAG--ATG
* * *
1604479 AATACATGCAAATTGGGCTTCACTCTTCTTGGACAAGTGAATTGGGCTCCAAG
1 AATACATGCAAATTAGGCTTCACTCTTCTTGGACATGTGAATTAGGCTCCAAG
1604532 CTTCTTCAAT
Statistics
Matches: 127, Mismatches: 24, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
50 20 0.16
51 11 0.09
53 5 0.04
54 6 0.05
55 6 0.05
57 11 0.09
58 68 0.54
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (56 bp):
AATACATGCAAATTAGGCTTCACTCTTCTTGGACATGTGAATTAGGCTCCAAGATG
Found at i:1604547 original size:108 final size:109
Alignment explanation
Indices: 1604335--1604554 Score: 363
Period size: 108 Copynumber: 2.0 Consensus size: 109
1604325 TTGGGCTTTA
*
1604335 CTCTTCTTGGACATGTGAATTAGGCTCCAAGAAATGAATACATGCAAATTAGGCTTCACTCTTCT
1 CTCTTCTTAGACATGTGAATTAGGCTCCAAGAAATGAATACATGCAAATTAGGCTTCACTCTTCT
* *
1604400 TGGACATGTGAATTGGCTCCAAGCTTCTTCATTGTTTTTT-ATC
66 TGGACAAGTGAATTGGCTCCAAGCTTCTTCAATGTTTTTTCATC
** *
1604443 CTCTTCTTAGACATGTGAATTAGGCTCCAAGCCATGAATACATGCAAATTGGGCTTCACTCTTCT
1 CTCTTCTTAGACATGTGAATTAGGCTCCAAGAAATGAATACATGCAAATTAGGCTTCACTCTTCT
1604508 TGGACAAGTGAATTGGGCTCCAAGCTTCTTCAATG-TTTTTCATC
66 TGGACAAGTGAATT-GGCTCCAAGCTTCTTCAATGTTTTTTCATC
1604552 CTC
1 CTC
1604555 ATCATAATAT
Statistics
Matches: 104, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
108 79 0.76
109 25 0.24
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (109 bp):
CTCTTCTTAGACATGTGAATTAGGCTCCAAGAAATGAATACATGCAAATTAGGCTTCACTCTTCT
TGGACAAGTGAATTGGCTCCAAGCTTCTTCAATGTTTTTTCATC
Found at i:1609460 original size:28 final size:28
Alignment explanation
Indices: 1609417--1609489 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
1609407 ATTGAAAAAT
* *
1609417 AAGAAAGATC-AAGGAAGTGAAATCAA-C
1 AAGAAATATCAAAGGAAATGAAAT-AAGC
*
1609444 AAGAAATATGAAAGGAAATGAAATAAGC
1 AAGAAATATCAAAGGAAATGAAATAAGC
*
1609472 AAGAAATTTCAAAGGAAA
1 AAGAAATATCAAAGGAAA
1609490 AAATCAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 10 0.26
28 29 0.74
ACGTcount: A:0.59, C:0.07, G:0.21, T:0.14
Consensus pattern (28 bp):
AAGAAATATCAAAGGAAATGAAATAAGC
Found at i:1617477 original size:151 final size:151
Alignment explanation
Indices: 1617203--1617506 Score: 545
Period size: 151 Copynumber: 2.0 Consensus size: 151
1617193 GCTACAATGG
* *
1617203 TTGAGTGATGAAGGGGAGTTGGTTGTTAATAGGTAGGTTTTGATTACTTTTTCTATTGGCAAGTA
1 TTGAGTGATGAAGGGGAGTTGGTTGATAATAGGCAGGTTTTGATTACTTTTTCTATTGGCAAGTA
1617268 CGAGGATGAAGTCTTGTGTGATGTAGTGCCAATGGAAGCAAGCCACATCCTCTTGGGAAGACCTT
66 CGAGGATGAAGTCTTGTGTGATGTAGTGCCAATGGAAGCAAGCCACATCCTCTTGGGAAGACCTT
*
1617333 GGCAGTTCAACAAGAAAGCTA
131 GGAAGTTCAACAAGAAAGCTA
1617354 TTGAGTGATGAAGGGGAGTTGGTTGATAATAGGCAGGTTTTGATTACTTTTTCTATTGGCAAGTA
1 TTGAGTGATGAAGGGGAGTTGGTTGATAATAGGCAGGTTTTGATTACTTTTTCTATTGGCAAGTA
* * * *
1617419 TGAGGATGAAGTCTTGTGTGATGTAGTGCCTATGGAAGCAAGCCACGTCTTCTTGGGAAGACCTT
66 CGAGGATGAAGTCTTGTGTGATGTAGTGCCAATGGAAGCAAGCCACATCCTCTTGGGAAGACCTT
1617484 GGAAGTTCAACAAGAAAGCTA
131 GGAAGTTCAACAAGAAAGCTA
1617505 TT
1 TT
1617507 CATGATGGTC
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
151 146 1.00
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.31
Consensus pattern (151 bp):
TTGAGTGATGAAGGGGAGTTGGTTGATAATAGGCAGGTTTTGATTACTTTTTCTATTGGCAAGTA
CGAGGATGAAGTCTTGTGTGATGTAGTGCCAATGGAAGCAAGCCACATCCTCTTGGGAAGACCTT
GGAAGTTCAACAAGAAAGCTA
Found at i:1625894 original size:50 final size:49
Alignment explanation
Indices: 1625822--1625954 Score: 189
Period size: 49 Copynumber: 2.7 Consensus size: 49
1625812 TTTTATAATT
*
1625822 TGTATCGATA-ATTGTTCCTTGTATCGATACATTCTGGGTTTTACCCAGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGG-TTTACCCAGA
*
1625871 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTTTACCCTGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTTTACCCAGA
* * *
1625920 TGTATCAATACATT-TTGCAATGTGTCGATACATTC
1 TGTATCGATACATTGTT-CATTGTATCGATACATTC
1625955 AGACATTTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
48 2 0.03
49 48 0.62
50 27 0.35
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (49 bp):
TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTTTACCCAGA
Found at i:1628601 original size:79 final size:81
Alignment explanation
Indices: 1628470--1628623 Score: 231
Period size: 79 Copynumber: 1.9 Consensus size: 81
1628460 TCATCTCGGT
* * * * *
1628470 GATACTCCAACCCCGGTTTTATTTCCAAAATATCAATTTTTCATAATCGGGGATACTCCAA-TCC
1 GATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCACAATAGGGGATACTCCAACTCC
*
1628534 CG-TTATTTCCGAGGG
66 AGCTTATTTCCGAGGG
*
1628549 GATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAATAGGGGATACTCCAACTCC
1 GATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCACAATAGGGGATACTCCAACTCC
1628614 AGCTTATTTC
66 AGCTTATTTC
1628624 TAAATTATTG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
79 55 0.83
80 4 0.06
81 7 0.11
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (81 bp):
GATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCACAATAGGGGATACTCCAACTCC
AGCTTATTTCCGAGGG
Found at i:1628651 original size:129 final size:129
Alignment explanation
Indices: 1628505--1628739 Score: 292
Period size: 129 Copynumber: 1.8 Consensus size: 129
1628495 CAAAATATCA
* * * * * **
1628505 ATTTTTCATAATCGGGGATACTCCAATCCC-GTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
1 ATTTCTCACAATCGGGGATACTCCAA-CCCTATTATTTCCGAGAGGATACTCCAACCCCAGCCTT
1628569 ATTTCTAAAACACCAATTTTCCACAATAGGGGATACTCCAACTCCAGCTTATTTCTAAATTATTG
65 ATTTCTAAAACACCAATTTTCCACAATAGGGGATACTCCAACTCCAGCTTATTTCTAAATTATTG
* ** *
1628634 ATTTCTCACAATCGGGGATACTCTAACCCTATTATTTTGGCGAGGATACTCCAACCCCAGCCTTA
1 ATTTCTCACAATCGGGGATACTCCAACCCTATTATTTCCGAGAGGATACTCCAACCCCAGCCTTA
* **** * *
1628699 TTTCTAAAGCTTTGATTTTCCACAATCGGTGATACTCCAAC
66 TTTCTAAAACACCAATTTTCCACAATAGGGGATACTCCAAC
1628740 CCCATTATCT
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
128 3 0.03
129 84 0.97
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (129 bp):
ATTTCTCACAATCGGGGATACTCCAACCCTATTATTTCCGAGAGGATACTCCAACCCCAGCCTTA
TTTCTAAAACACCAATTTTCCACAATAGGGGATACTCCAACTCCAGCTTATTTCTAAATTATTG
Found at i:1628714 original size:79 final size:78
Alignment explanation
Indices: 1628599--1628901 Score: 245
Period size: 79 Copynumber: 3.8 Consensus size: 78
1628589 CCACAATAGG
* * *
1628599 GGATACTCCAACTCCAGCTTATTTCTAAATTATTGA-TTTCTCACAATCGGGGATACTCTAACCC
1 GGATACTCCAACCCCAGCTTATTTCTAAACTATTGATTTTC-CACAATCGGGGATACTCCAACCC
* * * *
1628663 TATTATTTTGGCGA
65 CATTATCTTCGAGA
*
1628677 GGATACTCCAACCCCAGCCTTATTTCTAAAGCT-TTGATTTTCCACAATCGGTGATACTCCAACC
1 GGATACTCCAACCCCAG-CTTATTTCTAAA-CTATTGATTTTCCACAATCGGGGATACTCCAACC
*
1628741 CCATTATCTTCGAGG
64 CCATTATCTTCGAGA
** * *** * * * *
1628756 GGATACTCCAACCCCGATTTTATTTTCAAAAC-GCCGATTTTCTATAATCAGGGATGCTCCAACC
1 GGATACTCCAACCCC-AGCTTA-TTTCTAAACTATTGATTTTCCACAATCGGGGATACTCCAACC
** * *
1628820 CTGTTATTTTCGAGG
64 CCATTATCTTCGAGA
** ** * *
1628835 GGATACTCCAACCCCAATTTTATTTCTAGAAC-ACCGATTTTCCATAATCAGGGGATACTCCAGC
1 GGATACTCCAACCCC-AGCTTATTTCTA-AACTATTGATTTTCCACAATC-GGGGATACTCCAAC
1628899 CCC
63 CCC
1628902 GTTGTCATCT
Statistics
Matches: 187, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
78 21 0.11
79 140 0.75
80 26 0.14
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (78 bp):
GGATACTCCAACCCCAGCTTATTTCTAAACTATTGATTTTCCACAATCGGGGATACTCCAACCCC
ATTATCTTCGAGA
Found at i:1633763 original size:20 final size:20
Alignment explanation
Indices: 1633740--1633813 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1633730 ACAATTCAAA
1633740 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1633760 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1633781 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1633801 GTATCGATACATG
1 GTATCGATACATG
1633814 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1633784 original size:21 final size:21
Alignment explanation
Indices: 1633758--1633833 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1633748 ACATGTTGCA
1633758 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1633779 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
1633799 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
1633820 ATGTATCGATACAT
1 ATGTATCGATACAT
1633834 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1633791 original size:41 final size:41
Alignment explanation
Indices: 1633740--1633833 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1633730 ACAATTCAAA
1633740 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1633781 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1633822 GTATCGATACAT
1 GTATCGATACAT
1633834 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:1633890 original size:13 final size:13
Alignment explanation
Indices: 1633872--1633897 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1633862 TACACAAAGT
1633872 ATGTATCGATACA
1 ATGTATCGATACA
1633885 ATGTATCGATACA
1 ATGTATCGATACA
1633898 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1633895 original size:32 final size:33
Alignment explanation
Indices: 1633854--1633917 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1633844 TAGCCAAACT
**
1633854 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1633886 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1633918 TTGGCTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1634418 original size:34 final size:35
Alignment explanation
Indices: 1634355--1634421 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1634345 CTAAGTGATT
1634355 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1634391 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1634422 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1636111 original size:84 final size:84
Alignment explanation
Indices: 1635939--1636112 Score: 185
Period size: 84 Copynumber: 2.1 Consensus size: 84
1635929 ACTCAAAGAA
* * * * *
1635939 GAAAATAAATCAATAAGTGTAGAGAATGATTTTCTTGAAAAGAAATTAAGTGAATCAGAGAAGAA
1 GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAATCAGAGAAGAA
* *
1636004 TATGAAAGAGTTACAAAAT
66 TAAGAAAAAGTTACAAAAT
* * *
1636023 GAAAATAAATCAATGAGTTTAGAAAATAATTCTT-TTAAAAAGAAAATAAATGAAAT-AGAGGAG
1 GAAAATAAATCAATAAGTGTAGAAAATAATT-TTCTTAAAAAGAAAATAAATG-AATCAGAGAAG
*
1636086 AA-AAGAAATAAGTTGC-AAAT
64 AATAAGAAA-AAGTTACAAAAT
1636106 GGAAAAT
1 -GAAAAT
1636113 GATGAATTGG
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
83 9 0.12
84 61 0.81
85 5 0.07
ACGTcount: A:0.54, C:0.04, G:0.18, T:0.24
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAATCAGAGAAGAA
TAAGAAAAAGTTACAAAAT
Found at i:1639399 original size:20 final size:20
Alignment explanation
Indices: 1639376--1639449 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1639366 ACAATTCAAA
1639376 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1639396 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1639417 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1639437 GTATCGATACATG
1 GTATCGATACATG
1639450 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1639420 original size:21 final size:21
Alignment explanation
Indices: 1639394--1639469 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1639384 ACATGTTGCA
1639394 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1639415 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
1639435 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
1639456 ATGTATCGATACAT
1 ATGTATCGATACAT
1639470 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1639427 original size:41 final size:41
Alignment explanation
Indices: 1639376--1639469 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1639366 ACAATTCAAA
1639376 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1639417 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1639458 GTATCGATACAT
1 GTATCGATACAT
1639470 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:1639526 original size:13 final size:13
Alignment explanation
Indices: 1639508--1639533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1639498 TACACAAAGT
1639508 ATGTATCGATACA
1 ATGTATCGATACA
1639521 ATGTATCGATACA
1 ATGTATCGATACA
1639534 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1639531 original size:32 final size:33
Alignment explanation
Indices: 1639490--1639553 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1639480 TAGCCAAACT
**
1639490 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1639522 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1639554 TTGGCTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1640054 original size:34 final size:35
Alignment explanation
Indices: 1639991--1640057 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1639981 CTAAGTGATT
1639991 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1640027 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1640058 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1648911 original size:50 final size:49
Alignment explanation
Indices: 1648837--1648969 Score: 198
Period size: 49 Copynumber: 2.7 Consensus size: 49
1648827 TTTCATAATT
*
1648837 TGTATCGATA-ATTGTTCCTTGTATCGATACATTCTGGGTTTTACCCAGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGG-TTTACCCAGA
*
1648886 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTTTACCCTGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTTTACCCAGA
* *
1648935 TGTATCAATACATT-TTGCAATGTATCGATACATTC
1 TGTATCGATACATTGTT-CATTGTATCGATACATTC
1648970 AGACATTTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
48 2 0.03
49 49 0.63
50 27 0.35
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.41
Consensus pattern (49 bp):
TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTTTACCCAGA
Found at i:1653972 original size:50 final size:49
Alignment explanation
Indices: 1653900--1654032 Score: 180
Period size: 49 Copynumber: 2.7 Consensus size: 49
1653890 TTTTATAATT
*
1653900 TGTATCGATA-ATTGTTCCTTGTATCGATACATTCTGGGTTTTACCCAGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGG-TTTACCCAGA
* *
1653949 TGTATCGATACATTGTTTATTGTATCGATACATTCTGGGTTTACCCTGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTTTACCCAGA
* * *
1653998 TGTATCAATACATT-TTGCAATGTGTCGATACATTC
1 TGTATCGATACATTGTT-CATTGTATCGATACATTC
1654033 AGACATTTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
48 2 0.03
49 47 0.63
50 26 0.35
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (49 bp):
TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTTTACCCAGA
Found at i:1656461 original size:79 final size:81
Alignment explanation
Indices: 1656327--1656483 Score: 228
Period size: 79 Copynumber: 2.0 Consensus size: 81
1656317 TTTTCATCTC
* * * * * *
1656327 GGGGATACTCCAACCTCGGTTTTATTTCCAAAATATCAATTTTTCATAATCGGGGATACTCCAA-
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCACAATAGGGGATACTCCAAC
*
1656391 TCCTG-TTATTTCCGA
66 TCCAGCTTATTTCCGA
*
1656406 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAATAGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCACAATAGGGGATACTCCAAC
1656471 TCCAGCTTATTTC
66 TCCAGCTTATTTC
1656484 TAAATTATTG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 57 0.84
80 4 0.06
81 7 0.10
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (81 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCACAATAGGGGATACTCCAAC
TCCAGCTTATTTCCGA
Found at i:1656574 original size:79 final size:78
Alignment explanation
Indices: 1656459--1656756 Score: 226
Period size: 79 Copynumber: 3.8 Consensus size: 78
1656449 CCACAATAGG
* * * *
1656459 GGATACTCCAACTCCAGCTTATTTCTAAATTATTGA-TTTCTCACAATTGGGGATACTCTAACCC
1 GGATACTCCAACCCCAGCTTATTTCTAAACTATTGATTTTC-CACAATCGGGGATACTCCAACCC
* * * *
1656523 TATTATTTTGGTGA
65 CATTATCTTCGAGA
*
1656537 GGATACTCCAACCCCAGCCTTATTTCTAAAGCT-TTGATTTTCCACAATCGGTGATACTCCAACC
1 GGATACTCCAACCCCAG-CTTATTTCTAAA-CTATTGATTTTCCACAATCGGGGATACTCCAACC
*
1656601 CCATTATCTTCGAGG
64 CCATTATCTTCGAGA
** * **** * * * *
1656616 GGATACTCCAACCCCGATTTTATTTTCAAAAC-GCCAATTTTCTATAATCAGGGATGCTCCAACC
1 GGATACTCCAACCCC-AGCTTA-TTTCTAAACTATTGATTTTCCACAATCGGGGATACTCCAACC
** * *
1656680 CTGTTATTTTCGAGG
64 CCATTATCTTCGAGA
** ** *
1656695 GGATACTCCAACCCCAATTTTATTTCTAGAAC-ACCGATTTTCCATAATCAGGGGATACTCCA
1 GGATACTCCAACCCC-AGCTTATTTCTA-AACTATTGATTTTCCACAATC-GGGGATACTCCA
1656757 GCCTCGTTGT
Statistics
Matches: 181, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
78 21 0.12
79 137 0.76
80 23 0.13
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (78 bp):
GGATACTCCAACCCCAGCTTATTTCTAAACTATTGATTTTCCACAATCGGGGATACTCCAACCCC
ATTATCTTCGAGA
Found at i:1670066 original size:50 final size:49
Alignment explanation
Indices: 1670002--1670134 Score: 180
Period size: 49 Copynumber: 2.7 Consensus size: 49
1669992 TTTCATAATT
*
1670002 TGTATCGATA-ATTGTTCCTTGTATCGATAAATTCTGGGTTTTACCCAGA
1 TGTATCGATACATTGTTCATTGTATCGATAAATTCTGGG-TTTACCCAGA
* *
1670051 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTTTACCCTGA
1 TGTATCGATACATTGTTCATTGTATCGATAAATTCTGGGTTTACCCAGA
* * *
1670100 TGTATCAATACATT-TTGCAATGTATCGATACATTC
1 TGTATCGATACATTGTT-CATTGTATCGATAAATTC
1670135 AGACATTTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
48 2 0.03
49 49 0.64
50 26 0.34
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.41
Consensus pattern (49 bp):
TGTATCGATACATTGTTCATTGTATCGATAAATTCTGGGTTTACCCAGA
Found at i:1672564 original size:79 final size:81
Alignment explanation
Indices: 1672430--1672586 Score: 228
Period size: 79 Copynumber: 2.0 Consensus size: 81
1672420 TTTTCATCTC
* * * *
1672430 GGGGATACTCCAACCCCGATTTTATTTCCAAAATATCAATTTTTCATAATCGGGGATACTCCAA-
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAAC
*
1672494 TCCCG-TTATTTCCGA
66 TCCAGCTTATTTCCGA
* * *
1672509 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAATGGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAAC
1672574 TCCAGCTTATTTC
66 TCCAGCTTATTTC
1672587 TAAATTATTG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 57 0.84
80 4 0.06
81 7 0.10
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (81 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAAC
TCCAGCTTATTTCCGA
Found at i:1672677 original size:79 final size:78
Alignment explanation
Indices: 1672562--1672859 Score: 226
Period size: 79 Copynumber: 3.8 Consensus size: 78
1672552 CCACAATGGG
* * * *
1672562 GGATACTCCAACTCCAGCTTATTTCTAAATTATTGATT-TCTCACAATTGGGGATACTCTAACCC
1 GGATACTCCAACCCCAGCTTATTTCTAAACTATTGATTCTC-CACAATCGGGGATACTCCAACCC
* * * *
1672626 TATTATTTTGGCGA
65 CATTATCTTCGAGA
*
1672640 GGATACTCCAACCCCAGCCTTATTTCTAAAGCT-TTGATTCTCCACAATCGGTGATACTCCAACC
1 GGATACTCCAACCCCAG-CTTATTTCTAAA-CTATTGATTCTCCACAATCGGGGATACTCCAACC
*
1672704 CCATTATCTTCGAGG
64 CCATTATCTTCGAGA
* ** * * * * * * * *
1672719 GGACACTCCAACCCCGATTTTATTTTCAAAAC-GTCGATTTTCTATAATCAGGGATGCTCCAACC
1 GGATACTCCAACCCC-AGCTTA-TTTCTAAACTATTGATTCTCCACAATCGGGGATACTCCAACC
* * *
1672783 CTATTATTTTCGAGG
64 CCATTATCTTCGAGA
** ** * *
1672798 GGATACTCCAACCCCAATTTTATTTCTAGAAC-ACCGATTTTCCATAATCAGGGGATACTCCA
1 GGATACTCCAACCCC-AGCTTATTTCTA-AACTATTGATTCTCCACAATC-GGGGATACTCCA
1672860 GCCCTGTTGT
Statistics
Matches: 181, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
78 21 0.12
79 139 0.77
80 21 0.12
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (78 bp):
GGATACTCCAACCCCAGCTTATTTCTAAACTATTGATTCTCCACAATCGGGGATACTCCAACCCC
ATTATCTTCGAGA
Found at i:1685271 original size:15 final size:15
Alignment explanation
Indices: 1685251--1685300 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
1685241 CTTCTTTTTA
* *
1685251 AAAAAAATAAAAAAT
1 AAAAAAACAAAAAAG
1685266 AAAAAAACAAAAAAG
1 AAAAAAACAAAAAAG
1685281 AAAAAAA-AGAGAAAAG
1 AAAAAAACA-A-AAAAG
1685297 AAAA
1 AAAA
1685301 GAACTTGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 1 0.03
15 21 0.68
16 9 0.29
ACGTcount: A:0.86, C:0.02, G:0.08, T:0.04
Consensus pattern (15 bp):
AAAAAAACAAAAAAG
Found at i:1685295 original size:16 final size:16
Alignment explanation
Indices: 1685250--1685300 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
1685240 CCTTCTTTTT
*
1685250 AAAAAAAATAAAAAA-
1 AAAAAAAACAAAAAAG
*
1685265 TAAAAAAACAAAAAAG
1 AAAAAAAACAAAAAAG
* *
1685281 AAAAAAAAGAGAAAAG
1 AAAAAAAACAAAAAAG
1685297 AAAA
1 AAAA
1685301 GAACTTGCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 13 0.43
16 17 0.57
ACGTcount: A:0.86, C:0.02, G:0.08, T:0.04
Consensus pattern (16 bp):
AAAAAAAACAAAAAAG
Found at i:1686385 original size:101 final size:96
Alignment explanation
Indices: 1686257--1686451 Score: 241
Period size: 96 Copynumber: 2.0 Consensus size: 96
1686247 ATCTAAACTT
* * * * *
1686257 TCTCCTTTCACTTTTCAGTCCTCAAAGAGCAGGGCGCCTTCTCCTTTTAAAGCCCACATAAG-TT
1 TCTCCTTTCACCTTTCAGTCCTCAAAGAGCA--G-G--AT-GCCTTTTAAAGCCCACACAAGCTA
1686321 GGTGGCACCTTCCCAGTCCTCAAAGAGCAGGACACTC
60 GGTGGCACCTTCCCAGTCCTCAAAGAGCAGGACACTC
1686358 TCTCCTTTCACCCTTT-AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTAGGTGG
1 TCTCCTTTCA-CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTAGGTGG
* * *
1686422 CACTTTTCTAGTCCTCAAAGAGCAGGACAC
65 CACCTTCCCAGTCCTCAAAGAGCAGGACAC
1686452 CTTTTCCTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
95 19 0.23
96 34 0.40
98 1 0.01
99 1 0.01
101 25 0.30
102 4 0.05
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (96 bp):
TCTCCTTTCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTAGGTGGC
ACCTTCCCAGTCCTCAAAGAGCAGGACACTC
Found at i:1686510 original size:61 final size:61
Alignment explanation
Indices: 1686394--1686999 Score: 724
Period size: 61 Copynumber: 10.1 Consensus size: 61
1686384 GAGCAGGATG
* * *
1686394 CCTTTTAAAGCCCACACAAGCTAGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAG-TTGGTGGCAC-TTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* *
1686457 CCTTTTAAAGTCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* * ** * *
1686518 CATTTTAAAGCCCACACAAGTTGGTGGCACCTTATAGTCCTCAAAGAGCATGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
*
1686579 CCTTTTAAAGCCCACACAAGTTGGTGGCA-ATTCCTAGTCCTCGAAA-AGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCC-AGTCCTC-AAAGAGCAGGACGCCTTTT
* * *
1686640 -C-----AA-CTCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCTTTTT
1 CCTTTTAAAGC-CCACACAAGTTGGTGGCAC-TTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * *
1686696 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTAAAAGAGTAGGACGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* *
1686757 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAATCCTCAAAGAGCAGGA------TG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CCAGTCCTCAAAGAGCAGGACGCCTTTT
** * * *
1686812 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCGAAGAGCAAGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * *
1686873 CCTTTTAAAGGCCACACAAGCTGGTGGCACCTT-CAGTCCTTAAAAAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
*
1686933 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
1686994 CCTTTT
1 CCTTTT
1687000 CTCCTTTGCC
Statistics
Matches: 470, Mismatches: 51, Indels: 46
0.83 0.09 0.08
Matches are distributed among these distances:
54 1 0.00
55 68 0.14
56 23 0.05
57 4 0.01
60 57 0.12
61 264 0.56
62 33 0.07
63 20 0.04
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:1686705 original size:178 final size:177
Alignment explanation
Indices: 1686394--1686994 Score: 809
Period size: 178 Copynumber: 3.4 Consensus size: 177
1686384 GAGCAGGATG
* * *
1686394 CCTTTTAAAGCCCACACAAGCTAGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCC
1 CCTTTTAAAGCCCACACAAG-TTGGTGGCA-TTTCCTAGTCCTCAAAGAGCAGGACGCCTTTT-C
* * * * *
1686459 TTTTAAAGTCCACACAAGTTGGTGGCAC-CTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCATTT
63 -----AACTCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTT
* *
1686523 TAAAGCCCACACAAGTTGGTGGCACCTTATAGTCCTCAAAGAGCATGATGCCTTTT
123 TAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTAAAAGAGCAGGATGCCTTTT
*
1686579 CCTTTTAAAGCCCACACAAGTTGGTGGCAATTCCTAGTCCTCGAAA-AGCAGGACGCCTTTTCAA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCTAGTCCTC-AAAGAGCAGGACGCCTTTTCAA
*
1686643 CTCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCCTTTTAAAGCC
65 CTCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCC
* * *
1686708 CACACAAGTTGGTGGCACCTTCTAGTCCTAAAAGAGTAGGACGCTTTTT
130 CACACAAGTTGGTGGCACCTT-TAGTCCTAAAAGAGCAGGATGCCTTTT
* * * *
1686757 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAATCCTCAAAGAGCAGGATGCCTTTTAAAG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTCAA-
* * *
1686822 C-CCACACAAGTTGGTGGCACTTTT-TAGTCCTCGAAGAGCAAGATGCCTTTTCCTTTTAAAGGC
65 CTCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCC
* *
1686885 CACACAAGCTGGTGGCACCTTCAGTCCTTAAAA-AGCAGGATGCCTTTT
130 CACACAAGTTGGTGGCACCTTTAGTCC-TAAAAGAGCAGGATGCCTTTT
*
1686933 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTC
1686995 CTTTTCTCCT
Statistics
Matches: 376, Mismatches: 34, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
176 70 0.19
177 89 0.24
178 159 0.42
179 1 0.00
182 1 0.00
183 25 0.07
184 11 0.03
185 20 0.05
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (177 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTCAAC
TCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCC
ACACAAGTTGGTGGCACCTTTAGTCCTAAAAGAGCAGGATGCCTTTT
Found at i:1686800 original size:239 final size:232
Alignment explanation
Indices: 1686373--1686999 Score: 796
Period size: 239 Copynumber: 2.6 Consensus size: 232
1686363 TTTCACCCTT
* *
1686373 TAGTCCTC-AAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTAGGTGGCACTTTTCTAGTCCT
1 TAGTCCTCGAAA-AGCAGGATGCCTTTTCAA-CCCACACAAG-TTGGTGGCACTTTTCTAGTCCT
** * *
1686437 CAAAGAGCAGGACACCTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
63 CAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAA
* * *
1686502 GAGCAGGACGCCTTTTCATTTTAAAGCCCACACAAGTTGGTGGCACCTTATAGTCCTCAAAGAGC
128 GAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTACAATCCTCAAAGAGC
*
1686567 ATGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAATTCC
193 AGGATG------CCTTTTAAAGCCCACACAAGTTGGTGGCAATTCC
*
1686613 TAGTCCTCGAAAAGCAGGACGCCTTTTCAACTCCACACAAGTTGGTGGCACTTTTCTAGTCCTCA
1 TAGTCCTCGAAAAGCAGGATGCCTTTTCAAC-CCACACAAGTTGGTGGCACTTTTCTAGTCCTCA
* *
1686678 AAGAGCAGGATGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTAAAAGA
65 AAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGA
* * * *
1686743 GTAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAATCCTCAAAGAGCA
130 GCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-ACAATCCTCAAAGAGCA
* **
1686807 GGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT
194 GGATGCCTTTTAAAGCCCACACAAGTTGGTGGCAATTCC
* * * * *
1686846 TAGTCCTCGAAGAGCAAGATGCCTTTTCCTTTTAAAGGCCACACAAGCTGGTGGCAC-CTTC-AG
1 TAGTCCTCGAAAAGCAGGATGCCTTTT-C-----AA-CCCACACAAGTTGGTGGCACTTTTCTAG
* * *
1686909 TCCTTAAAAAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCC
59 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCC
1686973 TCAAAGAGCAGGACGCCTTTTCCTTTT
123 TCAAAGAGCAGGACGCCTTTTCCTTTT
1687000 CTCCTTTGCC
Statistics
Matches: 343, Mismatches: 33, Indels: 25
0.86 0.08 0.06
Matches are distributed among these distances:
233 55 0.16
234 1 0.00
236 4 0.01
237 81 0.24
238 5 0.01
239 161 0.47
240 33 0.10
241 3 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (232 bp):
TAGTCCTCGAAAAGCAGGATGCCTTTTCAACCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
AGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAG
CAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTACAATCCTCAAAGAGCAGG
ATGCCTTTTAAAGCCCACACAAGTTGGTGGCAATTCC
Found at i:1687057 original size:37 final size:39
Alignment explanation
Indices: 1686969--1687231 Score: 178
Period size: 42 Copynumber: 6.5 Consensus size: 39
1686959 GCACTTTTCA
1686969 GTCCTCAAAGAGCAGGACGC-CT-TTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTATTTCCTTTT-TCCTTT
**
1687007 G-CCTTC-TTGAGCAGGACGC-CT-TTTCCTTTTTCCTTT
1 GTCC-TCAAAGAGCAGGACGCACTATTTCCTTTTTCCTTT
* *
1687043 GTCCTCAAAAAGCAGGATGCACTTCATTTCCTTCTTTTCCCTTCT
1 GTCCTCAAAGAGCAGGACGCAC-T-ATTTCC-T-TTTT-CCTT-T
* *
1687088 AGTTCTCAAAGAGCAGGATGCACTTTATTCTCCTTTTTCCTTT
1 -GTCCTCAAAGAGCAGGACGCAC--TATT-TCCTTTTTCCTTT
* * *
1687131 GTCCTCAAAAAGCAGGACACATTTAATTTCCTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACGCA-CT-ATTTCCTTTTTCCTTT
* * * * * *
1687172 GTCTTCAAAGGGCATGATGCATTTTATTTCCTTTTTTCCTTA
1 GTCCTCAAAGAGCAGGACGCA--CTATTTCC-TTTTTCCTTT
* *
1687214 GTCCCCAATGAGCAGGAC
1 GTCCTCAAAGAGCAGGAC
1687232 CCATTTCATT
Statistics
Matches: 181, Mismatches: 26, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
36 9 0.05
37 35 0.19
38 4 0.02
39 1 0.01
41 40 0.22
42 45 0.25
43 5 0.03
44 8 0.04
45 5 0.03
46 24 0.13
47 5 0.03
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.39
Consensus pattern (39 bp):
GTCCTCAAAGAGCAGGACGCACTATTTCCTTTTTCCTTT
Found at i:1687171 original size:41 final size:41
Alignment explanation
Indices: 1687028--1687268 Score: 191
Period size: 41 Copynumber: 5.7 Consensus size: 41
1687018 CAGGACGCCT
* ** *
1687028 TTTCCTTTTTCCTTTGTCCTCAAAAAGCAGGATGCACTTCA
1 TTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
*
1687069 TTTCCTTCTTTTCCCTTCTAGTTCTCAAAGAGCAGGATGCAC-TTT-A
1 TTTCC-T-TTTT-CCTT-T-GTCCTCAAAGAGCAGGA--CACATTTCA
* *
1687115 TTCTCCTTTTTCCTTTGTCCTCAAAAAGCAGGACACATTTAA
1 TT-TCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* * * ** *
1687157 TTTCCTTTTTCCTTTGTCTTCAAAGGGCATGATGCATTTTA
1 TTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* * * *
1687198 TTTCCTTTTTTCCTTAGTCCCCAATGAGCAGGACCCATTTCA
1 TTTCC-TTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* **
1687240 -TTCTTCTTTTCCTTAATCCTCAAAGAGCA
1 TTTCCT-TTTTCCTTTGTCCTCAAAGAGCA
1687269 AGACTGCCCC
Statistics
Matches: 161, Mismatches: 27, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
40 4 0.02
41 68 0.42
42 46 0.29
43 5 0.03
44 8 0.05
45 5 0.03
46 19 0.12
47 5 0.03
48 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (41 bp):
TTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
Found at i:1687210 original size:83 final size:87
Alignment explanation
Indices: 1687028--1687251 Score: 248
Period size: 83 Copynumber: 2.6 Consensus size: 87
1687018 CAGGACGCCT
** * *
1687028 TTTCCTTTTTCCTTTGTCCTCAAAAAGCAGGATGCACTTCATTTCCTTCTTTTCCCTTCTAGTTC
1 TTTCCTTTTTCCTTTGTCCTCAAAAAGCAGGACACATTTAATTTCCTTCTTTTCCCTTCTAGTTC
1687093 TCAAAGAGCAGGATGCACTTTA
66 TCAAAGAGCAGGATGCACTTTA
1687115 TTCTCCTTTTTCCTTTGTCCTCAAAAAGCAGGACACATTTAATTTCC-T-TTTT-CCTT-T-G-T
1 TT-TCCTTTTTCCTTTGTCCTCAAAAAGCAGGACACATTTAATTTCCTTCTTTTCCCTTCTAGTT
* * *
1687174 CTTCAAAGGGCATGATGCATTTTA
65 C-TCAAAGAGCAGGATGCACTTTA
* * ** * *
1687198 TTTCCTTTTTTCCTTAGTCCCCAATGAGCAGGACCCATTTCA-TT-CTTCTTTTCC
1 TTTCC-TTTTTCCTTTGTCCTCAAAAAGCAGGACACATTTAATTTCCTTCTTTTCC
1687252 TTAATCCTCA
Statistics
Matches: 118, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
81 1 0.01
82 8 0.07
83 56 0.47
84 2 0.02
85 4 0.03
86 4 0.03
87 3 0.03
88 40 0.34
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (87 bp):
TTTCCTTTTTCCTTTGTCCTCAAAAAGCAGGACACATTTAATTTCCTTCTTTTCCCTTCTAGTTC
TCAAAGAGCAGGATGCACTTTA
Found at i:1689752 original size:51 final size:51
Alignment explanation
Indices: 1689692--1689813 Score: 178
Period size: 51 Copynumber: 2.4 Consensus size: 51
1689682 TTATTTCCGA
*
1689692 GGGGATACTCCAACCCCTGTTTTATTTCTAAAACACC-AATTTTCCACAATC
1 GGGGATACTCCAACCCCTGTTTTATTTCCAAAACACCAAATTTT-CACAATC
*
1689743 GGGGATACTCCAACTCC-GATTTTATTTCCAAAACACCAAATTTTCACAATC
1 GGGGATACTCCAACCCCTG-TTTTATTTCCAAAACACCAAATTTTCACAATC
*
1689794 GGGGATACCCCAA-CCCTGTT
1 GGGGATACTCCAACCCCTGTT
1689814 ATTTTATCGA
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
50 5 0.08
51 53 0.83
52 6 0.09
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCTGTTTTATTTCCAAAACACCAAATTTTCACAATC
Found at i:1689855 original size:28 final size:30
Alignment explanation
Indices: 1689794--1689863 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 30
1689784 TTTCACAATC
* *
1689794 GGGGATACCCCAACCCTGTTATTTTATCGA
1 GGGGATACTCCAACCCCGTTATTTTATCGA
*
1689824 --GGATACTCTAACCCCGTTA-TTT-TCGA
1 GGGGATACTCCAACCCCGTTATTTTATCGA
1689850 GGGGATACTCCAAC
1 GGGGATACTCCAAC
1689864 TCCGGCTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 4 0.12
27 3 0.09
28 27 0.79
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (30 bp):
GGGGATACTCCAACCCCGTTATTTTATCGA
Found at i:1689944 original size:107 final size:107
Alignment explanation
Indices: 1689743--1689944 Score: 253
Period size: 107 Copynumber: 1.9 Consensus size: 107
1689733 TTCCACAATC
*
1689743 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAAATTTTCACAATCGGGGATACCCCAAC
1 GGGGATACTCCAACTCCGACTTTATTTCCAAAACACCAAATTTTCACAATCGGGGATACCCCAAC
* * * *
1689808 CCTGTTATTTTATCGAGGATACTCTAACCCCGTTATTTTCGA
66 CCCGTTATTTTAGCGAAGATACTCCAACCCCGTTATTTTCGA
* * * *** * *
1689850 GGGGATACTCCAACTCCGGCTTTATTTCTAAAATA-TTGATTTCTCACAATGGGGGATACTCCAA
1 GGGGATACTCCAACTCCGACTTTATTTCCAAAACACCAAATTT-TCACAATCGGGGATACCCCAA
* *
1689914 CCCCGTTATTTTGGCGAAGATGCTCCAACCC
65 CCCCGTTATTTTAGCGAAGATACTCCAACCC
1689945 TGGCCTTATT
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
106 4 0.05
107 75 0.95
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACTCCGACTTTATTTCCAAAACACCAAATTTTCACAATCGGGGATACCCCAAC
CCCGTTATTTTAGCGAAGATACTCCAACCCCGTTATTTTCGA
Found at i:1690033 original size:79 final size:77
Alignment explanation
Indices: 1689819--1690158 Score: 234
Period size: 79 Copynumber: 4.3 Consensus size: 77
1689809 CTGTTATTTT
* * * *
1689819 ATCGAGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCCAACTCCGGCTTTATTTCTAAAAT
1 ATCG-GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAACT
*
1689884 ATTGA-TTTCTCACA
65 -TCGATTTTC-CACA
* * * ** * * * *
1689898 ATGGGGGATACTCCAACCCCGTTATTTTGGCGAAGATGCTCCAACCCTGGCCTTATTTCTAAAGC
1 AT-CGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAA-C
*
1689963 TTCAATTTTCCACA
64 TTCGATTTTCCACA
* * * * *
1689977 ATCGGTGATACTCCAACCCTGTTATCTTCGAGGGGATACTCTAACCCCGATTTTATTTTCAAAAC
1 ATCGG-GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTA-TTTCTAAAC
** * *
1690042 ACCGATTTTCTATA
64 TTCGATTTTCCACA
* ** * * * * *
1690056 ATCAAGGATGTTCTAACCCTGTTA-TTTCTGAGGGGATACTCTAACCCTGATTTTATTTCTAGAA
1 ATC-GGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGACTTTATTTCTA-AA
** *
1690120 CACCGATTTTCCATA
63 CTTCGATTTTCCACA
*
1690135 ATCAGGGGATACTCCAGCCCCGTT
1 ATC--GGGATACTCCAACCCCGTT
1690159 GTCATCTCCA
Statistics
Matches: 205, Mismatches: 47, Indels: 17
0.76 0.17 0.06
Matches are distributed among these distances:
78 10 0.05
79 168 0.82
80 27 0.13
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (77 bp):
ATCGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAACTT
CGATTTTCCACA
Found at i:1691749 original size:166 final size:167
Alignment explanation
Indices: 1691428--1691959 Score: 689
Period size: 167 Copynumber: 3.2 Consensus size: 167
1691418 AAACGTTCAA
* * * * * *
1691428 TTAAGCCCATAAACTTTTGAAAAATTTT-ATTTTATACCCGAGGAAAAATCGAAAAGATATAAAA
1 TTAATCCC-TAAACTTTT-AAAAATTTTCATTTCATACCCGATGAGAAATCGAAAGGATACAAAA
* * * *
1691492 AGACTTGAAAATTTCTATACCCCTACGGAAGGCTATAGGAATAATAGAAATCTTTAATAATGACT
64 AGTCTTGAAAATTTCTATACCCCTACGGAAGGCTATAAGAATAATAAAAATCTTTAAAAATGACT
1691557 AAAATGATGATTTTACCTCTAAAAACTAAAATTTGCTAT
129 AAAATGATGATTTTACCTCTAAAAACTAAAATTTGCTAT
* * * * * *
1691596 TTAATCCCTAAATTTTTGAAAATTTTCATTTCATACCTGATGCGAAATCGAAAGGATACGAGAAG
1 TTAATCCCTAAACTTTTAAAAATTTTCATTTCATACCCGATGAGAAATCGAAAGGATACAAAAAG
* * * * * *
1691661 TCTTGAAAACTTCTATATCCCTACAGAAGACTATAAGAATAA-AAAAAACTTTAAAAATGATTAA
66 TCTTGAAAATTTCTATACCCCTACGGAAGGCTATAAGAATAATAAAAATCTTTAAAAATGACTAA
*
1691725 AATGATGATTTTACCTCAAAAAACTAAAATTTGCTAT
131 AATGATGATTTTACCTCTAAAAACTAAAATTTGCTAT
* * * * *
1691762 TTAATCTCCTAAATTTTTAAAAATTTTCATTTCGTACCCGAT-AGAAAAC-AGAGAATACAAAAA
1 TTAATC-CCTAAACTTTTAAAAATTTTCATTTCATACCCGATGAGAAATCGAAAGGATACAAAAA
* * *
1691825 GT-TTTAAAATTTTCTATACCCCTATGGAAGGCCAT-AGAAATAATAAAAATCTTTAAAAATGAC
65 GTCTTGAAAA-TTTCTATACCCCTACGGAAGGCTATAAG-AATAATAAAAATCTTTAAAAATGAC
1691888 TAAAATGATGATTTTTACCTCTAAAAACTAAAATTTGCTAT
128 TAAAATGATGA-TTTTACCTCTAAAAACTAAAATTTGCTAT
1691929 TTAATCCCTAAACTTTTAAAAATTTTCATTT
1 TTAATCCCTAAACTTTTAAAAATTTTCATTT
1691960 TAGTCCTTAC
Statistics
Matches: 315, Mismatches: 43, Indels: 14
0.85 0.12 0.04
Matches are distributed among these distances:
164 8 0.03
165 36 0.11
166 125 0.40
167 139 0.44
168 7 0.02
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (167 bp):
TTAATCCCTAAACTTTTAAAAATTTTCATTTCATACCCGATGAGAAATCGAAAGGATACAAAAAG
TCTTGAAAATTTCTATACCCCTACGGAAGGCTATAAGAATAATAAAAATCTTTAAAAATGACTAA
AATGATGATTTTACCTCTAAAAACTAAAATTTGCTAT
Found at i:1693471 original size:3 final size:3
Alignment explanation
Indices: 1693463--1693502 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
1693453 TCAACTATCA
* *
1693463 ATG ATG ATG AAG ATG ATG ATA ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1693503 AGTTGACTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:1697520 original size:24 final size:24
Alignment explanation
Indices: 1697489--1697574 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1697479 AAGAGAAAGA
1697489 AGAGATAGGAGGGATGATAAGAGG
1 AGAGATAGGAGGGATGATAAGAGG
*
1697513 AGAGATAGGA--GA-GAT---AGT
1 AGAGATAGGAGGGATGATAAGAGG
*
1697531 AGAGATAGGAGGGATGATAGGAGG
1 AGAGATAGGAGGGATGATAAGAGG
* * *
1697555 AGAGATGGGAGAGATAATAA
1 AGAGATAGGAGGGATGATAA
1697575 AGAGAGGAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
18 12 0.24
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.56
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.14
Consensus pattern (24 bp):
AGAGATAGGAGGGATGATAAGAGG
Found at i:1697535 original size:11 final size:9
Alignment explanation
Indices: 1697510--1697570 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
1697500 GGATGATAAG
1697510 AGGAGAGAT
1 AGGAGAGAT
1697519 AGGAGAGAT
1 AGGAGAGAT
*
1697528 AGTAGAGAT
1 AGGAGAGAT
*
1697537 AGGAGGGAT
1 AGGAGAGAT
* *
1697546 --GATAG-G
1 AGGAGAGAT
1697552 AGGAGAGAT
1 AGGAGAGAT
*
1697561 GGGAGAGAT
1 AGGAGAGAT
1697570 A
1 A
1697571 ATAAAGAGAG
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 32 0.82
ACGTcount: A:0.41, C:0.00, G:0.46, T:0.13
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:1697539 original size:42 final size:42
Alignment explanation
Indices: 1697480--1697598 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 42
1697470 TAGCCCTCAA
* * *
1697480 AGAGAAAGAAGAGATAGGAGGGATGATAAGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
*
1697522 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATGGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
* * * *
1697564 AGAGATAATAAAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAG
1697599 GAGAGAAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.44, C:0.01, G:0.45, T:0.11
Consensus pattern (42 bp):
AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
Found at i:1697551 original size:12 final size:11
Alignment explanation
Indices: 1697490--1697565 Score: 61
Period size: 12 Copynumber: 6.9 Consensus size: 11
1697480 AGAGAAAGAA
1697490 GAGATAGGAGG
1 GAGATAGGAGG
*
1697501 GATGATAAGAGG
1 GA-GATAGGAGG
1697513 AGAGATAGGA--
1 -GAGATAGGAGG
*
1697523 GAGATAGTA--
1 GAGATAGGAGG
1697532 GAGATAGGAGG
1 GAGATAGGAGG
1697543 GATGATAGGAGG
1 GA-GATAGGAGG
*
1697555 AGAGATGGGAG
1 -GAGATAGGAG
1697566 AGATAATAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
9 16 0.30
11 4 0.07
12 30 0.56
13 4 0.07
ACGTcount: A:0.39, C:0.00, G:0.47, T:0.13
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1704129 original size:79 final size:78
Alignment explanation
Indices: 1704019--1704252 Score: 222
Period size: 80 Copynumber: 2.9 Consensus size: 78
1704009 GCATCTATCC
* * *
1704019 AAATCTTTTTCTC-AAGCCCAATGTCGCTGACCTTGAATCAGCACATTAGCACCTTGCCTATGTC
1 AAATCTTGTTC-CAAAGCCTAATGTCG-TGACCTTGAATCAGCACATTGGCACCTTGCCTATGTC
*
1704083 AAAAGGCATTTGTC-
64 AAAAGGCATTTGCCA
* * *
1704097 AAATCTTGTTCACTAAAGCCTAAAGTCGTGACCTTGAATCAGCACATTGGCACCATGCCCTAAGT
1 AAATCTTGTTC-C-AAAGCCTAATGTCGTGACCTTGAATCAGCACATTGGCACCTTG-CCTATGT
*** *
1704162 CATGTGGCATCTGCCA
63 CAAAAGGCATTTGCCA
* * * * * * *
1704178 AAATCTTTTTCCCAAGCTTAATGTCATTGGCCTTGAATCAGCAAATTGGCACCTTGTC-ATTGTC
1 AAATCTTGTTCCAAAGCCTAATGTC-GTGACCTTGAATCAGCACATTGGCACCTTGCCTA-TGTC
1704242 AAAAGGCATTT
64 AAAAGGCATTT
1704253 CACCATAAAA
Statistics
Matches: 124, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
78 12 0.10
79 48 0.39
80 54 0.44
81 10 0.08
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (78 bp):
AAATCTTGTTCCAAAGCCTAATGTCGTGACCTTGAATCAGCACATTGGCACCTTGCCTATGTCAA
AAGGCATTTGCCA
Found at i:1705565 original size:19 final size:20
Alignment explanation
Indices: 1705537--1705595 Score: 86
Period size: 19 Copynumber: 3.0 Consensus size: 20
1705527 GATACATTAC
1705537 GCTT-ATTGTATCGATACAT
1 GCTTAATTGTATCGATACAT
*
1705556 GC-TCATTGTATCGATACAT
1 GCTTAATTGTATCGATACAT
*
1705575 ACTTAATTGTATCGATACAT
1 GCTTAATTGTATCGATACAT
1705595 G
1 G
1705596 AGACTACCAG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
18 1 0.03
19 18 0.51
20 16 0.46
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (20 bp):
GCTTAATTGTATCGATACAT
Found at i:1705670 original size:20 final size:20
Alignment explanation
Indices: 1705621--1705676 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1705611 AACCTGAGTG
1705621 AAATGTATCGATACATGGGA
1 AAATGTATCGATACATGGGA
* * * *
1705641 CATTGCATCGATACATGGTA
1 AAATGTATCGATACATGGGA
1705661 AAATGTATCGATACAT
1 AAATGTATCGATACAT
1705677 TGTGCCCAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (20 bp):
AAATGTATCGATACATGGGA
Found at i:1710262 original size:28 final size:29
Alignment explanation
Indices: 1710224--1710294 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 29
1710214 AGAAAGATTA
* *
1710224 AGGAAGTGAAATCAA-CAAGAAATATGAG
1 AGGAAGAGAAATCAACCAAGAAATATCAG
*
1710252 AGGAA-ACGAAA-AAACCAAGAAATATCAG
1 AGGAAGA-GAAATCAACCAAGAAATATCAG
1710280 AGGAAGAGAAATCAA
1 AGGAAGAGAAATCAA
1710295 TGAAGAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
27 2 0.06
28 30 0.86
29 3 0.09
ACGTcount: A:0.58, C:0.10, G:0.23, T:0.10
Consensus pattern (29 bp):
AGGAAGAGAAATCAACCAAGAAATATCAG
Found at i:1720876 original size:537 final size:536
Alignment explanation
Indices: 1719851--1720923 Score: 1746
Period size: 537 Copynumber: 2.0 Consensus size: 536
1719841 TGTCTTAAAA
* * * *
1719851 TGATGAGAACCAAGGAATGTCCATTGAAGACAACGACCTGAAGGCGTTGGAAAGGTTTCAAGGAC
1 TGATGAAAACCAAGCAAGGTCCATTGAAGACAACGACCTGAAGGCATTGGAAAGGTTTCAAGGAC
* * *
1719916 CAATGACGAGGACAAAGGCAAAGATGATAAAAGAAGACTTAGAGAAGATGGTTGATGCCCTATTT
66 CAATGACAAGGACAAAGGCAAAGAGGATAAAAGAAGACCTAGAGAAGATGGTTGATGCCCTATTT
* *
1719981 AAAAGCGTACCCAACTTGGAGTTAGAAGAGCCCAAGCTGGTCAATTGCATATATTTGGAAGATAT
131 AAAAGAGTACCCAACTTGGAGTTAGAAGAGCCCAAGCTAGTCAATTGCATATATTTGGAAGATAT
* * * *
1720046 GGGCTCCAATGGATTGAATTAGGACTTGGGTTATTTTGTAATAAAGGGCTTGCAGGTTGTGGCTT
196 GGGCTCCAATGGATTGAATTAGGACTTGAGTTATTTTGTAATAAAAGGCCTGCAGGTTGTGACTT
1720111 ACTTTGGGCTTTATTTAGCATAAAAACTTGTTATTTGGGTTTAACTAAGAGTTGGGCTTGTTCAT
261 ACTTTGGGCTTTATTTAGCATAAAAACTTGTTATTTGGGTTTAACTAAGAGTTGGGCTTGTTCAT
1720176 AATAAACCCCTTAGGGTTTGTGTCAACTATGGCTTATGAAGGCATATATAAGCTCTTGTAAACAG
326 AATAAACCCCTTAGGGTTTGTGTCAACTATGGCTTATGAAGGCATATATAAGCTCTTGTAAACAG
1720241 ATTTGGAGGGGGCAGACATTGATATTTGCAGATTAAACACATTTTGTGTGAGAGTGTGATTCTTA
391 ATTTGGAGGGGGCAGACATTGATATTTGCAGATTAAACACATTTTGTGTGAGAGTGTGATTCTTA
*
1720306 GGTTCTTGAGGGAGCCAATTTTTCTGAATCTTATCAAGAGGCCAAGATTCTTGTGGCGATCATTC
456 GGTTCTTGAGGGAGCCAATTTTTCTGAATCTTATCAAGAGGCCAAGACTCTTGTGGCGATCATTC
1720371 CTTTTGGCTTATCAAT
521 CTTTTGGCTTATCAAT
* * * *
1720387 TGATGAAAACCAAGCAAGGTCCATTGAATACAATGACTTGAAGGCATTGGAAGGGTTTCAAGGAC
1 TGATGAAAACCAAGCAAGGTCCATTGAAGACAACGACCTGAAGGCATTGGAAAGGTTTCAAGGAC
* *
1720452 CAATGACAAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCCA-G-CCTAT
66 CAATGACAAGGACAAAGGCAAAGAGGATAAAAGAAGACCTAGAGAAGATGGTTG--ATGCCCTAT
* * * * *
1720515 TTGAAAGTAG-ACCCAATTTGGAGTTAGAGGAGCCCAAGCTAGTTAATTGTATATATTTGGAAGA
129 TTAAAAG-AGTACCCAACTTGGAGTTAGAAGAGCCCAAGCTAGTCAATTGCATATATTTGGAAGA
*
1720579 TAT-GGCTCCAATGGATTGAATTAGGACTTGAGTTATTTTGTAATAAAAGGCCTGCTGGTTGTGA
193 TATGGGCTCCAATGGATTGAATTAGGACTTGAGTTATTTTGTAATAAAAGGCCTGCAGGTTGTGA
* *
1720643 CTTGCTTTGGGCTTTATTTAGCATAAAAACTTGTTATTTGGGTTTAACTAAGTGTTGGGCTTGTT
258 CTTACTTTGGGCTTTATTTAGCATAAAAACTTGTTATTTGGGTTTAACTAAGAGTTGGGCTTGTT
* *
1720708 AGCATAAT-AACCCCTTTAGGGTTTGTGTTAACTATGGCTTATGAGGGCATATATAAGCTCTTGT
323 --CATAATAAACCCC-TTAGGGTTTGTGTCAACTATGGCTTATGAAGGCATATATAAGCTCTTGT
*
1720772 AAACAGATTTGGAGGGGGCAGACATTGATATTTGCATATTAAACACATTTTGTGTGAGAGTGTGA
385 AAACAGATTTGGAGGGGGCAGACATTGATATTTGCAGATTAAACACATTTTGTGTGAGAGTGTGA
1720837 TTCTTAGGTTCTTG-GGTGAGCCAATTTTTCT-AGATCTTATCAAGAGGCCAAGACTCTTGTGGC
450 TTCTTAGGTTCTTGAGG-GAGCCAATTTTTCTGA-ATCTTATCAAGAGGCCAAGACTCTTGTGGC
1720900 GATCATTCCTTTTGGCTTATCAAT
513 GATCATTCCTTTTGGCTTATCAAT
1720924 CTAGTGATTG
Statistics
Matches: 498, Mismatches: 31, Indels: 15
0.92 0.06 0.03
Matches are distributed among these distances:
535 119 0.24
536 178 0.36
537 200 0.40
538 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (536 bp):
TGATGAAAACCAAGCAAGGTCCATTGAAGACAACGACCTGAAGGCATTGGAAAGGTTTCAAGGAC
CAATGACAAGGACAAAGGCAAAGAGGATAAAAGAAGACCTAGAGAAGATGGTTGATGCCCTATTT
AAAAGAGTACCCAACTTGGAGTTAGAAGAGCCCAAGCTAGTCAATTGCATATATTTGGAAGATAT
GGGCTCCAATGGATTGAATTAGGACTTGAGTTATTTTGTAATAAAAGGCCTGCAGGTTGTGACTT
ACTTTGGGCTTTATTTAGCATAAAAACTTGTTATTTGGGTTTAACTAAGAGTTGGGCTTGTTCAT
AATAAACCCCTTAGGGTTTGTGTCAACTATGGCTTATGAAGGCATATATAAGCTCTTGTAAACAG
ATTTGGAGGGGGCAGACATTGATATTTGCAGATTAAACACATTTTGTGTGAGAGTGTGATTCTTA
GGTTCTTGAGGGAGCCAATTTTTCTGAATCTTATCAAGAGGCCAAGACTCTTGTGGCGATCATTC
CTTTTGGCTTATCAAT
Found at i:1721019 original size:20 final size:22
Alignment explanation
Indices: 1720980--1721020 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1720970 TTATTTTTTT
*
1720980 TTGCTTCTTTCAATTTCTGTTC
1 TTGCATCTTTCAATTTCTGTTC
1721002 TTGCATCTTT-AA-TTCTGTT
1 TTGCATCTTTCAATTTCTGTT
1721021 TATTGTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.12, C:0.20, G:0.10, T:0.59
Consensus pattern (22 bp):
TTGCATCTTTCAATTTCTGTTC
Found at i:1721459 original size:12 final size:11
Alignment explanation
Indices: 1721440--1721512 Score: 55
Period size: 12 Copynumber: 6.6 Consensus size: 11
1721430 AGAGAAAGAA
1721440 GAGATAGGAGG
1 GAGATAGGAGG
1721451 GATGATAGGAGG
1 GA-GATAGGAGG
*
1721463 AAAGATAGGA--
1 -GAGATAGGAGG
**
1721473 GAGATA-G-TC
1 GAGATAGGAGG
1721482 GAGATAGGAGG
1 GAGATAGGAGG
1721493 GATGATAGGAGG
1 GA-GATAGGAGG
1721505 AGAGATAG
1 -GAGATAG
1721513 CTGAGATAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
8 1 0.02
9 11 0.22
10 1 0.02
11 4 0.08
12 30 0.60
13 3 0.06
ACGTcount: A:0.40, C:0.01, G:0.45, T:0.14
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1721489 original size:42 final size:42
Alignment explanation
Indices: 1721439--1721548 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 42
1721429 AAGAGAAAGA
* *
1721439 AGAGATAGGAGGGATGATAGGAGGAAAGATAGGAGAGATAGT
1 AGAGATAGGAGGGATGATAGGAGGAAAGATAGCAGAGATAAT
* * *
1721481 CGAGATAGGAGGGATGATAGGAGGAGAGATAGCTGAGATAAT
1 AGAGATAGGAGGGATGATAGGAGGAAAGATAGCAGAGATAAT
* * *
1721523 AAAGAGAGGAGGGATGACAGGAGGAA
1 AGAGATAGGAGGGATGATAGGAGGAA
1721549 GAGAGAAGAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.42, C:0.03, G:0.43, T:0.13
Consensus pattern (42 bp):
AGAGATAGGAGGGATGATAGGAGGAAAGATAGCAGAGATAAT
Found at i:1729866 original size:162 final size:162
Alignment explanation
Indices: 1729683--1730001 Score: 552
Period size: 162 Copynumber: 2.0 Consensus size: 162
1729673 CTTTTAGCTT
1729683 ATCAATCTTGTGATTGTGGCGCCATCCTTCATCTCTAATCTATCCCA-TTTTGTTATTTTTTTCT
1 ATCAATCTTGTGATTGTGGCGCCATCCTTCATCTCTAATCTATCCCAGTTTTGTTA-TTTTTTCT
* *
1729747 ACTTCTTTCAATTTCTATTCTTGC-ATCAATAATTCTGTTTATTGTTAGAAATCCATCTCAAGAT
65 ACTTCTTTCAATTTCTACTCTTGCAAT-AATAATTCTGTTTATTATTAGAAATCCATCTCAAGAT
*
1729811 CATTATTTAGGCAACCTTGGTTCATGGTTTTGAC
129 CATTATTTAGGCAACCTTGGATCATGGTTTTGAC
* *
1729845 ATCAATCTTGTGATTGTGGCGCCATCCTTCATCTCTAATCTATTCCAGTTTTGTTATTTTTTCTG
1 ATCAATCTTGTGATTGTGGCGCCATCCTTCATCTCTAATCTATCCCAGTTTTGTTATTTTTTCTA
*
1729910 CTTCTTTCAATTTCTGCTCTTGCAATAATAATTCTGTTTATTATTAGAAATCCATCTCAAGATCA
66 CTTCTTTCAATTTCTACTCTTGCAATAATAATTCTGTTTATTATTAGAAATCCATCTCAAGATCA
1729975 TTATTTAGGCAACCTTGGATCATGGTT
131 TTATTTAGGCAACCTTGGATCATGGTT
1730002 GTCATCAATT
Statistics
Matches: 149, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
162 139 0.93
163 10 0.07
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (162 bp):
ATCAATCTTGTGATTGTGGCGCCATCCTTCATCTCTAATCTATCCCAGTTTTGTTATTTTTTCTA
CTTCTTTCAATTTCTACTCTTGCAATAATAATTCTGTTTATTATTAGAAATCCATCTCAAGATCA
TTATTTAGGCAACCTTGGATCATGGTTTTGAC
Found at i:1730803 original size:30 final size:30
Alignment explanation
Indices: 1730769--1730836 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
1730759 TAGCCCTCGC
1730769 AGAGAAAGAAGAGATAGAAGGAGA-GATAGG
1 AGAGAAAGAAGAGATAGAAGG-GATGATAGG
* * *
1730799 AGAGATAGTAGAGATAGGAGGGATGATAGG
1 AGAGAAAGAAGAGATAGAAGGGATGATAGG
1730829 AGGAGAAA
1 A-GAGAAA
1730837 TAGGAGAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 2 0.06
30 25 0.78
31 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.41, T:0.10
Consensus pattern (30 bp):
AGAGAAAGAAGAGATAGAAGGGATGATAGG
Found at i:1730813 original size:18 final size:18
Alignment explanation
Indices: 1730790--1730860 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 18
1730780 AGATAGAAGG
1730790 AGAGATAGGAGAGATAGT
1 AGAGATAGGAGAGATAGT
*
1730808 AGAGATAGGAGGGATGATAGG
1 AGAGATAGGA--GA-GATAGT
*
1730829 AGGAGAAATAGGAGAGATAAT
1 A-GAG--ATAGGAGAGATAGT
*
1730850 AGAGAGAGGAG
1 AGAGATAGGAG
1730861 GGATGATAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
18 16 0.37
20 5 0.12
21 11 0.26
22 5 0.12
24 6 0.14
ACGTcount: A:0.45, C:0.00, G:0.42, T:0.13
Consensus pattern (18 bp):
AGAGATAGGAGAGATAGT
Found at i:1730827 original size:42 final size:42
Alignment explanation
Indices: 1730781--1730875 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 42
1730771 AGAAAGAAGA
* * * *
1730781 GATAGAAGGAGAGATAGGAGAGATAGTAGAGATAGGAGGGAT
1 GATAGGAGGAGAAATAGGAGAGATAATAGAGAGAGGAGGGAT
1730823 GATAGGAGGAGAAATAGGAGAGATAATAGAGAGAGGAGGGAT
1 GATAGGAGGAGAAATAGGAGAGATAATAGAGAGAGGAGGGAT
1730865 GATAGGAGGAG
1 GATAGGAGGAG
1730876 GAGAGAAGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.43, C:0.00, G:0.44, T:0.13
Consensus pattern (42 bp):
GATAGGAGGAGAAATAGGAGAGATAATAGAGAGAGGAGGGAT
Found at i:1730869 original size:18 final size:18
Alignment explanation
Indices: 1730838--1730881 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1730828 GAGGAGAAAT
1730838 AGGAGAGATAATA-GAGAG
1 AGGAGAGATAATAGGAG-G
* *
1730856 AGGAGGGATGATAGGAGG
1 AGGAGAGATAATAGGAGG
1730874 AGGAGAGA
1 AGGAGAGA
1730882 AGAAGATGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.48, T:0.09
Consensus pattern (18 bp):
AGGAGAGATAATAGGAGG
Found at i:1737662 original size:198 final size:199
Alignment explanation
Indices: 1737287--1737691 Score: 713
Period size: 198 Copynumber: 2.0 Consensus size: 199
1737277 CCTTTGCCTT
* *
1737287 TGCATCTTTTTTAGGTTTTGAGGCAGTTTTGTTATTCTTCCAATTTGACTTCCATGAAAAGCTAG
1 TGCATCTTCTTTAGGTTTTGAGGCAGCTTTGTTATTCTTCCAATTTGACTTCCATGAAAAGCTAG
*
1737352 AAGTTGAACCATATTTGGAAGTGCCTTTAGACTTCAATTGCCTTTCCACCTTGATAGCTTTATAC
66 AAGTTGAACCATATTTGGAAGCGCC-TTAGACTTCAATTGCCTTTCCACCTTGATAGCTTTATAC
1737417 AACAATTCCTCCATCTCCACATAATGATGCAATTCCACCACATCAGCTATCTCTTTATTCAAACC
130 AACAATTCCTCCATCTCCACATAATGATGCAATTCCACCACATCAGCTATCTCTTTATTCAAACC
1737482 ACCAA
195 ACCAA
*
1737487 TGCATCTTCTTTAGGTTTTGAGGCAGCTTTGTTATTCTTCCAATTTGACTTCCATGAAGAGCTAG
1 TGCATCTTCTTTAGGTTTTGAGGCAGCTTTGTTATTCTTCCAATTTGACTTCCATGAAAAGCTAG
1737552 AAGTTGAACCATATTTGGAAGCGCC-TAGACTTCAATTGCCTTTCCACCTTGATAGCTTTATACA
66 AAGTTGAACCATATTTGGAAGCGCCTTAGACTTCAATTGCCTTTCCACCTTGATAGCTTTATACA
** *
1737616 ACAATTCCTCCATCTTTACATAATGATGTAATTCCACCACATCAGCTATCTCTTTATTCAAACCA
131 ACAATTCCTCCATCTCCACATAATGATGCAATTCCACCACATCAGCTATCTCTTTATTCAAACCA
*
1737681 CTAA
196 CCAA
*
1737685 TGAATCT
1 TGCATCT
1737692 AGCCATAGTT
Statistics
Matches: 196, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
198 110 0.56
200 86 0.44
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (199 bp):
TGCATCTTCTTTAGGTTTTGAGGCAGCTTTGTTATTCTTCCAATTTGACTTCCATGAAAAGCTAG
AAGTTGAACCATATTTGGAAGCGCCTTAGACTTCAATTGCCTTTCCACCTTGATAGCTTTATACA
ACAATTCCTCCATCTCCACATAATGATGCAATTCCACCACATCAGCTATCTCTTTATTCAAACCA
CCAA
Found at i:1739524 original size:58 final size:58
Alignment explanation
Indices: 1739419--1739535 Score: 153
Period size: 58 Copynumber: 2.0 Consensus size: 58
1739409 AACAATAGGC
* * ** *
1739419 CCATAAATATATGTAAATTAGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
1 CCATAAATACATGCAAATTAGGCTCCACTCTTCTTGGACATACGAATTGCGCTCCAAG
* * * *
1739477 CCATGAATACATGCAAATTGGGCTTCACTCTTCTTGGACATACGAATTGCGCTCTAAG
1 CCATAAATACATGCAAATTAGGCTCCACTCTTCTTGGACATACGAATTGCGCTCCAAG
1739535 C
1 C
1739536 TTTATGCTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (58 bp):
CCATAAATACATGCAAATTAGGCTCCACTCTTCTTGGACATACGAATTGCGCTCCAAG
Found at i:1756936 original size:409 final size:408
Alignment explanation
Indices: 1756156--1756938 Score: 1162
Period size: 409 Copynumber: 1.9 Consensus size: 408
1756146 TAAATACAAT
* * ** *
1756156 CTAATGTGAACCTTTGGCTGAAATCACAACCTAAAACCTGATTGGATGGAATTTGACCCTTAGGA
1 CTAATGCGAACCTTAGGCTGAAATCACAACCTAAAACCCAATTGGATGGAATTAGACCCTTAGGA
* * * *
1756221 TCATCTTCAAGGTCAAGCAAAGAGAACTTGACCCCAATCAAACCTGCTGATTAGAACCAAAGTTA
66 CCATCTTCAAAGTCAAGCAAAGAAAACTTGACCCCAACCAAACCTGCTGATTAGAACCAAAGTTA
* *
1756286 TAACAATCTTGATCGCCACAAGTTACCTTGACAAGATCAATTTGAGTTCTTGTTTAAAGAACAAA
131 TAACAATCTTGATCACCACAACTTACCTTGACAAGATCAATTTGAGTTCTTGTTTAAAG---AAA
* * * * *
1756351 GAAGAAGTTCTCAAAAGTGAAGAAACTCTTAAGATATTTTTTTCTATTCAAATTTGTTGAATTAC
193 GAAGAAGTTCTCAAAAGTGAAGAAACTCTAAAAATATTTTTTTCTATTCAAATCTGCTAAATTAC
*
1756416 ATGAATGAGACAGCCTTTTATAGGCCTAAAATCTGTAGAGTCCTAACTAAACAAAGACTCTCCTA
258 ATGAATGAGACAGCCTTTTATAGGCCTAAAATCTGTAAAGTCCTAACTAAACAAAGACTCTCCTA
* * * * *
1756481 TCCCATAAGGAAAAGTTTATCCTAAACAGAATAACCTGAAGAGTCCTAATTAAGTAAGGACACTC
323 TCCAATAACGAAAAGTCTATCCCAAACACAATAACCTGAAGAGTCCTAATTAAGTAAGGACACTC
1756546 AATCTAATAATCTGATTAGGA
388 AATCTAATAATCTGATTAGGA
*
1756567 CTAATGCGAACCTTAGGCTGAAATCACAACCTAAAACCCAATTGGGTGGAATTAGA-CCTCTAGG
1 CTAATGCGAACCTTAGGCTGAAATCACAACCTAAAACCCAATTGGATGGAATTAGACCCT-TAGG
1756631 ACCATCTTCAAAGTCAAGCAAAGAAAACTTGACCCCAACCAAACCTGCTGCTGATTAGAACCAAA
65 ACCATCTTCAAAGTCAAGCAAAGAAAACTTGACCCCAACCAAA-C--CTGCTGATTAGAACCAAA
* *
1756696 GTTATAACAATCTTGATCACCACAACTTACCTTGATAAGATCAATTTGAGTTTTTGTTTAAAG-A
127 GTTATAACAATCTTGATCACCACAACTTACCTTGACAAGATCAATTTGAGTTCTTGTTTAAAGAA
*
1756760 A-TA-AAGTTCTTGC-AAAGTGAAGAAACTCTAAAAATATTTTTTTCTATTCAAATCTGCTAAAT
192 AGAAGAAGTTC-T-CAAAAGTGAAGAAACTCTAAAAATATTTTTTTCTATTCAAATCTGCTAAAT
* * *
1756822 TACATGAATGAGATAGCCTTTTATAGGCCTAATATCTGTAAAGTCCTAACTAAACAAGGACTCTC
255 TACATGAATGAGACAGCCTTTTATAGGCCTAAAATCTGTAAAGTCCTAACTAAACAAAGACTCTC
* **
1756887 CTATCCAATAACGAAAAGTCTATCCCAAACACAATAACTTGTGGAGTCCTAA
320 CTATCCAATAACGAAAAGTCTATCCCAAACACAATAACCTGAAGAGTCCTAA
1756939 CTAAACAGGG
Statistics
Matches: 334, Mismatches: 32, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
408 6 0.02
409 151 0.45
410 6 0.02
411 93 0.28
412 1 0.00
414 77 0.23
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (408 bp):
CTAATGCGAACCTTAGGCTGAAATCACAACCTAAAACCCAATTGGATGGAATTAGACCCTTAGGA
CCATCTTCAAAGTCAAGCAAAGAAAACTTGACCCCAACCAAACCTGCTGATTAGAACCAAAGTTA
TAACAATCTTGATCACCACAACTTACCTTGACAAGATCAATTTGAGTTCTTGTTTAAAGAAAGAA
GAAGTTCTCAAAAGTGAAGAAACTCTAAAAATATTTTTTTCTATTCAAATCTGCTAAATTACATG
AATGAGACAGCCTTTTATAGGCCTAAAATCTGTAAAGTCCTAACTAAACAAAGACTCTCCTATCC
AATAACGAAAAGTCTATCCCAAACACAATAACCTGAAGAGTCCTAATTAAGTAAGGACACTCAAT
CTAATAATCTGATTAGGA
Found at i:1757642 original size:11 final size:11
Alignment explanation
Indices: 1757626--1757650 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1757616 TCTTTATTGG
1757626 CTTAATATGCC
1 CTTAATATGCC
1757637 CTTAATATGCC
1 CTTAATATGCC
1757648 CTT
1 CTT
1757651 TATTGGCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.28, G:0.08, T:0.40
Consensus pattern (11 bp):
CTTAATATGCC
Found at i:1761414 original size:20 final size:19
Alignment explanation
Indices: 1761389--1761454 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
1761379 CATTTCTATT
*
1761389 GATACACATGAAAATGTATC
1 GATACACAT-ACAATGTATC
* *
1761409 GATACATATTACAATGTATT
1 GATACACA-TACAATGTATC
*
1761429 GATACACCCTACAATGTATC
1 GATACA-CATACAATGTATC
1761449 GATACA
1 GATACA
1761455 TTATATGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
20 37 0.97
21 1 0.03
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (19 bp):
GATACACATACAATGTATC
Found at i:1763948 original size:42 final size:42
Alignment explanation
Indices: 1763888--1764027 Score: 158
Period size: 42 Copynumber: 3.3 Consensus size: 42
1763878 GTAGCCCTCA
* * *
1763888 AAGAGAAAGAAGAGATAGGAGGGACGATAGGAGGAGAGATGG
1 AAGAGATAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAG
* *
1763930 CAGAGATAGCAGAGATAGGAGGGATGATAGGAGGAGAGATAG
1 AAGAGATAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAG
* * * *
1763972 AAGAGATA-ATAGAGAGAGAAGGGATGACAGGAGGAG-GAGAG
1 AAGAGATAGA-AGAGATAGGAGGGATGATAGGAGGAGAGATAG
*
1764013 AAGAAGATGGAAGAG
1 AAG-AGATAGAAGAG
1764028 TGAGAGAAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
41 7 0.08
42 75 0.90
43 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.44, T:0.09
Consensus pattern (42 bp):
AAGAGATAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAG
Found at i:1763970 original size:12 final size:12
Alignment explanation
Indices: 1763898--1763971 Score: 56
Period size: 12 Copynumber: 6.7 Consensus size: 12
1763888 AAGAGAAAGA
1763898 AGAGATAGGAGG
1 AGAGATAGGAGG
1763910 -GACGATAGGAGG
1 AGA-GATAGGAGG
*
1763922 AGAGAT--G-GC
1 AGAGATAGGAGG
*
1763931 AGAGAT---AGC
1 AGAGATAGGAGG
1763940 AGAGATAGGAGG
1 AGAGATAGGAGG
1763952 -GATGATAGGAGG
1 AGA-GATAGGAGG
1763964 AGAGATAG
1 AGAGATAG
1763972 AAGAGATAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
9 15 0.29
10 1 0.02
11 4 0.08
12 28 0.54
13 4 0.08
ACGTcount: A:0.39, C:0.04, G:0.46, T:0.11
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:1763983 original size:24 final size:22
Alignment explanation
Indices: 1763940--1763990 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
1763930 CAGAGATAGC
* * *
1763940 AGAGATAGGAGGGATGATAGGAGG
1 AGAGATAGAAGAGATAATA-GA-G
1763964 AGAGATAGAAGAGATAATAGAG
1 AGAGATAGAAGAGATAATAGAG
1763986 AGAGA
1 AGAGA
1763991 AGGGATGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 2 0.08
24 16 0.67
ACGTcount: A:0.47, C:0.00, G:0.41, T:0.12
Consensus pattern (22 bp):
AGAGATAGAAGAGATAATAGAG
Found at i:1769299 original size:3 final size:3
Alignment explanation
Indices: 1769291--1769323 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1769281 TCCACTTAAG
*
1769291 TGA TGA TGA TGA TGA TGA TGA TGA TGA TCA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1769324 GGTTAAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:1770177 original size:45 final size:45
Alignment explanation
Indices: 1770113--1770217 Score: 201
Period size: 45 Copynumber: 2.3 Consensus size: 45
1770103 TAAGGAGAAT
*
1770113 ATGGATCCCTAAAGGAATTAGCACAACTCAAGATGAGATTATTAA
1 ATGGATCCCTAAAGGAATTAGCACAACTCAAGATCAGATTATTAA
1770158 ATGGATCCCTAAAGGAATTAGCACAACTCAAGATCAGATTATTAA
1 ATGGATCCCTAAAGGAATTAGCACAACTCAAGATCAGATTATTAA
1770203 ATGGATCCCTAAAGG
1 ATGGATCCCTAAAGG
1770218 CACAAAAATT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (45 bp):
ATGGATCCCTAAAGGAATTAGCACAACTCAAGATCAGATTATTAA
Found at i:1774539 original size:20 final size:19
Alignment explanation
Indices: 1774494--1774566 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
1774484 TTTTTCCCAG
*
1774494 AATGTATCGATATAGTATA-T
1 AATGTATCGATACA--ATACT
*
1774514 AATGTATCGATACAAT-GT
1 AATGTATCGATACAATACT
*
1774532 AATTTGTATCAATACAATACT
1 AA--TGTATCGATACAATACT
1774553 AATGTATCGATACA
1 AATGTATCGATACA
1774567 TTCATCCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
18 5 0.11
19 11 0.24
20 26 0.58
21 3 0.07
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (19 bp):
AATGTATCGATACAATACT
Found at i:1777128 original size:21 final size:21
Alignment explanation
Indices: 1777104--1777161 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
1777094 ACATAATAGG
*
1777104 AATGTATCAATACAATTCCAA
1 AATGTATCGATACAATTCCAA
1777125 AATGTATCGATAC-A-TCCAA
1 AATGTATCGATACAATTCCAA
1777144 AATTGTATCGATACAATT
1 AA-TGTATCGATACAATT
1777162 AGCCCAACGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 7 0.21
20 12 0.36
21 13 0.39
22 1 0.03
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (21 bp):
AATGTATCGATACAATTCCAA
Found at i:1777152 original size:20 final size:20
Alignment explanation
Indices: 1777104--1777158 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
1777094 ACATAATAGG
*
1777104 AATGTATCAATACAATTCCAA
1 AATGTATCGATAC-ATTCCAA
1777125 AATGTATCGATACA-TCCAA
1 AATGTATCGATACATTCCAA
1777144 AATTGTATCGATACA
1 AA-TGTATCGATACA
1777159 ATTAGCCCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 7 0.22
20 13 0.41
21 12 0.38
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATTCCAA
Found at i:1778222 original size:20 final size:20
Alignment explanation
Indices: 1778199--1778239 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1778189 ACAATGTAGT
1778199 GGTATAATTCGTCATGTATC
1 GGTATAATTCGTCATGTATC
1778219 GGTATAATTCGTCATGTATC
1 GGTATAATTCGTCATGTATC
1778239 G
1 G
1778240 ATACAATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (20 bp):
GGTATAATTCGTCATGTATC
Found at i:1778338 original size:19 final size:20
Alignment explanation
Indices: 1778294--1778345 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1778284 CTGCCAGTTT
**
1778294 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
1778314 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
*
1778333 CATGTATAGATAC
1 CATGTATCGATAC
1778346 CATGTATTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1783705 original size:43 final size:43
Alignment explanation
Indices: 1783657--1783742 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
1783647 CAATAAGAGA
*
1783657 TACCTTCCTGATTGAAGACTTAGATTCATCAAAAACAACGTGG
1 TACCTTCCTGATTGAAGACTTAAATTCATCAAAAACAACGTGG
*
1783700 TACCTTCCTGATTGAAGAGTTAAATTCATCAAAAACAACGTGG
1 TACCTTCCTGATTGAAGACTTAAATTCATCAAAAACAACGTGG
1783743 ATTGATTCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (43 bp):
TACCTTCCTGATTGAAGACTTAAATTCATCAAAAACAACGTGG
Found at i:1786072 original size:15 final size:15
Alignment explanation
Indices: 1786054--1786088 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1786044 CGAGTCAACT
1786054 TCATCATTATCATCA
1 TCATCATTATCATCA
*
1786069 TCATCATTATCTTCA
1 TCATCATTATCATCA
1786084 TCATC
1 TCATC
1786089 TTTGATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:1787700 original size:52 final size:52
Alignment explanation
Indices: 1787622--1787739 Score: 209
Period size: 52 Copynumber: 2.3 Consensus size: 52
1787612 TACAATTCAT
* *
1787622 AATGTATCGATACATGGATTTGAAATTATAGTCGTTTATAGCCGTTTGGGAC
1 AATGTATCGATACATGGATTTGAAATTATAGTCATTTATAGCCATTTGGGAC
*
1787674 AATGTATCGATACATGGATTTGAAATTATAGTTATTTATAGCCATTTGGGAC
1 AATGTATCGATACATGGATTTGAAATTATAGTCATTTATAGCCATTTGGGAC
1787726 AATGTATCGATACA
1 AATGTATCGATACA
1787740 ATTTGTGATG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.36
Consensus pattern (52 bp):
AATGTATCGATACATGGATTTGAAATTATAGTCATTTATAGCCATTTGGGAC
Found at i:1787765 original size:13 final size:13
Alignment explanation
Indices: 1787747--1787776 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1787737 ACAATTTGTG
1787747 ATGTATCAATACA
1 ATGTATCAATACA
*
1787760 ATGTATCGATACA
1 ATGTATCAATACA
1787773 ATGT
1 ATGT
1787777 GCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:1787766 original size:33 final size:33
Alignment explanation
Indices: 1787724--1787793 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1787714 GCCATTTGGG
* **
1787724 ACAATGTATCGATACAATTTGTGATGTATCAAT
1 ACAATGTATCGATACAATGTGCCATGTATCAAT
*
1787757 ACAATGTATCGATACAATGTGCCATGTATCGAT
1 ACAATGTATCGATACAATGTGCCATGTATCAAT
1787790 ACAA
1 ACAA
1787794 ACAGTGATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (33 bp):
ACAATGTATCGATACAATGTGCCATGTATCAAT
Found at i:1787899 original size:20 final size:20
Alignment explanation
Indices: 1787874--1787937 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
1787864 GCATCGATAC
1787874 AATGTATCGATGCAAAGCAT
1 AATGTATCGATGCAAAGCAT
1787894 AATGTATCGAT----A-C--
1 AATGTATCGATGCAAAGCAT
1787907 AATGTATCGATGCAAAGCAT
1 AATGTATCGATGCAAAGCAT
1787927 AATGTATCGAT
1 AATGTATCGAT
1787938 ACATCTAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.30
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
20 22 0.59
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (20 bp):
AATGTATCGATGCAAAGCAT
Found at i:1787908 original size:33 final size:33
Alignment explanation
Indices: 1787866--1787940 Score: 150
Period size: 33 Copynumber: 2.3 Consensus size: 33
1787856 TTGAACATGC
1787866 ATCGATACAATGTATCGATGCAAAGCATAATGT
1 ATCGATACAATGTATCGATGCAAAGCATAATGT
1787899 ATCGATACAATGTATCGATGCAAAGCATAATGT
1 ATCGATACAATGTATCGATGCAAAGCATAATGT
1787932 ATCGATACA
1 ATCGATACA
1787941 TCTAGATATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (33 bp):
ATCGATACAATGTATCGATGCAAAGCATAATGT
Found at i:1789240 original size:13 final size:13
Alignment explanation
Indices: 1789222--1789249 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1789212 ACTTGGAAAG
1789222 ATAAAGTTGGAGT
1 ATAAAGTTGGAGT
1789235 ATAAAGTTGGAGT
1 ATAAAGTTGGAGT
1789248 AT
1 AT
1789250 CCCTATGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (13 bp):
ATAAAGTTGGAGT
Found at i:1793720 original size:21 final size:22
Alignment explanation
Indices: 1793695--1793738 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
1793685 CACTTTATTT
1793695 TTTTG-CTTTTTTTATGGATGA
1 TTTTGCCTTTTTTTATGGATGA
1793716 TTTTGCCTTTTTTTATGGATGA
1 TTTTGCCTTTTTTTATGGATGA
1793738 T
1 T
1793739 AAACAGCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.14, C:0.07, G:0.18, T:0.61
Consensus pattern (22 bp):
TTTTGCCTTTTTTTATGGATGA
Found at i:1795001 original size:21 final size:21
Alignment explanation
Indices: 1794968--1795008 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1794958 CTAAGTAAAA
1794968 ATACATATTGTATCAATACAT
1 ATACATATTGTATCAATACAT
*
1794989 ATAC-TATTGGTATTAATACA
1 ATACATATT-GTATCAATACA
1795009 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (21 bp):
ATACATATTGTATCAATACAT
Found at i:1795073 original size:20 final size:19
Alignment explanation
Indices: 1795048--1795118 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
1795038 ACCCTGAAAA
1795048 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
1795068 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
1795087 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
1795108 GTATCGATACA
1 GTATCGATACA
1795119 GGATATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:1795171 original size:53 final size:53
Alignment explanation
Indices: 1795088--1795224 Score: 240
Period size: 53 Copynumber: 2.6 Consensus size: 53
1795078 AAATTGCATA
1795088 GTATCGATACACACAAATATGTATCGATACAGGAT-ATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGG-TCATTGGCAGTAGCCAAATTT
1795142 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
*
1795195 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
1795225 TTGGTAGTGG
Statistics
Matches: 81, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
52 1 0.01
53 66 0.81
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
Found at i:1795268 original size:10 final size:10
Alignment explanation
Indices: 1795249--1795279 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1795239 ATCTAATTTT
1795249 TCACTGTTCA
1 TCACTGTTCA
*
1795259 TCACTATTCA
1 TCACTGTTCA
1795269 TCACTGTTCA
1 TCACTGTTCA
1795279 T
1 T
1795280 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:1795367 original size:34 final size:34
Alignment explanation
Indices: 1795289--1795373 Score: 156
Period size: 33 Copynumber: 2.6 Consensus size: 34
1795279 TGTATCGATA
1795289 CATCACT-TTCATGTATCGTTAAAAATCACTGTT
1 CATCACTATTCATGTATCGTTAAAAATCACTGTT
1795322 CA-CACTATTCATGTATCGTTAAAAATCACTGTT
1 CATCACTATTCATGTATCGTTAAAAATCACTGTT
1795355 CATCACTATTCATGTATCG
1 CATCACTATTCATGTATCG
1795374 ATACATTGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
32 4 0.08
33 30 0.60
34 16 0.32
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (34 bp):
CATCACTATTCATGTATCGTTAAAAATCACTGTT
Found at i:1795385 original size:13 final size:13
Alignment explanation
Indices: 1795367--1795405 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1795357 TCACTATTCA
1795367 TGTATCGATACAT
1 TGTATCGATACAT
*
1795380 TGTATCGATACAG
1 TGTATCGATACAT
1795393 TGTATCGATACAT
1 TGTATCGATACAT
1795406 CATAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1803133 original size:28 final size:28
Alignment explanation
Indices: 1803079--1803139 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
1803069 ATCAAGAAGT
* *
1803079 GAAATCAACAAGAAATATGAAAAGAAAC
1 GAAATCAACAAGAAATATCAAAAGAAAA
* *
1803107 GAAAT-AAGCAAGAAATTTCAAAGGAAAA
1 GAAATCAA-CAAGAAATATCAAAAGAAAA
1803135 GAAAT
1 GAAAT
1803140 TAATAAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.62, C:0.08, G:0.16, T:0.13
Consensus pattern (28 bp):
GAAATCAACAAGAAATATCAAAAGAAAA
Found at i:1803212 original size:10 final size:10
Alignment explanation
Indices: 1803197--1803228 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
1803187 CTAATAACTA
1803197 TCTTTTTTTT
1 TCTTTTTTTT
1803207 TCTTTTTTTT
1 TCTTTTTTTT
1803217 TCTCTTTTTTT
1 TCT-TTTTTTT
1803228 T
1 T
1803229 TGAAGATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.62
11 8 0.38
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:1803216 original size:12 final size:12
Alignment explanation
Indices: 1803199--1803229 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1803189 AATAACTATC
1803199 TTTTTTTT-TCT
1 TTTTTTTTCTCT
1803210 TTTTTTTTCTCT
1 TTTTTTTTCTCT
1803222 TTTTTTTT
1 TTTTTTTT
1803230 GAAGATGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTCTCT
Found at i:1803516 original size:38 final size:38
Alignment explanation
Indices: 1803474--1805705 Score: 353
Period size: 38 Copynumber: 56.9 Consensus size: 38
1803464 AGGTGTTGGT
* *
1803474 CGGGATGAAACCATACGAACCAACAAAAGAAAGTTAAC
1 CGGGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
*
1803512 CGGGATGAAACCATAC-AAGTCAACAAAGGAAAGGTGTTGAC
1 CGGGATGAAACCATACGAA-TCAACAAAAGAAA---GTTGAC
** * * *
1803553 CAAGACGAAACCATATGAACCAACAAAAGAAAGTTGAC
1 CGGGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
* * * *
1803591 GGGGATGAAACCATACGAGTTAACAAAAGAAAGGTATTTG-T
1 CGGGATGAAACCATACGAATCAACAAAAGAAA-G---TTGAC
** * * *
1803632 CAAGATGAAACCATATGAACCAACGAAAGAAAGTTGAC
1 CGGGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
* * * *
1803670 CGGGATGAAACCATAC-AAGTTAACAAAGGAAAGGTGTTAGT
1 CGGGATGAAACCATACGAA-TCAACAAAAGAAA-GT-TGA-C
** * * *
1803711 TAGGATGAAACCATACGAACCAACGAAAGAAAGTTGAG
1 CGGGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
* * * * *
1803749 CAGGATGAAACCATATGAGTTAACAAAGGAAAGGTGTTAGA-
1 CGGGATGAAACCATACGAATCAACAAAAGAAA---GTT-GAC
* * ** * *
1803790 CGAGGCA--AAACCATATGAACCAATGAAAGAAAGTTAAT
1 CG-GG-ATGAAACCATACGAATCAACAAAAGAAAGTTGAC
* * * *
1803828 CAGGATGAAACTATACGAGTCAACAAAAGGAAAGGTATTGGC
1 CGGGATGAAACCATACGAATCAACAAAA-GAAA-G--TTGAC
*** * * * *
1803870 AAAGATGAAACCATATGAACCAATAAAAGAAAGTTGAT
1 CGGGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
* *
1803908 TGGGATGAAACCATAC-AAGTCAACAAAAAGAAAGGTGTTGGC
1 CGGGATGAAACCATACGAA-TCAAC-AAAAGAAA---GTTGAC
* * * *
1803950 TGGAATGAAACCATACGAAGCAACGAAAGAAAGTTGAC
1 CGGGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
* * * ** *
1803988 CAGGATGAAACCATAAGAGTCAACAAGGGAAAGGTGTTGGC
1 CGGGATGAAACCATACGAATCAACAAAAGAAA---GTTGAC
* * * *
1804029 TGGGATGAAACCATACGAACCAATAAAA-AGAAGTTAAC
1 CGGGATGAAACCATACGAATCAACAAAAGA-AAGTTGAC
** *
1804067 TAGGATGAAACCATAC-AAGTCAAC-AAAGAAAAGGTGTTGGC
1 CGGGATGAAACCATACGAA-TCAACAAAAG-AAA---GTTGAC
* * * *
1804108 CGAGATGAAACCCTACGAACCAACAAAA-AGAAGTTGAT
1 CGGGATGAAACCATACGAATCAACAAAAGA-AAGTTGAC
* * **
1804146 TGGGATGAAACCATACCAATCAACAACGGAAAGGTGTTGGA-
1 CGGGATGAAACCATACGAATCAACAAAAGAAA---GTT-GAC
* * * ** ** * **
1804187 TGGGACGAATCCATA--AAGTTGACTGGATGAAACCAT-A-
1 CGGGATGAAACCATACGAA-TCAAC-AAAAGAAA-GTTGAC
* ** ** * * ** **
1804224 CGAGTCAACAAAGGAAAGGTGTTGGTCGAGACAAAA-CCA-TATGAAC
1 CG-G-GATGAAACCATA--CG--AATC-A-ACAAAAGAAAGT-TG-AC
*** ** * *
1804270 CAATAAAAAAAACTTGACCATACGAACCAACAAAAAAAAGTTGAC
1 C---GGGATGAA----ACCATACGAATCAACAAAAGAAAGTTGAC
* * * * * * *
1804315 CAGGATTAAAACATAGGAGTCAACAAAGGAAAGGTATTGGC
1 CGGGATGAAACCATACGAATCAACAAAAGAAA-G--TTGAC
** **
1804356 CAAGATGAAACCATACGAA-CTAATGAAAGAAAGTTGAC
1 CGGGATGAAACCATACGAATC-AACAAAAGAAAGTTGAC
*
1804394 CGGGATGAAACCATACGAGTCAAC-AAAGAAAAGGTGTTGATC
1 CGGGATGAAACCATACGAATCAACAAAAG-AAA---GTTGA-C
* *
1804436 C-GGATGAAATCATA-GAACCAACAAAAGAAAGTTGAC
1 CGGGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
** * **
1804472 TAGGATGAAACCATA-AAAGTCAACAAAAGAAAGGTGTTGGG
1 CGGGATGAAACCATACGAA-TCAACAAAAGAAA---GTTGAC
* * * ** *
1804513 CGAGACGAAACCATACGAACCAACGTAAGAAAGTTAAC
1 CGGGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
* * **
1804551 CAGGATGAAACCATACGAGTCAAC-AAAGTAAAGTTGTTGGT
1 CGGGATGAAACCATACGAATCAACAAAAG-AAA---GTTGAC
* * * * ** * *
1804592 CAGGACGAAACCATATGAACCAATGAAA-AAAGCTGAT
1 CGGGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
* * * *
1804629 TGGGATGAAACCATA-TAAGTCAACAAAGGAAAGGTGTTGGC
1 CGGGATGAAACCATACGAA-TCAACAAAAGAAA---GTTGAC
** * *
1804670 CGGGACAAAACCATATGAA-CTAACGAAAGAAAGTTGAC
1 CGGGATGAAACCATACGAATC-AACAAAAGAAAGTTGAC
** * * * ** **
1804708 TAGGATAAAACCATAGGAGTCAACAAAGGAGAGGTGTTGGT
1 CGGGATGAAACCATACGAATCAACAAA--AGA-AAGTTGAC
* * * *
1804749 CGGGATAAAACCATACAAACCAACAAAAAAAAGTTGAC
1 CGGGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
* * **
1804787 CGAGATGAAACCATACGAGTCAACAAAAGAAAGGTGTTGGT
1 CGGGATGAAACCATACGAATCAACAAAAGAAA---GTTGAC
* * * *
1804828 CAGGACGAAACCATATGAACCAACGAAAA-AAAGTTGAC
1 CGGGATGAAACCATACGAATCAAC-AAAAGAAAGTTGAC
* * * *
1804866 C-AGATGAAACCATACGAGTCAACAAAGGAAAGGTGTTGGC
1 CGGGATGAAACCATACGAATCAACAAAAGAAA---GTTGAC
* * * * **
1804906 CAGGACGAAACCATATGAACCAATGAAAGAAAGTTGAC
1 CGGGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
* * * * * **
1804944 TGGGGTGAAACCATATGAGTCAACAAAGGAAAGGTGTTGGT
1 CGGGATGAAACCATACGAATCAACAAAAGAAA---GTTGAC
** * * *
1804985 TAGGATAAAACCATACGAACCAATGAAAA-AAAGTTGAC
1 CGGGATGAAACCATACGAATCAA-CAAAAGAAAGTTGAC
**** * ** * *
1805023 TACAATGAAACCATATGTGTCAACAAAGGAAAGGTGTTGGC
1 CGGGATGAAACCATACGAATCAACAAAAGAAA---GTTGAC
* ** * * * *
1805064 TGGGACAAAACCATATGAACCAAC-GAAGAAAAGTTGAT
1 CGGGATGAAACCATACGAATCAACAAAAG-AAAGTTGAC
* * * * * * **
1805102 CAGG-TAAAACTATATGAGTCAACAAAGGAAATGTGTTGGT
1 CGGGATGAAACCATACGAATCAACAAAAGAAA---GTTGAC
* * *
1805142 CAGGATG-AACCTATACAAACCAACAAAAGAAAGTTGAC
1 CGGGATGAAACC-ATACGAATCAACAAAAGAAAGTTGAC
* * * * * * *
1805180 TGAGATGAAACCATACGAGTTAGCAAAGGAAATGTGTTGGC
1 CGGGATGAAACCATACGAATCAACAAAAGAAA---GTTGAC
* * * * * * *
1805221 CAGGA-GAAAACTATTCAAACCAATAAAAGAAAGTTAAC
1 CGGGATG-AAACCATACGAATCAACAAAAGAAAGTTGAC
** * * *
1805259 CAAGATGAAACCATACGAGTCAACAAAGGAAATGTGTTGGC
1 CGGGATGAAACCATACGAATCAACAAAAGAAA---GTTGAC
* * *
1805300 CGGGATGAAAGCATATGAA-CAAATAAAAGAAAGTTGAC
1 CGGGATGAAACCATACGAATC-AACAAAAGAAAGTTGAC
*
1805338 C---AT---A-CA-A--ACT-AACAAAAGAAAGTTGAC
1 CGGGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
* * ** ** **
1805365 CAGGATGAAACCATAGGTGTCAAC-AAAG-GTGTTGGT
1 CGGGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
* *
1805401 CGAGACGAAACCATAC-AATCCAACAAAAGAAAGTTGAC
1 CGGGATGAAACCATACGAAT-CAACAAAAGAAAGTTGAC
* * * * *
1805439 CAGGATGAAACCATACGAGTTAACAAAA-AAAGGTGTTAGT
1 CGGGATGAAACCATACGAATCAACAAAAGAAA-GT-TGA-C
* * * * *
1805479 CGGCATAAAACCATACAAACCAATAAAA-AAA-TTGAC
1 CGGGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
* * * * *
1805515 GGGGATGAAACCATATGAGTCAACAAAGAAAAAGTGTTG-G
1 CGGGATGAAACCATACGAATCAACAAA-AGAAA--GTTGAC
* * * * * *
1805555 CGAGGACGAAACCATATGGACCAATAAAAGAAAGTTGAA
1 CG-GGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
* * ** * * * *
1805594 TGGAATGAAACCATTTGAGTTAACAAAAAAAAAGGTGTTGGC
1 CGGGATGAAACCATACGAATCAAC-AAAAGAAA---GTTGAC
** * * * *
1805636 CGGG-CCAAACTATATGAACCAATGAAAA-AAAGTTGAC
1 CGGGATGAAACCATACGAATCAA-CAAAAGAAAGTTGAC
* *
1805673 CGGGATGAAACCATACTAGTCAACAAAAGAAAG
1 CGGGATGAAACCATACGAATCAACAAAAGAAAG
1805706 GAGTTTGATT
Statistics
Matches: 1529, Mismatches: 488, Indels: 354
0.64 0.21 0.15
Matches are distributed among these distances:
27 17 0.01
28 1 0.00
30 3 0.00
31 2 0.00
32 1 0.00
33 1 0.00
34 2 0.00
35 4 0.00
36 46 0.03
37 135 0.09
38 541 0.35
39 49 0.03
40 83 0.05
41 520 0.34
42 90 0.06
43 4 0.00
44 2 0.00
45 11 0.01
46 7 0.00
47 6 0.00
49 1 0.00
51 3 0.00
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.16
Consensus pattern (38 bp):
CGGGATGAAACCATACGAATCAACAAAAGAAAGTTGAC
Found at i:1803596 original size:79 final size:79
Alignment explanation
Indices: 1803460--1805339 Score: 1480
Period size: 79 Copynumber: 23.7 Consensus size: 79
1803450 AAGGAAAAGT
* * * * *
1803460 GGAAAGGTGTTGGTCGGGATGAAACCATACGAACCAACAAAAGAAAGTTAACCGGGATGAAACCA
1 GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAACAAAAGAAAGTTGACCAGGATGAAACCA
*
1803525 TACAAGTCAACAAA
66 TACGAGTCAACAAA
* * * **
1803539 GGAAAGGTGTTGACCAAGACGAAACCATATGAACCAACAAAAGAAAGTTGACGGGGATGAAACCA
1 GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAACAAAAGAAAGTTGACCAGGATGAAACCA
*
1803604 TACGAGTTAACAAA
66 TACGAGTCAACAAA
* * * * * * *
1803618 AGAAAGGTATTTGTCAAGATGAAACCATATGAACCAACGAAAGAAAGTTGACCGGGATGAAACCA
1 GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAACAAAAGAAAGTTGACCAGGATGAAACCA
* *
1803683 TACAAGTTAACAAA
66 TACGAGTCAACAAA
* ** * * *
1803697 GGAAAGGTGTTAGTTAGGATGAAACCATACGAACCAACGAAAGAAAGTTGAGCAGGATGAAACCA
1 GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAACAAAAGAAAGTTGACCAGGATGAAACCA
* *
1803762 TATGAGTTAACAAA
66 TACGAGTCAACAAA
* * ** * *
1803776 GGAAAGGTGTTAGACGAGGCA--AAACCATATGAACCAATGAAAGAAAGTTAATCAGGATGAAAC
1 GGAAAGGTGTT-GGCCAGG-ATGAAACCATATGAACCAACAAAAGAAAGTTGACCAGGATGAAAC
*
1803839 TATACGAGTCAACAAAA
64 CATACGAGTCAAC-AAA
* * * * ***
1803856 GGAAAGGTATTGGCAAAGATGAAACCATATGAACCAATAAAAGAAAGTTGATTGGGATGAAACCA
1 GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAACAAAAGAAAGTTGACCAGGATGAAACCA
*
1803921 TACAAGTCAACAAAA
66 TACGAGTCAAC-AAA
* * * * *
1803936 AGAAAGGTGTTGG-CTGGAATGAAACCATACGAAGCAACGAAAGAAAGTTGACCAGGATGAAACC
1 GGAAAGGTGTTGGCCAGG-ATGAAACCATATGAACCAACAAAAGAAAGTTGACCAGGATGAAACC
* *
1804000 ATAAGAGTCAACAAG
65 ATACGAGTCAACAAA
** * * * *
1804015 GGAAAGGTGTTGGCTGGGATGAAACCATACGAACCAATAAAA-AGAAGTTAACTAGGATGAAACC
1 GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAACAAAAGA-AAGTTGACCAGGATGAAACC
*
1804079 ATACAAGTCAACAAA
65 ATACGAGTCAACAAA
* * * ***
1804094 GAAAAGGTGTTGGCC-GAGATGAAACCCTACGAACCAACAAAA-AGAAGTTGATTGGGATGAAAC
1 GGAAAGGTGTTGGCCAG-GATGAAACCATATGAACCAACAAAAGA-AAGTTGACCAGGATGAAAC
* * *
1804157 CATACCAATCAACAAC
64 CATACGAGTCAACAAA
*** * * * ** * * * * *
1804173 GGAAAGGTGTTGGATGGGACGAATCCATAAAGTTG-ACTGGATGAAACCATACGAG-TCAACA-A
1 GGAAAGGTGTTGGCCAGGATGAAACCAT--A--TGAAC--CAACAAA--AGA-AAGTTGACCAGG
* ** **
1804235 AGGAAA-GGTGTTG-GTCGAGACAAA
57 ATGAAACCAT-ACGAGTC-A-ACAAA
* * * ** ** * *
1804259 --ACCA--T-ATGAACCAATAAAAAAAACTTGACCATACGAACCAACAAAAAAAAGTTGACCAGG
1 GGA-AAGGTGTTG-GCC---AGGATGAA----ACCATATGAACCAACAAAAGAAAGTTGACCAGG
* * *
1804319 ATTAAAACATAGGAGTCAACAAA
57 ATGAAACCATACGAGTCAACAAA
* * * * ** *
1804342 GGAAAGGTATTGGCCAAGATGAAACCATACGAACTAATGAAAGAAAGTTGACCGGGATGAAACCA
1 GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAACAAAAGAAAGTTGACCAGGATGAAACCA
1804407 TACGAGTCAACAAA
66 TACGAGTCAACAAA
* * * *
1804421 GAAAAGGTGTTGATCC-GGATGAAATCATA-GAACCAACAAAAGAAAGTTGACTAGGATGAAACC
1 GGAAAGGTGTTG-GCCAGGATGAAACCATATGAACCAACAAAAGAAAGTTGACCAGGATGAAACC
**
1804484 ATAAAAGTCAACAAA
65 ATACGAGTCAACAAA
* * * * ** *
1804499 AGAAAGGTGTTGGGC-GAGACGAAACCATACGAACCAACGTAAGAAAGTTAACCAGGATGAAACC
1 GGAAAGGTGTTGGCCAG-GATGAAACCATATGAACCAACAAAAGAAAGTTGACCAGGATGAAACC
1804563 ATACGAGTCAACAAA
65 ATACGAGTCAACAAA
* * * * ** * ***
1804578 GTAAAGTTGTTGGTCAGGACGAAACCATATGAACCAATGAAA-AAAGCTGATTGGGATGAAACCA
1 GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAACAAAAGAAAGTTGACCAGGATGAAACCA
**
1804642 TATAAGTCAACAAA
66 TACGAGTCAACAAA
* ** * * * *
1804656 GGAAAGGTGTTGGCCGGGACAAAACCATATGAACTAACGAAAGAAAGTTGACTAGGATAAAACCA
1 GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAACAAAAGAAAGTTGACCAGGATGAAACCA
*
1804721 TAGGAGTCAACAAA
66 TACGAGTCAACAAA
* * * * ** *
1804735 GGAGAGGTGTTGGTCGGGATAAAACCATACAAACCAACAAAAAAAAGTTGACC-GAGATGAAACC
1 GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAACAAAAGAAAGTTGACCAG-GATGAAACC
1804799 ATACGAGTCAACAAA
65 ATACGAGTCAACAAA
* * *
1804814 AGAAAGGTGTTGGTCAGGACGAAACCATATGAACCAACGAAAA-AAAGTTGACCA-GATGAAACC
1 GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAAC-AAAAGAAAGTTGACCAGGATGAAACC
1804877 ATACGAGTCAACAAA
65 ATACGAGTCAACAAA
* ** ** *
1804892 GGAAAGGTGTTGGCCAGGACGAAACCATATGAACCAATGAAAGAAAGTTGACTGGGGTGAAACCA
1 GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAACAAAAGAAAGTTGACCAGGATGAAACCA
*
1804957 TATGAGTCAACAAA
66 TACGAGTCAACAAA
** * * * * **
1804971 GGAAAGGTGTTGGTTAGGATAAAACCATACGAACCAATGAAAA-AAAGTTGACTACAATGAAACC
1 GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAA-CAAAAGAAAGTTGACCAGGATGAAACC
* *
1805035 ATATGTGTCAACAAA
65 ATACGAGTCAACAAA
** ** * * * *
1805050 GGAAAGGTGTTGGCTGGGACAAAACCATATGAACCAAC-GAAGAAAAGTTGATCAGG-TAAAACT
1 GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAACAAAAG-AAAGTTGACCAGGATGAAACC
*
1805113 ATATGAGTCAACAAA
65 ATACGAGTCAACAAA
* * ** *
1805128 GGAAATGTGTTGGTCAGGATG-AACCTATACAAACCAACAAAAGAAAGTTGA-CTGAGATGAAAC
1 GGAAAGGTGTTGGCCAGGATGAAACC-ATATGAACCAACAAAAGAAAGTTGACCAG-GATGAAAC
* *
1805191 CATACGAGTTAGCAAA
64 CATACGAGTCAACAAA
* * * * * *
1805207 GGAAATGTGTTGGCCAGGA-GAAAAC-TATTCAAACCAATAAAAGAAAGTTAACCAAGATGAAAC
1 GGAAAGGTGTTGGCCAGGATGAAACCATA-T-GAACCAACAAAAGAAAGTTGACCAGGATGAAAC
1805270 CATACGAGTCAACAAA
64 CATACGAGTCAACAAA
* * * * *
1805286 GGAAATGTGTTGGCCGGGATGAAAGCATATGAACAAATAAAAGAAAGTTGACCA
1 GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAACAAAAGAAAGTTGACCA
1805340 TACAAACTAA
Statistics
Matches: 1455, Mismatches: 282, Indels: 128
0.78 0.15 0.07
Matches are distributed among these distances:
77 15 0.01
78 252 0.17
79 954 0.66
80 149 0.10
81 4 0.00
82 6 0.00
83 18 0.01
84 15 0.01
85 16 0.01
86 14 0.01
87 7 0.00
88 1 0.00
90 4 0.00
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.16
Consensus pattern (79 bp):
GGAAAGGTGTTGGCCAGGATGAAACCATATGAACCAACAAAAGAAAGTTGACCAGGATGAAACCA
TACGAGTCAACAAA
Found at i:1804264 original size:63 final size:64
Alignment explanation
Indices: 1804138--1804264 Score: 168
Period size: 63 Copynumber: 2.0 Consensus size: 64
1804128 CAACAAAAAG
* * * * *
1804138 AAGTTGATTGGGATGAAACCATACCAATCAACAACGGAAAGGTGTTGGATGGGACGAATCCATA
1 AAGTTGACTGGGATGAAACCATACCAATCAACAAAGGAAAGGTGTTGGATGAGACAAAACCATA
* *
1804202 AAGTTGACT-GGATGAAACCATACGAGTCAACAAAGGAAAGGTGTTGG-TCGAGACAAAACCATA
1 AAGTTGACTGGGATGAAACCATACCAATCAACAAAGGAAAGGTGTTGGAT-GAGACAAAACCATA
1804265 TGAACCAATA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
62 1 0.02
63 46 0.84
64 8 0.15
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (64 bp):
AAGTTGACTGGGATGAAACCATACCAATCAACAAAGGAAAGGTGTTGGATGAGACAAAACCATA
Found at i:1804297 original size:27 final size:27
Alignment explanation
Indices: 1804259--1804316 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
1804249 TCGAGACAAA
* *
1804259 ACCATATGAACCAATAAAAAAAACTTG
1 ACCATACGAACCAACAAAAAAAACTTG
*
1804286 ACCATACGAACCAACAAAAAAAAGTTG
1 ACCATACGAACCAACAAAAAAAACTTG
1804313 ACCA
1 ACCA
1804317 GGATTAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.55, C:0.22, G:0.09, T:0.14
Consensus pattern (27 bp):
ACCATACGAACCAACAAAAAAAACTTG
Found at i:1804367 original size:106 final size:105
Alignment explanation
Indices: 1804201--1804394 Score: 253
Period size: 106 Copynumber: 1.8 Consensus size: 105
1804191 ACGAATCCAT
* * * * * *
1804201 AAAGTTGACTGGATGAAACCATACGAGTCAACAAAGGAAAGGTGTTGGTCGAGACAAAACCATAT
1 AAAGTTGACAGGATGAAAACATACGAGTCAACAAAGGAAAGGTATTGGCCAAGACAAAACCATAC
1804266 GAACCAATAAAAAAAACTTGACCATACGAACCAACAAAAA
66 GAACCAATAAAAAAAACTTGACCATACGAACCAACAAAAA
* * **
1804306 AAAGTTGACCAGGATTAAAACATAGGAGTCAACAAAGGAAAGGTATTGGCCAAGATGAAACCATA
1 AAAGTTGA-CAGGATGAAAACATACGAGTCAACAAAGGAAAGGTATTGGCCAAGACAAAACCATA
* * * *
1804371 CGAACTAATGAAAGAAAGTTGACC
65 CGAACCAATAAAAAAAACTTGACC
1804395 GGGATGAAAC
Statistics
Matches: 74, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
105 8 0.11
106 66 0.89
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.16
Consensus pattern (105 bp):
AAAGTTGACAGGATGAAAACATACGAGTCAACAAAGGAAAGGTATTGGCCAAGACAAAACCATAC
GAACCAATAAAAAAAACTTGACCATACGAACCAACAAAAA
Found at i:1804701 original size:236 final size:236
Alignment explanation
Indices: 1804286--1805336 Score: 1166
Period size: 236 Copynumber: 4.4 Consensus size: 236
1804276 AAAAAACTTG
* * * *
1804286 ACCATACGAACCAACAAAAAAAAGTTGACCAGGATTAAAACATAGGAGTCAACAAAGGAAAGGTA
1 ACCATACGAACCAACAAAAAAAAGTTGACCAGGATGAAACCATACGAGTCAACAAAGGAAAGGTG
* * * * *
1804351 TTGGCCAAGATGAAACCATACGAACTAATGAAAGAAAGTTGACCGGGATGAAACCATACGAGTCA
66 TTGGCCAGGACGAAACCATATGAACCAATGAAA-AAAGTTGATCGGGATGAAACCATACGAGTCA
* * * *
1804416 ACAAAGAAAAGGTGTTGATCC-GGATGAAATCATA-GAACCAACAAAAGAAAGTTGACTAGGATG
130 ACAAAGGAAAGGTGTTG-GCCAGGACGAAACCATATGAACCAACAAAAGAAAGTTGACTAGGATG
* * **
1804479 AAACCATAAAAGTCAACAAAAGAAAGGTGTTGGGCGA-GACGAA
194 AAACCATAAGAGTCAACAAAGGAAAGGTGTT-GGCGAGGATAAA
** * * * *
1804522 ACCATACGAACCAACGTAAGAAAGTTAACCAGGATGAAACCATACGAGTCAACAAAGTAAAGTTG
1 ACCATACGAACCAACAAAAAAAAGTTGACCAGGATGAAACCATACGAGTCAACAAAGGAAAGGTG
* * * **
1804587 TTGGTCAGGACGAAACCATATGAACCAATGAAAAAAGCTGATTGGGATGAAACCATATAAGTCAA
66 TTGGCCAGGACGAAACCATATGAACCAATGAAAAAAGTTGATCGGGATGAAACCATACGAGTCAA
* * * * *
1804652 CAAAGGAAAGGTGTTGGCCGGGACAAAACCATATGAACTAACGAAAGAAAGTTGACTAGGATAAA
131 CAAAGGAAAGGTGTTGGCCAGGACGAAACCATATGAACCAACAAAAGAAAGTTGACTAGGATGAA
* *
1804717 ACCATAGGAGTCAACAAAGGAGAGGTGTTGGTCG-GGATAAA
196 ACCATAAGAGTCAACAAAGGAAAGGTGTTGG-CGAGGATAAA
* *
1804758 ACCATACAAACCAACAAAAAAAAGTTGACC-GAGATGAAACCATACGAGTCAACAAAAGAAAGGT
1 ACCATACGAACCAACAAAAAAAAGTTGACCAG-GATGAAACCATACGAGTCAACAAAGGAAAGGT
* * **
1804822 GTTGGTCAGGACGAAACCATATGAACCAACGAAAAAAAGTTGA-CCAGATGAAACCATACGAGTC
65 GTTGGCCAGGACGAAACCATATGAACCAATG-AAAAAAGTTGATCGGGATGAAACCATACGAGTC
** * *
1804886 AACAAAGGAAAGGTGTTGGCCAGGACGAAACCATATGAACCAATGAAAGAAAGTTGACTGGGGTG
129 AACAAAGGAAAGGTGTTGGCCAGGACGAAACCATATGAACCAACAAAAGAAAGTTGACTAGGATG
* **
1804951 AAACCATATGAGTCAACAAAGGAAAGGTGTTGGTTAGGATAAA
194 AAACCATAAGAGTCAACAAAGGAAAGGTGTTGGCGAGGATAAA
** * ** * *
1804994 ACCATACGAACCAATGAAAAAAAGTTGACTACAATGAAACCATATGTGTCAACAAAGGAAAGGTG
1 ACCATACGAACCAACAAAAAAAAGTTGACCAGGATGAAACCATACGAGTCAACAAAGGAAAGGTG
** * * * * * *
1805059 TTGGCTGGGACAAAACCATATGAACCAACGAAGAAAAGTTGATCAGG-TAAAACTATATGAGTCA
66 TTGGCCAGGACGAAACCATATGAACCAATGAA-AAAAGTTGATCGGGATGAAACCATACGAGTCA
* * * **
1805123 ACAAAGGAAATGTGTTGGTCAGGATG-AACCTATACAAACCAACAAAAGAAAGTTGACT-GAGAT
130 ACAAAGGAAAGGTGTTGGCCAGGACGAAACC-ATATGAACCAACAAAAGAAAGTTGACTAG-GAT
* * * * * *
1805186 GAAACCATACGAGTTAGCAAAGGAAATGTGTTGGCCAGGAGAAA
193 GAAACCATAAGAGTCAACAAAGGAAAGGTGTTGGCGAGGATAAA
* * * * * * * *
1805230 ACTATTCAAACCAATAAAAGAAAGTTAACCAAGATGAAACCATACGAGTCAACAAAGGAAATGTG
1 ACCATACGAACCAACAAAAAAAAGTTGACCAGGATGAAACCATACGAGTCAACAAAGGAAAGGTG
* * * * *
1805295 TTGGCCGGGATGAAAGCATATGAACAAATAAAAGAAAGTTGA
66 TTGGCCAGGACGAAACCATATGAACCAATGAAA-AAAGTTGA
1805337 CCATACAAAC
Statistics
Matches: 690, Mismatches: 112, Indels: 26
0.83 0.14 0.03
Matches are distributed among these distances:
234 2 0.00
235 63 0.09
236 613 0.89
237 12 0.02
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.16
Consensus pattern (236 bp):
ACCATACGAACCAACAAAAAAAAGTTGACCAGGATGAAACCATACGAGTCAACAAAGGAAAGGTG
TTGGCCAGGACGAAACCATATGAACCAATGAAAAAAGTTGATCGGGATGAAACCATACGAGTCAA
CAAAGGAAAGGTGTTGGCCAGGACGAAACCATATGAACCAACAAAAGAAAGTTGACTAGGATGAA
ACCATAAGAGTCAACAAAGGAAAGGTGTTGGCGAGGATAAA
Found at i:1804861 original size:158 final size:158
Alignment explanation
Indices: 1803460--1805337 Score: 1408
Period size: 157 Copynumber: 11.8 Consensus size: 158
1803450 AAGGAAAAGT
* *
1803460 GGAAAGGTGTTGGTCGGGATGAAACCATACGAACCAACAAAAGAAAGTTAACCGGGATGAAACCA
1 GGAAAGGTGTTGGTCGGGATGAAACCATACGAACCAACAAAAGAAAGTTGACCGAGATGAAACCA
* ** * * *
1803525 TACAAGTCAACAAAGGAAAGGTGTTGACCAAGACGAAACCATATGAACCAAC-AAAAGAAAGTTG
66 TACGAGTCAACAAAGGAAAGGTGTTGGTCAGGATGAAACCATACGAACCAACGAAAA-AAAGTTG
** *
1803589 ACGGGGATGAAACCATACGAGTTAACAAA
130 ACTAGGATGAAACCATACGAGTCAACAAA
* * * ** * * *
1803618 AGAAAGGTATTTGTCAAGATGAAACCATATGAACCAACGAAAGAAAGTTGACCGGGATGAAACCA
1 GGAAAGGTGTTGGTCGGGATGAAACCATACGAACCAACAAAAGAAAGTTGACCGAGATGAAACCA
* * * * *
1803683 TACAAGTTAACAAAGGAAAGGTGTTAGTTAGGATGAAACCATACGAACCAACGAAAGAAAGTTGA
66 TACGAGTCAACAAAGGAAAGGTGTTGGTCAGGATGAAACCATACGAACCAACGAAAAAAAGTTGA
* *
1803748 GC-AGGATGAAACCATATGAGTTAACAAA
131 -CTAGGATGAAACCATACGAGTCAACAAA
* * * ** * *
1803776 GGAAAGGTGTTAGACGAGGCA--AAACCATATGAACCAATGAAAGAAAGTTAATC-AGGATGAAA
1 GGAAAGGTGTTGGTCG-GG-ATGAAACCATACGAACCAACAAAAGAAAGTTGACCGA-GATGAAA
* * * * *
1803838 CTATACGAGTCAACAAAAGGAAAGGTATTGG-CAAAGATGAAACCATATGAACCAA-TAAAAGAA
63 CCATACGAGTCAAC-AAAGGAAAGGTGTTGGTC-AGGATGAAACCATACGAACCAACGAAAA-AA
* * *
1803901 AGTTGATTGGGATGAAACCATACAAGTCAACAAAA
125 AGTTGACTAGGATGAAACCATACGAGTCAAC-AAA
* * * *
1803936 AGAAAGGTGTTGG-CTGGAATGAAACCATACGAAGCAACGAAAGAAAGTTGACC-AGGATGAAAC
1 GGAAAGGTGTTGGTC-GGGATGAAACCATACGAACCAACAAAAGAAAGTTGACCGA-GATGAAAC
* * * *
1803999 CATAAGAGTCAACAAGGGAAAGGTGTTGG-CTGGGATGAAACCATACGAACCAA-TAAAAAGAAG
64 CATACGAGTCAACAAAGGAAAGGTGTTGGTC-AGGATGAAACCATACGAACCAACGAAAAA-AAG
* *
1804062 TTAACTAGGATGAAACCATACAAGTCAACAAA
127 TTGACTAGGATGAAACCATACGAGTCAACAAA
* * * * ** *
1804094 GAAAAGGTGTTGGCCGAGATGAAACCCTACGAACCAACAAAA-AGAAGTTGATTGGGATGAAACC
1 GGAAAGGTGTTGGTCGGGATGAAACCATACGAACCAACAAAAGA-AAGTTGACCGAGATGAAACC
* * * * * * * * ** *
1804158 ATACCAATCAACAACGGAAAGGTGTTGGAT-GGGACGAATCCATAAAGTTGACTGGATGAAACCA
65 ATACGAGTCAACAAAGGAAAGGTGTTGG-TCAGGATGAAACCAT-ACG--AAC-CAACGAAA--A
* ** * * ** **
1804222 TACGAGTCAAC-A-AAGGAAA-GGTGTTG-GTCGAGACAAAA
123 -A-AAGTTGACTAGGATGAAACCAT-ACGAGTC-A-AC-AAA
** * * ****** *** ** * *
1804260 CCATATGAACCAAT-AAAAAAAACTTGACCATACGAACCAACAAAAAAAAGTTGACC-AGGATTA
1 GGAAAGGTGTTGGTCGGGATGAA----ACCATACGAACCAACAAAAGAAAGTTGACCGA-GATGA
* * * * * * * *
1804323 AAACATAGGAGTCAACAAAGGAAAGGTATTGGCCAAGATGAAACCATACGAACTAATGAAAGAAA
61 AACCATACGAGTCAACAAAGGAAAGGTGTTGGTCAGGATGAAACCATACGAACCAACGAAAAAAA
**
1804388 GTTGACCGGGATGAAACCATACGAGTCAACAAA
126 GTTGACTAGGATGAAACCATACGAGTCAACAAA
* * * * *
1804421 GAAAAGGTGTTGATCCGGATGAAATCATA-GAACCAACAAAAGAAAGTTGA-CTAGGATGAAACC
1 GGAAAGGTGTTGGTCGGGATGAAACCATACGAACCAACAAAAGAAAGTTGACCGA-GATGAAACC
** * * * * *
1804484 ATAAAAGTCAACAAAAGAAAGGTGTTGGGC-GAGACGAAACCATACGAACCAACGTAAGAAAGTT
65 ATACGAGTCAACAAAGGAAAGGTGTTGGTCAG-GATGAAACCATACGAACCAACGAAAAAAAGTT
* *
1804548 AACCAGGATGAAACCATACGAGTCAACAAA
129 GACTAGGATGAAACCATACGAGTCAACAAA
* * * * * ** * ** *
1804578 GTAAAGTTGTTGGTCAGGACGAAACCATATGAACCAATGAAA-AAAGCTGATTGGGATGAAACCA
1 GGAAAGGTGTTGGTCGGGATGAAACCATACGAACCAACAAAAGAAAGTTGACCGAGATGAAACCA
** * * ** * * *
1804642 TATAAGTCAACAAAGGAAAGGTGTTGGCCGGGACAAAACCATATGAACTAACGAAAGAAAGTTGA
66 TACGAGTCAACAAAGGAAAGGTGTTGGTCAGGATGAAACCATACGAACCAACGAAAAAAAGTTGA
* *
1804707 CTAGGATAAAACCATAGGAGTCAACAAA
131 CTAGGATGAAACCATACGAGTCAACAAA
* * * *
1804735 GGAGAGGTGTTGGTCGGGATAAAACCATACAAACCAACAAAAAAAAGTTGACCGAGATGAAACCA
1 GGAAAGGTGTTGGTCGGGATGAAACCATACGAACCAACAAAAGAAAGTTGACCGAGATGAAACCA
* * *
1804800 TACGAGTCAACAAAAGAAAGGTGTTGGTCAGGACGAAACCATATGAACCAACGAAAAAAAGTTGA
66 TACGAGTCAACAAAGGAAAGGTGTTGGTCAGGATGAAACCATACGAACCAACGAAAAAAAGTTGA
*
1804865 CCA-GATGAAACCATACGAGTCAACAAA
131 CTAGGATGAAACCATACGAGTCAACAAA
* * * * ** * * *
1804892 GGAAAGGTGTTGGCCAGGACGAAACCATATGAACCAATGAAAGAAAGTTGACTGGGGTGAAACCA
1 GGAAAGGTGTTGGTCGGGATGAAACCATACGAACCAACAAAAGAAAGTTGACCGAGATGAAACCA
* * * *
1804957 TATGAGTCAACAAAGGAAAGGTGTTGGTTAGGATAAAACCATACGAACCAATGAAAAAAAGTTGA
66 TACGAGTCAACAAAGGAAAGGTGTTGGTCAGGATGAAACCATACGAACCAACGAAAAAAAGTTGA
** * *
1805022 CTACAATGAAACCATATGTGTCAACAAA
131 CTAGGATGAAACCATACGAGTCAACAAA
** * * * * *
1805050 GGAAAGGTGTTGG-CTGGGACAAAACCATATGAACCAAC-GAAGAAAAGTTGATC-AGGTAAAAC
1 GGAAAGGTGTTGGTC-GGGATGAAACCATACGAACCAACAAAAG-AAAGTTGACCGAGATGAAAC
* * * *
1805112 TATATGAGTCAACAAAGGAAATGTGTTGGTCAGGATG-AACCTATACAAACCAAC-AAAAGAAAG
64 CATACGAGTCAACAAAGGAAAGGTGTTGGTCAGGATGAAACC-ATACGAACCAACGAAAA-AAAG
* *
1805175 TTGACT-GAGATGAAACCATACGAGTTAGCAAA
127 TTGACTAG-GATGAAACCATACGAGTCAACAAA
* * * * * * * * *
1805207 GGAAATGTGTTGGCCAGGA-GAAAACTATTCAAACCAATAAAAGAAAGTTAACCAAGATGAAACC
1 GGAAAGGTGTTGGTCGGGATG-AAACCATACGAACCAACAAAAGAAAGTTGACCGAGATGAAACC
* * * * * **
1805271 ATACGAGTCAACAAAGGAAATGTGTTGGCCGGGATGAAAGCATATGAA-CAAATAAAAGAAAGTT
65 ATACGAGTCAACAAAGGAAAGGTGTTGGTCAGGATGAAACCATACGAACCAACGAAAA-AAAGTT
1805335 GAC
129 GAC
1805338 CATACAAACT
Statistics
Matches: 1376, Mismatches: 283, Indels: 122
0.77 0.16 0.07
Matches are distributed among these distances:
156 9 0.01
157 518 0.38
158 501 0.36
159 142 0.10
160 64 0.05
161 15 0.01
162 7 0.01
163 14 0.01
164 10 0.01
165 14 0.01
166 15 0.01
168 2 0.00
169 64 0.05
170 1 0.00
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.16
Consensus pattern (158 bp):
GGAAAGGTGTTGGTCGGGATGAAACCATACGAACCAACAAAAGAAAGTTGACCGAGATGAAACCA
TACGAGTCAACAAAGGAAAGGTGTTGGTCAGGATGAAACCATACGAACCAACGAAAAAAAGTTGA
CTAGGATGAAACCATACGAGTCAACAAA
Found at i:1805464 original size:74 final size:74
Alignment explanation
Indices: 1805336--1805620 Score: 249
Period size: 74 Copynumber: 3.8 Consensus size: 74
1805326 AAGAAAGTTG
* * *
1805336 ACCATACAAACTAACAAAAGAAAGTTGACCAGGATGAAACCATAGGTGTCAACAAAGGTGTTGGT
1 ACCATACAAACCAACAAAAGAAAGTTGACCAGGATGAAACCATATGAGTCAACAAAGGTGTTGGT
1805401 CGAGACGAA
66 CGAGACGAA
* * *
1805410 ACCATACAATCCAACAAAAGAAAGTTGACCAGGATGAAACCATACGAGTTAACAAAAAAAGGTGT
1 ACCATACAAACCAACAAAAGAAAGTTGACCAGGATGAAACCATATGAG-T--C-AACAAAGGTGT
* **
1805475 TAGTCG-GCATAAA
62 TGGTCGAG-ACGAA
* **
1805488 ACCATACAAACCAATAAAA-AAA-TTGACGGGGATGAAACCATATGAGTCAACAAAGAAAAAGTG
1 ACCATACAAACCAACAAAAGAAAGTTGACCAGGATGAAACCATATGAGTCAACAAAG-----GTG
1805551 TTGG-CGAGGACGAA
61 TTGGTCGA-GACGAA
*** * * *
1805565 ACCATATGGACCAATAAAAGAAAGTTGA--ATGGAATGAAACCATTTGAGTTAACAAA
1 ACCATACAAACCAACAAAAGAAAGTTGACCA-GG-ATGAAACCATATGAGTCAACAAA
1805621 AAAAAAGGTG
Statistics
Matches: 172, Mismatches: 23, Indels: 27
0.77 0.10 0.12
Matches are distributed among these distances:
72 6 0.03
73 1 0.01
74 44 0.26
75 2 0.01
76 23 0.13
77 30 0.17
78 41 0.24
79 25 0.15
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.17
Consensus pattern (74 bp):
ACCATACAAACCAACAAAAGAAAGTTGACCAGGATGAAACCATATGAGTCAACAAAGGTGTTGGT
CGAGACGAA
Found at i:1805619 original size:79 final size:76
Alignment explanation
Indices: 1805393--1805705 Score: 251
Period size: 79 Copynumber: 4.0 Consensus size: 76
1805383 GTCAACAAAG
* * * * *
1805393 GTGTTGGTCGAGACGAAACCATA-CAATCCAACAAAAGAAAGTTGACCA-GGATGAAACCATACG
1 GTGTTGGCCGGGACGAAACCATATGAA-CCAATAAAA-AAAGTTGA--AGGGATGAAACCATATG
*
1805456 AGTTAACAAAAAAAG
62 AGTTAACAAAAAAAA
* * * ** ** *
1805471 GTGTTAGTCGGCATAAAACCATACAAACCAATAAAAAAA-TTGACGGGGATGAAACCATATGAGT
1 GTGTTGGCCGGGACGAAACCATATGAACCAATAAAAAAAGTTGA-AGGGATGAAACCATATGAGT
*
1805535 CAACAAAGAAAAA
65 TAACAAA-AAAAA
* * *
1805548 GTGTTGG-CGAGGACGAAACCATATGGACCAATAAAAGAAAGTTGAATGGAATGAAACCATTTGA
1 GTGTTGGCCG-GGACGAAACCATATGAACCAATAAAA-AAAGTTGAA-GGGATGAAACCATATGA
1805612 GTTAACAAAAAAAAA
63 GTTAAC-AAAAAAAA
* * *
1805627 GGTGTTGGCCGGG-CCAAACTATATGAACCAATGAAAAAAAGTTGACCGGGATGAAACCATACT-
1 -GTGTTGGCCGGGACGAAACCATATGAACCAAT-AAAAAAAGTTGA-AGGGATGAAACCATA-TG
* *
1805690 AGTCAACAAAAGAAA
62 AGTTAACAAAAAAAA
1805705 G
1 G
1805706 GAGTTTGATT
Statistics
Matches: 192, Mismatches: 30, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
75 1 0.01
76 29 0.15
77 34 0.18
78 36 0.19
79 73 0.38
80 17 0.09
81 2 0.01
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (76 bp):
GTGTTGGCCGGGACGAAACCATATGAACCAATAAAAAAAGTTGAAGGGATGAAACCATATGAGTT
AACAAAAAAAA
Found at i:1805664 original size:155 final size:156
Alignment explanation
Indices: 1805336--1805704 Score: 372
Period size: 155 Copynumber: 2.4 Consensus size: 156
1805326 AAGAAAGTTG
* * * * *
1805336 ACCATACAAACTAACAAAAGAAAGTTGACCAGGATGAAACCATAGGT-GTCAAC-AAAG-----G
1 ACCATACAAACCAATAAAAAAAAGTTGACCGGGATGAAACCATA-CTAGTCAACAAAAGAAAAAG
1805394 TGTTGGTCGAGACGAAACCATACAATCCAACAAAAGAAAGTTGACCAGGATGAAACCATACGAGT
65 TGTTGGTCGAGACGAAACCATACAATCCAACAAAAGAAAGTTGA-CAGGATGAAACCATACGAGT
*
1805459 TAACAAAAAAAGGTGTTAGTCGGCATAAA
129 TAACAAAAAAAGGTGTTAGCCGGCA-AAA
*
1805488 ACCATACAAACCAAT-AAAAAAA-TTGACGGGGATGAAACCATA-TGAGTCAAC-AAAGAAAAAG
1 ACCATACAAACCAATAAAAAAAAGTTGACCGGGATGAAACCATACT-AGTCAACAAAAGAAAAAG
** * **
1805549 TGTTGG-CGAGGACGAAACCATATGGA-CCAATAAAAGAAAGTTGA-ATGGAATGAAACCATTTG
65 TGTTGGTCGA-GACGAAACCATA-CAATCCAACAAAAGAAAGTTGACA-GG-ATGAAACCATACG
* *
1805611 AGTTAACAAAAAAAAAGGTGTTGGCCGGGC-CAA
126 AGTTAAC--AAAAAAAGGTGTTAGCC-GGCAAAA
* ** *
1805644 ACTATATGAACCAATGAAAAAAAGTTGACCGGGATGAAACCATACTAGTCAACAAAAGAAA
1 ACCATACAAACCAATAAAAAAAAGTTGACCGGGATGAAACCATACTAGTCAACAAAAGAAA
1805705 GGAGTTTGAT
Statistics
Matches: 182, Mismatches: 17, Indels: 29
0.80 0.07 0.13
Matches are distributed among these distances:
148 1 0.01
150 28 0.15
151 6 0.03
152 13 0.07
153 1 0.01
154 5 0.03
155 54 0.30
156 15 0.08
157 22 0.12
158 29 0.16
159 8 0.04
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.17
Consensus pattern (156 bp):
ACCATACAAACCAATAAAAAAAAGTTGACCGGGATGAAACCATACTAGTCAACAAAAGAAAAAGT
GTTGGTCGAGACGAAACCATACAATCCAACAAAAGAAAGTTGACAGGATGAAACCATACGAGTTA
ACAAAAAAAGGTGTTAGCCGGCAAAA
Found at i:1806341 original size:89 final size:89
Alignment explanation
Indices: 1806070--1806665 Score: 483
Period size: 89 Copynumber: 6.7 Consensus size: 89
1806060 ACTCCAAAGG
* * * * * *
1806070 AAATCAGACTTTGTGATGCATTAGTACCATCTAGTGGTTGGATGAAAGGGATATGATTAGGAATG
1 AAATCAGACTTTGTGATGCATCAGTACCATCTAGTAGTTGAATGAAGGGGATATGATTGGGAAGG
* * * **
1806135 T-GGGGTCTGCACTTTGCCTTACTA
66 TATGGG-CTGCACCTTGCCCTAGAA
* * * ** * * * *
1806159 AAATCAGGCTTTGCGATGCATCAATATTATCTAGTGGTT-AGATGGAA--GAATACGATTAGGAA
1 AAATCAGACTTTGTGATGCATCAGTACCATCTAGTAGTTGA-AT-GAAGGGGATATGATTGGGAA
* * * *
1806221 TGTGA-GGTCTGCACTTTGCCCTAGGA
64 GGT-ATGGGCTGCACCTTGCCCTAGAA
* * * * ***
1806247 AAATCAGACTTTGTGATGCATTAGTACCACCTACTAGTTAAATGAAAAAGATATGATTGGGAAGG
1 AAATCAGACTTTGTGATGCATCAGTACCATCTAGTAGTTGAATGAAGGGGATATGATTGGGAAGG
* *
1806312 CATGGGTTGCACCTTGCCCTAGAA
66 TATGGGCTGCACCTTGCCCTAGAA
* * * * * *
1806336 AAATCA-AGCTTTGTGAAGCGTCAGTACCATTTAATGGTTGAATGAAGGGGATATGATTAGGAAG
1 AAATCAGA-CTTTGTGATGCATCAGTACCATCTAGTAGTTGAATGAAGGGGATATGATTGGGAAG
* *
1806400 GTGTGGGCTACACCTTGCCCTAGAA
65 GTATGGGCTGCACCTTGCCCTAGAA
* * * *
1806425 AAAT-AAAGCTTTGTGATGCATCAGTACCATCTAGTGGTTGAATGAAGGGGATATGATTTGGAAT
1 AAATCAGA-CTTTGTGATGCATCAGTACCATCTAGTAGTTGAATGAAGGGGATATGATTGGGAAG
* * * * *
1806489 TTGTGGGCTACACCTTACCCCAGAA
65 GTATGGGCTGCACCTTGCCCTAGAA
* * * *
1806514 AAATCAGGCTTTGTGATGCATCAGTACCATCTAGTATTTGAATTAAGGGGATATGATTGGGAAAG
1 AAATCAGACTTTGTGATGCATCAGTACCATCTAGTAGTTGAATGAAGGGGATATGATTGGGAAGG
* * *
1806579 TATAGGCTGCACCTTGCCCCAGGA
66 TATGGGCTGCACCTTGCCCTAGAA
* * * * *
1806603 AAATCACG-CTTTGTGACGCATCAGGATCATCTAGTGGTTGGGAATG-A-GGAATATGATTGGGA
1 AAATCA-GACTTTGTGATGCATCAGTACCATCTAGTAGTT--GAATGAAGGGGATATGATTGGGA
1806665 A
63 A
1806666 TGTGTCGACT
Statistics
Matches: 416, Mismatches: 77, Indels: 28
0.80 0.15 0.05
Matches are distributed among these distances:
87 3 0.01
88 66 0.16
89 337 0.81
90 6 0.01
91 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (89 bp):
AAATCAGACTTTGTGATGCATCAGTACCATCTAGTAGTTGAATGAAGGGGATATGATTGGGAAGG
TATGGGCTGCACCTTGCCCTAGAA
Found at i:1806595 original size:267 final size:266
Alignment explanation
Indices: 1806070--1806642 Score: 614
Period size: 267 Copynumber: 2.2 Consensus size: 266
1806060 ACTCCAAAGG
* * * * *
1806070 AAATC-AGACTTTGTGATGCATTAGTACCATCTAGTGGTTGGATGAAAGGGATATGATTAGGAAT
1 AAATCAAG-CTTTGTGAAGCATCAGTACCATCTAATGGTTGAATGAAAGGGATATGATTAGGAAG
* * * * * * **
1806134 GTGGGGTCTGCACTTTGCCTTACTAAAATCAGGCTTTGCGATGCATCAATATTATCTAGTGGTTA
65 GTGGGGTCTACACCTTGCCCTACAAAAATAAAGCTTTGCGATGCATCAATACCATCTAGTGGTTA
* * * * * *
1806199 GATGGAAGAATACGATTAGGAATGTGAGGTCTGCACTTTGCCCTAGGAAAATCAGACTTTGTGAT
130 GATGGAAGAATACGATTAGGAATGTGAGGGCTACACCTTACCCCAGAAAAATCAGACTTTGTGAT
* * * *
1806264 GCATTAGTACCACCTACTAGTTAAATGAAAAAGATATGATTGGGAAGGCATGGGTTGCACCTTGC
195 GCATCAGTACCACCTACTAGTTAAATGAAAAAGATATGATTGGGAAAGCATAGGCTGCACCTTGC
*
1806329 CCTAGAA
260 CCCAGAA
* * *
1806336 AAATCAAGCTTTGTGAAGCGTCAGTACCATTTAATGGTTGAATGAAGGGGATATGATTAGGAAGG
1 AAATCAAGCTTTGTGAAGCATCAGTACCATCTAATGGTTGAATGAAAGGGATATGATTAGGAAGG
* * *
1806401 TGTGGG-CTACACCTTGCCCTAGAAAAATAAAGCTTTGTGATGCATCAGTACCATCTAGTGGTT-
66 TG-GGGTCTACACCTTGCCCTACAAAAATAAAGCTTTGCGATGCATCAATACCATCTAGTGGTTA
* * * * * *
1806464 GAAT-GAAGGGGATATGATTTGGAATTTGTGGGCTACACCTTACCCCAGAAAAATCAGGCTTTGT
130 G-ATGGAA--GAATACGATTAGGAATGTGAGGGCTACACCTTACCCCAGAAAAATCAGACTTTGT
* * * * * *** *
1806528 GATGCATCAGTACCATCTAGTATTTGAATTAAGGGGATATGATTGGGAAAGTATAGGCTGCACCT
192 GATGCATCAGTACCACCTACTAGTTAAATGAAAAAGATATGATTGGGAAAGCATAGGCTGCACCT
*
1806593 TGCCCCAGGA
257 TGCCCCAGAA
* * * * *
1806603 AAATCACGCTTTGTGACGCATCAGGATCATCTAGTGGTTG
1 AAATCAAGCTTTGTGAAGCATCAGTACCATCTAATGGTTG
1806643 GGAATGAGGA
Statistics
Matches: 249, Mismatches: 53, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
265 4 0.02
266 104 0.42
267 141 0.57
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (266 bp):
AAATCAAGCTTTGTGAAGCATCAGTACCATCTAATGGTTGAATGAAAGGGATATGATTAGGAAGG
TGGGGTCTACACCTTGCCCTACAAAAATAAAGCTTTGCGATGCATCAATACCATCTAGTGGTTAG
ATGGAAGAATACGATTAGGAATGTGAGGGCTACACCTTACCCCAGAAAAATCAGACTTTGTGATG
CATCAGTACCACCTACTAGTTAAATGAAAAAGATATGATTGGGAAAGCATAGGCTGCACCTTGCC
CCAGAA
Found at i:1808411 original size:30 final size:30
Alignment explanation
Indices: 1808375--1808431 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
1808365 CCATTCTTTT
1808375 TTTTTCTTTTCCCTT-T-TTTTTTATTTTTGG
1 TTTTTCTTTT--CTTGTATTTTTTATTTTTGG
1808405 TTTTTCTTTTCTTGTATTTTTTATTTT
1 TTTTTCTTTTCTTGTATTTTTTATTTT
1808432 GAAAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 3 0.12
29 1 0.04
30 21 0.84
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.79
Consensus pattern (30 bp):
TTTTTCTTTTCTTGTATTTTTTATTTTTGG
Found at i:1808431 original size:23 final size:23
Alignment explanation
Indices: 1808387--1808431 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1808377 TTTCTTTTCC
* * *
1808387 CTTTTTTTTTATTTTTGGTTTTT
1 CTTTTCTTGTATTTTTGATTTTT
*
1808410 CTTTTCTTGTATTTTTTATTTT
1 CTTTTCTTGTATTTTTGATTTT
1808432 GAAAAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.80
Consensus pattern (23 bp):
CTTTTCTTGTATTTTTGATTTTT
Found at i:1811339 original size:50 final size:50
Alignment explanation
Indices: 1811264--1811363 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
1811254 ATTTTGTGTA
*
1811264 GGAAAATTGAGATTTTTTCAATTAAAGAAATGAAATGAAATCTCTTACAT
1 GGAAAATCGAGATTTTTTCAATTAAAGAAATGAAATGAAATCTCTTACAT
*
1811314 GGAAAATCGAGATTTTTGT-AGTTAAAGAAATGAAATGAAATCTCTTACAT
1 GGAAAATCGAGATTTTT-TCAATTAAAGAAATGAAATGAAATCTCTTACAT
1811364 ACCCCACCGG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 46 0.98
51 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (50 bp):
GGAAAATCGAGATTTTTTCAATTAAAGAAATGAAATGAAATCTCTTACAT
Found at i:1812262 original size:13 final size:13
Alignment explanation
Indices: 1812244--1812268 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1812234 TAGTTGAGTG
1812244 TGTATCGATACAT
1 TGTATCGATACAT
1812257 TGTATCGATACA
1 TGTATCGATACA
1812269 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1815766 original size:20 final size:20
Alignment explanation
Indices: 1815741--1815778 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1815731 TGATGAATAT
1815741 TTTGAAGTAAAATGGAAGGA
1 TTTGAAGTAAAATGGAAGGA
* *
1815761 TTTGAAGTGAAATTGAAG
1 TTTGAAGTAAAATGGAAG
1815779 AAATTTAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (20 bp):
TTTGAAGTAAAATGGAAGGA
Found at i:1822250 original size:20 final size:20
Alignment explanation
Indices: 1822225--1822298 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
1822215 TTTTTACACA
1822225 GATGTATCGATACATTTTTC
1 GATGTATCGATACATTTTTC
* *
1822245 GATGTATCGATACATGTAT-
1 GATGTATCGATACATTTTTC
* *
1822264 GAATGTATCGATACCTTCTTC
1 G-ATGTATCGATACATTTTTC
*
1822285 AATGTATCGATACA
1 GATGTATCGATACA
1822299 ATTTGTCTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.98
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
GATGTATCGATACATTTTTC
Found at i:1836283 original size:28 final size:28
Alignment explanation
Indices: 1836252--1836305 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
1836242 GTCAGGTTCG
1836252 TGTTTACTATTCATCATACTGTTGCTAT
1 TGTTTACTATTCATCATACTGTTGCTAT
1836280 TGTTTACTATTCATCATACTGTTGCT
1 TGTTTACTATTCATCATACTGTTGCT
1836306 GTTAGTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.19, G:0.11, T:0.50
Consensus pattern (28 bp):
TGTTTACTATTCATCATACTGTTGCTAT
Found at i:1836391 original size:14 final size:15
Alignment explanation
Indices: 1836359--1836389 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1836349 TTTTTTTTTC
1836359 AAGAATACAAAAAAA
1 AAGAATACAAAAAAA
1836374 AAGAATACAAAAAAA
1 AAGAATACAAAAAAA
1836389 A
1 A
1836390 GAGAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.06
Consensus pattern (15 bp):
AAGAATACAAAAAAA
Found at i:1837214 original size:42 final size:42
Alignment explanation
Indices: 1837149--1837228 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
1837139 AAGAAAGAAA
* * **
1837149 AGATAGAAGGGATGATATGAGGAGAGATAGGAGAGATAGTAG
1 AGATAAAAGGAATGATATGAGGAGAGATAACAGAGATAGTAG
1837191 AGATAAAAGGAATGATA-GAAGGAGAGATAACAGAGATA
1 AGATAAAAGGAATGATATG-AGGAGAGATAACAGAGATA
1837229 ACAGAGAGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 32 0.97
ACGTcount: A:0.49, C:0.01, G:0.35, T:0.15
Consensus pattern (42 bp):
AGATAAAAGGAATGATATGAGGAGAGATAACAGAGATAGTAG
Found at i:1837248 original size:42 final size:41
Alignment explanation
Indices: 1837155--1837250 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 41
1837145 GAAAAGATAG
** ** *
1837155 AAGGGATGATATGAGGAGAGATAGGAGAGATAGTAGAGATAA
1 AAGGGATGATA-GAGGAGAGATAACAGAGATAACAGAGAGAA
* *
1837197 AAGGAATGATAGAAGGAGAGATAACAGAGATAACAGAGAGAT
1 AAGGGATGATAG-AGGAGAGATAACAGAGATAACAGAGAGAA
*
1837239 GAGGGATGATAG
1 AAGGGATGATAG
1837251 GAAAAGGAGA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 1 0.02
42 43 0.98
ACGTcount: A:0.47, C:0.02, G:0.36, T:0.15
Consensus pattern (41 bp):
AAGGGATGATAGAGGAGAGATAACAGAGATAACAGAGAGAA
Found at i:1844329 original size:29 final size:29
Alignment explanation
Indices: 1844298--1845025 Score: 530
Period size: 28 Copynumber: 25.5 Consensus size: 29
1844288 ATACGACCCT
1844298 TTTCAAAGCCCACAA-TCAGTGGCACCTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCTC
* * *** * *
1844326 TTTTAAAACCCGTGAGTCAATGGCATC-C
1 TTTCAAAGCCCACAAGTCAGTGGCACCTC
* *
1844354 TTCCAAAGCCCA-AGAGTCAGTGGCATC-C
1 TTTCAAAGCCCACA-AGTCAGTGGCACCTC
* * *
1844382 TTTCAAAAGCTCACGAGTCAGTGGCATC-C
1 TTTC-AAAGCCCACAAGTCAGTGGCACCTC
*
1844411 TTTCAAAATCCCACCAA-TCAGTGGCACC-C
1 TTTC-AAAGCCCA-CAAGTCAGTGGCACCTC
1844440 TTTCAAAAGCCCACAAGTCAGTGGCACC-C
1 TTTC-AAAGCCCACAAGTCAGTGGCACCTC
* *
1844469 TCTCAAAGCCCACAAGTTAGTGGCACC-C
1 TTTCAAAGCCCACAAGTCAGTGGCACCTC
** *
1844497 TTTCAAAGCCCATGAGTCAGTGGCATC-C
1 TTTCAAAGCCCACAAGTCAGTGGCACCTC
* ** * * *
1844525 TTCCAAAGCCCATGAGTTAGTTGCATC-C
1 TTTCAAAGCCCACAAGTCAGTGGCACCTC
*
1844553 TTTCAAAAGCCCACCAA-TCAGTGGCATC-C
1 TTTC-AAAGCCCA-CAAGTCAGTGGCACCTC
* * *
1844582 TTTCAAAAGCCCACCAGTCAATGGCATC-C
1 TTTC-AAAGCCCACAAGTCAGTGGCACCTC
* *
1844611 TTTCAAAGCCCATAAGTCAGTGGCATC-C
1 TTTCAAAGCCCACAAGTCAGTGGCACCTC
* *
1844639 TTTCAAAGCCCATAAGTCAGTGGCATC-C
1 TTTCAAAGCCCACAAGTCAGTGGCACCTC
*
1844667 TTTCAAAGCCCATAAGTCAGTGGCACC-C
1 TTTCAAAGCCCACAAGTCAGTGGCACCTC
*
1844695 TTTCAAAGCCCACGAGTCAGTGGCA-CT-
1 TTTCAAAGCCCACAAGTCAGTGGCACCTC
* ** *
1844722 TTCTCGAAGCCCATGAGTTAGTGGCACC-C
1 TT-TCAAAGCCCACAAGTCAGTGGCACCTC
** *
1844751 -TTCTAAAGCCCAGGAGTCAATGGCACC-C
1 TTTC-AAAGCCCACAAGTCAGTGGCACCTC
* *
1844779 TTT-AAATACCCACAAGTCAATGGCACC-C
1 TTTCAAA-GCCCACAAGTCAGTGGCACCTC
1844807 TTTCAAAGCCCACACAAGTCAGTGGCAACCTC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACCTC
* **
1844839 TCTCAAAGCCCACAAGTTGGTGGCAACC-C
1 TTTCAAAGCCCACAAGTCAGTGGC-ACCTC
* **
1844868 CTT-AAAGCCTACACAAGTTGGTGGCAACCTC
1 TTTCAAAGCC--CACAAGTCAGTGGC-ACCTC
*
1844899 TCTCAAAGCCCACAAGTCAGTGGCACC-C
1 TTTCAAAGCCCACAAGTCAGTGGCACCTC
* * *
1844927 TTTCAAAGCCCATAAGTTAGTAGCACC-C
1 TTTCAAAGCCCACAAGTCAGTGGCACCTC
* * * *
1844955 TTTCGAAGCCCATAAATTAGTGGCATCCT-
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCTC
1844984 TTT-AAAGCCCACAAGTCAGTGGCAACC-C
1 TTTCAAAGCCCACAAGTCAGTGGC-ACCTC
1845012 -TTCTAAAGCCCACA
1 TTTC-AAAGCCCACA
1845026 CAAGTTGGTG
Statistics
Matches: 593, Mismatches: 76, Indels: 61
0.81 0.10 0.08
Matches are distributed among these distances:
27 10 0.02
28 346 0.58
29 154 0.26
30 62 0.10
31 7 0.01
32 14 0.02
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCTC
Done.