Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 41 of 126
Found at i:12224729 original size:87 final size:86
Alignment explanation
Indices: 12224581--12224824 Score: 241
Period size: 87 Copynumber: 2.8 Consensus size: 86
12224571 TAAATTATCT
* * * * * *
12224581 AAAAATCA-ATTTTGACCCTCGAACTTCTCTAAAATTA-TATTTTTGCCCTCGAACATCCAAAAA
1 AAAAATCACATTTTTACCCCCAAACTTC-C-AAAATTACCA-TTTTGCCCCCAAACATCCAAAAA
* *
12224644 -TAGCATTTTTACCCT-AAATTTCTT
63 TTA-CATTTTTACCCTCAAACTTC-C
* * *
12224668 AAAAATTACATTTTTATCCCCAAACTTCCAAAATT-CACATTTTGCCCCCAAACTTCTCAAAAAT
1 AAAAATCACATTTTTACCCCCAAACTTCCAAAATTAC-CATTTTGCCCCCAAACATC-CAAAAAT
*
12224732 TACATTTTTGCCCTCAAACTTCC
64 TACATTTTTACCCTCAAACTTCC
* *
12224755 AAAAATCACATTTTTACCCCCAAATTTCCAAAATTACCATTTTG-CCCCGAACATCC-AAAATTA
1 AAAAATCACATTTTTACCCCCAAACTTCCAAAATTACCATTTTGCCCCCAAACATCCAAAAATTA
12224818 CCATTTT
66 -CATTTT
12224825 GCCCTTGGAC
Statistics
Matches: 132, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
84 7 0.05
85 7 0.05
86 29 0.22
87 65 0.49
88 24 0.18
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (86 bp):
AAAAATCACATTTTTACCCCCAAACTTCCAAAATTACCATTTTGCCCCCAAACATCCAAAAATTA
CATTTTTACCCTCAAACTTCC
Found at i:12224861 original size:84 final size:87
Alignment explanation
Indices: 12224621--12224881 Score: 234
Period size: 87 Copynumber: 3.0 Consensus size: 87
12224611 AAAATTATAT
* * * ** * *
12224621 TTTTGCCCTCGAACATC-CAAAAA-TAGCATTTTTACCCT-AAATTTCTTAAAAATTACATTTTT
1 TTTTGCCCCCAAACATCTCAAAAATTA-CATTTTTGCCCTCAAACATC-CAAAAATCACATTTTT
* *
12224683 ATCCCCAAACTTCCAAAATTCACA
64 ACCCCCAAATTTCCAAAATTCACA
* *
12224707 TTTTGCCCCCAAACTTCTCAAAAATTACATTTTTGCCCTCAAACTTCCAAAAATCACATTTTTAC
1 TTTTGCCCCCAAACATCTCAAAAATTACATTTTTGCCCTCAAACATCCAAAAATCACATTTTTAC
12224772 CCCCAAATTTCCAAAATT-ACCA
66 CCCCAAATTTCCAAAATTCA-CA
* *** * *
12224794 TTTTG-CCCCGAACATC-C-AAAATTACCA-TTTTGCCCTTGGACATCCAAAAGTTACCA-TTTT
1 TTTTGCCCCCAAACATCTCAAAAATTA-CATTTTTGCCCTCAAACATCCAAAAATCA-CATTTTT
* * *
12224854 GCTCCCAAATTTCCAAAAGTCACA
64 ACCCCCAAATTTCCAAAATTCACA
12224878 TTTT
1 TTTT
12224882 CGACCTTAAA
Statistics
Matches: 148, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
84 54 0.36
85 6 0.04
86 24 0.16
87 56 0.38
88 8 0.05
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.33
Consensus pattern (87 bp):
TTTTGCCCCCAAACATCTCAAAAATTACATTTTTGCCCTCAAACATCCAAAAATCACATTTTTAC
CCCCAAATTTCCAAAATTCACA
Found at i:12233120 original size:26 final size:26
Alignment explanation
Indices: 12233090--12233178 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
12233080 GTTGTTAAAT
12233090 TTTAATAAGATTATTATTAAATATAA
1 TTTAATAAGATTATTATTAAATATAA
* * * * *
12233116 TTTAATAAAAAATAATTTTTTAATCATAT
1 TTTAAT--AAGATTATTATTAAAT-ATAA
* *
12233145 TTTAACT-TGATTATTATTAAATACAA
1 TTTAA-TAAGATTATTATTAAATATAA
12233171 TTTAATAA
1 TTTAATAA
12233179 AATAGTATAT
Statistics
Matches: 45, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 1 0.02
26 13 0.29
27 10 0.22
28 12 0.27
29 8 0.18
30 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTAATAAGATTATTATTAAATATAA
Found at i:12236491 original size:11 final size:11
Alignment explanation
Indices: 12236475--12236507 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
12236465 AGTTCACAAA
12236475 ATTATTTTTCC
1 ATTATTTTTCC
*
12236486 ATTATTTTTCA
1 ATTATTTTTCC
12236497 ATTATTTTTCC
1 ATTATTTTTCC
12236508 CTCAATACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTTCC
Found at i:12239315 original size:56 final size:58
Alignment explanation
Indices: 12239182--12239332 Score: 168
Period size: 56 Copynumber: 2.6 Consensus size: 58
12239172 TATATTATGA
* * * *
12239182 TTTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGTTATTAAATTATATACT
1 TTTTTATTAAATT-ATA-TTTAATAATAATCATATTAAGAATATAATTAAATAATATACT
* *
12239241 ATTTTATTAAATTGTATTTAATAATAATCA-AGTTAA-AATATAATTAAAATAAT-TA-T
1 TTTTTATTAAATTATATTTAATAATAATCATA-TTAAGAATATAATT-AAATAATATACT
*
12239297 TTTTTATTAAATTATATTTAATAATAATCTTATTAA
1 TTTTTATTAAATTATATTTAATAATAATCATATTAA
12239333 AATTTAACAA
Statistics
Matches: 79, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
56 32 0.41
57 11 0.14
58 23 0.29
59 9 0.11
60 4 0.05
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (58 bp):
TTTTTATTAAATTATATTTAATAATAATCATATTAAGAATATAATTAAATAATATACT
Found at i:12239522 original size:16 final size:16
Alignment explanation
Indices: 12239510--12239568 Score: 91
Period size: 16 Copynumber: 3.7 Consensus size: 16
12239500 GATTACAACC
12239510 CTATTCCATTACAGCT
1 CTATTCCATTACAGCT
* **
12239526 GTATTATATTACAGCT
1 CTATTCCATTACAGCT
12239542 CTATTCCATTACAGCT
1 CTATTCCATTACAGCT
12239558 CTATTCCATTA
1 CTATTCCATTA
12239569 TAACGAACCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.41
Consensus pattern (16 bp):
CTATTCCATTACAGCT
Found at i:12239546 original size:32 final size:32
Alignment explanation
Indices: 12239501--12239562 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
12239491 TGAAATACTG
*
12239501 ATTACAACCCTATTCCATTACAGCTGTATTAT
1 ATTACAACCCTATTCCATTACAGCTCTATTAT
* *
12239533 ATTACAGCTCTATTCCATTACAGCTCTATT
1 ATTACAACCCTATTCCATTACAGCTCTATT
12239563 CCATTATAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.39
Consensus pattern (32 bp):
ATTACAACCCTATTCCATTACAGCTCTATTAT
Found at i:12239634 original size:11 final size:11
Alignment explanation
Indices: 12239618--12239650 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
12239608 AGTATTGAGG
12239618 GAAAAATAATT
1 GAAAAATAATT
*
12239629 GAAAAATAATG
1 GAAAAATAATT
12239640 GAAAAATAATT
1 GAAAAATAATT
12239651 TGTGAACTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (11 bp):
GAAAAATAATT
Found at i:12241341 original size:51 final size:50
Alignment explanation
Indices: 12241282--12241379 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 50
12241272 ATGCATGTCA
* * * *
12241282 AAGTCCACTTGAAACTTTATTTTATCTAGTCTCCAAAGAAAGTGAGTGGGC
1 AAGTCCACTTGAAACTTGAATATATCTAG-CTCCAAAGAAAATGAGTGGGC
*
12241333 AAGTCCACTTGAAACTTGAATATATCTAGCTCCGAAGAAAATGAGTG
1 AAGTCCACTTGAAACTTGAATATATCTAGCTCCAAAGAAAATGAGTG
12241380 CATTCAAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 16 0.38
51 26 0.62
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (50 bp):
AAGTCCACTTGAAACTTGAATATATCTAGCTCCAAAGAAAATGAGTGGGC
Found at i:12241629 original size:32 final size:32
Alignment explanation
Indices: 12241592--12241663 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
12241582 TATCTAAATT
*
12241592 TTTTTTTGTCCAATTTGGTAT-TCAAACTCGACA
1 TTTTTTTCT-CAATTTGGTATCT-AAACTCGACA
* *
12241625 TTTTTTTCTTAATTTGGTATCTAAACTTGACA
1 TTTTTTTCTCAATTTGGTATCTAAACTCGACA
12241657 TTTTTTT
1 TTTTTTT
12241664 TTAAATTGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 26 0.74
33 9 0.26
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.54
Consensus pattern (32 bp):
TTTTTTTCTCAATTTGGTATCTAAACTCGACA
Found at i:12241673 original size:31 final size:32
Alignment explanation
Indices: 12241606--12241683 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
12241596 TTTGTCCAAT
* *
12241606 TTGGTAT-TCAAACTCGACATTTTTTTCTTAAT
1 TTGGTATCT-AAACTTGACATTTTTTTCTTAAA
12241638 TTGGTATCTAAACTTGACATTTTTTT-TTAAA
1 TTGGTATCTAAACTTGACATTTTTTTCTTAAA
12241669 TTGGTA-CTTAAACTT
1 TTGGTATC-TAAACTT
12241684 TTTGAGGTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 1 0.02
31 17 0.40
32 23 0.55
33 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (32 bp):
TTGGTATCTAAACTTGACATTTTTTTCTTAAA
Found at i:12242068 original size:57 final size:58
Alignment explanation
Indices: 12241890--12242077 Score: 225
Period size: 57 Copynumber: 3.2 Consensus size: 58
12241880 ATAAATTTAA
* * *
12241890 GTACCAAATTGAATCTAAAAAAAAGCTTAGGTACCAAATTAGAAAAAAAAATGCCAAGTTCAG
1 GTACCAAATTGGATC--AAAAAAA-CTTAGGTACCAAATT--AAGAAAAAATGTCAAGTTCAG
* * * *
12241953 GTACCAAATTGGATTAAAAAAACTTTAGGTACCAAATTAGGAAAAAGTATCAAGTTCAG
1 GTACCAAATTGGATCAAAAAAAC-TTAGGTACCAAATTAAGAAAAAATGTCAAGTTCAG
* * *
12242012 GTACCAAATTGGGTCAAAAAAA-TTAGATACCAAATTAAGAAAAAATGTCAAATTCAG
1 GTACCAAATTGGATCAAAAAAACTTAGGTACCAAATTAAGAAAAAATGTCAAGTTCAG
12242069 GTACCAAAT
1 GTACCAAAT
12242078 ATTATATTAA
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
57 39 0.35
59 36 0.33
60 1 0.01
61 21 0.19
63 13 0.12
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (58 bp):
GTACCAAATTGGATCAAAAAAACTTAGGTACCAAATTAAGAAAAAATGTCAAGTTCAG
Found at i:12242075 original size:31 final size:30
Alignment explanation
Indices: 12241918--12242077 Score: 93
Period size: 31 Copynumber: 5.4 Consensus size: 30
12241908 AAAAAAGCTT
* * *
12241918 AGGTACCAAATTAGAAAAAAAAATGCCAAGTTC
1 AGGTACCAAATTAG--GAAAAAAT-TCAAATTC
* *
12241951 AGGTACCAAATT-GGATTAAAAA---AACTTT
1 AGGTACCAAATTAGGA--AAAAATTCAAATTC
* *
12241979 AGGTACCAAATTAGGAAAAAGTATCAAGTTC
1 AGGTACCAAATTAGGAAAAAAT-TCAAATTC
* **
12242010 AGGTACCAAATTGGGTCAAAA---AAATT-
1 AGGTACCAAATTAGGAAAAAATTCAAATTC
* *
12242036 AGATACCAAATTAAGAAAAAATGTCAAATTC
1 AGGTACCAAATTAGGAAAAAAT-TCAAATTC
12242067 AGGTACCAAAT
1 AGGTACCAAAT
12242078 ATTATATTAA
Statistics
Matches: 98, Mismatches: 17, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
26 16 0.16
27 8 0.08
28 16 0.16
29 3 0.03
30 6 0.06
31 31 0.32
32 6 0.06
33 12 0.12
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.23
Consensus pattern (30 bp):
AGGTACCAAATTAGGAAAAAATTCAAATTC
Found at i:12242920 original size:21 final size:22
Alignment explanation
Indices: 12242895--12242943 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
12242885 TAATCTTAAG
*
12242895 TTTAAATTTTAAA-TTATTT-AT
1 TTTAAA-TTTAAATTTATTTGAA
12242916 TTTAAATTTAAATTTATTTGAA
1 TTTAAATTTAAATTTATTTGAA
12242938 TTTAAA
1 TTTAAA
12242944 AAGAATGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 6 0.24
21 12 0.48
22 7 0.28
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTAAATTTAAATTTATTTGAA
Found at i:12242941 original size:16 final size:17
Alignment explanation
Indices: 12242910--12242943 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
12242900 ATTTTAAATT
12242910 ATTTATTTTAAATTTAA
1 ATTTATTTTAAATTTAA
*
12242927 ATTTA-TTTGAATTTAA
1 ATTTATTTTAAATTTAA
12242943 A
1 A
12242944 AAGAATGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTATTTTAAATTTAA
Found at i:12244575 original size:29 final size:28
Alignment explanation
Indices: 12244543--12244918 Score: 249
Period size: 29 Copynumber: 12.9 Consensus size: 28
12244533 GAATTTCTTA
*
12244543 AAAATCACATTTTGACCCTTAAACTTTCT
1 AAAATCACATTTTAACCC-TAAACTTTCT
* * *
12244572 AAAATCACATTTTAACCCCAAACTTCCCA
1 AAAATCACATTTTAACCCTAAACTT-TCT
* *
12244601 AAAATTACATTTTAACCCTTAAACTTTCC
1 AAAATCACATTTTAACCC-TAAACTTTCT
* * *
12244630 AAGAATCACATTTTAACCCTTAACTTCCCA
1 AA-AATCACATTTTAACCCTAAACTT-TCT
*
12244660 AAAATCATATTTTAACCCCTAAACCTTTCT
1 AAAATCACATTTTAA-CCCTAAA-CTTTCT
*
12244690 AAAATCACATTTTAACCTTAAAACTTTTCT
1 AAAATCACATTTTAACCCT-AAAC-TTTCT
* * *
12244720 AAAATCACATTTTGATCCC-CAACATTTCC
1 AAAATCACATTTT-AACCCTAAAC-TTTCT
** * * *
12244749 AAAATCGTATTTTCACTCTCAAACTTCTCC
1 AAAATCACATTTTAACCCT-AAACTT-TCT
*
12244779 AAAATCACATTTTGACCACTAAAC-TTCTT
1 AAAATCACATTTTAACC-CTAAACTTTC-T
* *
12244808 GAAATCACATTTTGACCCT-AA-TTTCT
1 AAAATCACATTTTAACCCTAAACTTTCT
* * * *
12244834 CCAAAAT-AGCCTTTTGACCCCAAACTTTCCC
1 --AAAATCA-CATTTTAACCCTAAACTTT-CT
* * *
12244865 AAAATTAAACTTTTACCCCTAAACTTTCT
1 AAAATCACA-TTTTAACCCTAAACTTTCT
* *
12244894 CAAAATTATATTTTAACCCTAAACT
1 -AAAATCACATTTTAACCCTAAACT
12244919 CTTCGAAACT
Statistics
Matches: 276, Mismatches: 47, Indels: 48
0.74 0.13 0.13
Matches are distributed among these distances:
26 1 0.00
27 6 0.02
28 26 0.09
29 119 0.43
30 115 0.42
31 9 0.03
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAATCACATTTTAACCCTAAACTTTCT
Found at i:12244661 original size:59 final size:58
Alignment explanation
Indices: 12244542--12244839 Score: 250
Period size: 59 Copynumber: 5.1 Consensus size: 58
12244532 TGAATTTCTT
* **
12244542 AAAAATCACATTTTGACCCTTAAACTTTCTAAAATCACATTTTAACCCCAAACTTCCC
1 AAAAATCACATTTTAACCCTTAAACTTTCTAAAATCACATTTTAACCCTTAACTTCCC
* *
12244600 AAAAATTACATTTTAACCCTTAAACTTTCCAAGAATCACATTTTAACCCTTAACTTCCC
1 AAAAATCACATTTTAACCCTTAAACTTTCTAA-AATCACATTTTAACCCTTAACTTCCC
* * **
12244659 AAAAATCATATTTTAACCCCTAAACCTTTCTAAAATCACATTTTAA-CCTTAAAACTTTTC
1 AAAAATCACATTTTAACCCTTAAA-CTTTCTAAAATCACATTTTAACCCTT--AACTTCCC
* * * * ** * * *
12244719 TAAAATCACATTTTGATCCC--CAACATTTCCAAAATCGTATTTTCACTCTCAAACTTCTCC
1 AAAAATCACATTTT-AACCCTTAAAC-TTTCTAAAATCACATTTTAACCCT-TAACTTC-CC
* * * *
12244779 -AAAATCACATTTTGACCAC-TAAAC-TTCTTGAAATCACATTTTGACCC-TAATTTCTCC
1 AAAAATCACATTTTAACC-CTTAAACTTTC-TAAAATCACATTTTAACCCTTAACTTC-CC
12244836 AAAA
1 AAAA
12244840 TAGCCTTTTG
Statistics
Matches: 193, Mismatches: 34, Indels: 26
0.76 0.13 0.10
Matches are distributed among these distances:
57 8 0.04
58 42 0.22
59 108 0.56
60 31 0.16
61 4 0.02
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (58 bp):
AAAAATCACATTTTAACCCTTAAACTTTCTAAAATCACATTTTAACCCTTAACTTCCC
Found at i:12246232 original size:14 final size:15
Alignment explanation
Indices: 12246213--12246245 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
12246203 TAATTAAAAC
12246213 TATTTTTAT-ATTAA
1 TATTTTTATAATTAA
12246227 TATTTTTATAATTAA
1 TATTTTTATAATTAA
12246242 -ATTT
1 TATTT
12246246 AAATAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTTTATAATTAA
Found at i:12251957 original size:34 final size:34
Alignment explanation
Indices: 12251914--12251985 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
12251904 TATAGAAAAA
*
12251914 AATTCATACATTATATATTTAAATGTTTTTTAAG
1 AATTCATACATTATATATTTAAATATTTTTTAAG
12251948 AATTCATACATTATATATTTAAATATTTTTTAAG
1 AATTCATACATTATATATTTAAATATTTTTTAAG
12251982 AATT
1 AATT
12251986 ATGTTCAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (34 bp):
AATTCATACATTATATATTTAAATATTTTTTAAG
Found at i:12253067 original size:14 final size:15
Alignment explanation
Indices: 12253049--12253090 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
12253039 ATCTGGCAAC
12253049 CAAAATATATGTGCA
1 CAAAATATATGTGCA
* *
12253064 -AAAAGATATATGCA
1 CAAAATATATGTGCA
12253078 CTAAAATATATGT
1 C-AAAATATATGT
12253091 TTAATGGGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
14 12 0.57
16 9 0.43
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (15 bp):
CAAAATATATGTGCA
Found at i:12254335 original size:26 final size:24
Alignment explanation
Indices: 12254290--12254337 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
12254280 GGGTTTTAAT
* *
12254290 AATTTTTTTTTCTTTTTCAAAAAC
1 AATTTTTTTTTATTTATCAAAAAC
12254314 AATTTTTATTTTGATTTATCAAAA
1 AATTTTT-TTTT-ATTTATCAAAA
12254338 GAGAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 4 0.20
26 9 0.45
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.56
Consensus pattern (24 bp):
AATTTTTTTTTATTTATCAAAAAC
Found at i:12254443 original size:2 final size:2
Alignment explanation
Indices: 12254438--12254493 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
12254428 ATAAAAAAAT
12254438 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12254480 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
12254494 AATGCAAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12254548 original size:18 final size:17
Alignment explanation
Indices: 12254515--12254583 Score: 63
Period size: 18 Copynumber: 4.0 Consensus size: 17
12254505 AATGAATTAT
12254515 AAAAATTATT-TAAATA
1 AAAAATTATTATAAATA
12254531 AAAAATATATTATAAATA
1 AAAAAT-TATTATAAATA
* *
12254549 TTCAAAA-TATT-TAAAAA
1 --AAAAATTATTATAAATA
12254566 TAAAAATTATTATAAATA
1 -AAAAATTATTATAAATA
12254584 TTATAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
16 11 0.26
17 13 0.30
18 15 0.35
20 4 0.09
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAATTATTATAAATA
Found at i:12254561 original size:35 final size:36
Alignment explanation
Indices: 12254516--12254594 Score: 108
Period size: 35 Copynumber: 2.2 Consensus size: 36
12254506 ATGAATTATA
*
12254516 AAAATTATTTAAATA-AAAAATATATTATAAATATT-C
1 AAAA-TATTTAAAAATAAAAAT-TATTATAAATATTAC
*
12254552 AAAATATTTAAAAATAAAAATTATTATAAATATTAT
1 AAAATATTTAAAAATAAAAATTATTATAAATATTAC
12254588 AAAATAT
1 AAAATAT
12254595 AGAAAAGAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
35 22 0.56
36 17 0.44
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (36 bp):
AAAATATTTAAAAATAAAAATTATTATAAATATTAC
Found at i:12254587 original size:9 final size:9
Alignment explanation
Indices: 12254537--12254590 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
12254527 AATAAAAAAT
12254537 ATATTATAA
1 ATATTATAA
12254546 ATATTCA-AA
1 ATATT-ATAA
12254555 ATATT-TAA
1 ATATTATAA
* *
12254563 A-AATAAAA
1 ATATTATAA
12254571 ATTATTATAA
1 A-TATTATAA
12254581 ATATTATAA
1 ATATTATAA
12254590 A
1 A
12254591 ATATAGAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
7 2 0.06
8 6 0.17
9 21 0.58
10 7 0.19
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (9 bp):
ATATTATAA
Found at i:12255323 original size:20 final size:19
Alignment explanation
Indices: 12255298--12255416 Score: 52
Period size: 20 Copynumber: 6.0 Consensus size: 19
12255288 AAAATCTAAT
12255298 TAAAATATTAATATATTATA
1 TAAAATATTAA-ATATTATA
*
12255318 TAAAATTTTGAAA-A--ATA
1 TAAAATATT-AAATATTATA
12255335 TAAAATATTATAAATATTAT-
1 TAAAATA-T-TAAATATTATA
* *
12255355 TAAAAATGGTTGAATATTATA
1 T-AAAAT-ATTAAATATTATA
*
12255376 -AAATACTATTAGTATATTATGA
1 TAAA-A-TATTA-AATATTAT-A
*
12255398 -AAAATATGAAAATATTATA
1 TAAAATAT-TAAATATTATA
12255417 ATAATTAGAA
Statistics
Matches: 76, Mismatches: 9, Indels: 29
0.67 0.08 0.25
Matches are distributed among these distances:
17 9 0.12
18 4 0.05
19 7 0.09
20 32 0.42
21 20 0.26
22 4 0.05
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (19 bp):
TAAAATATTAAATATTATA
Found at i:12255360 original size:29 final size:30
Alignment explanation
Indices: 12255299--12255360 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
12255289 AAATCTAATT
* *
12255299 AAAATATTAATATATTATATAAAATTTTGA
1 AAAATATTAAAATATTATATAAAATTTTAA
*
12255329 AAAATA-TAAAATATTATA-AATATTATTAA
1 AAAATATTAAAATATTATATAAAATT-TTAA
12255358 AAA
1 AAA
12255361 TGGTTGAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.18
29 17 0.61
30 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (30 bp):
AAAATATTAAAATATTATATAAAATTTTAA
Found at i:12255379 original size:39 final size:37
Alignment explanation
Indices: 12255298--12255380 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 37
12255288 AAAATCTAAT
* *
12255298 TAAAATATTAATATATTATATAAAATTTTGAAAAATA
1 TAAAATATTAAAATATTATATAAAATGTTGAAAAATA
* *
12255335 TAAAATATTATAAATATTAT-TAAAAATGGTTGAATATTA
1 TAAAATATTA-AAATATTATAT-AAAAT-GTTGAAAAATA
12255374 TAAAATA
1 TAAAATA
12255381 CTATTAGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
37 11 0.28
38 13 0.33
39 15 0.38
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (37 bp):
TAAAATATTAAAATATTATATAAAATGTTGAAAAATA
Found at i:12255565 original size:10 final size:10
Alignment explanation
Indices: 12255547--12255613 Score: 50
Period size: 10 Copynumber: 6.7 Consensus size: 10
12255537 AATTAAAGGC
*
12255547 TATAGAAAAT
1 TATAAAAAAT
12255557 TATAAAAAA-
1 TATAAAAAAT
*
12255566 TAT-TAAAAT
1 TATAAAAAAT
*
12255575 GATAAAAAAATT
1 TAT-AAAAAA-T
*
12255587 TATAAAAAGT
1 TATAAAAAAT
12255597 TATAAAAATAT
1 TATAAAAA-AT
12255608 TA-AAAA
1 TATAAAA
12255614 CCATAGAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
8 4 0.09
9 5 0.11
10 21 0.47
11 12 0.27
12 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (10 bp):
TATAAAAAAT
Found at i:12255579 original size:18 final size:18
Alignment explanation
Indices: 12255552--12255612 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
12255542 AAGGCTATAG
*
12255552 AAAATTATAAAAAATATT
1 AAAATGATAAAAAATATT
*
12255570 AAAATGATAAAAAAATTTAT
1 AAAATGAT-AAAAAATAT-T
* *
12255590 AAAAAGTTATAAAAATATT
1 AAAATGATA-AAAAATATT
12255609 AAAA
1 AAAA
12255613 ACCATAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.20
19 14 0.40
20 14 0.40
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
AAAATGATAAAAAATATT
Found at i:12255613 original size:30 final size:29
Alignment explanation
Indices: 12255552--12255613 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
12255542 AAGGCTATAG
*
12255552 AAAATTATAAAAAATATTAAAATGATAAA
1 AAAATTATAAAAAATATAAAAATGATAAA
* *
12255581 AAAATTTATAAAAAGTTATAAAAAT-ATTAA
1 AAAA-TTATAAAAA-ATATAAAAATGATAAA
12255611 AAA
1 AAA
12255614 CCATAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 4 0.14
30 16 0.57
31 8 0.29
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (29 bp):
AAAATTATAAAAAATATAAAAATGATAAA
Found at i:12260226 original size:5 final size:5
Alignment explanation
Indices: 12260216--12260247 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
12260206 TGAAATTGGA
12260216 GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GG
1 GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GG
12260248 GCACTTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (5 bp):
GGAAG
Found at i:12260489 original size:12 final size:12
Alignment explanation
Indices: 12260466--12260504 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
12260456 CATATTATAT
12260466 AAATTGATTAAAA
1 AAATT-ATTAAAA
12260479 AAATTATTAAAAA
1 AAATTATT-AAAA
*
12260492 AAATTATCAAAA
1 AAATTATTAAAA
12260504 A
1 A
12260505 TTAATTCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (12 bp):
AAATTATTAAAA
Found at i:12263904 original size:12 final size:12
Alignment explanation
Indices: 12263887--12263911 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12263877 AAACGTACCC
12263887 CCCTCTCTCTCT
1 CCCTCTCTCTCT
12263899 CCCTCTCTCTCT
1 CCCTCTCTCTCT
12263911 C
1 C
12263912 GCTATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (12 bp):
CCCTCTCTCTCT
Found at i:12268747 original size:112 final size:112
Alignment explanation
Indices: 12268605--12268828 Score: 367
Period size: 112 Copynumber: 2.0 Consensus size: 112
12268595 TAACCCAAAG
* * *
12268605 AAACTTAATGGAAAGAAGATATTGGAACCAAAGATATTGAATCTTTTGGTTAATGGGTTTTAAAG
1 AAACTTAACGGAAAGAAGATATTGAAACCAAAGATATTGAATCTTTTGGTTAATGGATTTTAAAG
*
12268670 ATTCAAGTTTTGAGACAGATTTGTAACTAAAGATATTGAAATAAAAA
66 ATTCAAGTTTTGAAACAGATTTGTAACTAAAGATATTGAAATAAAAA
* * *
12268717 AAACTTAACGGGAAGAAGATATTGAAACCAAATATATTGAATTTTTTGGTTAATGGATTTTAAAG
1 AAACTTAACGGAAAGAAGATATTGAAACCAAAGATATTGAATCTTTTGGTTAATGGATTTTAAAG
* *
12268782 ATTCAAGTTTTGAAACAGATTTGTAACTAAAGATATTGGAATTAAAA
66 ATTCAAGTTTTGAAACAGATTTGTAACTAAAGATATTGAAATAAAAA
12268829 GGGAAGAAGA
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
112 103 1.00
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (112 bp):
AAACTTAACGGAAAGAAGATATTGAAACCAAAGATATTGAATCTTTTGGTTAATGGATTTTAAAG
ATTCAAGTTTTGAAACAGATTTGTAACTAAAGATATTGAAATAAAAA
Found at i:12268862 original size:20 final size:20
Alignment explanation
Indices: 12268837--12268877 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12268827 AAGGGAAGAA
*
12268837 GAAGAAGATGGAGAACAGAG
1 GAAGAAGATGAAGAACAGAG
*
12268857 GAAGAAGATGAAGAAGAGAG
1 GAAGAAGATGAAGAACAGAG
12268877 G
1 G
12268878 TATGTGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.41, T:0.05
Consensus pattern (20 bp):
GAAGAAGATGAAGAACAGAG
Found at i:12274156 original size:3 final size:3
Alignment explanation
Indices: 12274150--12274182 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
12274140 GTTGTTGTTG
12274150 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12274183 GTTGAACTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:12287727 original size:28 final size:28
Alignment explanation
Indices: 12287671--12287797 Score: 145
Period size: 28 Copynumber: 4.6 Consensus size: 28
12287661 AGTAATGCTG
**
12287671 TTTCGAGCCA-AATACAGAA-TAATGCTC
1 TTTCGAGCCAGAATACA-AAGTAACACTC
* *
12287698 TTTCGAGCTAGAATA-AAGAGTAACATTC
1 TTTCGAGCCAGAATACAA-AGTAACACTC
12287726 TTTCGAGCCAGAATACAAAGTAACACTC
1 TTTCGAGCCAGAATACAAAGTAACACTC
*
12287754 TTTCGAGCCAGAATACAAAG-AACGCTC
1 TTTCGAGCCAGAATACAAAGTAACACTC
* *
12287781 TTTTGAGCCATAATACA
1 TTTCGAGCCAGAATACA
12287798 GAATATCGCT
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
26 1 0.01
27 32 0.37
28 52 0.60
29 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (28 bp):
TTTCGAGCCAGAATACAAAGTAACACTC
Found at i:12287730 original size:55 final size:55
Alignment explanation
Indices: 12287671--12287802 Score: 153
Period size: 55 Copynumber: 2.4 Consensus size: 55
12287661 AGTAATGCTG
** * *
12287671 TTTCGAGCCA-AATACAGAATAATGCTCTTTCGAGCTAGAATA-AAGAGTAACATTC
1 TTTCGAGCCAGAATACAGAATAACACTCTTTCGAGCCAGAATACAA-AG-AACACTC
*
12287726 TTTCGAGCCAGAATACA-AAGTAACACTCTTTCGAGCCAGAATACAAAGAACGCTC
1 TTTCGAGCCAGAATACAGAA-TAACACTCTTTCGAGCCAGAATACAAAGAACACTC
* *
12287781 TTTTGAGCCATAATACAGAATA
1 TTTCGAGCCAGAATACAGAATA
12287803 TCGCTCTAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
55 34 0.52
56 30 0.45
57 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (55 bp):
TTTCGAGCCAGAATACAGAATAACACTCTTTCGAGCCAGAATACAAAGAACACTC
Found at i:12290207 original size:56 final size:56
Alignment explanation
Indices: 12290097--12290249 Score: 204
Period size: 56 Copynumber: 2.8 Consensus size: 56
12290087 TCGCCAAACC
* * *
12290097 TAGAGTAATGCTCTTTCGAGCCAG-ATACAGAATAAAAG-TCTTTTGAGTCAGAATA
1 TAGAGTAATGCTCTTTCGAGCCAGAATACAGAAT-AACGCTCTTTCGAGCCAGAATA
* *
12290152 TAGAGTAATGCTCTTTCGAGCTAGAATACAGAGTAACGCTCTTTCGAGCCAGAATA
1 TAGAGTAATGCTCTTTCGAGCCAGAATACAGAATAACGCTCTTTCGAGCCAGAATA
* *
12290208 CAGAGTAACT-CTCTTTCGAGCCAGAATACAGAATATCGCTCT
1 TAGAGTAA-TGCTCTTTCGAGCCAGAATACAGAATAACGCTCT
12290250 AAAGCTTACC
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
55 26 0.30
56 59 0.69
57 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (56 bp):
TAGAGTAATGCTCTTTCGAGCCAGAATACAGAATAACGCTCTTTCGAGCCAGAATA
Found at i:12290249 original size:28 final size:28
Alignment explanation
Indices: 12290098--12290249 Score: 182
Period size: 28 Copynumber: 5.5 Consensus size: 28
12290088 CGCCAAACCT
*
12290098 AGAGTAATGCTCTTTCGAGCCAG-ATAC
1 AGAGTAACGCTCTTTCGAGCCAGAATAC
* * * * *
12290125 AGAATAAAAG-TCTTTTGAGTCAGAATAT
1 AGAGT-AACGCTCTTTCGAGCCAGAATAC
* *
12290153 AGAGTAATGCTCTTTCGAGCTAGAATAC
1 AGAGTAACGCTCTTTCGAGCCAGAATAC
12290181 AGAGTAACGCTCTTTCGAGCCAGAATAC
1 AGAGTAACGCTCTTTCGAGCCAGAATAC
*
12290209 AGAGTAACTCTCTTTCGAGCCAGAATAC
1 AGAGTAACGCTCTTTCGAGCCAGAATAC
* *
12290237 AGAATATCGCTCT
1 AGAGTAACGCTCT
12290250 AAAGCTTACC
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
27 18 0.17
28 87 0.83
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (28 bp):
AGAGTAACGCTCTTTCGAGCCAGAATAC
Found at i:12293011 original size:20 final size:20
Alignment explanation
Indices: 12292988--12293035 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
12292978 AATTTAGTCC
12292988 TTTATCTTTATGTT-TTATTA
1 TTTAT-TTTATGTTATTATTA
* *
12293008 TTTATTTTATTTTATTTTTA
1 TTTATTTTATGTTATTATTA
12293028 TTTATTTT
1 TTTATTTT
12293036 CCAGCTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTATTTTATGTTATTATTA
Found at i:12293022 original size:24 final size:25
Alignment explanation
Indices: 12292988--12293034 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
12292978 AATTTAGTCC
12292988 TTTATCTTTATGTTTTA-TTATTTAT
1 TTTATCTTTAT-TTTTATTTATTTAT
12293013 TTTAT-TTTATTTTTATTTATTT
1 TTTATCTTTATTTTTATTTATTT
12293035 TCCAGCTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTATCTTTATTTTTATTTATTTAT
Found at i:12293176 original size:3 final size:3
Alignment explanation
Indices: 12293168--12293203 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
12293158 CACTAGTGTC
*
12293168 ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12293204 TAATTATCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:12295328 original size:11 final size:11
Alignment explanation
Indices: 12295312--12295336 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12295302 TCATAGGCTG
12295312 TGCACAACTCT
1 TGCACAACTCT
12295323 TGCACAACTCT
1 TGCACAACTCT
12295334 TGC
1 TGC
12295337 TAGTTTGGTT
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:0.36, G:0.12, T:0.28
Consensus pattern (11 bp):
TGCACAACTCT
Found at i:12296698 original size:3 final size:3
Alignment explanation
Indices: 12296685--12296737 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
12296675 TTAAAAATAA
*
12296685 AAG AGG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
12296733 AAG AA
1 AAG AA
12296738 AAAGGGAGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:12305796 original size:108 final size:108
Alignment explanation
Indices: 12305596--12305809 Score: 249
Period size: 110 Copynumber: 2.0 Consensus size: 108
12305586 AAAACCAAGG
* * * *
12305596 CAATGTTTATTTATTTAGGGAACTCGAGAAATTGTGCCTTAACGTGTTGGGTATGATTTTTTTGT
1 CAATGTTTATTTATTTAAGGAACTCGAGAAATTGTACCTAAACGTATTGGGTATGATTTTTTTG-
* * *
12305661 TGACCTTAAATAATTAAATATTCTATTTAAAATCGATAAATATT
65 TAACCTTAAATAATCAAATATTCTATTTAAAATCAATAAATATT
*
12305705 CAATG-TTATTTTATTTTAAGGAACTCGAGAAATTGTA-CTCAAATGTATTGGGTATGATTTTTT
1 CAATGTTTA-TTTA-TTTAAGGAACTCGAGAAATTGTACCT-AAACGTATTGGGTATGATTTTTT
* *
12305768 TCG-AACC-TAAATAATCGAATA-TCTTATTTTAAATCAATAAAT
63 T-GTAACCTTAAATAATCAAATATTC-TATTTAAAATCAATAAAT
12305810 GTCCTTTGTC
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
107 2 0.02
108 31 0.34
109 14 0.16
110 42 0.47
111 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (108 bp):
CAATGTTTATTTATTTAAGGAACTCGAGAAATTGTACCTAAACGTATTGGGTATGATTTTTTTGT
AACCTTAAATAATCAAATATTCTATTTAAAATCAATAAATATT
Found at i:12310220 original size:112 final size:112
Alignment explanation
Indices: 12310020--12310221 Score: 307
Period size: 112 Copynumber: 1.8 Consensus size: 112
12310010 GGGTCATTTT
* *
12310020 TTAATCTTTTCATTCATGCAAGCTTTGCCTCTAATAAAATTCAAATTTATCCACCTTACAACCTT
1 TTAATCTTTTCATTCATGCAAGCTTTGCCTCCAATAAAACTCAAATTTATCCACCTTACAACCTT
**
12310085 GTTCAAGCATTTTTGCATCGAAATAACGGTTGGTGGACCAATGACTA
66 GAGCAAGCATTTTTGCATCGAAATAACGGTTGGTGGACCAATGACTA
* * * *
12310132 TTAATCTTTTCATTTATGCGAGCTTTGCCTCCAATGAAACTCAATTTTATCCACCTTACAATCC-
1 TTAATCTTTTCATTCATGCAAGCTTTGCCTCCAATAAAACTCAAATTTATCCACCTTACAA-CCT
*
12310196 TGAGCAAGCATTTTTGCATTGAAATA
65 TGAGCAAGCATTTTTGCATCGAAATA
12310222 GTAGTAAGTG
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
112 78 0.98
113 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (112 bp):
TTAATCTTTTCATTCATGCAAGCTTTGCCTCCAATAAAACTCAAATTTATCCACCTTACAACCTT
GAGCAAGCATTTTTGCATCGAAATAACGGTTGGTGGACCAATGACTA
Found at i:12310546 original size:3 final size:3
Alignment explanation
Indices: 12310538--12310585 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
12310528 TATATCCCAA
12310538 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12310585 A
1 A
12310586 GAATAGAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12311573 original size:17 final size:17
Alignment explanation
Indices: 12311551--12311585 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
12311541 GTAAGGCAAG
12311551 GAAAAAAGAAAGAAAAA
1 GAAAAAAGAAAGAAAAA
12311568 GAAAAAAGAAAGAAAAA
1 GAAAAAAGAAAGAAAAA
12311585 G
1 G
12311586 GTTTGGGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
GAAAAAAGAAAGAAAAA
Found at i:12312290 original size:47 final size:46
Alignment explanation
Indices: 12312220--12312533 Score: 202
Period size: 49 Copynumber: 6.5 Consensus size: 46
12312210 GAAGACATGA
* *
12312220 AGGGAAATATTGAAGCCACAACGAAATCTTGTACCTTAGAGATGTG
1 AGGGAAAGATTGAAGCCACAACGAAATCTTATACCTTAGAGATGTG
* * * *
12312266 ATGGGAAAGATGGAAGCAACAACGACAAATCTTATACCCTAAAGATGTGG
1 A-GGGAAAGATTGAAGCCACAACG--AAATCTTATACCTTAGAGATGT-G
* *
12312316 AGGGAAATG-TTGAAGCCGCAACGATGAACCTTATACCTTAGAGATGTG
1 AGGGAAA-GATTGAAGCCACAACGA--AATCTTATACCTTAGAGATGTG
* * * * * *
12312364 -GAGGAAAGGGTTAAAGCCGCAACGGTGAACCCTATACCTTAGAGATGTG
1 AG-GGAAA-GATTGAAGCCACAAC-G-AAATCTTATACCTTAGAGATGTG
* * * * *
12312413 ATAGGAAAGATTGAAGCCGCAATGGATAATCTTATACCCTAGATATGTGG
1 A-GGGAAAGATTGAAGCCACAA-CGA-AATCTTATACCTTAGAGATGT-G
** ** * * *
12312463 AGGGAAAGGCTGAAGCTGCAACGATGAATCTTGTACCCTAGAGTAT-AG
1 AGGGAAAGATTGAAGCCACAACGA--AATCTTATACCTTAGAG-ATGTG
*
12312511 AGGGAAAGGTTGAAGCCACAACG
1 AGGGAAAGATTGAAGCCACAACG
12312534 GATACCTCAA
Statistics
Matches: 213, Mismatches: 37, Indels: 34
0.75 0.13 0.12
Matches are distributed among these distances:
46 1 0.00
47 21 0.10
48 30 0.14
49 148 0.69
50 13 0.06
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (46 bp):
AGGGAAAGATTGAAGCCACAACGAAATCTTATACCTTAGAGATGTG
Found at i:12312400 original size:98 final size:95
Alignment explanation
Indices: 12312298--12312533 Score: 233
Period size: 98 Copynumber: 2.4 Consensus size: 95
12312288 CGACAAATCT
* *
12312298 TATACCCTAAAGATGTGGAGGGAAATGTTGAAGCCGCAACGATGAACCTTATACCTTAGAGATGT
1 TATACCCTAGAGATGT-GAGGGAAA-GTTGAAGCCGCAACGAT-AACCTTATACCCTAGAGATGT
* *
12312363 GGA-GGAAAGGGTTAAAGCCGCAACGGTGAACCC
63 GGAGGGAAA-GGCTAAAGCCGCAACGATGAACCC
* * * * *
12312396 TATACCTTAGAGATGTGATAGGAAAGATTGAAGCCGCAATGGATAATCTTATACCCTAGATATGT
1 TATACCCTAGAGATGTGA-GGGAAAG-TTGAAGCCGCAA-CGATAACCTTATACCCTAGAGATGT
* * * *
12312461 GGAGGGAAAGGCTGAAGCTGCAACGATGAATCT
63 GGAGGGAAAGGCTAAAGCCGCAACGATGAACCC
* * *
12312494 TGTACCCTAGAGTAT-AGAGGGAAAGGTTGAAGCCACAACG
1 TATACCCTAGAG-ATGTGAGGGAAA-GTTGAAGCCGCAACG
12312534 GATACCTCAA
Statistics
Matches: 113, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
96 1 0.01
97 19 0.17
98 83 0.73
99 10 0.09
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (95 bp):
TATACCCTAGAGATGTGAGGGAAAGTTGAAGCCGCAACGATAACCTTATACCCTAGAGATGTGGA
GGGAAAGGCTAAAGCCGCAACGATGAACCC
Found at i:12312518 original size:147 final size:146
Alignment explanation
Indices: 12312251--12312534 Score: 365
Period size: 147 Copynumber: 1.9 Consensus size: 146
12312241 CGAAATCTTG
*
12312251 TACCTTAGAGATGTGATGGGAAAGATGGAAGCAACAACGACAAATCTTATACCCTAAAGATGTGG
1 TACCTTAGAGATGTGATAGGAAAGATGGAAGCAACAACGACAAATCTTATACCCTAAAGATGTGG
* * * * *
12312316 AGGGAAATGTTGAAGCCGCAACGATGAACCTTATACCTTAGAGATGTGGAGGAAAGGGTTAAAGC
66 AGGGAAAGGCTGAAGCCGCAACGATGAACCTTATACCCTAGAGATATAGAGGAAA-GGTTAAAGC
*
12312381 CGCAACGGTGAACCCTA
130 CACAACGGTGAACCCTA
* ** * * * *
12312398 TACCTTAGAGATGTGATAGGAAAGATTGAAGCCGCAATGGA-TAATCTTATACCCTAGATATGTG
1 TACCTTAGAGATGTGATAGGAAAGATGGAAGCAACAA-CGACAAATCTTATACCCTAAAGATGTG
* * * *
12312462 GAGGGAAAGGCTGAAGCTGCAACGATGAATCTTGTACCCTAGAG-TATAGAGGGAAAGGTTGAAG
65 GAGGGAAAGGCTGAAGCCGCAACGATGAACCTTATACCCTAGAGATATAGA-GGAAAGGTTAAAG
12312526 CCACAACGG
129 CCACAACGG
12312535 ATACCTCAAA
Statistics
Matches: 117, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
146 19 0.16
147 96 0.82
148 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (146 bp):
TACCTTAGAGATGTGATAGGAAAGATGGAAGCAACAACGACAAATCTTATACCCTAAAGATGTGG
AGGGAAAGGCTGAAGCCGCAACGATGAACCTTATACCCTAGAGATATAGAGGAAAGGTTAAAGCC
ACAACGGTGAACCCTA
Found at i:12313074 original size:45 final size:45
Alignment explanation
Indices: 12312989--12313112 Score: 146
Period size: 45 Copynumber: 2.8 Consensus size: 45
12312979 AGTTACATCA
* * * * *
12312989 ACCATCCAATC-TTTA-CCTTAAGTCAATAGAGGCAGATTGAAGCC
1 ACCATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAAATTGAAACC
12313033 ACCATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAACC
1 ACCATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAACC
* *
12313078 ACCATCTAA-CATTTTACCCCTAATTAAGAGGGGCA
1 ACCATCCAATC-TTTTACCCCTAATCAAGAGGGGCA
12313113 GAAAGAAGCT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
44 12 0.17
45 53 0.76
46 5 0.07
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (45 bp):
ACCATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAACC
Found at i:12313127 original size:45 final size:45
Alignment explanation
Indices: 12312989--12313127 Score: 133
Period size: 45 Copynumber: 3.1 Consensus size: 45
12312979 AGTTACATCA
* * * * *
12312989 ACCATCCAATC-TTTA-CCTTAAGTCAATAGAGGCAGATTGAAGCC
1 ACCATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAAATAGAAGCC
* *
12313033 ACCATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAACC
1 ACCATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATAGAAGCC
* * *
12313078 ACCATCTAA-CATTTTACCCCTAATTAAGAGGGGCAGAA-AGAAGCT
1 ACCATCCAATC-TTTTACCCCTAATCAAGAGGGGCA-AATAGAAGCC
12313123 ACCAT
1 ACCAT
12313128 ATCACAGAAG
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
44 12 0.15
45 62 0.77
46 7 0.09
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (45 bp):
ACCATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATAGAAGCC
Found at i:12314939 original size:26 final size:25
Alignment explanation
Indices: 12314879--12314939 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
12314869 TTTACTTTCA
* *
12314879 ATTTAATCATTTATCTTATTTATTT
1 ATTTATTCATTTATCGTATTTATTT
* *
12314904 ATTTTTTTCATTTATACGTCTTTATTT
1 A-TTTATTCATTTAT-CGTATTTATTT
12314931 ATTTATTCA
1 ATTTATTCA
12314940 ACCAGATGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.03
26 18 0.62
27 10 0.34
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.64
Consensus pattern (25 bp):
ATTTATTCATTTATCGTATTTATTT
Found at i:12319666 original size:25 final size:25
Alignment explanation
Indices: 12319632--12319682 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
12319622 GTCTAGGGTT
12319632 AGGATTACAAATTGAGCACCTAAAG
1 AGGATTACAAATTGAGCACCTAAAG
12319657 AGGATTACAAATTGAGCACCTAAAG
1 AGGATTACAAATTGAGCACCTAAAG
12319682 A
1 A
12319683 ATGAAATCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.20
Consensus pattern (25 bp):
AGGATTACAAATTGAGCACCTAAAG
Found at i:12320491 original size:17 final size:17
Alignment explanation
Indices: 12320455--12320497 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
12320445 TCTCCCATGA
* * *
12320455 TCTTTAACCTTTTATCT
1 TCTTTAACATTTCATAT
12320472 TCTTTAACATTTCATAT
1 TCTTTAACATTTCATAT
12320489 TCTTGTAAC
1 TCTT-TAAC
12320498 TACTTTTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.23, C:0.21, G:0.02, T:0.53
Consensus pattern (17 bp):
TCTTTAACATTTCATAT
Found at i:12320751 original size:15 final size:16
Alignment explanation
Indices: 12320731--12320764 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
12320721 TTATGTTGTC
12320731 ATTTTATTT-TCTATT
1 ATTTTATTTATCTATT
*
12320746 ATTTTATTTATTTATT
1 ATTTTATTTATCTATT
12320762 ATT
1 ATT
12320765 AATTATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTATTTATCTATT
Found at i:12320764 original size:19 final size:20
Alignment explanation
Indices: 12320733--12320775 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
12320723 ATGTTGTCAT
*
12320733 TTTATTTTCTATT-ATTTTA
1 TTTATTTTCTATTAATTATA
12320752 TTTATTTAT-TATTAATTATA
1 TTTATTT-TCTATTAATTATA
12320772 TTTA
1 TTTA
12320776 ATTGCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTATTTTCTATTAATTATA
Found at i:12322105 original size:3 final size:3
Alignment explanation
Indices: 12322097--12322155 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
12322087 GAGCTTTAGG
12322097 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12322145 ATT ATT ATT AT
1 ATT ATT ATT AT
12322156 CATTTATTGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:12324137 original size:6 final size:6
Alignment explanation
Indices: 12324097--12324144 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
12324087 AATTTAGTCC
*
12324097 TTTACT TTTATGT TTTATT ATTTA-T TTTA-T TTTATT TTTATT TTTATT
1 TTTATT TTTAT-T TTTATT -TTTATT TTTATT TTTATT TTTATT TTTATT
12324145 GATTTTCCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
5 9 0.24
6 19 0.50
7 10 0.26
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:12324144 original size:17 final size:17
Alignment explanation
Indices: 12324109--12324140 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
12324099 TACTTTTATG
12324109 TTTTATTATTTATTTTA
1 TTTTATTATTTATTTTA
12324126 TTTTATT-TTTATTTT
1 TTTTATTATTTATTTT
12324141 TATTGATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTATTATTTATTTTA
Found at i:12324305 original size:3 final size:3
Alignment explanation
Indices: 12324290--12324407 Score: 93
Period size: 3 Copynumber: 39.7 Consensus size: 3
12324280 CACTAGTGTC
* * * * * *
12324290 ATT ATT ATC ATT ATT ATT ATT AAT GTT ATC ATC ATT ATT AAT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
12324337 -TT ATT -TT ATTT ATGCT ACTA ATT -GT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT AT--T A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12324383 ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
12324408 CCATGCATTT
Statistics
Matches: 92, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
2 8 0.09
3 77 0.84
4 4 0.04
5 2 0.02
6 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:12324708 original size:21 final size:22
Alignment explanation
Indices: 12324670--12324712 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
12324660 CAACAAATGA
* *
12324670 TTTTAAAATTAATTAAATTATT
1 TTTTAAAAATAATAAAATTATT
12324692 TTTTAAAAAT-ATAAAATTATT
1 TTTTAAAAATAATAAAATTATT
12324713 AAAATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAAAATAATAAAATTATT
Found at i:12324737 original size:12 final size:11
Alignment explanation
Indices: 12324703--12324740 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
12324693 TTTAAAAATA
12324703 TAAAATTA--T
1 TAAAATTATTT
12324712 TAAAATTATTT
1 TAAAATTATTT
12324723 TAAAATTATTTT
1 TAAAATTA-TTT
12324735 TAAAAT
1 TAAAAT
12324741 ATAAAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 8 0.31
11 9 0.35
12 9 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:12324740 original size:39 final size:39
Alignment explanation
Indices: 12324672--12324751 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 39
12324662 ACAAATGATT
12324672 TTAAAATTAATTAAATTATTTTTTAAAAATATAAAATTA
1 TTAAAATTAATTAAATTATTTTTTAAAAATATAAAATTA
*
12324711 TTAAAATTATTTTAAAATTA-TTTTT-AAAATATAAAATTA
1 TTAAAATTA-ATT-AAATTATTTTTTAAAAATATAAAATTA
12324750 TT
1 TT
12324752 TATGGGTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
39 25 0.66
40 7 0.18
41 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (39 bp):
TTAAAATTAATTAAATTATTTTTTAAAAATATAAAATTA
Found at i:12325332 original size:34 final size:31
Alignment explanation
Indices: 12325294--12325353 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
12325284 GATGATGAGA
12325294 AGAAGAAGTGGTGTTAGATGAAAAAATGGTG
1 AGAAGAAGTGGTGTTAGATGAAAAAATGGTG
*
12325325 AGAAGAAGTGGTGTTAGATGGAAAAATGG
1 AGAAGAAGTGGTGTTAGATGAAAAAATGG
12325354 GGGAAAAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.22
Consensus pattern (31 bp):
AGAAGAAGTGGTGTTAGATGAAAAAATGGTG
Found at i:12325458 original size:11 final size:11
Alignment explanation
Indices: 12325440--12325503 Score: 76
Period size: 11 Copynumber: 5.7 Consensus size: 11
12325430 TAATTTTATA
12325440 TTTAAAAATTAT
1 TTTAAAAA-TAT
*
12325452 TTTAAAAAAAT
1 TTTAAAAATAT
12325463 TTTAAAAATAT
1 TTTAAAAATAT
* *
12325474 TTAAAAAAAAT
1 TTTAAAAATAT
12325485 TTTAAAAA-ATT
1 TTTAAAAATA-T
12325496 TTTAAAAA
1 TTTAAAAA
12325504 ACCTTAAGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
10 1 0.02
11 37 0.80
12 8 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TTTAAAAATAT
Found at i:12325479 original size:33 final size:33
Alignment explanation
Indices: 12325437--12325503 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
12325427 TAATAATTTT
**
12325437 ATATTTAAAAATTATTTTAAAAAAATTTTAAAA
1 ATATTTAAAAAAAATTTTAAAAAAATTTTAAAA
*
12325470 ATATTTAAAAAAAATTTTAAAAAATTTTTAAAA
1 ATATTTAAAAAAAATTTTAAAAAAATTTTAAAA
12325503 A
1 A
12325504 ACCTTAAGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (33 bp):
ATATTTAAAAAAAATTTTAAAAAAATTTTAAAA
Found at i:12333167 original size:12 final size:12
Alignment explanation
Indices: 12333150--12333199 Score: 66
Period size: 12 Copynumber: 4.0 Consensus size: 12
12333140 TATAAGTTTG
12333150 AAAAATAAAATA
1 AAAAATAAAATA
12333162 AAAAATAACAAT-
1 AAAAATAA-AATA
12333174 AAAAATAAAAGTA
1 AAAAATAAAA-TA
12333187 CAAAAATAAAATA
1 -AAAAATAAAATA
12333200 TATATAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.06
12 17 0.50
13 5 0.15
14 10 0.29
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:12333207 original size:25 final size:24
Alignment explanation
Indices: 12333150--12333199 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 24
12333140 TATAAGTTTG
12333150 AAAAATAAAATAAAAAATAACAAT
1 AAAAATAAAATAAAAAATAACAAT
12333174 AAAAATAAAAGTACAAAAATAA-AAT
1 AAAAATAAAA-TA-AAAAATAACAAT
12333199 A
1 A
12333200 TATATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 10 0.42
25 6 0.25
26 8 0.33
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (24 bp):
AAAAATAAAATAAAAAATAACAAT
Found at i:12337636 original size:18 final size:18
Alignment explanation
Indices: 12337596--12337638 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
12337586 TTTTCAGTTG
12337596 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
12337614 CAATTAA-TTAAATTTATT
1 TAATTAATTTAAAATT-TT
12337632 TAATTAA
1 TAATTAA
12337639 AAACTTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:12339862 original size:117 final size:115
Alignment explanation
Indices: 12339682--12340021 Score: 366
Period size: 117 Copynumber: 2.9 Consensus size: 115
12339672 ACCCGAGGGC
* * * **
12339682 AAAATAGTAATTTTGG--ACTTTCAGGGGCAAAATGGTTATTTTTGGTAAAATCAGGGTTTAAAA
1 AAAATAG-AATTTTGGAAAGTTT-AGGGGAAAAAT-GTAATTTTTGGTAAAATCAGGGTCAAAAA
*
12339745 TGGAATTTTAGAAAGTTC-GAGGGTAAAATGGTAATTTTGGAAAAATTGAGGTCA
63 TGGAATTTT-GAAAGTTCAG-GGGTAAAATGGTAATTTTGGAAAAATCGAGGTCA
* *
12339799 AAAATAGAATTTTGGAAAGTTTAGGGGTAAAATGATAATTTTGGGTAAAATC-GAGGTCAAAAAT
1 AAAATAGAATTTTGGAAAGTTTAGGGGAAAAATG-TAATTTTTGGTAAAATCAG-GGTCAAAAAT
* * ** *
12339863 GGAGTTTTGAAAAGTTTAGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTCA
64 GGAATTTTG-AAAGTTCAGGGGTAAAATGGTAATTTTGGAAAAATCGAGGTCA
* * * * * *
12339916 AAAATGGAATTTTGGAAAGTTCGAGAGCAAAAATGTAATTTTTGGTGAAATTAGGGTCAAAAATG
1 AAAATAGAATTTTGGAAAGTT-TAGGGGAAAAATGTAATTTTTGGTAAAATCAGGGTCAAAAATG
12339981 GAATTTTGGAAAGTTCAGGGGTAAAAAT-GTAATTTTAGGAA
65 GAATTTT-GAAAGTTCAGGGGT-AAAATGGTAATTTT-GGAA
12340022 GTTTTTGGGT
Statistics
Matches: 188, Mismatches: 24, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
116 11 0.06
117 154 0.82
118 23 0.12
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.31
Consensus pattern (115 bp):
AAAATAGAATTTTGGAAAGTTTAGGGGAAAAATGTAATTTTTGGTAAAATCAGGGTCAAAAATGG
AATTTTGAAAGTTCAGGGGTAAAATGGTAATTTTGGAAAAATCGAGGTCA
Found at i:12339920 original size:30 final size:29
Alignment explanation
Indices: 12339886--12339989 Score: 106
Period size: 29 Copynumber: 3.5 Consensus size: 29
12339876 GTTTAGGGGT
12339886 AAAATGGTAATTTTGGTGAAATCGGGGTCA
1 AAAATGG-AATTTTGGTGAAATCGGGGTCA
*
12339916 AAAATGGAATTTT-G-GAAAGTTCGAGAG-CA
1 AAAATGGAATTTTGGTGAAA--TCG-GGGTCA
* **
12339945 AAAATGTAATTTTTGGTGAAATTAGGGTCA
1 AAAATGGAA-TTTTGGTGAAATCGGGGTCA
12339975 AAAATGGAATTTTGG
1 AAAATGGAATTTTGG
12339990 AAAGTTCAGG
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
27 4 0.07
28 1 0.02
29 27 0.44
30 24 0.39
31 1 0.02
32 4 0.07
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.31
Consensus pattern (29 bp):
AAAATGGAATTTTGGTGAAATCGGGGTCA
Found at i:12340007 original size:59 final size:59
Alignment explanation
Indices: 12339701--12340016 Score: 340
Period size: 59 Copynumber: 5.4 Consensus size: 59
12339691 ATTTTGGACT
* * * ** *
12339701 TTCAGGGGCAAAATGGTTATTTTTGGTAAAATCAGGGTTTAAAATGGAATTTTAGAAAG
1 TTCAGGGGTAAAATGGTAATTTTTGGTAAAATTAGGGTCAAAAATGGAATTTTGGAAAG
* *
12339760 TTC-GAGGGTAAAATGGTAA-TTTTGGAAAAATT-GAGGTCAAAAATAGAATTTTGGAAAG
1 TTCAG-GGGTAAAATGGTAATTTTTGGTAAAATTAG-GGTCAAAAATGGAATTTTGGAAAG
* * * * * *
12339818 TTTAGGGGTAAAATGATAATTTTGGGTAAAA-TCGAGGTCAAAAATGGAGTTTTGAAAAG
1 TTCAGGGGTAAAATGGTAATTTTTGGTAAAATTAG-GGTCAAAAATGGAATTTTGGAAAG
* * **
12339877 TTTAGGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAG
1 TTCAGGGGTAAAATGGTAATTTTTGGTAAAATTAGGGTCAAAAATGGAATTTTGGAAAG
* ** *
12339935 TTCGAGAGCAAAAAT-GTAATTTTTGGTGAAATTAGGGTCAAAAATGGAATTTTGGAAAG
1 TTC-AGGGGTAAAATGGTAATTTTTGGTAAAATTAGGGTCAAAAATGGAATTTTGGAAAG
12339994 TTCAGGGGTAAAAAT-GTAATTTT
1 TTCAGGGGT-AAAATGGTAATTTT
12340017 AGGAAGTTTT
Statistics
Matches: 217, Mismatches: 31, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
57 1 0.00
58 88 0.41
59 128 0.59
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.32
Consensus pattern (59 bp):
TTCAGGGGTAAAATGGTAATTTTTGGTAAAATTAGGGTCAAAAATGGAATTTTGGAAAG
Found at i:12340023 original size:29 final size:28
Alignment explanation
Indices: 12339798--12340045 Score: 100
Period size: 29 Copynumber: 8.5 Consensus size: 28
12339788 AATTGAGGTC
*
12339798 AAAAATAG-AATTTTGGAAAGTTTAGGGGT
1 AAAAAT-GTAATTTTGG-AAGTTCAGGGGT
** *
12339827 -AAAATGATAATTTTGGGTAAAATC-GAGGT
1 AAAAATG-TAATTTT-GG-AAGTTCAGGGGT
* * * *
12339856 CAAAAATGGAGTTTTGAAAAGTTTAGGGGT
1 -AAAAATGTAATTTTG-GAAGTTCAGGGGT
*
12339886 -AAAATGGTAATTTTGGTGAA-ATC-GGGGT
1 AAAAAT-GTAATTTT-G-GAAGTTCAGGGGT
* * *
12339914 CAAAAATGGAATTTTGGAAAGTTC-GAGAGC
1 -AAAAATGTAATTTTGG-AAGTTCAG-GGGT
*
12339944 AAAAATGTAATTTTTGGTGAAATT-A-GGGT
1 AAAAATGTAA-TTTT-G-GAAGTTCAGGGGT
*
12339973 CAAAAATGGAATTTTGGAAAGTTCAGGGGT
1 -AAAAATGTAATTTTGG-AAGTTCAGGGGT
***
12340003 AAAAATGTAATTTTAGGAAGTTTTTGGGT
1 AAAAATGTAATTTT-GGAAGTTCAGGGGT
*
12340032 CAAAATGTAATTTT
1 AAAAATGTAATTTT
12340046 TGGATAATTT
Statistics
Matches: 163, Mismatches: 33, Indels: 46
0.67 0.14 0.19
Matches are distributed among these distances:
27 3 0.02
28 23 0.14
29 82 0.50
30 43 0.26
31 11 0.07
32 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (28 bp):
AAAAATGTAATTTTGGAAGTTCAGGGGT
Found at i:12341993 original size:6 final size:6
Alignment explanation
Indices: 12341982--12342040 Score: 59
Period size: 6 Copynumber: 9.8 Consensus size: 6
12341972 TTAAATTTGA
* *
12341982 TTAAAT TTAAAT TTAAA- GTAAAT TTAAAT AGGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
12342030 ATAAAT TTAAA
1 TTAAAT TTAAA
12342041 CTCTTAATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 8 0.19
6 30 0.70
8 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:12342005 original size:17 final size:17
Alignment explanation
Indices: 12341983--12342040 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 17
12341973 TAAATTTGAT
12341983 TAAATTTAAATTTAAAG
1 TAAATTTAAATTTAAAG
*
12342000 TAAATTTAAA--T-AGG
1 TAAATTTAAATTTAAAG
*
12342014 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAG
12342031 TAAATTTAAA
1 TAAATTTAAA
12342041 CTCTTAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 12 0.34
15 1 0.03
16 1 0.03
17 21 0.60
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTTAAAG
Found at i:12342609 original size:120 final size:120
Alignment explanation
Indices: 12342396--12342620 Score: 362
Period size: 120 Copynumber: 1.9 Consensus size: 120
12342386 ATTTCGTTGA
* *
12342396 CTTCGACCTGCTTCTCAGTGACTCATTAGGAAGCTGGGTTCGAAGATTTGCTCGCATTTGAGCAT
1 CTTCGACCTGCTTCTCAGTGACTCATCAAGAAGCTGGGTTCGAAGATTTGCTCGCATTTGAGCAT
* *
12342461 TGGTTTGGTTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGCTAACCATTTTATTG
66 GGGTTTGATTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGCTAACCATTTTATTG
* * *
12342516 CTTCGACCTGCTTCTTAGTGTCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGCA-TTGAGCC
1 CTTCGACCTGCTTCTCAGTGACTCATCAAGAAGCT-GGGTTCGAAGATTTGCTCGCATTTGAGCA
*
12342580 TGGGTTTGATTTGGTCTTCTTCTTAGTGTCTCATCAGGAAG
65 TGGGTTTGATTTGGTCTTCTTCTCAGTGTCTCATCAGGAAG
12342621 ATGACCACAT
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
120 75 0.78
121 21 0.22
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (120 bp):
CTTCGACCTGCTTCTCAGTGACTCATCAAGAAGCTGGGTTCGAAGATTTGCTCGCATTTGAGCAT
GGGTTTGATTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGCTAACCATTTTATTG
Found at i:12342822 original size:205 final size:206
Alignment explanation
Indices: 12342469--12342918 Score: 776
Period size: 205 Copynumber: 2.2 Consensus size: 206
12342459 ATTGGTTTGG
** *
12342469 TTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTTAG
1 TTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAG
*
12342534 TGTCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAGCCTGGGTTTGATTTGGTCTTC
66 TGTCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGCATTAAGCCTGGGTTTGATTTGGTCTTC
*
12342599 TTCTTAGTGTCTCATCAGGAAGATGACCACATCACTTGTTTTAATTCGCTTCTCTGGATCTCCTC
131 TTCTCAGTGTCTCATCAGGAAGATGACCACATCACTTGTTTTAATTCGCTTCTCTGGATCTCCTC
*
12342664 AAGAAGATGAA
196 AAGAAGACGAA
12342675 TTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCA-TTTATTGCTTCGACCTGCTTCTCAG
1 TTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAG
* *
12342739 TGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTAAGCTTGGGTTTGATTTGGTCTTC
66 TGTCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGCATTAAGCCTGGGTTTGATTTGGTCTTC
* * *
12342804 TTCTCAGTGTCTCATCAGGAGGATGACCACATCACTTGTTTTAATTCGCTTCTTTGGATCTCCTT
131 TTCTCAGTGTCTCATCAGGAAGATGACCACATCACTTGTTTTAATTCGCTTCTCTGGATCTCCTC
*
12342869 AGGAAGACGAA
196 AAGAAGACGAA
*
12342880 TTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTGACCA
1 TTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCA
12342919 CATCACTTGT
Statistics
Matches: 231, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
205 194 0.84
206 37 0.16
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (206 bp):
TTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAG
TGTCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGCATTAAGCCTGGGTTTGATTTGGTCTTC
TTCTCAGTGTCTCATCAGGAAGATGACCACATCACTTGTTTTAATTCGCTTCTCTGGATCTCCTC
AAGAAGACGAA
Found at i:12342998 original size:86 final size:86
Alignment explanation
Indices: 12342793--12343004 Score: 343
Period size: 86 Copynumber: 2.5 Consensus size: 86
12342783 CTTGGGTTTG
** * * *
12342793 ATTTGGTCTTCTTCTCAGTGTCTCATCAGGAGGATGACCACATCACTTGTTTTAATTCGCTTCTT
1 ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTGACCACATCACTTGTTTTAATTCGCTTCTC
* *
12342858 TGGATCTCCTTAGGAAGACGA
66 TGGATCTCCTCAAGAAGACGA
12342879 ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTGACCACATCACTTGTTTTAATTCGCTTCTC
1 ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTGACCACATCACTTGTTTTAATTCGCTTCTC
*
12342944 TGGATCTCCTCAAGAAGATGA
66 TGGATCTCCTCAAGAAGACGA
*
12342965 ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCA
1 ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTGACCA
12343005 TTTTATTGCT
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 117 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (86 bp):
ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTGACCACATCACTTGTTTTAATTCGCTTCTC
TGGATCTCCTCAAGAAGACGA
Found at i:12343134 original size:292 final size:291
Alignment explanation
Indices: 12342588--12343210 Score: 1093
Period size: 292 Copynumber: 2.1 Consensus size: 291
12342578 CCTGGGTTTG
** * *
12342588 ATTTGGTCTTCTTCTTAGTGTCTCATCAGGAAGATGACCACATCACTTGTTTTAATTCGCTTCTC
1 ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTGACCACATCACTTGTTTTAATTCGCTTCTC
12342653 TGGATCTCCTCAAGAAGATGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTA
66 TGGATCTCCTCAAGAAGATGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTA
*
12342718 TTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTAAG
131 TTGCTTCGACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGCATTAAG
* *
12342783 CTTGGGTTTGATTTGGTCTTCTTCTCAGTGTCTCATCAGGAGGATGACCACATCACTTGTTTTAA
196 CCTGGGTTTGATTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCACATCACTTGTTTTAA
* * * *
12342848 TTCGCTTCTTTGGATCTCCTTAGGAAGACGA
261 TTCGCTTCTCTAGATCTCCTCAAGAAGACGA
12342879 ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTGACCACATCACTTGTTTTAATTCGCTTCTC
1 ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTGACCACATCACTTGTTTTAATTCGCTTCTC
12342944 TGGATCTCCTCAAGAAGATGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTT
66 TGGATCTCCTCAAGAAGATGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCA-TTT
* *
12343009 ATTGCTTCGACCTGCTTCTTAGTGTCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGCATTGA
130 ATTGCTTCGACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGCATTAA
*
12343074 GCCTGGGTTTGATTTGGTCTTCTTCTTAGTGTCTCATCAGGAAGATGACCACATCACTTGTTTTA
195 GCCTGGGTTTGATTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCACATCACTTGTTTTA
*
12343139 ATTCGCTTCTCTAGATCTCCTCAAGAAGATGA
260 ATTCGCTTCTCTAGATCTCCTCAAGAAGACGA
*
12343171 ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCA
1 ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTGACCA
12343211 TTTATTGCTT
Statistics
Matches: 315, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
291 122 0.39
292 193 0.61
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (291 bp):
ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTGACCACATCACTTGTTTTAATTCGCTTCTC
TGGATCTCCTCAAGAAGATGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTA
TTGCTTCGACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGCATTAAG
CCTGGGTTTGATTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCACATCACTTGTTTTAA
TTCGCTTCTCTAGATCTCCTCAAGAAGACGA
Found at i:12343708 original size:49 final size:49
Alignment explanation
Indices: 12343655--12343841 Score: 221
Period size: 49 Copynumber: 3.8 Consensus size: 49
12343645 TTGTTATTGG
* ** * *
12343655 GACTTAAACCTTTCCCTTCAAATCTTCGTGGTACTGGATCCACCGTTAC
1 GACTTAAATCTTTCCCTTCATGTCTTCATGGTACTGGATCCGCCGTTAC
* * * *
12343704 GACTTAGATCTTTCCTTTGATGTCTTCATGGTACTGGATCCGCCGTTGC
1 GACTTAAATCTTTCCCTTCATGTCTTCATGGTACTGGATCCGCCGTTAC
* * * * *
12343753 GGCTTAGATCTTTCTCTTCATGTCTTCGTGGTACTGGATCCGCCGTTAT
1 GACTTAAATCTTTCCCTTCATGTCTTCATGGTACTGGATCCGCCGTTAC
* * *
12343802 GGCTTAAATCATTCCCTTCATGTGTTCATGGTACTGGATC
1 GACTTAAATCTTTCCCTTCATGTCTTCATGGTACTGGATC
12343842 TGCCATTGCG
Statistics
Matches: 117, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 117 1.00
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (49 bp):
GACTTAAATCTTTCCCTTCATGTCTTCATGGTACTGGATCCGCCGTTAC
Found at i:12343787 original size:98 final size:99
Alignment explanation
Indices: 12343677--12343966 Score: 298
Period size: 98 Copynumber: 2.9 Consensus size: 99
12343667 TCCCTTCAAA
*
12343677 TCTTCGTGGTACTGGATCCACCGTTACGACTTAGATCTTTCCTTTGATGTCTTCATGGTACTGGA
1 TCTTCGTGGTACTGGATCCGCCGTTACGACTTAGATCTTTCCTTTGATGTCTTCATGGTACTGGA
*
12343742 TCCGCCGTTGCGG-CTTAGATCTTTCTCTTCATG
66 TCCGCCGTTGCGGTCTTAGATCTTTCTCATCATG
* * * * * * *
12343775 TCTTCGTGGTACTGGATCCGCCGTTATGGCTTAAATCATTCCCTTCATGTGTTCATGGTACTGGA
1 TCTTCGTGGTACTGGATCCGCCGTTACGACTTAGATCTTTCCTTTGATGTCTTCATGGTACTGGA
* * * * *
12343840 TCTGCCATTGCGGTCTTAGATCTTTTTGATCGTG
66 TCCGCCGTTGCGGTCTTAGATCTTTCTCATCATG
* * * * * * * * * *
12343874 TCTTTTGAGGTACACGG-TCTGTCGTTGCGACTTAGACCTTTCCTTTTTG-TATCTTCACGGTAT
1 TC-TTCGTGGTAC-TGGATCCGCCGTTACGACTTAGATCTTTCC--TTTGATGTCTTCATGGTAC
*
12343937 TGGATCCGCCGTTACGGTCTTAGATCTTTC
62 TGGATCCGCCGTTGCGGTCTTAGATCTTTC
12343967 CCGTCGTGTT
Statistics
Matches: 152, Mismatches: 35, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
98 68 0.45
99 18 0.12
100 26 0.17
101 38 0.25
102 2 0.01
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.40
Consensus pattern (99 bp):
TCTTCGTGGTACTGGATCCGCCGTTACGACTTAGATCTTTCCTTTGATGTCTTCATGGTACTGGA
TCCGCCGTTGCGGTCTTAGATCTTTCTCATCATG
Found at i:12344987 original size:5 final size:5
Alignment explanation
Indices: 12344986--12345046 Score: 54
Period size: 5 Copynumber: 11.8 Consensus size: 5
12344976 TGTTTTTCTT
* *
12344986 TTTTC TTTTC TTTTATC TTTTTC TTTT- TCTTC TCTT- TTTTC TTCTTC
1 TTTTC TTTTC -TTT-TC -TTTTC TTTTC TTTTC TTTTC TTTTC TT-TTC
12345033 TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTT
12345047 ATTCATTGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
4 6 0.12
5 27 0.55
6 10 0.20
7 6 0.12
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:12344994 original size:12 final size:12
Alignment explanation
Indices: 12344979--12345046 Score: 79
Period size: 12 Copynumber: 5.8 Consensus size: 12
12344969 CTAATTTTGT
12344979 TTTTCTTTTTTC
1 TTTTCTTTTTTC
*
12344991 TTTTCTTTTATC
1 TTTTCTTTTTTC
12345003 TTTT-TCTTTTTC
1 TTTTCT-TTTTTC
*
12345015 TTCTCTTTTTTC
1 TTTTCTTTTTTC
12345027 --TTCTTCTTTTC
1 TTTTCTT-TTTTC
12345038 TTTTCTTTT
1 TTTTCTTTT
12345047 ATTCATTGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
10 4 0.09
11 6 0.13
12 31 0.66
13 6 0.13
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:12344999 original size:18 final size:18
Alignment explanation
Indices: 12344973--12345041 Score: 72
Period size: 18 Copynumber: 3.8 Consensus size: 18
12344963 CTTTTTCTAA
*
12344973 TTTTGTTTTTCTTTTTTC
1 TTTTCTTTTTCTTTTTTC
12344991 TTTTCTTTTATC-TTTTTC
1 TTTTCTTTT-TCTTTTTTC
*
12345009 TTTT-TCTTCTCTTTTTTC
1 TTTTCT-TTTTCTTTTTTC
12345027 TTCTTC-TTTTCTTTT
1 TT-TTCTTTTTCTTTT
12345042 CTTTTATTCA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
17 3 0.07
18 36 0.84
19 4 0.09
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTTTC
Found at i:12345012 original size:24 final size:24
Alignment explanation
Indices: 12344978--12345048 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
12344968 TCTAATTTTG
12344978 TTTTTCTTTTTTCTTTTCTTTTATC
1 TTTTTC-TTTTTCTTTTCTTTTATC
* *
12345003 TTTTTCTTTTTCTTCTCTTTTTTC
1 TTTTTCTTTTTCTTTTCTTTTATC
*
12345027 TTCTTC-TTTTCTTTTCTTTTAT
1 TTTTTCTTTTTCTTTTCTTTTAT
12345049 TCATTGAATC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
23 14 0.34
24 21 0.51
25 6 0.15
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTTCTTTTTCTTTTCTTTTATC
Found at i:12353658 original size:21 final size:22
Alignment explanation
Indices: 12353611--12353670 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
12353601 AACTGTGCAG
***
12353611 ATTTCTACCGATACCTTTACTA
1 ATTTCTACCGATACAAGTACTA
12353633 A-TTCTACCGATACAAGTA-TA
1 ATTTCTACCGATACAAGTACTA
*
12353653 ATTTCTACCTATACAAGT
1 ATTTCTACCGATACAAGT
12353671 CATGCAACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 3 0.09
21 29 0.88
22 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (22 bp):
ATTTCTACCGATACAAGTACTA
Found at i:12354502 original size:51 final size:51
Alignment explanation
Indices: 12354384--12354667 Score: 345
Period size: 51 Copynumber: 5.5 Consensus size: 51
12354374 TTCATTTAAC
* ** * * * *
12354384 ACTCACGATGACA-TATAGTCATCGGACCCCTTGTTCCGTATAGAAATTCATAT
1 ACTCACGATGACACT-TAGTCATCGGA-CCTTTAATCCATAAAG-GATTCATTT
* ** * *
12354437 ACTCACGATGACACTGAGTCATCGGACCTTTAATTGATCATGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATTT
* * * *
12354488 ACTCACGATGACACTGAGTCATCGGACCTTTAATTCATCATGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATTT
*
12354539 ACTCACGATGACAATTAGTCATCGGACCTTTAATCCATAAAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATTT
* *
12354590 ATTCACGATGACACTTAGTCATCAGACCTTTAATCCATAAAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATTT
* *
12354641 ACTCATGATGACACTTAGTCATTGGAC
1 ACTCACGATGACACTTAGTCATCGGAC
12354668 TTTTTCGTTT
Statistics
Matches: 205, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
51 174 0.85
52 7 0.03
53 23 0.11
54 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (51 bp):
ACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATTT
Found at i:12360065 original size:50 final size:50
Alignment explanation
Indices: 12360010--12360576 Score: 449
Period size: 50 Copynumber: 11.5 Consensus size: 50
12360000 AAGGAAACAT
* *
12360010 GAAGATATGAAGGGAAAGGTTGAGGTCGCAATGGCGAACCCGGTACCTTA
1 GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * * * * * * ** *
12360060 AAAGATGTGATGAG-AAGGATTAAGGCCACAACGGTGAATTCGGTACCAT-
1 GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * * *
12360109 GAA-ATGTGATGGGAAAGGTTGAGGTCGCAACGACGAACCCGGTA-C-TA
1 GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * * * *
12360156 TGAAAATTTGAAGGGAAAGGTTGAGACTGCAATGGCGAACCCGGTACCTTA
1 -GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * *
12360207 GAAGATGA-GAAGGGAAAGGTTGAGGCCGTAGCGGCGAACTCGGTACCTTA
1 GAAGAT-ATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
* ** * *
12360257 GAAGATGT-AATGGG-AAGGATTGAGGCCGCAACGAAGAATCCAGTACCTTA
1 GAAGATATGAA-GGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * *
12360307 GAAGATATTAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCAT-
1 GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * * *
12360356 GAAGATAAT-AAGGGAAAGGTTGAGACTGTAACGGCGAACCTGGTACCTTA
1 GAAGAT-ATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * * * *
12360406 GAAGATATGATGGGAAAGGTTGAGGCCACAACGACAAACTCGGTACCTTA
1 GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * * ** * *
12360456 GAAGATGTGATGGG-AAGGATTGAGGCCGTAACGATGAATCCGGTACCAT-
1 GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * * * * * **
12360505 GAATATATAAAAGGAAAGGTTGAGGCCGTAACGACAAACCTAGTACCTTA
1 GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * *
12360555 GAAG-CATGACGGGAAAGATTGA
1 GAAGATATGAAGGGAAAGGTTGA
12360577 AGTCACAACG
Statistics
Matches: 408, Mismatches: 90, Indels: 39
0.76 0.17 0.07
Matches are distributed among these distances:
46 1 0.00
47 1 0.00
48 31 0.08
49 142 0.35
50 225 0.55
51 8 0.02
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.19
Consensus pattern (50 bp):
GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
Found at i:12360361 original size:149 final size:149
Alignment explanation
Indices: 12360010--12360537 Score: 513
Period size: 149 Copynumber: 3.6 Consensus size: 149
12360000 AAGGAAACAT
* * * * * * *
12360010 GAAGATATGAAGGGAAAGGTTGAGGTCGCAATGGCGAACCCGGTACCTTAAAAGATGTGATGAG-
1 GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATAGAAGATGAGAAGGGA
* ** * * * *
12360074 AAGGATTAAGGCCACAACGGTGAATTCGGTACCAT-GAA-ATGTGATGGGAAAGGTTGAGGTCGC
66 AAGG-TTGAGGCCGTAACGGCGAACTCGGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCGC
*
12360137 AACGACGAACCCGGTA-C-TA
130 AACGAAGAA-CCGGTACCTTA
* * * * * *
12360156 TGAAAATTTGAAGGGAAAGGTTGAGACTGCAATGGCGAACCCGGTACCTTAGAAGATGAGAAGGG
1 -GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATAGAAGATGAGAAGGG
* *
12360221 AAAGGTTGAGGCCGTAGCGGCGAACTCGGTACCTTAGAAGATGTAATGGG-AAGGATTGAGGCCG
65 AAAGGTTGAGGCCGTAACGGCGAACTCGGTACCTTAGAAGATGTGATGGGAAAGG-TTGAGGCCG
*
12360285 CAACGAAGAATCCAGTACCTTA
129 CAACGAAGAA-CCGGTACCTTA
* * * *
12360307 GAAGATATTAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCAT-GAAGATAATAAGGGA
1 GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATAGAAGATGAGAAGGGA
* * * *
12360371 AAGGTTGAGACTGTAACGGCGAAC-CTGGTACCTTAGAAGATATGATGGGAAAGGTTGAGGCCAC
66 AAGGTTGAGGCCGTAACGGCGAACTC-GGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCGC
12360435 AACGACA-AACTCGGTACCTTA
130 AACGA-AGAAC-CGGTACCTTA
* * * ** * * * *
12360456 GAAGATGTGATGGG-AAGGATTGAGGCCGTAACGATGAATCCGGTACCAT-GAATAT-ATAAAAG
1 GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCATAGAAGATGA-GAAGG
12360518 GAAAGGTTGAGGCCGTAACG
64 GAAAGGTTGAGGCCGTAACG
12360538 ACAAACCTAG
Statistics
Matches: 320, Mismatches: 49, Indels: 22
0.82 0.13 0.06
Matches are distributed among these distances:
147 78 0.24
148 18 0.06
149 175 0.55
150 47 0.15
151 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.19
Consensus pattern (149 bp):
GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATAGAAGATGAGAAGGGA
AAGGTTGAGGCCGTAACGGCGAACTCGGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCGCA
ACGAAGAACCGGTACCTTA
Found at i:12360381 original size:199 final size:197
Alignment explanation
Indices: 12360010--12360544 Score: 687
Period size: 199 Copynumber: 2.7 Consensus size: 197
12360000 AAGGAAACAT
* * * * *
12360010 GAAGATATGAAGGGAAAGGTTGAGGTCGCAATGGCGAACCCGGTACCTTAAAAGATGTGATGAGA
1 GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTACCTTAGAAGATGTGATGGGA
* * * * * * * *
12360075 AGGATTAAGGCCACAACGGTGAATTCGGTACCATGAAATGTGATGGGAAAGGTTGAGGTCGCAAC
66 AGGATTGAGGCCGCAACGATGAATCCGGTACCATGAAATATAAAGGGAAAGGTTGAGGCCGCAAC
* * *
12360140 GACGAACCCGGTACTATGAAAATTTGAAGGGAAAGGTTGAGACTGCAATGGCGAACCCGGTACCT
131 GACGAACCCGGTACCATGAAAATATGAAGGGAAAGGTTGAGACTGCAACGGCGAACCCGGTACCT
12360205 TA
196 TA
* * *
12360207 GAAGATGA-GAAGGGAAAGGTTGAGGCCGTAGCGGCGAACTCGGTACCTTAGAAGATGTAATGGG
1 GAAGAT-ATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTACCTTAGAAGATGTGATGGG
* * * *
12360271 AAGGATTGAGGCCGCAACGAAGAATCCAGTACCTTAGAAGATATTAAGGGAAAGGTTGAGGCCGC
65 AAGGATTGAGGCCGCAACGATGAATCCGGTACCAT-GAA-ATATAAAGGGAAAGGTTGAGGCCGC
** * * *
12360336 AACGGTGAACCCGGTACCATGAAGATAAT-AAGGGAAAGGTTGAGACTGTAACGGCGAACCTGGT
128 AACGACGAACCCGGTACCATGAAAAT-ATGAAGGGAAAGGTTGAGACTGCAACGGCGAACCCGGT
12360400 ACCTTA
192 ACCTTA
* * * *
12360406 GAAGATATGATGGGAAAGGTTGAGGCCACAACGACAAACTCGGTACCTTAGAAGATGTGATGGGA
1 GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTACCTTAGAAGATGTGATGGGA
* * *
12360471 AGGATTGAGGCCGTAACGATGAATCCGGTACCATGAATATATAAAAGGAAAGGTTGAGGCCGTAA
66 AGGATTGAGGCCGCAACGATGAATCCGGTACCATGAA-ATATAAAGGGAAAGGTTGAGGCCGCAA
*
12360536 CGACAAACC
130 CGACGAACC
12360545 TAGTACCTTA
Statistics
Matches: 288, Mismatches: 45, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
197 82 0.28
198 38 0.13
199 167 0.58
200 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.18
Consensus pattern (197 bp):
GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTACCTTAGAAGATGTGATGGGA
AGGATTGAGGCCGCAACGATGAATCCGGTACCATGAAATATAAAGGGAAAGGTTGAGGCCGCAAC
GACGAACCCGGTACCATGAAAATATGAAGGGAAAGGTTGAGACTGCAACGGCGAACCCGGTACCT
TA
Found at i:12360545 original size:149 final size:149
Alignment explanation
Indices: 12360115--12360587 Score: 460
Period size: 149 Copynumber: 3.2 Consensus size: 149
12360105 CCATGAAATG
* * * * * * *
12360115 TGATGGGAAAGGTTGAGGTCGCAACGACGAACCCGGTA-C-TATGAAAATTTGAAGGGAAAGGTT
1 TGATGGGAAAGGTTGAGGCCACAACGAAGAATCCAGTACCTTA-GAAGATATGAAGGGAAAGGTT
* * * ** * * * * *
12360178 GAGACTGCAATGGCGAACCCGGTACCTTAGAAGATGAGAAGGGAAAGGTTGAGGCCGTAGCGGCG
65 GAGGCCGCAACGATGAACCCGGTACCAT-GAAGATAATAAAGGAAAGGTTGAGGCCGTAACGGCG
*
12360243 AA-CTCGGTACCTTAGAAGATG
129 AACCT-GGTACCTTAGAAGATA
* * *
12360264 TAATGGG-AAGGATTGAGGCCGCAACGAAGAATCCAGTACCTTAGAAGATATTAAGGGAAAGGTT
1 TGATGGGAAAGG-TTGAGGCCACAACGAAGAATCCAGTACCTTAGAAGATATGAAGGGAAAGGTT
* * * *
12360328 GAGGCCGCAACGGTGAACCCGGTACCATGAAGATAATAAGGGAAAGGTTGAGACTGTAACGGCGA
65 GAGGCCGCAACGATGAACCCGGTACCATGAAGATAATAAAGGAAAGGTTGAGGCCGTAACGGCGA
12360393 ACCTGGTACCTTAGAAGATA
130 ACCTGGTACCTTAGAAGATA
* * *
12360413 TGATGGGAAAGGTTGAGGCCACAACGACA-AA-CTCGGTACCTTAGAAGATGTGATGGG-AAGGA
1 TGATGGGAAAGGTTGAGGCCACAACGA-AGAATC-CAGTACCTTAGAAGATATGAAGGGAAAGG-
* * * *
12360475 TTGAGGCCGTAACGATGAATCCGGTACCATGAATAT-ATAAAAGGAAAGGTTGAGGCCGTAACGA
63 TTGAGGCCGCAACGATGAACCCGGTACCATGAAGATAAT-AAAGGAAAGGTTGAGGCCGTAACGG
* * *
12360539 CAAACCTAGTACCTTAGAAG-CA
127 CGAACCTGGTACCTTAGAAGATA
* * * *
12360561 TGACGGGAAAGATTGAAGTCACAACGA
1 TGATGGGAAAGGTTGAGGCCACAACGA
12360588 TAAATCTTAT
Statistics
Matches: 275, Mismatches: 40, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
148 35 0.13
149 189 0.69
150 49 0.18
151 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (149 bp):
TGATGGGAAAGGTTGAGGCCACAACGAAGAATCCAGTACCTTAGAAGATATGAAGGGAAAGGTTG
AGGCCGCAACGATGAACCCGGTACCATGAAGATAATAAAGGAAAGGTTGAGGCCGTAACGGCGAA
CCTGGTACCTTAGAAGATA
Found at i:12361197 original size:123 final size:123
Alignment explanation
Indices: 12360753--12361186 Score: 692
Period size: 123 Copynumber: 3.5 Consensus size: 123
12360743 CCCACATTCT
*
12360753 TGGTGAGATACAGAGAAGTAGGTCAAACAATGAAGTGGTCATCTTCCTGATGAGATACAGAGAAG
1 TGGTGAGATACAGAGAAGTAGGTCAAACAATGAAGTGGTCATCTTCCTGGTGAGATACAGAGAAG
*
12360818 TGTACC-AAATAATGAGGTGAAGCTCAAATGTGAGTGAAACTTCAGACCCCGTCTTCC
66 TGTACCAAAATAATGAGGTGAAGCTCAAATGTGAGTGAAACTTCAGACCCCATCTTCC
* * *
12360875 TGGTAAGGTACAGAGAAGTAGGTCAAACAATGAAGTGGTCATCTTCCTAGTGAGATACAGAGAAG
1 TGGTGAGATACAGAGAAGTAGGTCAAACAATGAAGTGGTCATCTTCCTGGTGAGATACAGAGAAG
*
12360940 TGTACCAAAATAATGAGGTGAAGCTCAAATGTGAGTGAAACTTTAGACCCCATCTTCC
66 TGTACCAAAATAATGAGGTGAAGCTCAAATGTGAGTGAAACTTCAGACCCCATCTTCC
* * * *
12360998 TGGTGAGGTAGAGAGAAGTAAGTCAAACAATGAAGTGGTCATCTTCCTGGTGAGATACAGAGACG
1 TGGTGAGATACAGAGAAGTAGGTCAAACAATGAAGTGGTCATCTTCCTGGTGAGATACAGAGAAG
*
12361063 TGTACCAAAATAATGAGGTGAAGCTCAAATGTGAGTGAAACTTCAAACCCCATCTTCC
66 TGTACCAAAATAATGAGGTGAAGCTCAAATGTGAGTGAAACTTCAGACCCCATCTTCC
* ** * * *
12361121 TGGTGAGATACAGAGAAGT-GGGCAAAACAACAAAGCGATCATCTTCCTGGTGAGATACAAAGAA
1 TGGTGAGATACAGAGAAGTAGGTC-AAACAATGAAGTGGTCATCTTCCTGGTGAGATACAGAGAA
12361185 GT
65 GT
12361187 AGATCAAAAT
Statistics
Matches: 287, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
122 69 0.24
123 218 0.76
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (123 bp):
TGGTGAGATACAGAGAAGTAGGTCAAACAATGAAGTGGTCATCTTCCTGGTGAGATACAGAGAAG
TGTACCAAAATAATGAGGTGAAGCTCAAATGTGAGTGAAACTTCAGACCCCATCTTCC
Found at i:12364015 original size:10 final size:9
Alignment explanation
Indices: 12363997--12364072 Score: 62
Period size: 10 Copynumber: 7.9 Consensus size: 9
12363987 ATTTATATAT
12363997 TTTTAAATTA
1 TTTT-AATTA
12364007 TCTTTAATTA
1 T-TTTAATTA
**
12364017 TTTTTTTTA
1 TTTTAATTA
*
12364026 TTTAAATTA
1 TTTTAATTA
12364035 TCTTTAATTA
1 T-TTTAATTA
*
12364045 TTTTATCTTA
1 TTTTA-ATTA
*
12364055 TTTAAATTA
1 TTTTAATTA
12364064 TCTTTAATT
1 T-TTTAATT
12364073 TGAATGGTCT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
9 21 0.40
10 28 0.54
11 3 0.06
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTAATTA
Found at i:12364033 original size:28 final size:29
Alignment explanation
Indices: 12363998--12364072 Score: 134
Period size: 28 Copynumber: 2.6 Consensus size: 29
12363988 TTTATATATT
*
12363998 TTTAAATTATCTTTAATTATTTT-TTTTA
1 TTTAAATTATCTTTAATTATTTTATCTTA
12364026 TTTAAATTATCTTTAATTATTTTATCTTA
1 TTTAAATTATCTTTAATTATTTTATCTTA
12364055 TTTAAATTATCTTTAATT
1 TTTAAATTATCTTTAATT
12364073 TGAATGGTCT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 23 0.51
29 22 0.49
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTAAATTATCTTTAATTATTTTATCTTA
Found at i:12368292 original size:32 final size:31
Alignment explanation
Indices: 12368256--12368318 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 31
12368246 ATATTTATGC
*
12368256 CTTAAATTGAAAATGAT-TTTTATATAGGGGGG
1 CTTAAATTGAAAATG-TCTTTTAT-TAAGGGGG
12368288 CTTAAATTGAAAATGTCTTTTATTAAGGGGG
1 CTTAAATTGAAAATGTCTTTTATTAAGGGGG
12368319 AGCAATCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 8 0.28
32 21 0.72
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (31 bp):
CTTAAATTGAAAATGTCTTTTATTAAGGGGG
Found at i:12369750 original size:25 final size:23
Alignment explanation
Indices: 12369709--12369754 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
12369699 CCAATTAGGG
12369709 AATTATTATTTAGATTTAATTCA
1 AATTATTATTTAGATTTAATTCA
*
12369732 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TATTTAG-ATTTAATT
12369755 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
AATTATTATTTAGATTTAATTCA
Found at i:12372294 original size:31 final size:31
Alignment explanation
Indices: 12372258--12372319 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
12372248 TTAAGACATG
*
12372258 ATCTTTTTAAAATGATAAAATTTTAATTTAA
1 ATCTTTTTAAAATGATAAAATTTTAAATTAA
* * *
12372289 ATCTTTTTTAATTTATAAAATTTTAAATTAA
1 ATCTTTTTAAAATGATAAAATTTTAAATTAA
12372320 TAATTGTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (31 bp):
ATCTTTTTAAAATGATAAAATTTTAAATTAA
Found at i:12388655 original size:21 final size:22
Alignment explanation
Indices: 12388602--12388655 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
12388592 TATAAAGTCG
12388602 TATTAAATTTTAATTAAGAGAT
1 TATTAAATTTTAATTAAGAGAT
** **
12388624 TA-TAACGTTTAA-TAAGTTAT
1 TATTAAATTTTAATTAAGAGAT
12388644 TATTAAATTTTA
1 TATTAAATTTTA
12388656 TGTTAATAAG
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
20 8 0.32
21 15 0.60
22 2 0.08
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (22 bp):
TATTAAATTTTAATTAAGAGAT
Found at i:12388970 original size:26 final size:26
Alignment explanation
Indices: 12388934--12389079 Score: 193
Period size: 26 Copynumber: 5.6 Consensus size: 26
12388924 AAAATGTGAA
* *
12388934 GTGATTATTTAGCAGACTTCAAGCCG
1 GTGATTATTTAGCAGGCTTCGAGCCG
* * *
12388960 GTGATGATTTAACAGGCTTCGAGCCA
1 GTGATTATTTAGCAGGCTTCGAGCCG
* *
12388986 GTGATTATTTAACAGGCTTCGAGCCA
1 GTGATTATTTAGCAGGCTTCGAGCCG
**
12389012 GTGATTATTTAGCAGGCTTCGAGTTG
1 GTGATTATTTAGCAGGCTTCGAGCCG
*
12389038 ATGATTATTTAGCAGGCTTCGAGCCG
1 GTGATTATTTAGCAGGCTTCGAGCCG
*
12389064 GTGAATATTTAGCAGG
1 GTGATTATTTAGCAGG
12389080 TACGATGTAC
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (26 bp):
GTGATTATTTAGCAGGCTTCGAGCCG
Found at i:12392498 original size:102 final size:101
Alignment explanation
Indices: 12392316--12392585 Score: 382
Period size: 102 Copynumber: 2.6 Consensus size: 101
12392306 ACGGATTATT
* * *
12392316 CGTTAGTTAATCCAACTAGAGCTTGGCTCACTTT-T-GCGATTTAAATCCGCTAAGCACTGGGTG
1 CGTTGGTTAATCCAACTAGAGC-TGGCTCA-TTTATCGCGATTT--ATCCGCTAGGCACTAGGTG
* * *
12392379 CCAAGATCATCGGTTTATCAGATTAGCGTTGGGCGCAAAC
62 CCAAGATCATCGGTTTATCAGATTAGCGCTAGGCCCAAAC
*
12392419 CGTTGGTTAATCCAACTAGAGCTAGGCTCATTTATCGCGGTTTATCCGCTAGGCACTAGGTGCCA
1 CGTTGGTTAATCCAACTAGAGCT-GGCTCATTTATCGCGATTTATCCGCTAGGCACTAGGTGCCA
*
12392484 AGATCATCGGTTTATCCGATTAGCGCTAGGCCCAAAC
65 AGATCATCGGTTTATCAGATTAGCGCTAGGCCCAAAC
* *
12392521 CGTTGGTTAATCCAACTAGAGCTGGACTCATTTATCGCGATTTATCCACTAGGCACTTGGTGCCA
1 CGTTGGTTAATCCAACTAGAGCTGG-CTCATTTATCGCGATTTATCCGCTAGGCACTAGGTGCCA
12392586 TGAATTGATG
Statistics
Matches: 152, Mismatches: 11, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
101 2 0.01
102 116 0.76
103 28 0.18
104 6 0.04
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (101 bp):
CGTTGGTTAATCCAACTAGAGCTGGCTCATTTATCGCGATTTATCCGCTAGGCACTAGGTGCCAA
GATCATCGGTTTATCAGATTAGCGCTAGGCCCAAAC
Found at i:12392672 original size:80 final size:80
Alignment explanation
Indices: 12392521--12392687 Score: 208
Period size: 80 Copynumber: 2.1 Consensus size: 80
12392511 AGGCCCAAAC
* * * **
12392521 CGTTGGTTAATCCAACTAGAGCTGGACTCATTTATCGCGATTTATCCACTAGGCACTTGGTGCCA
1 CGTTGATTAATCCAACTAGAGCTGGACTCACTTATCGCGATTTATCCACTAGACACCGGGTGCCA
* *
12392586 TGAATTGATGGAATT
66 TAAATTGACGGAATT
* * * * *
12392601 CGTTGATTAATCCAACTAGAGCTGGGCTCACTTATTGCGGTTTATCCGCTAGACACCGGGTGTCA
1 CGTTGATTAATCCAACTAGAGCTGGACTCACTTATCGCGATTTATCCACTAGACACCGGGTGCCA
*
12392666 TAAATTGACGGATTT
66 TAAATTGACGGAATT
*
12392681 GGTTGAT
1 CGTTGAT
12392688 GGTAAAGATG
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (80 bp):
CGTTGATTAATCCAACTAGAGCTGGACTCACTTATCGCGATTTATCCACTAGACACCGGGTGCCA
TAAATTGACGGAATT
Found at i:12394155 original size:2 final size:2
Alignment explanation
Indices: 12394150--12394179 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12394140 ATTTTTTTAC
12394150 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12394180 TGAATATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12399949 original size:16 final size:15
Alignment explanation
Indices: 12399921--12399962 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
12399911 GTACAGTTAT
*
12399921 TTTTAAAAATTTAG-
1 TTTTAAAATTTTAGA
12399935 TTCTTCAAAATTTTAGA
1 TT-TT-AAAATTTTAGA
12399952 TTTTAAAATTT
1 TTTTAAAATTT
12399963 AGGTCCAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 2 0.08
15 9 0.38
16 11 0.46
17 2 0.08
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (15 bp):
TTTTAAAATTTTAGA
Found at i:12400621 original size:28 final size:29
Alignment explanation
Indices: 12400568--12400626 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
12400558 TAAATTTGAA
*
12400568 TATTTGATAACTTATAAAAATAT-AAATT
1 TATTTGATAAATTATAAAAATATAAAATT
* * *
12400596 TATTTGATAAATTATAAGATTTTAAAATT
1 TATTTGATAAATTATAAAAATATAAAATT
12400625 TA
1 TA
12400627 AATTTAAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (29 bp):
TATTTGATAAATTATAAAAATATAAAATT
Found at i:12414275 original size:6 final size:6
Alignment explanation
Indices: 12414263--12414304 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
12414253 AAAAAAGGGA
* *
12414263 AGGTGG AGATGG AGGTGG AGGTGG AGGTGG AGGTGG AAGTGG
1 AGGTGG AGGTGG AGGTGG AGGTGG AGGTGG AGGTGG AGGTGG
12414305 TAGCAGAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.21, C:0.00, G:0.62, T:0.17
Consensus pattern (6 bp):
AGGTGG
Found at i:12422889 original size:28 final size:28
Alignment explanation
Indices: 12422832--12422890 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
12422822 ATTTTTATAA
* *
12422832 TTTAATATTCTTATATAATTTTTTAGTT
1 TTTAATATTCTTATATAATTTTTGAATT
* *
12422860 TTTAATTTTTTTATA-AATATTTTGAATT
1 TTTAATATTCTTATATAAT-TTTTGAATT
12422888 TTT
1 TTT
12422891 GAAGATTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 3 0.12
28 23 0.88
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (28 bp):
TTTAATATTCTTATATAATTTTTGAATT
Found at i:12425875 original size:24 final size:24
Alignment explanation
Indices: 12425848--12425896 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
12425838 GTACTTGTGT
12425848 TATTTTTTGGTCCAATTTGGTACC
1 TATTTTTTGGTCCAATTTGGTACC
12425872 TATTTTTTGGTCCAATTTGGTACC
1 TATTTTTTGGTCCAATTTGGTACC
12425896 T
1 T
12425897 GTATTTGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (24 bp):
TATTTTTTGGTCCAATTTGGTACC
Found at i:12430097 original size:120 final size:120
Alignment explanation
Indices: 12429884--12430123 Score: 426
Period size: 120 Copynumber: 2.0 Consensus size: 120
12429874 ATGTTTCCAG
12429884 ACAAGGCACCATTTTAATTACAAATTCCAAAAACAATGGATGCAAAAGAAATAAGCCATTCAGTT
1 ACAAGGCACCATTTTAATTACAAATTCCAAAAACAATGGATGCAAAAGAAATAAGCCATTCAGTT
*
12429949 TTTTCTCTACACACATAGAGAATTAAATTCAAGTTTCTCATCTAGAGATGTCAAC
66 TTTTCTCTACACACATAGAGAATTAAATTCAAGTTTCTAATCTAGAGATGTCAAC
* *
12430004 ACAAGGCACCATTTTACTTACAAATTCCAAAAACAATGGATTCAAAAGAAATAAGCCATTCAGTT
1 ACAAGGCACCATTTTAATTACAAATTCCAAAAACAATGGATGCAAAAGAAATAAGCCATTCAGTT
** *
12430069 TTTTCTCTGTACATATAGAGAATTAAATTCAAGTTTCTAATCTAGAGATGTCAAC
66 TTTTCTCTACACACATAGAGAATTAAATTCAAGTTTCTAATCTAGAGATGTCAAC
12430124 CAATAATTCA
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 114 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (120 bp):
ACAAGGCACCATTTTAATTACAAATTCCAAAAACAATGGATGCAAAAGAAATAAGCCATTCAGTT
TTTTCTCTACACACATAGAGAATTAAATTCAAGTTTCTAATCTAGAGATGTCAAC
Found at i:12437693 original size:31 final size:31
Alignment explanation
Indices: 12437637--12437776 Score: 117
Period size: 31 Copynumber: 4.5 Consensus size: 31
12437627 GGATTCCAAA
* ***
12437637 AAGTTTAAGTACCAACTTTTAAAAAAAAGTC
1 AAGTTTAAGTACCAAATTAGGAAAAAAAGTC
* * *
12437668 AAGTTTAGGTATCAAATTAGGAAAAAATGTC
1 AAGTTTAAGTACCAAATTAGGAAAAAAAGTC
* *
12437699 AAGTTT-GGATACCAAATT-GGACCAAAAAA--A
1 AAGTTTAAG-TACCAAATTAGGA--AAAAAAGTC
* **
12437729 AAGTTTAAGTACCAAATTAAGAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAGGAAAAAAAGTC
12437760 AAGTTTAAGTACCAAAT
1 AAGTTTAAGTACCAAAT
12437777 GTTATATTAA
Statistics
Matches: 87, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
29 4 0.05
30 20 0.23
31 58 0.67
32 5 0.06
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAGGAAAAAAAGTC
Found at i:12437754 original size:90 final size:88
Alignment explanation
Indices: 12437582--12437776 Score: 218
Period size: 90 Copynumber: 2.1 Consensus size: 88
12437572 ATTAAAAAAA
12437582 TTAGGTACTAAATTAGGAAAAAGAGTCAAGTTCAGATACCAAATTGGATTCCAAAAAGTTTAAGT
1 TTAGGTAC-AAATTAGGAAAAAGAGTCAAGTTCAGATACCAAATTGGA-TCCAAAAAGTTTAAGT
*
12437647 ACCAACTTTTAAAAAAAA-GTCAAGT
64 ACCAAC-ATTAAAAAAAAGGTCAAGT
**
12437672 TTAGGTATCAAATTAGGAAAAA-ATGTCAAGTTTGGATACCAAATTGGA-CCAAAAAAAAAGTTT
1 TTAGGTA-CAAATTAGGAAAAAGA-GTCAAGTTCAGATACCAAATTGGATCC----AAAAAGTTT
*
12437735 AAGTACCAA-ATTAAGAAAAAGTGTCAAGT
60 AAGTACCAACATTAAAAAAAAG-GTCAAGT
*
12437764 TTAAGTACCAAAT
1 TTAGGTA-CAAAT
12437777 GTTATATTAA
Statistics
Matches: 91, Mismatches: 6, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
88 2 0.02
89 1 0.01
90 51 0.56
91 1 0.01
92 36 0.40
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (88 bp):
TTAGGTACAAATTAGGAAAAAGAGTCAAGTTCAGATACCAAATTGGATCCAAAAAGTTTAAGTAC
CAACATTAAAAAAAAGGTCAAGT
Found at i:12438908 original size:24 final size:24
Alignment explanation
Indices: 12438869--12438915 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12438859 AATATGACAT
*
12438869 TAATTTATTCTTCTTTTTTCTTCCA
1 TAATTTATTCTGCTTTTTT-TTCCA
12438894 TAATTT-TTCTGCTTTTTTTTCC
1 TAATTTATTCTGCTTTTTTTTCC
12438916 CTTCTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.13, C:0.19, G:0.02, T:0.66
Consensus pattern (24 bp):
TAATTTATTCTGCTTTTTTTTCCA
Found at i:12440696 original size:21 final size:21
Alignment explanation
Indices: 12440645--12440696 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
12440635 CCTGCTACTT
12440645 CTACCGATACAAGTATGCAAA
1 CTACCGATACAAGTATGCAAA
* *
12440666 CTGCCTATACAAGTATGCAAA
1 CTACCGATACAAGTATGCAAA
12440687 CTACCGATAC
1 CTACCGATAC
12440697 TTGTTATTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (21 bp):
CTACCGATACAAGTATGCAAA
Found at i:12442731 original size:25 final size:25
Alignment explanation
Indices: 12442698--12442752 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
12442688 TCTATTACAA
*
12442698 TTAT-TATGCATTAAATTGATGATT
1 TTATCTATGCACTAAATTGATGATT
12442722 TTATCTATGCACTAAATTGATGATT
1 TTATCTATGCACTAAATTGATGATT
12442747 TTATCT
1 TTATCT
12442753 CCACAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (25 bp):
TTATCTATGCACTAAATTGATGATT
Found at i:12444963 original size:10 final size:10
Alignment explanation
Indices: 12444948--12444973 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
12444938 TATTTCTTCA
12444948 TTTAGTCCTT
1 TTTAGTCCTT
12444958 TTTAGTCCTT
1 TTTAGTCCTT
12444968 TTTAGT
1 TTTAGT
12444974 TTAAGGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.62
Consensus pattern (10 bp):
TTTAGTCCTT
Found at i:12446907 original size:52 final size:52
Alignment explanation
Indices: 12446823--12447170 Score: 545
Period size: 52 Copynumber: 6.7 Consensus size: 52
12446813 ATGAAAAAAG
* * *
12446823 GGTCCGATGACTACGTGTCATCGTGCGTATATGAATCCTTTACGGATTATGA
1 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* *
12446875 GGTCCGATGGTTATGTGTCATCGTGAGAATATGAATCCTTTACGGATTATGA
1 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* * * *
12446927 GATCCGATGACTATGTTTCATCGTGAGTATATGAATCTTTTATC-GATTATGA
1 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTA-CGGATTATGA
*
12446979 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAA
1 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* * *
12447031 GGTCTGGTGGCTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGA
1 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
*
12447083 GGTGCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
1 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
*
12447135 GGTCCGGTGGCTATGTGTCATCGTGAGTATATGAAT
1 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAAT
12447171 GAAATGAAAT
Statistics
Matches: 268, Mismatches: 26, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
51 1 0.00
52 266 0.99
53 1 0.00
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (52 bp):
GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
Found at i:12451786 original size:17 final size:18
Alignment explanation
Indices: 12451747--12451786 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
12451737 TATTATATAA
12451747 TATTTAAATATATAATTT
1 TATTTAAATATATAATTT
* *
12451765 AATTTAAATGTAT-ATTT
1 TATTTAAATATATAATTT
12451782 TATTT
1 TATTT
12451787 TTGGTGAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TATTTAAATATATAATTT
Done.