Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 264 of 295
Found at i:90643255 original size:43 final size:43
Alignment explanation
Indices: 90643193--90643296 Score: 199
Period size: 43 Copynumber: 2.4 Consensus size: 43
90643183 ATTGATCTTA
90643193 ATGATTTTGAATTGTAAGTGAATTAAAAGGAAATTGCTAGTGAC
1 ATGA-TTTGAATTGTAAGTGAATTAAAAGGAAATTGCTAGTGAC
90643237 ATGATTTGAATTGTAAGTGAATTAAAAGGAAATTGCTAGTGAC
1 ATGATTTGAATTGTAAGTGAATTAAAAGGAAATTGCTAGTGAC
90643280 ATGATTTGAATTGTAAG
1 ATGATTTGAATTGTAAG
90643297 CATGAGAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 56 0.93
44 4 0.07
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (43 bp):
ATGATTTGAATTGTAAGTGAATTAAAAGGAAATTGCTAGTGAC
Found at i:90643277 original size:22 final size:22
Alignment explanation
Indices: 90643209--90643278 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
90643199 TTGAATTGTA
90643209 AGTGAATTAAAAGGAAATTGCT
1 AGTGAATTAAAAGGAAATTGCT
* ***
90643231 AGTGACA-TGATTTG-AATTG-T
1 AGTGA-ATTAAAAGGAAATTGCT
90643251 AAGTGAATTAAAAGGAAATTGCT
1 -AGTGAATTAAAAGGAAATTGCT
90643274 AGTGA
1 AGTGA
90643279 CATGATTTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
20 2 0.06
21 13 0.37
22 18 0.51
23 2 0.06
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.30
Consensus pattern (22 bp):
AGTGAATTAAAAGGAAATTGCT
Found at i:90644654 original size:17 final size:17
Alignment explanation
Indices: 90644632--90644673 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
90644622 TTATATAGCT
90644632 TATTAAGTAAA-AAAATA
1 TATTAA-TAAATAAAATA
90644649 TATTAATAAATAAAAT-
1 TATTAATAAATAAAATA
90644665 TATCTAATA
1 TAT-TAATA
90644674 TCTAATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
TATTAATAAATAAAATA
Found at i:90645145 original size:3 final size:3
Alignment explanation
Indices: 90645137--90645170 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
90645127 GGATGAATGC
90645137 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
90645171 AGTCCAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:90645687 original size:18 final size:18
Alignment explanation
Indices: 90645652--90645691 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
90645642 ATAAATGGTA
*
90645652 CTTTTCATATTATCTCCT
1 CTTTTCATATCATCTCCT
90645670 CTTTTCATATCA-CTTCCT
1 CTTTTCATATCATC-TCCT
90645688 CTTT
1 CTTT
90645692 GGTCCTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.55
Consensus pattern (18 bp):
CTTTTCATATCATCTCCT
Found at i:90645906 original size:20 final size:20
Alignment explanation
Indices: 90645869--90645906 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
90645859 CTAAAACATT
*
90645869 TCTTATAAAAATGGAAGGAC
1 TCTTATAAAAATGAAAGGAC
90645889 TCTTATGAAAAA-GAAAGG
1 TCTTAT-AAAAATGAAAGG
90645907 TTTTATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.47, C:0.08, G:0.21, T:0.24
Consensus pattern (20 bp):
TCTTATAAAAATGAAAGGAC
Found at i:90647696 original size:29 final size:29
Alignment explanation
Indices: 90647666--90647721 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
90647656 CTGTCTTTTC
90647666 CCCCAAACGTT-TTTCCCCTCTGCTGGTT
1 CCCCAAACGTTCTTTCCCCTCTGCTGGTT
* *
90647694 CCCTAAATGTTCTTTCCCCTCTGCTGGT
1 CCCCAAACGTTCTTTCCCCTCTGCTGGT
90647722 GAAATTGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.11, C:0.38, G:0.14, T:0.38
Consensus pattern (29 bp):
CCCCAAACGTTCTTTCCCCTCTGCTGGTT
Found at i:90647843 original size:19 final size:19
Alignment explanation
Indices: 90647819--90647867 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
90647809 TGAGAGTTTC
*
90647819 TTTTATATTTCTTCTTCTG
1 TTTTATATTTCCTCTTCTG
*
90647838 TTTTATTAGTTCCTCTTCTG
1 TTTTA-TATTTCCTCTTCTG
*
90647858 TTTAATATTT
1 TTTTATATTT
90647868 TGAAGCTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.14, C:0.14, G:0.06, T:0.65
Consensus pattern (19 bp):
TTTTATATTTCCTCTTCTG
Found at i:90647888 original size:11 final size:11
Alignment explanation
Indices: 90647872--90647897 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
90647862 ATATTTTGAA
90647872 GCTGTTGATTT
1 GCTGTTGATTT
90647883 GCTGTTGATTT
1 GCTGTTGATTT
90647894 GCTG
1 GCTG
90647898 GTATTTCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.12, G:0.31, T:0.50
Consensus pattern (11 bp):
GCTGTTGATTT
Found at i:90649492 original size:13 final size:13
Alignment explanation
Indices: 90649474--90649498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90649464 ACACTCAAAT
90649474 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
90649487 TTCTCAAAAGCA
1 TTCTCAAAAGCA
90649499 ATAAAGAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:90652442 original size:21 final size:21
Alignment explanation
Indices: 90652408--90652447 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
90652398 ACGGTGGTGA
* *
90652408 TGAGATTAGTTACTGTAACAG
1 TGAGATTAGATACTATAACAG
*
90652429 TGAGATTGGATACTATAAC
1 TGAGATTAGATACTATAAC
90652448 GATGAAATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (21 bp):
TGAGATTAGATACTATAACAG
Found at i:90657054 original size:52 final size:50
Alignment explanation
Indices: 90656993--90657103 Score: 131
Period size: 49 Copynumber: 2.2 Consensus size: 50
90656983 ACAGTGTTTC
90656993 AGGTGTGTTTC-AAGGGCGGATGTAAAGCCTACCG-GCTTGGCACTTGGTG-CCG
1 AGGTGTGTTTCGAA--G-GGATGT-AAGCCTA-CGAGCTTGGCACTTGGTGCCCG
* *
90657045 AGGTGTGTTTCGAAGGGATGTTAGGCTACGAGCTTGGCACTTGGTGCCCG
1 AGGTGTGTTTCGAAGGGATGTAAGCCTACGAGCTTGGCACTTGGTGCCCG
90657095 -GGTGTGTTT
1 AGGTGTGTTT
90657104 TTGGATGGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
48 2 0.04
49 29 0.54
50 9 0.17
51 1 0.02
52 11 0.20
53 2 0.04
ACGTcount: A:0.15, C:0.18, G:0.38, T:0.29
Consensus pattern (50 bp):
AGGTGTGTTTCGAAGGGATGTAAGCCTACGAGCTTGGCACTTGGTGCCCG
Found at i:90658913 original size:40 final size:39
Alignment explanation
Indices: 90658847--90659060 Score: 247
Period size: 40 Copynumber: 5.4 Consensus size: 39
90658837 ATGCTCGTTT
90658847 GAGCA-ACTTTCAGTAGAA-TCAATAGGTATGGCTCGATA
1 GAGCATACTTTCAGTA-AATTCAATAGGTATGGCTCGATA
* *
90658885 GAGCATACTTTTCAGTAAATTCAGTAGGTATGACTCGATA
1 GAGCATAC-TTTCAGTAAATTCAATAGGTATGGCTCGATA
* *
90658925 GTGCATACATTTTAGTAAATTCAATAGGTATGGCTCGATA
1 GAGCATAC-TTTCAGTAAATTCAATAGGTATGGCTCGATA
* *
90658965 GAGCATACTTTCAATAGAA-TCAATAAGTATGGCTCGATA
1 GAGCATACTTTCAGTA-AATTCAATAGGTATGGCTCGATA
* * *
90659004 TCA-CATACATTTCAGTAAATTCAGTAGGTATGGCTCAATA
1 -GAGCATAC-TTTCAGTAAATTCAATAGGTATGGCTCGATA
*
90659044 GCGCATACGTTTCAGTA
1 GAGCATAC-TTTCAGTA
90659061 GGTAATGCTC
Statistics
Matches: 149, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 5 0.03
39 36 0.24
40 108 0.72
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (39 bp):
GAGCATACTTTCAGTAAATTCAATAGGTATGGCTCGATA
Found at i:90659021 original size:79 final size:80
Alignment explanation
Indices: 90658854--90659057 Score: 263
Period size: 79 Copynumber: 2.6 Consensus size: 80
90658844 TTTGAGCAAC
* * * *
90658854 TTTCAGTAGAA-TCAATAGGTATGGCTCGATAGAGCATACTTTTCAGTAAATTCAGTAGGTATGA
1 TTTCAGTA-AATTCAATAGGTATGGCTCGATAGAGCATACGTTTCAATAAATTCAATAAGTATGA
*
90658918 CTCGATAGTGCATACA
65 CTCGATAGTACATACA
* *
90658934 TTTTAGTAAATTCAATAGGTATGGCTCGATAGAGCATAC-TTTCAATAGAA-TCAATAAGTATGG
1 TTTCAGTAAATTCAATAGGTATGGCTCGATAGAGCATACGTTTCAATA-AATTCAATAAGTATGA
90658997 CTCGATA-TCACATACA
65 CTCGATAGT-ACATACA
* * *
90659013 TTTCAGTAAATTCAGTAGGTATGGCTCAATAGCGCATACGTTTCA
1 TTTCAGTAAATTCAATAGGTATGGCTCGATAGAGCATACGTTTCA
90659058 GTAGGTAATG
Statistics
Matches: 110, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 67 0.61
80 42 0.38
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (80 bp):
TTTCAGTAAATTCAATAGGTATGGCTCGATAGAGCATACGTTTCAATAAATTCAATAAGTATGAC
TCGATAGTACATACA
Found at i:90659805 original size:23 final size:23
Alignment explanation
Indices: 90659779--90659952 Score: 97
Period size: 25 Copynumber: 7.4 Consensus size: 23
90659769 CGACCCTGTT
*
90659779 TTGGACAGCAATTATTCATCAAA
1 TTGGACAGCAATTATACATCAAA
*
90659802 TTGGACAGCAATAATATGC-TCAAAA
1 TTGGACAGCAAT--TATACATC-AAA
* *
90659827 TTTGACAGC-ATTATACATAAAA
1 TTGGACAGCAATTATACATCAAA
* * * *
90659849 ATGGACAGCATCAATATACTTAAAA
1 TTGGACAGCA--ATTATACATCAAA
* *
90659874 TTGGATAGC-ATTATACATTAAA
1 TTGGACAGCAATTATACATCAAA
* * *
90659896 ATGGACAACATCAATATAC-TCAAAA
1 TTGGACAGCA--ATTATACATC-AAA
* *
90659921 TTGGATAGC-ATTATACATTAAA
1 TTGGACAGCAATTATACATCAAA
*
90659943 ATGGACAGCA
1 TTGGACAGCA
90659953 TCAATATACT
Statistics
Matches: 113, Mismatches: 25, Indels: 26
0.69 0.15 0.16
Matches are distributed among these distances:
22 46 0.41
23 14 0.12
24 5 0.04
25 48 0.42
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (23 bp):
TTGGACAGCAATTATACATCAAA
Found at i:90659854 original size:47 final size:47
Alignment explanation
Indices: 90659779--90659969 Score: 267
Period size: 47 Copynumber: 4.0 Consensus size: 47
90659769 CGACCCTGTT
* * * *
90659779 TTGGACAGCAATTATTCATCAAATTGGACAGCAAT-AATATGCTCAAAA
1 TTGGACAGC-ATTATACATTAAAATGGACAGC-ATCAATATACTCAAAA
* * *
90659827 TTTGACAGCATTATACATAAAAATGGACAGCATCAATATACTTAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
* *
90659874 TTGGATAGCATTATACATTAAAATGGACAACATCAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
*
90659921 TTGGATAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
90659968 TT
1 TT
90659970 ATAACACAAA
Statistics
Matches: 130, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
46 2 0.02
47 120 0.92
48 8 0.06
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (47 bp):
TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
Found at i:90659855 original size:22 final size:22
Alignment explanation
Indices: 90659830--90659953 Score: 106
Period size: 22 Copynumber: 5.4 Consensus size: 22
90659820 CTCAAAATTT
90659830 GACAGCATTATACATAAAAATG
1 GACAGCATTATACATAAAAATG
* *
90659852 GACAGCATCAATATACTTAAAATTG
1 GACAGCAT---TATACATAAAAATG
* *
90659877 GATAGCATTATACATTAAAATG
1 GACAGCATTATACATAAAAATG
* *
90659899 GACAACATCAATATAC-TCAAAATTG
1 GACAGCAT---TATACAT-AAAAATG
* *
90659924 GATAGCATTATACATTAAAATG
1 GACAGCATTATACATAAAAATG
90659946 GACAGCAT
1 GACAGCAT
90659954 CAATATACTC
Statistics
Matches: 79, Mismatches: 15, Indels: 16
0.72 0.14 0.15
Matches are distributed among these distances:
22 42 0.53
23 1 0.01
24 1 0.01
25 35 0.44
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.27
Consensus pattern (22 bp):
GACAGCATTATACATAAAAATG
Found at i:90659872 original size:25 final size:25
Alignment explanation
Indices: 90659838--90659967 Score: 114
Period size: 25 Copynumber: 5.4 Consensus size: 25
90659828 TTGACAGCAT
*
90659838 TATACATAAAAATGGACAGCATCAA
1 TATACTTAAAAATGGACAGCATCAA
* *
90659863 TATACTTAAAATTGGATAGCAT---
1 TATACTTAAAAATGGACAGCATCAA
*
90659885 TATACATT-AAAATGGACAACATCAA
1 TATAC-TTAAAAATGGACAGCATCAA
* * *
90659910 TATACTCAAAATTGGATAGCAT---
1 TATACTTAAAAATGGACAGCATCAA
90659932 TATACATT-AAAATGGACAGCATCAA
1 TATAC-TTAAAAATGGACAGCATCAA
*
90659957 TATACTCAAAA
1 TATACTTAAAA
90659968 TTATAACACA
Statistics
Matches: 81, Mismatches: 14, Indels: 20
0.70 0.12 0.17
Matches are distributed among these distances:
22 33 0.41
23 3 0.04
24 2 0.02
25 43 0.53
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.27
Consensus pattern (25 bp):
TATACTTAAAAATGGACAGCATCAA
Found at i:90660945 original size:28 final size:27
Alignment explanation
Indices: 90660905--90661001 Score: 95
Period size: 28 Copynumber: 3.5 Consensus size: 27
90660895 AATAAGTACG
* * *
90660905 CACACTTAATGCTTAACAATCAAACTCG
1 CACACTTAGTGCTT-ACAATTAAACTCA
** *
90660933 CACACTTAGTGCTTTACCCTTATACTCA
1 CACACTTAGTGC-TTACAATTAAACTCA
*
90660961 CACACTTAGTGCATTTCAATTAAACTCA
1 CACACTTAGTGC-TTACAATTAAACTCA
*
90660989 CACACTTGGTGCT
1 CACACTTAGTGCT
90661002 AATCTCATTA
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
27 1 0.02
28 53 0.95
29 2 0.04
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (27 bp):
CACACTTAGTGCTTACAATTAAACTCA
Found at i:90666045 original size:18 final size:16
Alignment explanation
Indices: 90666014--90666072 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
90666004 AAACATAAAC
90666014 ATAATATTTAAAATAA
1 ATAATATTTAAAATAA
*
90666030 TTAATATTTTATAAATAA
1 ATAATA-TTTA-AAATAA
*
90666048 ATAAT-TTGAAAATAA
1 ATAATATTTAAAATAA
*
90666063 TATAAAATTT
1 -ATAATATTT
90666073 TGAAATCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 6 0.18
16 12 0.35
17 6 0.18
18 10 0.29
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
ATAATATTTAAAATAA
Found at i:90666062 original size:19 final size:19
Alignment explanation
Indices: 90666040--90666077 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
90666030 TTAATATTTT
90666040 ATAA-ATAAATAATTTGAAA
1 ATAATATAAA-AATTTGAAA
*
90666059 ATAATATAAAATTTTGAAA
1 ATAATATAAAAATTTGAAA
90666078 TCATATTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
ATAATATAAAAATTTGAAA
Found at i:90666308 original size:3 final size:3
Alignment explanation
Indices: 90666300--90666332 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
90666290 TTCACCTATT
90666300 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
90666333 GAATAAAAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:90666930 original size:22 final size:25
Alignment explanation
Indices: 90666877--90666934 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
90666867 ATCACAAACT
90666877 TATTTTTAAA-TAAAGTTATAACTAA
1 TATTTTTAAATTAAAGTTATAAC-AA
*
90666902 TAATTTTAAATTAAA-TTAT-A-AA
1 TATTTTTAAATTAAAGTTATAACAA
90666924 TATTTTTAAAT
1 TATTTTTAAAT
90666935 GTTAATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 12 0.40
24 1 0.03
25 13 0.43
26 4 0.13
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
TATTTTTAAATTAAAGTTATAACAA
Found at i:90684761 original size:56 final size:51
Alignment explanation
Indices: 90684574--90684772 Score: 217
Period size: 50 Copynumber: 3.8 Consensus size: 51
90684564 GATAATAACA
* * **
90684574 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGA--TGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTC-TGATCTGG
* *
90684625 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTC--ATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCTGATCT-GG
*
90684675 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC-TGATC-T--GG
* *
90684730 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
90684773 TTACCCAAAT
Statistics
Matches: 126, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
47 1 0.01
49 1 0.01
50 46 0.37
51 33 0.26
53 3 0.02
54 1 0.01
55 2 0.02
56 39 0.31
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCTGATCTGG
Found at i:90684888 original size:13 final size:13
Alignment explanation
Indices: 90684867--90684898 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
90684857 GCTTGGATCA
*
90684867 TCATCAAATAAAT
1 TCATAAAATAAAT
90684880 TCATAAAATAAAT
1 TCATAAAATAAAT
90684893 TCATAA
1 TCATAA
90684899 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:90685145 original size:30 final size:30
Alignment explanation
Indices: 90685110--90685167 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
90685100 CCTCGACTCT
*
90685110 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
90685140 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
90685168 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:90693012 original size:21 final size:23
Alignment explanation
Indices: 90692986--90693030 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
90692976 AAATTGCTGA
90692986 ACTTT-ACTT-TTATATAAAAAC
1 ACTTTAACTTGTTATATAAAAAC
* *
90693007 ACTTTAATTTGTTATATCAAAAC
1 ACTTTAACTTGTTATATAAAAAC
90693030 A
1 A
90693031 TATTATCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 3 0.15
23 12 0.60
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.42
Consensus pattern (23 bp):
ACTTTAACTTGTTATATAAAAAC
Found at i:90707954 original size:41 final size:39
Alignment explanation
Indices: 90707905--90708081 Score: 187
Period size: 41 Copynumber: 4.4 Consensus size: 39
90707895 GCGTTTGAAA
* * *
90707905 CAAAACGCCGCTAAAAATTGAGCAATAGTGGCGTTTTTATC
1 CAAAACGCCGCAAAAAACTAAG-AATAGTGGCGTTTTT-TC
* *
90707946 CAAAACGCCGCTAAAAACTAAGTAATAGTGGCGTTTTCATC
1 CAAAACGCCGCAAAAAACTAAG-AATAGTGGCGTTTT-TTC
* * *
90707987 CAAAATGCCGCAAAAAACTGAGAAATAGTGGCATTTTTT-
1 CAAAACGCCGCAAAAAACTAAG-AATAGTGGCGTTTTTTC
90708026 CAAAACGCCGCAAAAAACTAAGATATAGTGGCGCTTTATTTC
1 CAAAACGCCGCAAAAAACTAAGA-ATAGTGGCG-TTT-TTTC
*
90708068 C-AAACGCCACAAAA
1 CAAAACGCCGCAAAA
90708082 GGTAGAGCTA
Statistics
Matches: 117, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 28 0.24
40 4 0.03
41 83 0.71
42 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (39 bp):
CAAAACGCCGCAAAAAACTAAGAATAGTGGCGTTTTTTC
Found at i:90708081 original size:80 final size:82
Alignment explanation
Indices: 90707905--90708058 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 82
90707895 GCGTTTGAAA
* * * * *
90707905 CAAAACGCCGCTAAAAATTGAGCAATAGTGGCGTTTTTATCCAAAACGCCGCTAAAAACTAAGTA
1 CAAAACGCCGCAAAAAACTGAGAAATAGTGGCATTTTTATCCAAAACGCCGCAAAAAACTAAGTA
90707970 ATAGTGGCGTTTTCATC
66 ATAGTGGCGTTTTCATC
*
90707987 CAAAATGCCGCAAAAAACTGAGAAATAGTGGCATTTTT-T-CAAAACGCCGCAAAAAACTAAG-A
1 CAAAACGCCGCAAAAAACTGAGAAATAGTGGCATTTTTATCCAAAACGCCGCAAAAAACTAAGTA
90708049 TATAGTGGCG
66 -ATAGTGGCG
90708059 CTTTATTTCC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
79 1 0.02
80 30 0.46
81 1 0.02
82 33 0.51
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (82 bp):
CAAAACGCCGCAAAAAACTGAGAAATAGTGGCATTTTTATCCAAAACGCCGCAAAAAACTAAGTA
ATAGTGGCGTTTTCATC
Found at i:90708095 original size:80 final size:81
Alignment explanation
Indices: 90707905--90708117 Score: 213
Period size: 80 Copynumber: 2.6 Consensus size: 81
90707895 GCGTTTGAAA
* * * * *
90707905 CAAAACGCCGCTAAAAATTGAGCAATAGTGGCGTTTTTATCCAAAACGCCGCTAAAAACTAAGTA
1 CAAAACGCCACAAAAAACTGAGCAATAGTGGCATTTTTAT-CAAAACGCCGCAAAAAACTAAGTA
90707970 ATAGTGGCGTTTTCATC
65 ATAGTGGCGTTTTCATC
* * *
90707987 CAAAATGCCGCAAAAAACTGAGAAATAGTGGCATTTTT-TCAAAACGCCGCAAAAAACTAAG-AT
1 CAAAACGCCACAAAAAACTGAGCAATAGTGGCATTTTTATCAAAACGCCGCAAAAAACTAAGTA-
*
90708050 ATAGTGGCGCTTTAT-TTC
65 ATAGTGGCG-TTT-TCATC
** * *
90708068 C-AAACGCCAC-AAAAGGTAGAGCTATAGTGGCATTTTTGT-AAAAGCGCCGC
1 CAAAACGCCACAAAAAACT-GAGCAATAGTGGCATTTTTATCAAAA-CGCCGC
90708118 TAATATTTAT
Statistics
Matches: 112, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
79 6 0.05
80 58 0.52
81 14 0.12
82 34 0.30
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (81 bp):
CAAAACGCCACAAAAAACTGAGCAATAGTGGCATTTTTATCAAAACGCCGCAAAAAACTAAGTAA
TAGTGGCGTTTTCATC
Found at i:90709958 original size:19 final size:19
Alignment explanation
Indices: 90709934--90709971 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
90709924 AAATATCCTT
90709934 CTGCCGTTGAAGACTCCGA
1 CTGCCGTTGAAGACTCCGA
90709953 CTGCCGTTGAAGACTCCGA
1 CTGCCGTTGAAGACTCCGA
90709972 GTGGACGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (19 bp):
CTGCCGTTGAAGACTCCGA
Found at i:90711795 original size:6 final size:7
Alignment explanation
Indices: 90711773--90711798 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
90711763 GGTTTATAGA
90711773 TTTGCTT
1 TTTGCTT
90711780 TTTGCTT
1 TTTGCTT
90711787 TTTGCTT
1 TTTGCTT
90711794 TTTGC
1 TTTGC
90711799 GTTTATACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.15, T:0.69
Consensus pattern (7 bp):
TTTGCTT
Found at i:90711871 original size:9 final size:9
Alignment explanation
Indices: 90711857--90712171 Score: 295
Period size: 9 Copynumber: 35.8 Consensus size: 9
90711847 AACAGATAAA
90711857 TATATAACT
1 TATATAACT
90711866 TATATAACT
1 TATATAACT
90711875 TATATAACT
1 TATATAACT
* *
90711884 TAGATAA-A
1 TATATAACT
90711892 TATATAACT
1 TATATAACT
*
90711901 TACATAACT
1 TATATAACT
*
90711910 TACATAACT
1 TATATAACT
90711919 TATATAACT
1 TATATAACT
* *
90711928 TAGATAA-A
1 TATATAACT
90711936 TATATAACT
1 TATATAACT
*
90711945 TAGATAACT
1 TATATAACT
*
90711954 TAGATAACT
1 TATATAACT
90711963 TATATAA-T
1 TATATAACT
* *
90711971 TAGATAA-A
1 TATATAACT
90711979 TATATAACT
1 TATATAACT
*
90711988 TACATAACT
1 TATATAACT
*
90711997 TACATAACT
1 TATATAACT
90712006 TATATAACT
1 TATATAACT
* *
90712015 TAGATAA-A
1 TATATAACT
90712023 TATATAACT
1 TATATAACT
*
90712032 TACATAACT
1 TATATAACT
*
90712041 TACATAACT
1 TATATAACT
90712050 TATATAACT
1 TATATAACT
* *
90712059 TAGATAA-A
1 TATATAACT
90712067 TATATAACT
1 TATATAACT
*
90712076 TACATAACT
1 TATATAACT
*
90712085 TACATAACT
1 TATATAACT
90712094 TATATAACT
1 TATATAACT
* *
90712103 TAGATAA-A
1 TATATAACT
90712111 TATATAACT
1 TATATAACT
* *
90712120 TACATAA-A
1 TATATAACT
* * *
90712128 TATGTATCA
1 TATATAACT
90712137 TATCATAACT
1 TAT-ATAACT
*
90712147 TACATAACT
1 TATATAACT
*
90712156 TACATAACT
1 TATATAACT
*
90712165 TACATAA
1 TATATAA
90712172 TACTTAAATA
Statistics
Matches: 255, Mismatches: 43, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
8 47 0.18
9 203 0.80
10 5 0.02
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.37
Consensus pattern (9 bp):
TATATAACT
Found at i:90711890 original size:35 final size:36
Alignment explanation
Indices: 90711857--90712171 Score: 297
Period size: 35 Copynumber: 8.9 Consensus size: 36
90711847 AACAGATAAA
* * *
90711857 TATATAACTTATATAACTTATATAACTTAGATAA-A
1 TATATAACTTACATAACTTACATAACTTAGATAACT
*
90711892 TATATAACTTACATAACTTACATAACTTATATAACT
1 TATATAACTTACATAACTTACATAACTTAGATAACT
* * * *
90711928 TAGATAA-ATATATAACTTAGATAACTTAGATAACT
1 TATATAACTTACATAACTTACATAACTTAGATAACT
* * * *
90711963 TATATAA-TTAGATAA-ATATATAACTTACATAACT
1 TATATAACTTACATAACTTACATAACTTAGATAACT
* * * * *
90711997 TACATAACTTATATAACTTAGATAA-ATATATAACT
1 TATATAACTTACATAACTTACATAACTTAGATAACT
* * *
90712032 TACATAACTTACATAACTTATATAACTTAGATAA-A
1 TATATAACTTACATAACTTACATAACTTAGATAACT
*
90712067 TATATAACTTACATAACTTACATAACTTATATAACT
1 TATATAACTTACATAACTTACATAACTTAGATAACT
* * * * * *
90712103 TAGATAA-ATATATAACTTACATAA-ATATG-TATCA
1 TATATAACTTACATAACTTACATAACTTA-GATAACT
*
90712137 TATCATAACTTACATAACTTACATAACTTACATAA
1 TAT-ATAACTTACATAACTTACATAACTTAGATAA
90712172 TACTTAAATA
Statistics
Matches: 227, Mismatches: 43, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
34 29 0.13
35 155 0.68
36 39 0.17
37 4 0.02
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.37
Consensus pattern (36 bp):
TATATAACTTACATAACTTACATAACTTAGATAACT
Found at i:90712148 original size:44 final size:44
Alignment explanation
Indices: 90711860--90712126 Score: 500
Period size: 44 Copynumber: 6.1 Consensus size: 44
90711850 AGATAAATAT
*
90711860 ATAACTTATATAACTTATATAACTTAGATAAATATATAACTTAC
1 ATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAC
*
90711904 ATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAG
1 ATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAC
*
90711948 ATAACTTAGATAACTTATATAA-TTAGATAAATATATAACTTAC
1 ATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAC
90711991 ATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAC
1 ATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAC
90712035 ATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAC
1 ATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAC
90712079 ATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAC
1 ATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAC
90712123 ATAA
1 ATAA
90712127 ATATGTATCA
Statistics
Matches: 217, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
43 41 0.19
44 176 0.81
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (44 bp):
ATAACTTACATAACTTATATAACTTAGATAAATATATAACTTAC
Found at i:90714050 original size:12 final size:12
Alignment explanation
Indices: 90714033--90714057 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90714023 AAGATCGAGG
90714033 GATGAATCTGAT
1 GATGAATCTGAT
90714045 GATGAATCTGAT
1 GATGAATCTGAT
90714057 G
1 G
90714058 GAGAGGATGA
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:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:90717369 original size:13 final size:14
Alignment explanation
Indices: 90717353--90717381 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90717343 TTCTAAATAT
90717353 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
90717366 TTATAATTGTTTAA
1 TTATAATTGTTTAA
90717380 TT
1 TT
90717382 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:90717845 original size:21 final size:21
Alignment explanation
Indices: 90717796--90717892 Score: 106
Period size: 21 Copynumber: 4.6 Consensus size: 21
90717786 ACTTAGAGCC
*
90717796 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
*
90717817 GCGGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
* * * * *
90717838 GTGACAGCAACAAGGGATGCA
1 GAGGCAGCAGCGAGGGAGGCA
*
90717859 GAGGCA-CGAGCGAGGGAGGTA
1 GAGGCAGC-AGCGAGGGAGGCA
90717880 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
90717893 TGGCAGCAGA
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
20 1 0.02
21 59 0.97
22 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.47, T:0.03
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:90718205 original size:31 final size:31
Alignment explanation
Indices: 90718140--90718206 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
90718130 TGGTTGTATT
* * *
90718140 TTTTATGCTAAATTTGTTGTTTTTTGCTGCA
1 TTTTATACTAAATTTGTTGTATTTGGCTGCA
* * *
90718171 TTTTATACTATATTTGTTGTATTTGGTTGGA
1 TTTTATACTAAATTTGTTGTATTTGGCTGCA
90718202 TTTTA
1 TTTTA
90718207 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.06, G:0.16, T:0.60
Consensus pattern (31 bp):
TTTTATACTAAATTTGTTGTATTTGGCTGCA
Found at i:90720056 original size:3 final size:3
Alignment explanation
Indices: 90720006--90720041 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
90719996 TGTATAAACA
90720006 AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
90720042 GAAATCAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:90720095 original size:12 final size:11
Alignment explanation
Indices: 90719999--90720104 Score: 53
Period size: 11 Copynumber: 9.4 Consensus size: 11
90719989 AATAAAATGT
*
90719999 ATAAACAAATA
1 ATAAATAAATA
90720010 ATAAA-ATAATA
1 ATAAATA-AATA
90720021 AT-AAT-AATA
1 ATAAATAAATA
90720030 AT-AAT-AATA
1 ATAAATAAATA
90720039 ATAGAAATCAGAATA
1 AT--AAAT-A-AATA
90720054 ATATATATAAATA
1 ATA-A-ATAAATA
***
90720067 CA-AAATGGGTA
1 -ATAAATAAATA
90720078 ATAAATAAATA
1 ATAAATAAATA
90720089 GATAAATAAATA
1 -ATAAATAAATA
90720101 ATAA
1 ATAA
90720105 TAATGACAAT
Statistics
Matches: 76, Mismatches: 6, Indels: 26
0.70 0.06 0.24
Matches are distributed among these distances:
9 15 0.20
10 4 0.05
11 25 0.33
12 15 0.20
13 6 0.08
14 3 0.04
15 8 0.11
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (11 bp):
ATAAATAAATA
Found at i:90720130 original size:15 final size:15
Alignment explanation
Indices: 90720005--90720130 Score: 61
Period size: 15 Copynumber: 8.3 Consensus size: 15
90719995 ATGTATAAAC
90720005 AAATAATA-A-AATA
1 AAATAATAGATAATA
90720018 ATAATAATA-ATAATA
1 A-AATAATAGATAATA
90720033 ATAATAATAGA-AATCA
1 A-AATAATAGATAAT-A
* *
90720049 GAATAATATAT-ATAA
1 AAATAATAGATAAT-A
* * *
90720064 ATACAAAATGGGTAAT-
1 A-A-ATAATAGATAATA
90720080 AAATAAATAGATAA-A
1 AAAT-AATAGATAATA
90720095 TAAATAATA-ATAATGA
1 -AAATAATAGATAAT-A
*
90720111 CAATAATAGATAATA
1 AAATAATAGATAATA
90720126 AAATA
1 AAATA
90720131 CCAATGATAA
Statistics
Matches: 86, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
13 1 0.01
14 13 0.15
15 51 0.59
16 14 0.16
17 5 0.06
18 2 0.02
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.27
Consensus pattern (15 bp):
AAATAATAGATAATA
Found at i:90726529 original size:61 final size:61
Alignment explanation
Indices: 90726461--90726771 Score: 232
Period size: 61 Copynumber: 5.2 Consensus size: 61
90726451 CTTTTATAGT
90726461 ATCATATATTATGATTTGAGTAAATTCATAAAAGAATATTAATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTGAGTAAATTCATAAAAGAATATTAATTATTAAGAATTTTATTAA
* * ** * * * ** * ** *
90726522 ATCATATATTTTAATTAAAATATATTTAATAATAACTATGTTAA--ATT-A-TCTTTTA-TAGT
1 ATCATATATTATGATTTGAGTA-AATTCATAA-AAGAATATTAATTATTAAGAATTTTATTA-A
*
90726581 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTGAGTAAATTCATAAAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * ** * *
90726642 ATTATATATGT-TAATTAT-AATATATTTAATAATAATTATGTTAA-T-TT-A-TATTTTA-TAG
1 ATCATATAT-TATGATT-TGAGTA-AATTCATAA-AAGAATATTAATTATTAAGAATTTTATTA-
*
90726700 T
61 A
*
90726701 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTGAGTAAATTCATAAAAGAATATTAATTATTAAGAATTTTATTAA
*
90726762 ATTATATATT
1 ATCATATATT
90726772 TTAATTATAA
Statistics
Matches: 180, Mismatches: 50, Indels: 40
0.67 0.19 0.15
Matches are distributed among these distances:
57 16 0.09
58 19 0.11
59 48 0.27
60 4 0.02
61 57 0.32
62 20 0.11
63 16 0.09
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (61 bp):
ATCATATATTATGATTTGAGTAAATTCATAAAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:90726585 original size:59 final size:58
Alignment explanation
Indices: 90726522--90726710 Score: 150
Period size: 59 Copynumber: 3.2 Consensus size: 58
90726512 ATTTTATTAA
*
90726522 ATCATATATTTTAATTAAAATATATTTAATAATAACTATGTTAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAA-TATGTTAAATTATATTTTATAGT
* * ** * * * * * *
90726581 ATCATATATTATGATTTGAGTAAATTCATATAAGAATA--TTAATTATTAAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTA-ATAATAATATGTTAA--ATT-A-TATTTTA-TAGT
* * * *
90726642 ATTATATATGTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAA-TATGTTAAATTATATTTTATAGT
90726701 ATCATATATT
1 ATCATATATT
90726711 ATGATTTGAG
Statistics
Matches: 94, Mismatches: 26, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
57 4 0.04
58 2 0.02
59 40 0.43
60 14 0.15
61 28 0.30
62 2 0.02
63 4 0.04
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (58 bp):
ATCATATATTTTAATTAAAATATATTTAATAATAATATGTTAAATTATATTTTATAGT
Found at i:90726647 original size:69 final size:69
Alignment explanation
Indices: 90726574--90726767 Score: 181
Period size: 69 Copynumber: 3.1 Consensus size: 69
90726564 AAATTATCTT
90726574 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
90726639 TAAA
66 TAAA
** * * * * ** *
90726643 TTATA-TATGTTA-ATTAT-A----A-TATATTTA-ATAA-TA-ATT-A-TGTTAA-TT-TATAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
90726693 T---
66 TAAA
90726694 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
90726759 TAAA
66 TAAA
90726763 TTATA
1 TTATA
90726768 TATTTTAATT
Statistics
Matches: 89, Mismatches: 18, Indels: 36
0.62 0.13 0.25
Matches are distributed among these distances:
51 5 0.06
52 5 0.06
53 5 0.06
54 6 0.07
56 5 0.06
57 1 0.01
58 4 0.04
59 7 0.08
60 8 0.09
61 7 0.08
62 4 0.04
63 1 0.01
64 5 0.06
66 6 0.07
67 5 0.06
68 5 0.06
69 10 0.11
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (69 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
TAAA
Found at i:90726664 original size:120 final size:120
Alignment explanation
Indices: 90726450--90726808 Score: 637
Period size: 120 Copynumber: 3.0 Consensus size: 120
90726440 TGATCAGTTT
*
90726450 TCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATAAAAGAATATTAATTATTAAGAATT
1 TCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
* * *
90726515 TTATTAAATCATATATTTTAATTAAAATATATTTAATAATAACTATGTTAAATTA
66 TTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTA
90726570 TCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
1 TCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
* *
90726635 TTATTAAATTATATATGTTAATTATAATATATTTAATAATAATTATGTTAATTTA
66 TTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTA
*
90726690 TATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
1 TCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
*
90726755 TTATTAAATTATATATTTTAATTATAATATATTTAATAGTAATTATGTTTAAAT
66 TTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
90726809 ATGATTAAAT
Statistics
Matches: 228, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
120 223 0.98
121 5 0.02
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (120 bp):
TCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
TTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTA
Found at i:90726676 original size:15 final size:16
Alignment explanation
Indices: 90726645--90726686 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
90726635 TTATTAAATT
*
90726645 ATATATGTTAATTATA
1 ATATATGTTAATAATA
90726661 ATATAT-TTAATAATA
1 ATATATGTTAATAATA
90726676 AT-TATGTTAAT
1 ATATATGTTAAT
90726687 TTATATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 3 0.12
15 15 0.62
16 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (16 bp):
ATATATGTTAATAATA
Found at i:90727043 original size:16 final size:16
Alignment explanation
Indices: 90727022--90727089 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
90727012 GATTTGCTAT
90727022 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
90727038 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
90727054 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
90727070 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
90727086 TACA
1 TACA
90727090 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:90728368 original size:13 final size:13
Alignment explanation
Indices: 90728350--90728398 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
90728340 ATATTTGAAG
90728350 AATAAAATTATAT
1 AATAAAATTATAT
*
90728363 AATAAATATATTTAT
1 AATAAA-AT-TATAT
*
90728378 AAAAAAATTATAT
1 AATAAAATTATAT
90728391 AAATAAAA
1 -AATAAAA
90728399 AGGTGAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 10 0.34
14 10 0.34
15 9 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATAAAATTATAT
Found at i:90728663 original size:15 final size:15
Alignment explanation
Indices: 90728640--90728671 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
90728630 AAAAAGTTTT
*
90728640 TTTATTTTTAAATAA
1 TTTACTTTTAAATAA
90728655 TTTACTTTTAAATAA
1 TTTACTTTTAAATAA
90728670 TT
1 TT
90728672 AATTTGCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTACTTTTAAATAA
Found at i:90728801 original size:21 final size:21
Alignment explanation
Indices: 90728777--90728818 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
90728767 GGTATGTTTA
90728777 AATGATTTGGTTTGCCATATC
1 AATGATTTGGTTTGCCATATC
90728798 AATGATTTGGTTTGCCATATC
1 AATGATTTGGTTTGCCATATC
90728819 CACTTGAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (21 bp):
AATGATTTGGTTTGCCATATC
Found at i:90736990 original size:17 final size:16
Alignment explanation
Indices: 90736968--90737002 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
90736958 TGGTGTAATC
90736968 TTTGTTATGTTTGTATG
1 TTTGTTATGTTT-TATG
90736985 TTTGTTATGTTTTATG
1 TTTGTTATGTTTTATG
90737001 TT
1 TT
90737003 AAAGAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.11, C:0.00, G:0.20, T:0.69
Consensus pattern (16 bp):
TTTGTTATGTTTTATG
Found at i:90736993 original size:9 final size:9
Alignment explanation
Indices: 90736968--90736996 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
90736958 TGGTGTAATC
90736968 TTTGTTATG
1 TTTGTTATG
90736977 TTTG-TATG
1 TTTGTTATG
90736985 TTTGTTATG
1 TTTGTTATG
90736994 TTT
1 TTT
90736997 TATGTTAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.10, C:0.00, G:0.21, T:0.69
Consensus pattern (9 bp):
TTTGTTATG
Found at i:90738872 original size:40 final size:40
Alignment explanation
Indices: 90738817--90739038 Score: 367
Period size: 40 Copynumber: 5.6 Consensus size: 40
90738807 TATTCGAATG
90738817 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
90738857 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
90738897 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
90738937 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
90738977 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
90739017 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
90739039 TACTTGGGTT
Statistics
Matches: 173, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.08
40 156 0.90
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:90747099 original size:40 final size:40
Alignment explanation
Indices: 90747044--90747265 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
90747034 TATTCGAATG
*
90747044 ATATCCGGGCTAAGTCCCGAAGGCATTTGTTCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
90747084 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
90747124 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
90747164 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
90747204 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
90747244 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
90747266 TACTTGGGTT
Statistics
Matches: 172, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.08
40 155 0.90
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:90752408 original size:17 final size:17
Alignment explanation
Indices: 90752386--90752420 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
90752376 GCAACACCTC
90752386 TAAAAATCAACTTTCAT
1 TAAAAATCAACTTTCAT
90752403 TAAAAATCAACTTTCAT
1 TAAAAATCAACTTTCAT
90752420 T
1 T
90752421 GACATATAAA
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:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAATCAACTTTCAT
Found at i:90752519 original size:16 final size:16
Alignment explanation
Indices: 90752498--90752549 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
90752488 TTTGGTTCGC
90752498 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
90752514 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
* *
90752530 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
90752546 TGTA
1 TGTA
90752550 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:90752596 original size:45 final size:43
Alignment explanation
Indices: 90752530--90752624 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 43
90752520 AGATTAGAGG
*
90752530 TGTAATGGAATAGAGGTGTAATAGCAAATCAAC-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATA-CAAA--AACGTGTTTGGTTGAA
*
90752575 TGTAATGGAATAGAGGCGTAATACTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATACAAAAAC-GTGTTTGGTTGAA
90752619 TGTAAT
1 TGTAAT
90752625 AGAGGTGTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
42 3 0.07
44 21 0.46
45 22 0.48
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTAATGGAATAGAGGCGTAATACAAAAACGTGTTTGGTTGAA
Found at i:90752807 original size:18 final size:17
Alignment explanation
Indices: 90752786--90752820 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
90752776 TTATTATTTA
*
90752786 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
90752804 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
90752821 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:90752814 original size:28 final size:27
Alignment explanation
Indices: 90752744--90752816 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
90752734 TTTATTATCA
*
90752744 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
90752772 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
90752799 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
90752817 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:90752954 original size:18 final size:17
Alignment explanation
Indices: 90752933--90752967 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
90752923 TTATTATTAA
*
90752933 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
90752951 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
90752968 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:90752979 original size:147 final size:149
Alignment explanation
Indices: 90752705--90752979 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
90752695 ATGATTATTG
*
90752705 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
90752770 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
90752835 AAAAATTTGTTTTGGTAAA
131 AAAAATTTGTTTTGGTAAA
*
90752854 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
90752917 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
90752980 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AAAAATTTGTTTTGGTAAA
Found at i:90753011 original size:54 final size:54
Alignment explanation
Indices: 90752953--90753131 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
90752943 ATTAAAATAT
*
90752953 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
90753007 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
90753070 TAT
53 -AC
*
90753073 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
90753127 ATAAT
1 ATAAT
90753132 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:90753074 original size:18 final size:17
Alignment explanation
Indices: 90753053--90753087 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
90753043 TTATTATTAA
90753053 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
90753071 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
90753088 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:90753202 original size:18 final size:17
Alignment explanation
Indices: 90753163--90753194 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
90753153 TTTTAAATAA
90753163 TTAATATTAAATATATT
1 TTAATATTAAATATATT
90753180 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
90753195 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:90753219 original size:120 final size:120
Alignment explanation
Indices: 90752916--90753208 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
90752906 ATCATATTTA
90752916 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
90752981 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* *
90753036 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
90753101 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* * *
90753157 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
90753209 TAAAATAATT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 3 0.02
120 155 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:90753319 original size:91 final size:91
Alignment explanation
Indices: 90753224--90753431 Score: 258
Period size: 91 Copynumber: 2.3 Consensus size: 91
90753214 TAATTATAAC
* * * *
90753224 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
*
90753288 TAATATAAAATTTCATAAAATTCTTGA
65 TAATATAAAATTTCATAAAATTCTTAA
* * *
90753315 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* * * *
90753380 GATATATAATTTCATGAAATTGTTAA
66 AATATAAAATTTCATAAAATTCTTAA
*
90753406 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
90753432 CTAAAATCAA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
91 79 0.77
92 22 0.22
93 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATAAAATTTCATAAAATTCTTAA
Found at i:90754253 original size:14 final size:14
Alignment explanation
Indices: 90754234--90754264 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
90754224 AAAATATTAA
90754234 CAACAAATAGTTCC
1 CAACAAATAGTTCC
90754248 CAACAAATAGTTCC
1 CAACAAATAGTTCC
90754262 CAA
1 CAA
90754265 TTGCCAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.29, G:0.06, T:0.19
Consensus pattern (14 bp):
CAACAAATAGTTCC
Found at i:90758598 original size:73 final size:73
Alignment explanation
Indices: 90758507--90758652 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
90758497 TAACTGAAAG
90758507 TATATTCTTGTTTCTTCTAATCGATAGAATTATTATTATCCAAACCATATTTGCTATTTCTTTGT
1 TATATTCTTGTTTCTTCTAATCGATAGAATTATTATTATCCAAACCATATTTGCTATTTCTTTGT
90758572 TGAGATGT
66 TGAGATGT
90758580 TATATTCTTGTTTCTTCTAATCGATAGAATTATTATTATCCAAACCATATTTGCTATTTCTTTGT
1 TATATTCTTGTTTCTTCTAATCGATAGAATTATTATTATCCAAACCATATTTGCTATTTCTTTGT
90758645 TGAGATGT
66 TGAGATGT
90758653 CTCGTGGACA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (73 bp):
TATATTCTTGTTTCTTCTAATCGATAGAATTATTATTATCCAAACCATATTTGCTATTTCTTTGT
TGAGATGT
Found at i:90763388 original size:18 final size:19
Alignment explanation
Indices: 90763340--90763378 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
90763330 TTCATTGCAA
90763340 ATAA-AAAATTTTAATCAT
1 ATAAGAAAATTTTAATCAT
90763358 ATAAGAAAATTTTAATCAT
1 ATAAGAAAATTTTAATCAT
90763377 AT
1 AT
90763379 TGAAAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
ATAAGAAAATTTTAATCAT
Found at i:90766279 original size:11 final size:11
Alignment explanation
Indices: 90766260--90766292 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
90766250 ATGAAAACCG
*
90766260 AATACAAGAAA
1 AATAAAAGAAA
90766271 AATAAAAGAAA
1 AATAAAAGAAA
90766282 AATAAAA-AAA
1 AATAAAAGAAA
90766292 A
1 A
90766293 GGTAGTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (11 bp):
AATAAAAGAAA
Found at i:90778135 original size:93 final size:93
Alignment explanation
Indices: 90777855--90778148 Score: 274
Period size: 94 Copynumber: 3.1 Consensus size: 93
90777845 CATACCTCTA
* * * *
90777855 AAGTTGTAGTGGTTCAGATTGAAA-TCACCATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAG
1 AAGTTGCAGTGGGTCAGATTGAAACT-ATCATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAG
* * *
90777919 CAGATTGAAGCTAAAAATTCTATACCCCTG
65 CAAATTGAAGCTACAAATTCTAT-CCCTTG
* * * * * ** *
90777949 AAGTTGTAGTGGGTCAGATTGAATCTATCATAGTGAATCTTATCTCTCTGAAGTTTTAGTGGAAC
1 AAGTTGCAGTGGGTCAGATTGAAACTATCATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGC
* * *
90778014 AAAAT-AGAGCTGCAAATTCTATAACCTTG
66 AAATTGA-AGCTACAAATTCTAT-CCCTTG
* * * *
90778043 AAGTTGCAATGGGT-TGATTGAAACTAT-AGTGGCGAATCTTATCTCCCTCAAGTTGCAGTGGAG
1 AAGTTGCAGTGGGTCAGATTGAAACTATCA-TAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAG
* *
90778106 CAAATTGAAGTTAC-AAGTCTTATCTCCTTG
65 CAAATTGAAGCTACAAATTC-TATC-CCTTG
90778136 AAGTTGCAGTGGG
1 AAGTTGCAGTGGG
90778149 ATAAGATGAA
Statistics
Matches: 161, Mismatches: 33, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
92 5 0.03
93 68 0.42
94 87 0.54
95 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (93 bp):
AAGTTGCAGTGGGTCAGATTGAAACTATCATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGC
AAATTGAAGCTACAAATTCTATCCCTTG
Found at i:90778303 original size:50 final size:50
Alignment explanation
Indices: 90778213--90778335 Score: 126
Period size: 50 Copynumber: 2.5 Consensus size: 50
90778203 GTTATAGTCC
* * **
90778213 CAAATCTTATCTTCCTGAAGTTACAGTGGATTAGATTGAAACTACAACAA
1 CAAATCTTATCTTCCTAAAGTTACAATGGACAAGATTGAAACTACAACAA
*
90778263 CAAATCTTATC-TCCTTAAAGTTACAATGGAGCAAGA-TGAAACTATAAC-A
1 CAAATCTTATCTTCC-TAAAGTTACAATGGA-CAAGATTGAAACTACAACAA
* * *
90778312 CTAAGTCCTGTCTTCCTAAAGTTA
1 C-AAATCTTATCTTCCTAAAGTTA
90778336 TAGCGAAGCA
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
49 5 0.08
50 50 0.82
51 6 0.10
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (50 bp):
CAAATCTTATCTTCCTAAAGTTACAATGGACAAGATTGAAACTACAACAA
Found at i:90779923 original size:3 final size:3
Alignment explanation
Indices: 90779915--90779978 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
90779905 TTTTTCTCCC
* *
90779915 TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
90779963 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
90779979 AGTAACTATA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:90787306 original size:47 final size:47
Alignment explanation
Indices: 90787249--90787552 Score: 428
Period size: 47 Copynumber: 6.4 Consensus size: 47
90787239 ATTGATGTAC
* * * *
90787249 AAGTATATATATGTGATAGGGCCGAGTGGCCAATATGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
90787296 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
90787345 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
90787392 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
90787439 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
90787486 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
90787533 AAGTGTATAGATGTGATAAG
1 AAGTGTATATATGTGATAAG
90787553 TCCCGAAGGG
Statistics
Matches: 237, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 192 0.81
49 45 0.19
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:90792378 original size:33 final size:33
Alignment explanation
Indices: 90792336--90792432 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 33
90792326 TCTTCTCGAC
* *
90792336 ATTCCAGCTCCTGTCCAACAACCAAACACTTCA
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTCCA
* *
90792369 ATTCCAGCTCCAGTCCAGCAACCAAACACTCCC
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTCCA
* *
90792402 ATTCCAGCTCTTGTCTAGCAACCAAACACTC
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTC
90792433 TCACTCAAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.31, C:0.40, G:0.08, T:0.21
Consensus pattern (33 bp):
ATTCCAGCTCCTGTCCAGCAACCAAACACTCCA
Found at i:90803760 original size:42 final size:42
Alignment explanation
Indices: 90803709--90803995 Score: 434
Period size: 42 Copynumber: 6.8 Consensus size: 42
90803699 GTTTACAAAC
* *
90803709 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
90803751 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
90803793 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
90803835 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AA
* * * * *
90803877 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTCGGA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
90803919 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-ATG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-A
*
90803961 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
90803996 TTTTTTTTCT
Statistics
Matches: 225, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
41 3 0.01
42 219 0.97
43 3 0.01
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:90804051 original size:84 final size:82
Alignment explanation
Indices: 90803709--90804097 Score: 402
Period size: 84 Copynumber: 4.6 Consensus size: 82
90803699 GTTTACAAAC
* * * *
90803709 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGAACATGT
* **
90803774 TCTTTAGCGGCGCTTAGAA
66 TCTTTAGCGGC-ATT-TTA
*
90803793 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGAACATGT
*
90803858 TCTTTAGCGGCGTTTGTAA
66 TCTTTAGCGGCATTT-T-A
* * * * *
90803877 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTCGGAAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGAACATGT
**
90803942 TCTTTAGCGGC-GCTTA
66 TCTTTAGCGGCATTTTA
* ***** *
90803958 ATGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTCTAATCGCCGCTAAAGAAC
1 A---AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-CTTTGAAAAAAACGCCGCTAAAGAAC
* *
90804023 ATGTTCTTTAGTGGCATTTTTT
62 ATGTTCTTTAGCGGCA-TTTTA
* * * * *
90804045 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTTATACAAAAACGCC
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGA-A-AAAAACGCC
90804098 ACTATTTTTG
Statistics
Matches: 257, Mismatches: 38, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
81 2 0.01
82 1 0.00
83 7 0.03
84 206 0.80
85 38 0.15
87 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGAACATGT
TCTTTAGCGGCATTTTA
Found at i:90804051 original size:126 final size:126
Alignment explanation
Indices: 90803709--90804082 Score: 430
Period size: 126 Copynumber: 3.0 Consensus size: 126
90803699 GTTTACAAAC
* * * * * *
90803709 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAAAAAAATGCCACTAAAGAACATG
* * * *
90803773 TTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
65 TTCTTTAGCGGCGATTCGGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
90803835 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCACTAAAGACCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCACTAAAGAACATGT
* *
90803900 TCTTTAGCGGCGCTTCGGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-ATG
66 TCTTTAGCGGCGATTCGGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
* * * ***** *
90803961 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTCTAATCGCCGCTAAAGAACATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAAT-GCCACTAAAGAACATG
* **** * * *
90804026 TTCTTTAGTGGC-ATTTTTTACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
65 TTCTTTAGCGGCGATTCGGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
90804083 TTATACAAAA
Statistics
Matches: 216, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
125 4 0.02
126 187 0.87
127 25 0.12
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (126 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCACTAAAGAACATGT
TCTTTAGCGGCGATTCGGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:90804474 original size:21 final size:21
Alignment explanation
Indices: 90804406--90804476 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
90804396 TTTTGCTCTG
* *
90804406 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
90804427 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
90804448 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
90804469 CTCTGCTT
1 CTCTGCTT
90804477 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:90808220 original size:11 final size:11
Alignment explanation
Indices: 90808204--90808243 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
90808194 GATGATAATA
90808204 CATTAGTTACC
1 CATTAGTTACC
90808215 CATTAGTTACC
1 CATTAGTTACC
*
90808226 CACTAGTTACC
1 CATTAGTTACC
90808237 CA-TAGTT
1 CATTAGTT
90808244 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:90810220 original size:7 final size:7
Alignment explanation
Indices: 90810167--90810243 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
90810157 ACCTTAATCA
*
90810167 CTAAACT
1 CTAAACC
90810174 CTCAAACC
1 CT-AAACC
90810182 CTAAACC
1 CTAAACC
** *
90810189 AAAAACA
1 CTAAACC
90810196 CTAAA-C
1 CTAAACC
* *
90810202 CTACATC
1 CTAAACC
*
90810209 GTAAACC
1 CTAAACC
*
90810216 TTAAACC
1 CTAAACC
*
90810223 CTAAACT
1 CTAAACC
90810230 CTAAACC
1 CTAAACC
90810237 CTAAACC
1 CTAAACC
90810244 AGAATTCAAA
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
6 4 0.08
7 43 0.81
8 6 0.11
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:90810234 original size:14 final size:13
Alignment explanation
Indices: 90810167--90810243 Score: 64
Period size: 14 Copynumber: 5.5 Consensus size: 13
90810157 ACCTTAATCA
90810167 CTAAACTCTCAAACC
1 CTAAAC-CT-AAACC
* *
90810182 CTAAACCAAAAACA
1 CTAAACC-TAAACC
* *
90810196 CTAAACCTACATC
1 CTAAACCTAAACC
*
90810209 GTAAACCTTAAACC
1 CTAAACC-TAAACC
90810223 CTAAACTCTAAACC
1 CTAAAC-CTAAACC
90810237 CTAAACC
1 CTAAACC
90810244 AGAATTCAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
13 9 0.18
14 33 0.67
15 7 0.14
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.18
Consensus pattern (13 bp):
CTAAACCTAAACC
Found at i:90810305 original size:17 final size:17
Alignment explanation
Indices: 90810283--90810332 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
90810273 TATCCTATTT
90810283 CCTACATTATATAATAA
1 CCTACATTATATAATAA
90810300 CCTACATTATATAATAA
1 CCTACATTATATAATAA
*
90810317 ACTACA-TATATAATAA
1 CCTACATTATATAATAA
90810333 TCTAGCGGCG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 10 0.31
17 22 0.69
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (17 bp):
CCTACATTATATAATAA
Found at i:90810535 original size:113 final size:111
Alignment explanation
Indices: 90810354--90810704 Score: 402
Period size: 113 Copynumber: 3.1 Consensus size: 111
90810344 TTCCCACAAC
* * * *
90810354 GCGCCGCTAATAATATGTTTTACCGGCGTTTTACCATAAGCGCCAC-AACTGGTAGTATACATCA
1 GCGCCGCTAATACTATGATTTAGCGGCGTTTTA-AATAAGCGCCACTAA-T-GTAGTATACATCA
90810418 AGACCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
63 AGACCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
* * *
90810467 GCGCCGCTAATACTATGATTTAGCGGCGTTTTCAAATAAGCGCCACTAATCGTAATGTACCTCAA
1 GCGCCGCTAATACTATGATTTAGCGGCGTTTT-AAATAAGCGCCACTAAT-GTAGTATACATCAA
* * * * *
90810532 GACCAAA-CTCTGCGTTTTGGTTAA-GAAATATTGCGGCGCTTTTCACTAC
64 GACCAAAGCGCTGCGTTTTGGTTAATG---TTTTGCGGCGCTTTACAATAA
* ** * *
90810581 TCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATAAGCGCCACTACTGCTAGTATACATCAA
1 GCGCCGCTAATACTATGATTTAGCGGCGTTTTAA-ATAAGCGCCACTAATG-TAGTATACATCAA
* * *
90810646 GACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGTTTTCCAATAA
64 GACCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
*
90810694 GCGCCACTAAT
1 GCGCCGCTAAT
90810705 CCTAATATAC
Statistics
Matches: 199, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
111 1 0.01
112 16 0.08
113 87 0.44
114 79 0.40
115 16 0.08
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (111 bp):
GCGCCGCTAATACTATGATTTAGCGGCGTTTTAAATAAGCGCCACTAATGTAGTATACATCAAGA
CCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
Found at i:90810806 original size:188 final size:188
Alignment explanation
Indices: 90810484--90810886 Score: 689
Period size: 188 Copynumber: 2.1 Consensus size: 188
90810474 TAATACTATG
* * * * *
90810484 ATTTAGCGGCGTTTTCAAATAAGCGCCACTAATCGTAATGTACCTCAAGACCAAACTCTGCGTTT
1 ATTTTGCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTT
90810549 TGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTA
66 TGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTA
90810614 ATATAAGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAT
131 ATATAAGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAT
90810672 ATTTTGCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTT
1 ATTTTGCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTT
* * *
90810737 TGGTTAAGAAATCTTGCGGCGCTTTTCACTACTCGCTGCTAATACTATTCTTTAGTAGCGTTTTA
66 TGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTA
* *
90810802 ATATAAGTGCCACTACTGGTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAT
131 ATATAAGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAT
* * *
90810860 ATTTTGCGACGCTTTACAATAAGCGCC
1 ATTTTGCGGCGTTTTCCAATAAGCGCC
90810887 GCTACTACTA
Statistics
Matches: 202, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
188 202 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (188 bp):
ATTTTGCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTT
TGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTA
ATATAAGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAT
Found at i:90810927 original size:113 final size:114
Alignment explanation
Indices: 90810677--90811102 Score: 464
Period size: 114 Copynumber: 3.7 Consensus size: 114
90810667 TTAATATTTT
* ** *
90810677 GCGGCGTTTTCCA-ATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGT
1 GCGGCGTTTT-AATATAAGCGCCACTAATCCTAATATACATCAAGACCAAACGCTGCGTTTTGGT
* * * *
90810741 TAAGAAATCTTGCGGCGCTTTTCACTACTCGCTGCTAATACTATTCTTTA
65 TAAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
** * * ** *
90810791 GTAGCGTTTTAATATAAGTGCCACTACTGGTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGT
1 GCGGCGTTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAA-CGCTGCGTTTTGGT
* * * * ** * * *
90810856 T-A-ATATTTTGCGACGCTTTACAATAAGCGCCGCTACTACTATGCGTTA
65 TAAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
* * *
90810904 GCGGCGTTTTTAA-ATAAGCGCCACTAATCCTAATGTACCTCAAGACCAAACTCTGCGTTTTGGT
1 GCGGCG-TTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAACGCTGCGTTTTGGT
*
90810968 TAAGAAATATTGCGGCGCTTTTCAGTACTCGCCGCTAATACTATACTTTA
65 TAAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
* ** * *
90811018 GCGGCGTTTGAATATAAGCGCCACTAAGGCTACTATACATCAAGACCAAAGCGCTGCGTTTTGGA
1 GCGGCGTTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAA-CGCTGCGTTTTGGT
** *
90811083 TAAGAGCTTTTGCGGCGCTT
65 TAAGAAATATTGCGGCGCTT
90811103 GGTAGTAAAC
Statistics
Matches: 252, Mismatches: 53, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
112 14 0.06
113 76 0.30
114 119 0.47
115 43 0.17
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (114 bp):
GCGGCGTTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAACGCTGCGTTTTGGTT
AAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
Found at i:90812131 original size:14 final size:15
Alignment explanation
Indices: 90812098--90812136 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
90812088 TGTTAAAAAG
*
90812098 AAAATTAGTACTGAA
1 AAAATAAGTACTGAA
*
90812113 AAAATAAGTACTCAA
1 AAAATAAGTACTGAA
*
90812128 AAATTAAGT
1 AAAATAAGT
90812137 GTAGAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.26
Consensus pattern (15 bp):
AAAATAAGTACTGAA
Found at i:90813137 original size:17 final size:18
Alignment explanation
Indices: 90813105--90813144 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
90813095 ACATGATTTT
*
90813105 TTTTAAAAACACATAAAA
1 TTTTAAAAACAAATAAAA
90813123 TTTTAAAAA-AAATAAAA
1 TTTTAAAAACAAATAAAA
90813140 TTTTA
1 TTTTA
90813145 GTAAATTCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (18 bp):
TTTTAAAAACAAATAAAA
Found at i:90813152 original size:72 final size:68
Alignment explanation
Indices: 90813067--90813199 Score: 194
Period size: 72 Copynumber: 1.9 Consensus size: 68
90813057 AAATCTAATT
** **
90813067 ATTTTAGTAAATTCATGAAATATAACTAACATGATTTTTTTTAAAAACACATAAAATTTTAAAAA
1 ATTTTAGTAAATTCACCAAATATAACTAACATGA---TTTAAAAAAACAC-TAAAATTTTAAAAA
90813132 AAATAAA
62 AAATAAA
90813139 ATTTTAGTAAATTCACCAAATATAACTAACATGATTTAAAAAAACACTAAAATTTTAAAAA
1 ATTTTAGTAAATTCACCAAATATAACTAACATGATTTAAAAAAACACTAAAATTTTAAAAA
90813200 TAATTTATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
68 14 0.25
69 11 0.19
72 32 0.56
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (68 bp):
ATTTTAGTAAATTCACCAAATATAACTAACATGATTTAAAAAAACACTAAAATTTTAAAAAAAAT
AAA
Found at i:90814748 original size:66 final size:65
Alignment explanation
Indices: 90814642--90814768 Score: 184
Period size: 66 Copynumber: 1.9 Consensus size: 65
90814632 GGGTTCCATC
* * *
90814642 GTTTCTATGGTTACTTTTTAAAAGTGAGGTCCTCTTTATACACCGGAGCTCATTCTTTCATTTAA
1 GTTTCTATGGTTACTTCTTAAAAGTGAGGTCCTCTTTATACACCAGAGCTCATTCCTTCATTTAA
* *
90814707 GTTTCTACT-GTTACTTCTTAAACAGTGAGGTCCTCTTTATACACTAGAGCTTATTCCTTCAT
1 GTTTCTA-TGGTTACTTCTTAAA-AGTGAGGTCCTCTTTATACACCAGAGCTCATTCCTTCAT
90814769 ATAATTGGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
65 19 0.35
66 36 0.65
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (65 bp):
GTTTCTATGGTTACTTCTTAAAAGTGAGGTCCTCTTTATACACCAGAGCTCATTCCTTCATTTAA
Found at i:90816128 original size:12 final size:12
Alignment explanation
Indices: 90816111--90816135 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90816101 ATTTTATAAC
90816111 ATAAATATTGTT
1 ATAAATATTGTT
90816123 ATAAATATTGTT
1 ATAAATATTGTT
90816135 A
1 A
90816136 ATAGCCTCTG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:90817189 original size:20 final size:20
Alignment explanation
Indices: 90817152--90817190 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
90817142 TCAAAAATAT
* **
90817152 TATAAAAATTATTTAAAAAG
1 TATAAAAATCATAAAAAAAG
90817172 TATAAAAATCATAAAAAAA
1 TATAAAAATCATAAAAAAA
90817191 AATATATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
TATAAAAATCATAAAAAAAG
Found at i:90824445 original size:33 final size:33
Alignment explanation
Indices: 90824403--90824474 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
90824393 CTAGCAATTC
90824403 AATAATAAGTGTTTGAGCCATACTCTTCTCTAA
1 AATAATAAGTGTTTGAGCCATACTCTTCTCTAA
90824436 AATAATAAGTGTTTGAGCCATACTCTTCTCTAA
1 AATAATAAGTGTTTGAGCCATACTCTTCTCTAA
90824469 AATAAT
1 AATAAT
90824475 CTCAAAGTCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (33 bp):
AATAATAAGTGTTTGAGCCATACTCTTCTCTAA
Found at i:90825293 original size:2 final size:2
Alignment explanation
Indices: 90825286--90825314 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
90825276 GTCTTTTTCT
90825286 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
90825315 TTTAAATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90839753 original size:3 final size:3
Alignment explanation
Indices: 90839745--90839785 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
90839735 TTTAAACTCA
90839745 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
90839786 CTTTTATTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:90840630 original size:39 final size:39
Alignment explanation
Indices: 90840576--90840658 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
90840566 CTTTGGGCCT
*
90840576 TAACTATTTTTTCTTAATTTTCCCCTTAATAATAACCCA
1 TAACTATTTTTTCTTAATTTCCCCCTTAATAATAACCCA
90840615 TAACTATTTTTTCTTAATTTCCCCCTTAATAATAACCCA
1 TAACTATTTTTTCTTAATTTCCCCCTTAATAATAACCCA
90840654 TAACT
1 TAACT
90840659 TAACCCTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.45
Consensus pattern (39 bp):
TAACTATTTTTTCTTAATTTCCCCCTTAATAATAACCCA
Found at i:90848311 original size:13 final size:13
Alignment explanation
Indices: 90848293--90848340 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
90848283 GAAACCCTAG
90848293 CTTTCTCCTTTTT
1 CTTTCTCCTTTTT
90848306 CTTTCT-CTTTTT
1 CTTTCTCCTTTTT
90848318 CTTTTCTTTCCTTTTT
1 C-TTTC--TCCTTTTT
90848334 CCTTTCT
1 -CTTTCT
90848341 GTTTCGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
12 7 0.23
13 10 0.33
14 1 0.03
15 1 0.03
16 10 0.33
17 1 0.03
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
CTTTCTCCTTTTT
Found at i:90848317 original size:12 final size:12
Alignment explanation
Indices: 90848293--90848326 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
90848283 GAAACCCTAG
90848293 CTTTCTCCTTTTT
1 CTTTCT-CTTTTT
90848306 CTTTCTCTTTTT
1 CTTTCTCTTTTT
90848318 CTTT-TCTTT
1 CTTTCTCTTT
90848327 CCTTTTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.24
12 10 0.48
13 6 0.29
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
CTTTCTCTTTTT
Found at i:90848325 original size:11 final size:11
Alignment explanation
Indices: 90848300--90848385 Score: 56
Period size: 10 Copynumber: 8.0 Consensus size: 11
90848290 TAGCTTTCTC
90848300 CTTTTTCTTTCT
1 CTTTTTCTTT-T
90848312 CTTTTTCTTTT
1 CTTTTTCTTTT
*
90848323 C-TTTCCTTTT
1 CTTTTTCTTTT
*
90848333 -TCCTTTCTGTTT
1 CT-TTTTCT-TTT
*
90848345 C-GTTT-TTTT
1 CTTTTTCTTTT
*
90848354 CTTGTTC-TTT
1 CTTTTTCTTTT
**
90848364 CTTTTTCTAAT
1 CTTTTTCTTTT
90848375 CTTTTTCTTTT
1 CTTTTTCTTTT
90848386 ATTTATTCAT
Statistics
Matches: 56, Mismatches: 11, Indels: 15
0.68 0.13 0.18
Matches are distributed among these distances:
9 4 0.07
10 20 0.36
11 19 0.34
12 13 0.23
ACGTcount: A:0.02, C:0.21, G:0.03, T:0.73
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:90848333 original size:16 final size:17
Alignment explanation
Indices: 90848302--90848369 Score: 68
Period size: 17 Copynumber: 3.9 Consensus size: 17
90848292 GCTTTCTCCT
90848302 TTTTCTTTCTCTTTTTC
1 TTTTCTTTCTCTTTTTC
90848319 TTTTCTTTC-CTTTTTCC
1 TTTTCTTTCTCTTTTT-C
* *
90848336 TTTCTGTTTCGTTTTTTTC
1 TTT-TCTTTC-TCTTTTTC
90848355 TTGTTCTTTCT-TTTT
1 TT-TTCTTTCTCTTTT
90848370 CTAATCTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
16 6 0.14
17 17 0.40
18 6 0.14
19 8 0.19
20 6 0.14
ACGTcount: A:0.00, C:0.21, G:0.04, T:0.75
Consensus pattern (17 bp):
TTTTCTTTCTCTTTTTC
Found at i:90848432 original size:5 final size:5
Alignment explanation
Indices: 90848417--90848463 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
90848407 AATTATTATA
*
90848417 ATAAT ACAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
90848464 TTACTTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:90850042 original size:6 final size:6
Alignment explanation
Indices: 90850026--90850070 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
90850016 TCTAAATGAA
* * *
90850026 TTCATTT TTCATT TTCATT TTCGTT TGCATT TTCATT TCCATT TT
1 TTCA-TT TTCATT TTCATT TTCATT TTCATT TTCATT TTCATT TT
90850071 GAGAAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.13, C:0.18, G:0.04, T:0.64
Consensus pattern (6 bp):
TTCATT
Found at i:90852468 original size:25 final size:25
Alignment explanation
Indices: 90852434--90852486 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
90852424 TGTGACGTTC
90852434 ATAGTGTGGCTTACCTCAATCATGA
1 ATAGTGTGGCTTACCTCAATCATGA
90852459 ATAGTGTGGCTTACCTCAATCATGA
1 ATAGTGTGGCTTACCTCAATCATGA
90852484 ATA
1 ATA
90852487 AGTAACAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (25 bp):
ATAGTGTGGCTTACCTCAATCATGA
Found at i:90853221 original size:21 final size:20
Alignment explanation
Indices: 90853184--90853222 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
90853174 TAGAAATTAA
* *
90853184 ATTAATTTATTTGAATTATT
1 ATTAATTGATTTCAATTATT
90853204 ATTATATTGATTTCAATTA
1 ATTA-ATTGATTTCAATTA
90853223 ACTAACTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTAATTGATTTCAATTATT
Found at i:90861660 original size:11 final size:11
Alignment explanation
Indices: 90861582--90861660 Score: 58
Period size: 11 Copynumber: 7.5 Consensus size: 11
90861572 GAGCAATTTG
90861582 TAAATAAATAA
1 TAAATAAATAA
**
90861593 T-AATGGATAA
1 TAAATAAATAA
*
90861603 TAAAAAAATACA
1 TAAATAAATA-A
* *
90861615 T-ACTCAATAA
1 TAAATAAATAA
*
90861625 AAAAT-AA-AA
1 TAAATAAATAA
*
90861634 TAAACAAATAA
1 TAAATAAATAA
90861645 TAAATAAATAA
1 TAAATAAATAA
90861656 TAAAT
1 TAAAT
90861661 TGGCAAATAA
Statistics
Matches: 50, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
9 5 0.10
10 13 0.26
11 30 0.60
12 2 0.04
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (11 bp):
TAAATAAATAA
Found at i:90863535 original size:45 final size:46
Alignment explanation
Indices: 90863454--90863547 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 46
90863444 TTTCAGGGAG
* * *
90863454 AAGAGATTTGTAACTTCAATCTACTCCGCTGGAACTTAAAGGAGAT
1 AAGAGATTGGTAACTTCAATCTACTCCACTGCAACTTAAAGGAGAT
* * *
90863500 AAGA-ATTGGTAATTTCAA-CTAGCTCCACTGCAACTTCAGGGAGAT
1 AAGAGATTGGTAACTTCAATCTA-CTCCACTGCAACTTAAAGGAGAT
90863545 AAG
1 AAG
90863548 GTTTGTGTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
44 3 0.07
45 34 0.83
46 4 0.10
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (46 bp):
AAGAGATTGGTAACTTCAATCTACTCCACTGCAACTTAAAGGAGAT
Found at i:90868350 original size:81 final size:83
Alignment explanation
Indices: 90868240--90868402 Score: 206
Period size: 81 Copynumber: 2.0 Consensus size: 83
90868230 TATGGAGGCG
** * * ** *
90868240 AAGGAAAGATCAAAAGAATGAAAGAATCTAAGAATAATTATTTGTATGGTATGATTATGAAT-G-
1 AAGGAAAGATCAAAAGAACAAAAGAATCTAAAAATAATTATCTGTATAATATAATTATGAATGGA
90868303 AAGAATAAATGAATATTTA
66 AAGAATAAA-GAATATTTA
* * *
90868322 AAGGAAAG-TCCAAAGAACAAAAGAATCTAAAAATAATTGTCTGTATAATGTAATTATGAATGGA
1 AAGGAAAGATCAAAAGAACAAAAGAATCTAAAAATAATTATCTGTATAATATAATTATGAATGGA
90868386 AAGAATAAAGAATATTT
66 AAGAATAAAGAATATTT
90868403 GCACACAATG
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 43 0.62
82 17 0.25
83 9 0.13
ACGTcount: A:0.51, C:0.04, G:0.17, T:0.28
Consensus pattern (83 bp):
AAGGAAAGATCAAAAGAACAAAAGAATCTAAAAATAATTATCTGTATAATATAATTATGAATGGA
AAGAATAAAGAATATTTA
Found at i:90875932 original size:4 final size:4
Alignment explanation
Indices: 90875923--90876024 Score: 56
Period size: 4 Copynumber: 26.5 Consensus size: 4
90875913 GAGCAATTTG
* * * *
90875923 TAAA TAAA TACA TAAA T-AA T-AA TAATGA TAAA -AAA TACA T-AC TCAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA--A TAAA TAAA TAAA TAAA TAAA
* * * *
90875969 TAAA -AAA TAAAA TAAA CAAA -GAA TAAA TAAA T-AA TAAA TTAA CAAA
1 TAAA TAAA T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
90876015 TAAA TAAA TA
1 TAAA TAAA TA
90876025 GATTTATAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
3 18 0.24
4 49 0.65
5 4 0.05
6 4 0.05
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:90875997 original size:27 final size:27
Alignment explanation
Indices: 90875967--90876024 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
90875957 ATACATACTC
*
90875967 AATAAAAAATAAAATAAACAAA-GAATA
1 AATAAAAAAT-AAATAAACAAATAAATA
* *
90875994 AATAAATAATAAATTAACAAATAAATA
1 AATAAAAAATAAATAAACAAATAAATA
90876021 AATA
1 AATA
90876025 GATTTATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (27 bp):
AATAAAAAATAAATAAACAAATAAATA
Found at i:90877913 original size:31 final size:31
Alignment explanation
Indices: 90877875--90877936 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
90877865 GAGACCTAGG
90877875 TTGTTGGAGTAAAAAATTCCTCATTTTTCTT
1 TTGTTGGAGTAAAAAATTCCTCATTTTTCTT
90877906 TTGTTGGAGTAAAAAATTCCTCATTTTTCTT
1 TTGTTGGAGTAAAAAATTCCTCATTTTTCTT
90877937 ACACTTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (31 bp):
TTGTTGGAGTAAAAAATTCCTCATTTTTCTT
Found at i:90885032 original size:8 final size:8
Alignment explanation
Indices: 90885019--90885044 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
90885009 AAATTTTTTG
90885019 AATGATTT
1 AATGATTT
90885027 AATGATTT
1 AATGATTT
90885035 AATGATTT
1 AATGATTT
90885043 AA
1 AA
90885045 ATAAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (8 bp):
AATGATTT
Found at i:90886878 original size:13 final size:13
Alignment explanation
Indices: 90886848--90886876 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
90886838 AAACAATAAG
90886848 AAAATAATATTAA
1 AAAATAATATTAA
90886861 AAAATAA-ATTAA
1 AAAATAATATTAA
90886873 AAAA
1 AAAA
90886877 ATGCAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATAATATTAA
Found at i:90889822 original size:31 final size:31
Alignment explanation
Indices: 90889784--90889846 Score: 110
Period size: 31 Copynumber: 2.0 Consensus size: 31
90889774 CCCAAAAATT
90889784 TAAAAACCAATACGT-GCGGGCCTAAAATGGG
1 TAAAAACCAATAC-TAGCGGGCCTAAAATGGG
90889815 TAAAAACCAATACTAGCGGGCCTAAAATGGG
1 TAAAAACCAATACTAGCGGGCCTAAAATGGG
90889846 T
1 T
90889847 TTGGGTTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (31 bp):
TAAAAACCAATACTAGCGGGCCTAAAATGGG
Found at i:90895301 original size:42 final size:42
Alignment explanation
Indices: 90895255--90895338 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
90895245 TACTCACACG
90895255 AGCTGTGGAGAATTCATAACAAATACATGACCTCAATCATCA
1 AGCTGTGGAGAATTCATAACAAATACATGACCTCAATCATCA
* *
90895297 AGCTGTGGAGAGTTCGTAACAAATACATGACCTCAATCATCA
1 AGCTGTGGAGAATTCATAACAAATACATGACCTCAATCATCA
90895339 GTAGGACATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (42 bp):
AGCTGTGGAGAATTCATAACAAATACATGACCTCAATCATCA
Found at i:90912081 original size:59 final size:59
Alignment explanation
Indices: 90912009--90912128 Score: 195
Period size: 59 Copynumber: 2.0 Consensus size: 59
90911999 AGTGCCACAG
* *
90912009 ATCACAGAATCACATGGCTCTCAACGGGGCTACTCAAAAGCACCCGAACCCTAGCATGT
1 ATCACAGAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGAACCCTAACATGT
* * *
90912068 ATCACATAATCACATGCCTCTCAACGGGGTTACTCAAAAGCACCTGAACCCTAACATGT
1 ATCACAGAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGAACCCTAACATGT
90912127 AT
1 AT
90912129 TACGTATCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (59 bp):
ATCACAGAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGAACCCTAACATGT
Found at i:90913223 original size:15 final size:15
Alignment explanation
Indices: 90913200--90913238 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
90913190 TTGTCTTTTA
*
90913200 GCTCGTTTTACTAAG
1 GCTCATTTTACTAAG
*
90913215 GCTCATTTTATTAAG
1 GCTCATTTTACTAAG
90913230 GCTCATTTT
1 GCTCATTTT
90913239 TGTCCAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (15 bp):
GCTCATTTTACTAAG
Found at i:90917658 original size:39 final size:39
Alignment explanation
Indices: 90917551--90917685 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
90917541 GACCTCGAGT
* * *
90917551 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
90917592 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
90917630 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
90917669 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
90917686 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:90919106 original size:20 final size:20
Alignment explanation
Indices: 90919081--90919119 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
90919071 TAACCTGACG
90919081 TTAGTTTTGCTTCTCTGTCA
1 TTAGTTTTGCTTCTCTGTCA
90919101 TTAGTTTTGCTTCTCTGTC
1 TTAGTTTTGCTTCTCTGTC
90919120 GTTTCGTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.08, C:0.21, G:0.15, T:0.56
Consensus pattern (20 bp):
TTAGTTTTGCTTCTCTGTCA
Found at i:90920049 original size:27 final size:27
Alignment explanation
Indices: 90920019--90920465 Score: 452
Period size: 27 Copynumber: 16.6 Consensus size: 27
90920009 TTAGTTTACC
90920019 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * ** * *
90920046 AAATTACTAAAACACCATTGGTTTATG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
90920073 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * ***
90920100 AAATTACCAAAATA-CTTTAGTTTACC
1 AAATTACCAAAATACCCCTGGTTTGTA
*
90920126 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * *
90920153 AAATTACTAAAACACCCTTGGTTTATG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
90920180 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
90920207 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
90920234 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
90920261 AAA-TACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
90920287 AAATTACCAAAGTACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
90920314 AAATTACCAAAGTACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
90920341 AAATTATCAAAATACCCCTAGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
90920368 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** ***
90920395 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
** **
90920422 AAATTATTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
90920449 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
90920466 TTGATTTACA
Statistics
Matches: 343, Mismatches: 73, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
26 46 0.13
27 295 0.86
28 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Done.