Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 96 of 253
Found at i:30043660 original size:54 final size:54
Alignment explanation
Indices: 30043592--30043788 Score: 261
Period size: 54 Copynumber: 3.6 Consensus size: 54
30043582 TTGATTGTGA
* * *
30043592 AATTACTGAAATACCCCTGTAGGGTAGAATTTCTAAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAG
* * *
30043646 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAG
* *
30043700 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACTAAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAG
* * * * *
30043754 AATTACCGAGATACCTTTGTGGGGTAAAATTACTA
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACTA
30043789 TTTTGCCCCT
Statistics
Matches: 124, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 123 0.99
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAG
Found at i:30043768 original size:81 final size:81
Alignment explanation
Indices: 30043592--30043768 Score: 239
Period size: 81 Copynumber: 2.2 Consensus size: 81
30043582 TTGATTGTGA
* * * *
30043592 AATTACTGAAATACCCCTGTAGGGTAGAATTTCTAAAATACCCTTATAGGGTAGAATTACTGAAA
1 AATTACCGAAATACCCCTATAGGGTAGAATTTCTAAAATACCCTTATAGGGTAGAAATACTAAAA
*
30043657 TACCCTTATAGGATAG
66 TACCCCTATAGGATAG
* * *
30043673 AATTACCAAAATACCCCTATAGGGTAGAATTATC-GAAATACCCTTGTAGGGTAGAAATACTAAA
1 AATTACCGAAATACCCCTATAGGGTAGAATT-TCTAAAATACCCTTATAGGGTAGAAATACTAAA
* *
30043737 ATACCCCTGTAGGGTAG
65 ATACCCCTATAGGATAG
*
30043754 AATTACCGAGATACC
1 AATTACCGAAATACC
30043769 TTTGTGGGGT
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 81 0.98
82 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (81 bp):
AATTACCGAAATACCCCTATAGGGTAGAATTTCTAAAATACCCTTATAGGGTAGAAATACTAAAA
TACCCCTATAGGATAG
Found at i:30044017 original size:27 final size:26
Alignment explanation
Indices: 30043987--30044065 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 26
30043977 GGAGGAAGCG
*
30043987 TTCTGGTGGTTATGCCACAAATATCTA
1 TTCTGGTGGCTATGCCAC-AATATCTA
*
30044014 TTCTGGTGGCTCTGCCACAATATCTGTA
1 TTCTGGTGGCTATGCCACAATATC--TA
* * *
30044042 TT-TGGTGACTCTGTCACAATATCT
1 TTCTGGTGGCTATGCCACAATATCT
30044066 GTTGACCGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
25 1 0.02
26 6 0.13
27 35 0.76
28 4 0.09
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (26 bp):
TTCTGGTGGCTATGCCACAATATCTA
Found at i:30044066 original size:27 final size:28
Alignment explanation
Indices: 30043999--30044067 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
30043989 CTGGTGGTTA
*
30043999 TGCCACAAATATC--TATTCTGGTGGCTC
1 TGCCAC-AATATCTGTATTCTGGTGACTC
30044026 TGCCACAATATCTGTATT-TGGTGACTC
1 TGCCACAATATCTGTATTCTGGTGACTC
*
30044053 TGTCACAATATCTGT
1 TGCCACAATATCTGT
30044068 TGACCGATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 6 0.16
27 28 0.74
28 4 0.11
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (28 bp):
TGCCACAATATCTGTATTCTGGTGACTC
Found at i:30044409 original size:27 final size:25
Alignment explanation
Indices: 30044379--30044452 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 25
30044369 TAGGTGGGTT
*
30044379 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACA-TATCTG-TTCTGGTGACTC
30044406 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCAC-ATATCTGT-TCTGGTGACTC
*
30044433 TGTCACGATATCTGTTCTGG
1 TGCCAC-ATATCTGTTCTGG
30044453 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.14
27 35 0.83
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (25 bp):
TGCCACATATCTGTTCTGGTGACTC
Found at i:30044585 original size:6 final size:6
Alignment explanation
Indices: 30044576--30044726 Score: 98
Period size: 6 Copynumber: 24.8 Consensus size: 6
30044566 TCACATTCAC
* * * *
30044576 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG -TTACTA ATACTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATT-CTG ATTCTG
* * *
30044625 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
30044674 -TTACTA ATAT-TG ATTCTG GTTCTG ATTCTG -TTACTG ATTCTG ATTCTA
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
30044722 ATTCT
1 ATTCT
30044727 CATTTTGGTT
Statistics
Matches: 112, Mismatches: 19, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
5 9 0.08
6 92 0.82
7 8 0.07
8 3 0.03
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:30044604 original size:25 final size:24
Alignment explanation
Indices: 30044576--30044667 Score: 116
Period size: 25 Copynumber: 3.8 Consensus size: 24
30044566 TCACATTCAC
30044576 ATTCTGATTCTGATTCTGTCACGTA
1 ATTCTGATTCTGATTCTGTCAC-TA
* *
30044601 ATTCTGATTCTG-TTACTAAT-ACTG
1 ATTCTGATTCTGATT-CT-GTCACTA
30044625 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCA-CTA
30044650 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
30044668 ATTTTGTTAC
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
23 1 0.02
24 18 0.31
25 38 0.66
26 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.46
Consensus pattern (24 bp):
ATTCTGATTCTGATTCTGTCACTA
Found at i:30044606 original size:19 final size:19
Alignment explanation
Indices: 30044582--30044661 Score: 77
Period size: 19 Copynumber: 4.6 Consensus size: 19
30044572 TCACATTCTG
30044582 ATTCTGATTCTGTCACGTA
1 ATTCTGATTCTGTCACGTA
*
30044601 ATTCTGATTCTGTTAC-TA
1 ATTCTGATTCTGTCACGTA
*
30044619 ATACTGATTC--T---G--
1 ATTCTGATTCTGTCACGTA
*
30044631 ATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGTCACGTA
30044650 ATTCTGATTCTG
1 ATTCTGATTCTG
30044662 ATTCTGATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
12 9 0.18
14 1 0.02
16 1 0.02
18 11 0.22
19 27 0.55
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.45
Consensus pattern (19 bp):
ATTCTGATTCTGTCACGTA
Found at i:30044636 original size:30 final size:30
Alignment explanation
Indices: 30044601--30044726 Score: 171
Period size: 30 Copynumber: 4.2 Consensus size: 30
30044591 CTGTCACGTA
30044601 ATTCTGATTCTGTTACTAATACTGATTCTG
1 ATTCTGATTCTGTTACTAATACTGATTCTG
* *
30044631 ATTCTGATTCTGTCACCTAATTCTGATTCTG
1 ATTCTGATTCTGTTA-CTAATACTGATTCTG
* *
30044662 ATTCTGATTTTGTTACTAATATTGATTCTG
1 ATTCTGATTCTGTTACTAATACTGATTCTG
* * * *
30044692 GTTCTGATTCTGTTACTGATTCTGATTCTA
1 ATTCTGATTCTGTTACTAATACTGATTCTG
30044722 ATTCT
1 ATTCT
30044727 CATTTTGGTT
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
30 55 0.67
31 27 0.33
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGTTACTAATACTGATTCTG
Found at i:30044831 original size:33 final size:33
Alignment explanation
Indices: 30044762--30044832 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
30044752 TTTCTTATTC
** ***
30044762 TGTAATGGGCTAAGGTCCATCTGGTACTGTCGT
1 TGTAATGGGCTAAGACCCATCTGGTACTGAAAT
30044795 TGTAATGGGCTAAGACCCGAT-TGGTACTGAAAT
1 TGTAATGGGCTAAGACCC-ATCTGGTACTGAAAT
30044828 TGTAA
1 TGTAA
30044833 GTAAGGCTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (33 bp):
TGTAATGGGCTAAGACCCATCTGGTACTGAAAT
Found at i:30047889 original size:38 final size:38
Alignment explanation
Indices: 30047846--30047918 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
30047836 TTTCAAATTA
* *
30047846 ACATGTATAACTGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATAGCCACTTAGCACCACGTT
* *
30047884 ACATGTTTAACCGTGGTATAGCCACTTAGCACCAC
1 ACATGTATAACCGTGGCATAGCCACTTAGCACCAC
30047919 TGTAACACCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATAGCCACTTAGCACCACGTT
Found at i:30049406 original size:40 final size:40
Alignment explanation
Indices: 30049271--30049407 Score: 224
Period size: 40 Copynumber: 3.5 Consensus size: 40
30049261 ACCCAAGTAT
*
30049271 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
30049310 CTTCGGGTCCTAGCCCAGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
30049350 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
30049390 CTTCGGGTCTTAGCCCGG
1 CTTCGGGTCTTAGCCCGG
30049408 TTATCATCCG
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
38 1 0.01
39 10 0.11
40 80 0.88
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:30051334 original size:38 final size:40
Alignment explanation
Indices: 30051278--30051483 Score: 195
Period size: 38 Copynumber: 4.9 Consensus size: 40
30051268 TGAATCAATA
*
30051278 TATGTAACCGTGGCATATCCACTTAGCACCACGTTACATG
1 TATGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
*
30051318 T-T-TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATA
1 TATGTAACCGTGGTATATCCACTTAGCACCACG-T--T--A-C-ATG
*
30051363 TATGTAACCGTGGCATATCCACTTAGCACCACGTTACATG
1 TATGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
** *
30051403 TATCAATATGTGTAATTGTGGTATATCCACTTAGCACCACGTTACACG
1 ------TA--TGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
30051451 TA--TAACCGTGGTATATCCACTTAGCACCACGTT
1 TATGTAACCGTGGTATATCCACTTAGCACCACGTT
30051484 TCTTCATTCC
Statistics
Matches: 139, Mismatches: 10, Indels: 36
0.75 0.05 0.19
Matches are distributed among these distances:
38 57 0.41
39 2 0.01
40 3 0.02
41 2 0.01
42 3 0.02
43 1 0.01
44 2 0.01
45 3 0.02
46 4 0.03
47 28 0.20
48 34 0.24
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (40 bp):
TATGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
Found at i:30051429 original size:48 final size:48
Alignment explanation
Indices: 30051320--30051453 Score: 207
Period size: 48 Copynumber: 2.8 Consensus size: 48
30051310 GTTACATGTT
*
30051320 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* *
30051367 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
** *
30051415 TAATTGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
30051454 AACCGTGGTA
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
47 31 0.39
48 48 0.61
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:30053114 original size:15 final size:16
Alignment explanation
Indices: 30053090--30053120 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
30053080 AGTCATAATC
30053090 ATTTTGGTCAAATAAA
1 ATTTTGGTCAAATAAA
30053106 ATTTT-GTCAAATAAA
1 ATTTTGGTCAAATAAA
30053121 GAAGCCATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (16 bp):
ATTTTGGTCAAATAAA
Found at i:30055883 original size:25 final size:24
Alignment explanation
Indices: 30055829--30055900 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 24
30055819 GGTTACTGAT
* *
30055829 TTCAGCTCTTATGAGCTTATCGATA
1 TTCAGCTCGTATGAGCTTA-CCATA
*
30055854 CTCAGCTCGTATGAGCTTACCATTA
1 TTCAGCTCGTATGAGCTTACCA-TA
*
30055879 TTCAGCTCAG-AGGAGCTTACCA
1 TTCAGCTC-GTATGAGCTTACCA
30055901 GTTTACAACT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 2 0.05
25 37 0.93
26 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (24 bp):
TTCAGCTCGTATGAGCTTACCATA
Found at i:30078733 original size:44 final size:42
Alignment explanation
Indices: 30078589--30078747 Score: 169
Period size: 44 Copynumber: 3.7 Consensus size: 42
30078579 AACGTATACA
* * *
30078589 ATGCCAACGTCCTAGACATGGTCTTACATGTAATCAAACATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACAAA-ATCG
* * * * *
30078632 ATGCC-ACTGTCCCAGACAGGGCCTTACACG-AAATAAGATACA
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAACAAAAT-CG
*
30078674 ATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AAACAAAA-TCG
*
30078718 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
30078748 ATAACACATA
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 32 0.34
43 24 0.26
44 35 0.37
45 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACAAAATCG
Found at i:30078748 original size:86 final size:85
Alignment explanation
Indices: 30078584--30078748 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 85
30078574 TGGAAAACGT
* * *
30078584 ATACAATGCCAACGTCCTAGACATGGTCTTACATGTAATCAAACATCGATGCCACTGTCCCAGAC
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAAACAAACATCGATGCCACTGTCCCAGAC
30078649 AGGGCCTTACACGAAATAAG
66 AGGGCCTTACACGAAATAAG
*
30078669 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAA-AGTCGATGCCAAC-GTCCCA
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGT-AAACAAACA-TCGATGCC-ACTGTCCCA
*
30078732 GAC-GTGGTCTTACACGA
63 GACAG-GGCCTTACACGA
30078749 TAACACATAT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
85 35 0.49
86 34 0.48
87 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (85 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAAACAAACATCGATGCCACTGTCCCAGAC
AGGGCCTTACACGAAATAAG
Found at i:30081861 original size:42 final size:42
Alignment explanation
Indices: 30081754--30081912 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
30081744 GCATATACAG
* * * * *
30081754 TGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATCGA
1 TGCCAATGTCCCAGACATGGTCTTACACGAAATCAGA-ATCGA
* * *
30081797 CT-CCACTATCCCAGACAGGGTCTTACACGAAATCAG-ATACGA
1 -TGCCAATGTCCCAGACATGGTCTTACACGAAATCAGAAT-CGA
*
30081839 TGCCAATGTCCCAGACATGGTCTTACACGCAAAACAGAAGTCGA
1 TGCCAATGTCCCAGACATGGTCTTACACG-AAATCAGAA-TCGA
* *
30081883 TGCCAATGTCTCAGACGTGGTCTTACACGA
1 TGCCAATGTCCCAGACATGGTCTTACACGA
30081913 TAACACATAT
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.03
42 27 0.28
43 33 0.34
44 32 0.33
45 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (42 bp):
TGCCAATGTCCCAGACATGGTCTTACACGAAATCAGAATCGA
Found at i:30081898 original size:44 final size:42
Alignment explanation
Indices: 30081805--30081917 Score: 147
Period size: 44 Copynumber: 2.6 Consensus size: 42
30081795 GACTCCACTA
* *
30081805 TCCCAGACAGGGTCTTACACGAAATCAGATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAAACAGATACGATGCCAATG
30081847 TCCCAGACATGGTCTTACACGCAAAACAGA-AGTCGATGCCAATG
1 TCCCAGACATGGTCTTACACG-AAAACAGATA--CGATGCCAATG
* * *
30081891 TCTCAGACGTGGTCTTACACGATAACA
1 TCCCAGACATGGTCTTACACGAAAACA
30081918 CATATCAGAA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
42 21 0.33
43 12 0.19
44 30 0.48
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAAACAGATACGATGCCAATG
Found at i:30100443 original size:46 final size:46
Alignment explanation
Indices: 30100250--30100445 Score: 168
Period size: 46 Copynumber: 4.2 Consensus size: 46
30100240 GTTATTGTGG
* * * * *
30100250 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATA
* **
30100296 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATCGAGACAAGT-
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGA-TA
* * * *
30100344 GCTAGTGTAAGACATGTTTGGGATATGCATCGACCT-CGAGACG-TAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG-GCTACGAGATGAT-A
*
30100390 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATA
*
30100436 GTTAGTGTAA
1 GCTAGTGTAA
30100446 TGAGATATGA
Statistics
Matches: 120, Mismatches: 19, Indels: 22
0.75 0.12 0.14
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 67 0.56
47 29 0.24
48 20 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATA
Found at i:30103433 original size:43 final size:42
Alignment explanation
Indices: 30103368--30103481 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 42
30103358 GCGTATATAG
* *
30103368 TGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAA-CAT-CGA
1 TGCCAATGTCCCAGACAG-GGTCTTACACG-AA--AAAGCATACGA
* *
30103411 TGCCACTGTCCCAGACAGGGTCTTACACGAAAAAGGATACGA
1 TGCCAATGTCCCAGACAGGGTCTTACACGAAAAAGCATACGA
* *
30103453 TGCCAATGTCCCAGACATGTTCTTACACG
1 TGCCAATGTCCCAGACAGGGTCTTACACG
30103482 CACAATAGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
40 3 0.05
41 2 0.03
42 31 0.51
43 24 0.39
44 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (42 bp):
TGCCAATGTCCCAGACAGGGTCTTACACGAAAAAGCATACGA
Found at i:30108089 original size:70 final size:70
Alignment explanation
Indices: 30108007--30108147 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
30107997 TCACTGCTGC
30108007 TGCCAGCATCTGTTTTTAAGGTAAACTTTACCTATTTCATGATCCTCTATGGATCAACTAGAGTT
1 TGCCAGCATCTGTTTTTAAGGTAAACTTTACCTATTTCATGATCCTCTATGGATCAACTAGAGTT
30108072 TGTCA
66 TGTCA
30108077 TGCCAGCATCTGTTTTTAAGGTAAACTTTACCTATTTCATGATCCTCTATGGATCAACTAGAGTT
1 TGCCAGCATCTGTTTTTAAGGTAAACTTTACCTATTTCATGATCCTCTATGGATCAACTAGAGTT
30108142 TGTCA
66 TGTCA
30108147 T
1 T
30108148 ACATATTCCA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (70 bp):
TGCCAGCATCTGTTTTTAAGGTAAACTTTACCTATTTCATGATCCTCTATGGATCAACTAGAGTT
TGTCA
Found at i:30108859 original size:40 final size:40
Alignment explanation
Indices: 30108822--30108908 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
30108812 GCTACTCGTT
*
30108822 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
30108862 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
30108902 CCAATGC
1 CAAATGC
30108909 TGATACGGGG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 41 0.95
41 2 0.05
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:30111169 original size:23 final size:22
Alignment explanation
Indices: 30111117--30111169 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
30111107 TCCACGTCTT
*
30111117 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
30111139 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
30111162 TTTCTTTT
1 TTTCTTTT
30111170 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:30121894 original size:40 final size:40
Alignment explanation
Indices: 30121693--30121894 Score: 209
Period size: 40 Copynumber: 5.1 Consensus size: 40
30121683 CGAAATTTAA
** *
30121693 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
30121733 CCGGTTATAGTAACTCGGAAAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
30121773 CC-GATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
30121811 CCGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
30121850 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
30121890 CCGGA
1 CCGGA
30121895 CATCGTTCGA
Statistics
Matches: 135, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
37 2 0.01
38 29 0.21
39 38 0.28
40 55 0.41
41 11 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:30127413 original size:14 final size:14
Alignment explanation
Indices: 30127381--30127414 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30127371 TCATAACTTA
30127381 TATTATATACATAT
1 TATTATATACATAT
* *
30127395 AATTATATACATTT
1 TATTATATACATAT
30127409 TATTAT
1 TATTAT
30127415 TATAAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATATACATAT
Found at i:30129343 original size:29 final size:30
Alignment explanation
Indices: 30129292--30129355 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
30129282 CACTCTCGGG
* *
30129292 CATACCGACTGAGTCTCACAAATTTCAGCT
1 CATACCGACTAAGTCTCAAAAATTTCAGCT
*
30129322 CATACCGAC-AAGTCTCAAAAATTTCTGCT
1 CATACCGACTAAGTCTCAAAAATTTCAGCT
30129351 CATAC
1 CATAC
30129356 TCTGTCACGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.27
Consensus pattern (30 bp):
CATACCGACTAAGTCTCAAAAATTTCAGCT
Found at i:30131935 original size:48 final size:48
Alignment explanation
Indices: 30131832--30131944 Score: 122
Period size: 48 Copynumber: 2.3 Consensus size: 48
30131822 ACGTGGCATC
* * *
30131832 GAGCTAAGCGTAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGA
1 GAGCT-AGTGTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGA
* **
30131881 GTGCTAGTGTAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCA
1 GAGCTAGTGTAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-A
*
30131929 GAGCTAGTATAAGACC
1 GAGCTAGTGTAAGACC
30131945 ATAGTTGGAC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
47 8 0.15
48 42 0.78
49 4 0.07
ACGTcount: A:0.30, C:0.22, G:0.31, T:0.17
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGA
Found at i:30137838 original size:40 final size:40
Alignment explanation
Indices: 30137784--30137901 Score: 191
Period size: 40 Copynumber: 3.0 Consensus size: 40
30137774 CGGATGTAAC
* * *
30137784 AACCAGCACAAATGCCTTCAGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
30137824 GACCTGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
30137864 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
30137902 TTTTTTTCCA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:30145590 original size:39 final size:40
Alignment explanation
Indices: 30145500--30145616 Score: 200
Period size: 39 Copynumber: 3.0 Consensus size: 40
30145490 CAGATGTAAC
* *
30145500 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
30145540 AACCCGCACGAATGCCTTCGGGACTTAACCC-GTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
30145579 AACCCGTACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
30145617 TTTTTTCCCA
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
39 38 0.52
40 35 0.48
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:30154335 original size:27 final size:27
Alignment explanation
Indices: 30154305--30154427 Score: 201
Period size: 27 Copynumber: 4.6 Consensus size: 27
30154295 CCTTAAAATA
*
30154305 GGTAAAATGACCGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
30154332 GGTAAAATGACCATAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
30154359 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
30154386 GGTAAATTGACAGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
30154413 GGTAAAATGACCGTA
1 GGTAAAATGACCGTA
30154428 GGGTAAAATG
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:30154387 original size:54 final size:53
Alignment explanation
Indices: 30154305--30154652 Score: 378
Period size: 54 Copynumber: 6.7 Consensus size: 53
30154295 CCTTAAAATA
* * *
30154305 GGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCATAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGA-CATAATGCCCCTGTAG
* *
30154359 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAATTGACAGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACA-TAATGCCCCTGTAG
*
30154413 GGTAAAAT----G----A--CC-GTAGGGTAAAATGACAGTAATTCCCCT-TAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACA-TAATGCCCCTGTAG
* ** * * * *
30154455 GATAAAATGACCGTAATACCCCCATAAGGTAAAGTGACGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACATAATGCCCCTGTAG
* * *
30154508 GGTAAAATAACCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGA-CATAATGCCCCTGTAG
* * * *
30154562 GGTAAAATGACCATAATAACCCTGTAGGGTAAAATGACTGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC-ATAATGCCCCTGTAG
*
30154616 GGTAAAATGACCGTAATACCCCTGTATGGTAAAATGA
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGA
30154653 AGATTGTGCC
Statistics
Matches: 253, Mismatches: 26, Indels: 30
0.82 0.08 0.10
Matches are distributed among these distances:
42 10 0.04
43 25 0.10
44 2 0.01
46 1 0.00
50 2 0.01
52 11 0.04
53 50 0.20
54 152 0.60
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (53 bp):
GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACATAATGCCCCTGTAG
Found at i:30154428 original size:16 final size:16
Alignment explanation
Indices: 30154409--30154439 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
30154399 TAATGCCCCT
30154409 GTAGGGTAAAATGACC
1 GTAGGGTAAAATGACC
30154425 GTAGGGTAAAATGAC
1 GTAGGGTAAAATGAC
30154440 AGTAATTCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.32, T:0.19
Consensus pattern (16 bp):
GTAGGGTAAAATGACC
Found at i:30154443 original size:43 final size:42
Alignment explanation
Indices: 30154382--30154469 Score: 140
Period size: 43 Copynumber: 2.1 Consensus size: 42
30154372 TAATGCCCCT
* *
30154382 GTAGGGTAAATTGACAGTAATGCCCCTGTAGGGTAAAATGACC
1 GTAGGGTAAAATGACAGTAATGCCCCT-TAGGATAAAATGACC
*
30154425 GTAGGGTAAAATGACAGTAATTCCCCTTAGGATAAAATGACC
1 GTAGGGTAAAATGACAGTAATGCCCCTTAGGATAAAATGACC
30154467 GTA
1 GTA
30154470 ATACCCCCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 17 0.40
43 25 0.60
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (42 bp):
GTAGGGTAAAATGACAGTAATGCCCCTTAGGATAAAATGACC
Found at i:30154487 original size:27 final size:27
Alignment explanation
Indices: 30154425--30154652 Score: 298
Period size: 27 Copynumber: 8.5 Consensus size: 27
30154415 TAAAATGACC
* *
30154425 GTAGGGTAAAATGACAGTAATTCCCCT
1 GTAGGGTAAAATGACCGTAATACCCCT
* *
30154452 -TAGGATAAAATGACCGTAATACCCCC
1 GTAGGGTAAAATGACCGTAATACCCCT
* * *
30154478 ATAAGGTAAAGTGA-CGTAATACCCCT
1 GTAGGGTAAAATGACCGTAATACCCCT
*
30154504 GTAGGGTAAAATAACCGTAATACCCCT
1 GTAGGGTAAAATGACCGTAATACCCCT
* *
30154531 ATAGGGTAAAATGACCGTAATGCCCCT
1 GTAGGGTAAAATGACCGTAATACCCCT
* *
30154558 GTAGGGTAAAATGACCATAATAACCCT
1 GTAGGGTAAAATGACCGTAATACCCCT
* *
30154585 GTAGGGTAAAATGACTGTAATGCCCCT
1 GTAGGGTAAAATGACCGTAATACCCCT
*
30154612 ATAGGGTAAAATGACCGTAATACCCCT
1 GTAGGGTAAAATGACCGTAATACCCCT
*
30154639 GTATGGTAAAATGA
1 GTAGGGTAAAATGA
30154653 AGATTGTGCC
Statistics
Matches: 171, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 43 0.25
27 128 0.75
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (27 bp):
GTAGGGTAAAATGACCGTAATACCCCT
Found at i:30155060 original size:33 final size:33
Alignment explanation
Indices: 30155018--30155093 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 33
30155008 ATAATGTATT
* * *
30155018 AGGCTTAGACCACACTATTACTGTATAGGGCTA
1 AGGCCTAGACCACACTAATACTGAATAGGGCTA
*** *
30155051 AGGCCTAGACTGTACTAATACTGAATAGGGCTC
1 AGGCCTAGACCACACTAATACTGAATAGGGCTA
*
30155084 AGGCCCAGAC
1 AGGCCTAGAC
30155094 TGTTATTGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (33 bp):
AGGCCTAGACCACACTAATACTGAATAGGGCTA
Found at i:30155094 original size:33 final size:33
Alignment explanation
Indices: 30155031--30155096 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
30155021 CTTAGACCAC
* * *
30155031 ACTATTACTGTATAGGGCTAAGGCCTAGACTGT
1 ACTAATACTGAATAGGGCTAAGGCCCAGACTGT
*
30155064 ACTAATACTGAATAGGGCTCAGGCCCAGACTGT
1 ACTAATACTGAATAGGGCTAAGGCCCAGACTGT
30155097 TATTGATCTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (33 bp):
ACTAATACTGAATAGGGCTAAGGCCCAGACTGT
Found at i:30160732 original size:48 final size:48
Alignment explanation
Indices: 30160661--30160935 Score: 277
Period size: 48 Copynumber: 5.7 Consensus size: 48
30160651 GAGTAAATTA
* * * *
30160661 CCGATGCCATGTCCCAGTCATGGTCTTACACTAGCTTTCGTCTTAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATTAATG
* * ** *
30160709 CCGATGCCATGTTCCAAACATGGTCTTACACCGGCTCTCATATT-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATTAAT-G
* * * * * * *
30160757 CCGACGCCATATCCTAGACATGGTCTTACACTAGCGCACATATCAACG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATTAATG
* * *
30160805 CCGATGCCATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAACG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CTCATATTAATG
* * *
30160853 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-ATGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATTAAT-G
* * *
30160901 TCGATGCCATGTTCCAAACATGGTCTTACACTAGC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGC
30160936 AAACATATCA
Statistics
Matches: 188, Mismatches: 34, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
47 2 0.01
48 185 0.98
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATTAATG
Found at i:30160922 original size:144 final size:144
Alignment explanation
Indices: 30160661--30160945 Score: 367
Period size: 144 Copynumber: 2.0 Consensus size: 144
30160651 GAGTAAATTA
* ** * * * * *
30160661 CCGATGCCATGTCCCAGTCATGGTCTTACACTAGCTTTCGTCTTAATGCCGATGCCATGTTCCAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAACGCCGATGCCATGTCCCAA
* * *
30160726 ACATGGTCTTACACCGGCTCTCATATTGTGGCCGACGCCATATCCTAGACATGGTCTTACACTAG
66 ACATGGTCTTACACCGGCTCTCATAATATGGCCGACGCCATATCCTAAACATGGTCTTACACTAG
**
30160791 CGCACATATCAACG
131 CAAACATATCAACG
*
30160805 CCGATGCCATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAACGTCGATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATATCAACGCCGATGCCATGTCCCA
* * * * *
30160869 GACATGGTCTTACACTGGCTCTCATAATATGGTCGATGCCATGTTCC-AAACATGGTCTTACACT
65 AACATGGTCTTACACCGGCTCTCATAATATGGCCGACGCCAT-ATCCTAAACATGGTCTTACACT
30160933 AGCAAACATATCA
129 AGCAAACATATCA
30160946 TTCAAATCTC
Statistics
Matches: 120, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
143 1 0.01
144 116 0.97
145 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (144 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAACGCCGATGCCATGTCCCAA
ACATGGTCTTACACCGGCTCTCATAATATGGCCGACGCCATATCCTAAACATGGTCTTACACTAG
CAAACATATCAACG
Found at i:30166509 original size:20 final size:20
Alignment explanation
Indices: 30166463--30166503 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
30166453 TTATGAATAC
30166463 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
30166483 ATCATGTGCATATCATCCAT
1 ATCATGTGCATATCATACAT
30166503 A
1 A
30166504 CAATGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:30166578 original size:25 final size:25
Alignment explanation
Indices: 30166546--30166593 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
30166536 ATATATAAAC
* * *
30166546 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
30166571 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
30166594 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:30167784 original size:27 final size:27
Alignment explanation
Indices: 30167750--30167852 Score: 109
Period size: 27 Copynumber: 3.8 Consensus size: 27
30167740 AGGCATATTC
*
30167750 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
30167777 GTCATTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCCTACAGGGG-TATTACG
* * **
30167804 GTCACTTTACCCTAATAGGGGTATTTTG
1 GTCATTTTACCCT-ACAGGGGTATTACG
* * *
30167832 GTCATTTCATCCTACAAGGGT
1 GTCATTTTACCCTACAGGGGT
30167853 GTTTTGGTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
27 43 0.68
28 20 0.32
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:30167899 original size:27 final size:26
Alignment explanation
Indices: 30167869--30167924 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
30167859 GTAAATCAAC
30167869 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTT-T
*
30167896 AAACCAATGGTATTTCTATAATTTTT
1 AAACCAAAGGTATTTCTATAATTTTT
30167922 AAA
1 AAA
30167925 AAGTCAAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 22 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (26 bp):
AAACCAAAGGTATTTCTATAATTTTT
Found at i:30167939 original size:29 final size:27
Alignment explanation
Indices: 30167877--30167966 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
30167867 ACAAACCAAA
* *
30167877 GGTATTTC-AGTAATTTTGTAAA-CCAAT
1 GGTATTTCTA-TAATTTT-TAAAGTCAAG
30167904 GGTATTTCTATAATTTTTAAAAAGTCAAG
1 GGTATTTCTATAATTTTT--AAAGTCAAG
* * * *
30167933 GGTATTTTTGTAATTTTTTAAGTCAGG
1 GGTATTTCTATAATTTTTAAAGTCAAG
30167960 GGTATTT
1 GGTATTT
30167967 TGGTAATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
26 1 0.02
27 29 0.55
28 4 0.08
29 19 0.36
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.46
Consensus pattern (27 bp):
GGTATTTCTATAATTTTTAAAGTCAAG
Found at i:30167963 original size:27 final size:27
Alignment explanation
Indices: 30167925--30167976 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
30167915 AATTTTTAAA
*
30167925 AAGTCAAGGGTATTTTTGTAATTTTTT
1 AAGTCAAGGGTATTTTGGTAATTTTTT
*
30167952 AAGTCAGGGGTATTTTGGTAATTTT
1 AAGTCAAGGGTATTTTGGTAATTTT
30167977 ACAAATTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.48
Consensus pattern (27 bp):
AAGTCAAGGGTATTTTGGTAATTTTTT
Found at i:30167989 original size:27 final size:26
Alignment explanation
Indices: 30167959--30168058 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 26
30167949 TTTAAGTCAG
* *
30167959 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAACT-A
** *
30167986 GGGTATTTCAATAATTTCACAAACTA
1 GGGTATTTCGGTAATTTTACAAACTA
30168012 GTGGTATTTCGGTAATTTTACAAACTA
1 G-GGTATTTCGGTAATTTTACAAACTA
*
30168039 GGGGTATTTTGGTAATTTTA
1 -GGGTATTTCGGTAATTTTA
30168059 GTAAACTAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.03
27 59 0.95
28 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTTACAAACTA
Found at i:30168072 original size:27 final size:27
Alignment explanation
Indices: 30167961--30168073 Score: 86
Period size: 27 Copynumber: 4.2 Consensus size: 27
30167951 TAAGTCAGGG
* * *
30167961 GTATTTTGGTAATTTTACAAA-TTGAGG
1 GTATTTCGGTAATTTTACAAACTAGA-A
** * **
30167988 GTATTTCAATAATTTCACAAACTAGTG
1 GTATTTCGGTAATTTTACAAACTAGAA
**
30168015 GTATTTCGGTAATTTTACAAACTAGGG
1 GTATTTCGGTAATTTTACAAACTAGAA
* *
30168042 GTATTTTGGTAATTTTAGTAAACTA-AA
1 GTATTTCGGTAATTTTA-CAAACTAGAA
30168069 GTATT
1 GTATT
30168074 CTAAATAGGG
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
27 62 0.89
28 8 0.11
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.42
Consensus pattern (27 bp):
GTATTTCGGTAATTTTACAAACTAGAA
Found at i:30171163 original size:23 final size:23
Alignment explanation
Indices: 30171102--30171189 Score: 140
Period size: 23 Copynumber: 3.8 Consensus size: 23
30171092 CCTAGCCTCT
*
30171102 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
30171125 TTTTTATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
30171149 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
30171172 TTTAATAACTGGGGCATA
1 TTTAATAACTGGGGCATA
30171190 GGCCTTTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
23 39 0.66
24 20 0.34
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:30171294 original size:20 final size:20
Alignment explanation
Indices: 30171248--30171288 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
30171238 TTATAAATAC
30171248 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
30171268 ATCATGTGCATATCATCCAT
1 ATCATGTGCATATCATACAT
30171288 A
1 A
30171289 CAATGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:30171376 original size:24 final size:25
Alignment explanation
Indices: 30171331--30171377 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
30171321 ATATATAAAC
* *
30171331 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCATAACGGTCATTTTTA
30171356 CCTAGGGGCA-AACGGTCATTTT
1 CCTAGGGGCATAACGGTCATTTT
30171378 CATGTTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (25 bp):
CCTAGGGGCATAACGGTCATTTTTA
Found at i:30172569 original size:27 final size:27
Alignment explanation
Indices: 30172535--30172613 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
30172525 GGGCATATTC
*
30172535 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
30172562 GTCATTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCCTACAGGGG-TATTACG
* *
30172589 GTCACTTTACCCTAATAGGGGTATT
1 GTCATTTTACCCT-ACAGGGGTATT
30172614 TTAGTCATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 37 0.80
28 9 0.20
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:30172684 original size:27 final size:27
Alignment explanation
Indices: 30172654--30172705 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
30172644 GTAAATCAAC
30172654 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
30172681 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
30172706 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:30172724 original size:29 final size:27
Alignment explanation
Indices: 30172662--30172751 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
30172652 ACAAACCAAA
* *
30172662 GGTATTTC-AGTAA-TTTTGTAAACCAAT
1 GGTATTTCTA-TAATTTTTG-AAATCAAG
30172689 GGTATTTCTATAATTTTTAGAAAGTCAAG
1 GGTATTTCTATAATTTTT-GAAA-TCAAG
* * * *
30172718 GGTATTTTTGTAATTTTTTAAATCAGG
1 GGTATTTCTATAATTTTTGAAATCAAG
30172745 GGTATTT
1 GGTATTT
30172752 TGGTAATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
27 22 0.42
28 11 0.21
29 20 0.38
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.46
Consensus pattern (27 bp):
GGTATTTCTATAATTTTTGAAATCAAG
Found at i:30172757 original size:27 final size:26
Alignment explanation
Indices: 30172717--30172843 Score: 137
Period size: 27 Copynumber: 4.7 Consensus size: 26
30172707 AGAAAGTCAA
* **
30172717 GGGTATTTTTGTAATTTTTTAAATCAG
1 GGGTATTTTGGTAATTTTACAAA-CAG
*
30172744 GGGTATTTTGGTAATTTTACAAACTG
1 GGGTATTTTGGTAATTTTACAAACAG
* *
30172770 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAA-CAG
* * *
30172798 TGGTATTTCGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
30172825 GGGTATTTTGGTAATTTTA
1 GGGTATTTTGGTAATTTTA
30172844 GTAAACTAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
26 3 0.04
27 79 0.94
28 2 0.02
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAG
Found at i:30175940 original size:47 final size:48
Alignment explanation
Indices: 30175863--30175982 Score: 147
Period size: 47 Copynumber: 2.5 Consensus size: 48
30175853 TACTTTATCA
*
30175863 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCCTCTTTTAATAACTAGGGCAAAAGCCC-TTT
* *
30175912 TATAACTGGGGCATAAGCC-C-TTTAATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCTCTTTTAATAACTAGGGCAAAAGCCCTTT
* * *
30175958 AATAACTGGGGCATAGGCCTTTTTT
1 TATAACTGGGGCATAAGCCTCTTTT
30175983 CATTTCCTCC
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
46 20 0.32
47 21 0.34
48 8 0.13
49 13 0.21
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCTCTTTTAATAACTAGGGCAAAAGCCCTTT
Found at i:30175943 original size:23 final size:23
Alignment explanation
Indices: 30175885--30175972 Score: 140
Period size: 23 Copynumber: 3.8 Consensus size: 23
30175875 CCTAGCCTCT
* *
30175885 TTTAATAACTAGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
30175908 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
30175932 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
30175955 TTTAATAACTGGGGCATA
1 TTTAATAACTGGGGCATA
30175973 GGCCTTTTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
23 40 0.67
24 20 0.33
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:30176077 original size:20 final size:20
Alignment explanation
Indices: 30176031--30176071 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
30176021 TTATAAATAC
30176031 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
30176051 ATCATGTGCATATCATCCAT
1 ATCATGTGCATATCATACAT
30176071 A
1 A
30176072 CAATGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:30176158 original size:24 final size:25
Alignment explanation
Indices: 30176113--30176159 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
30176103 ATATATAAAC
* *
30176113 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCATAACGGTCATTTTTA
30176138 CCTAGGGGCA-AACGGTCATTTT
1 CCTAGGGGCATAACGGTCATTTT
30176160 CATGTTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (25 bp):
CCTAGGGGCATAACGGTCATTTTTA
Found at i:30177336 original size:27 final size:28
Alignment explanation
Indices: 30177305--30177381 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 28
30177295 TATGGAACAT
30177305 AAGGGCATATT-C-GTCATTTTACCATAC
1 AAGGGC-TATTACGGTCATTTTACCATAC
*
30177332 AAGGG-TATTACGGTCATTTTACCCTAC
1 AAGGGCTATTACGGTCATTTTACCATAC
* *
30177359 AGGGGCT-TTACGGTCACTTTACC
1 AAGGGCTATTACGGTCATTTTACC
30177382 CTAATAGGGG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
25 4 0.09
26 1 0.02
27 38 0.86
28 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (28 bp):
AAGGGCTATTACGGTCATTTTACCATAC
Found at i:30177382 original size:27 final size:27
Alignment explanation
Indices: 30177317--30177419 Score: 93
Period size: 27 Copynumber: 3.8 Consensus size: 27
30177307 GGGCATATTC
*
30177317 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
*
30177344 GTCATTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCCTACAAGGG-TATTACG
* ***
30177371 GTCACTTTACCCTA-ATAGGGGTATTTTA
1 GTCATTTTACCCTACA-A-GGGTATTACG
* *
30177399 GTCATTTCATCCTACAAGGGT
1 GTCATTTTACCCTACAAGGGT
30177420 GTTTTGGTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
26 1 0.02
27 41 0.67
28 18 0.30
29 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTACG
Found at i:30177466 original size:27 final size:27
Alignment explanation
Indices: 30177436--30177487 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
30177426 GTAAATCAAC
30177436 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
30177463 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
30177488 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:30179916 original size:47 final size:45
Alignment explanation
Indices: 30179681--30179942 Score: 192
Period size: 47 Copynumber: 5.6 Consensus size: 45
30179671 AGTGTAGGCT
*
30179681 AGTGTAAGACATGTCTGGGACATGCATCGGC-C-ACATTATAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGA-TAT--GAGCC
* * * * * *
30179727 AGAGTAAGACCATGTCTAGTACATGGCATCGGCATCGAGACGA-GTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCGAGA-TATGAGCC
* * * ** *
30179775 AGTGTAATACAT-TCTGGGACATGCATCGACTTTGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-TCGAGATATGAGCC
* *
30179820 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAAATGAT-AGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGAT-ATGAGCC
* *
30179866 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCGAGATATGAGCC
* *
30179913 AGTGTAAGACCATTTCTGGGATATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
30179943 TGCACCCTAC
Statistics
Matches: 171, Mismatches: 33, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
45 26 0.15
46 50 0.29
47 65 0.38
48 26 0.15
50 1 0.01
51 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATATGAGCC
Found at i:30182673 original size:23 final size:22
Alignment explanation
Indices: 30182621--30182673 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
30182611 TCCACGTCTT
*
30182621 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
30182643 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
30182666 TTTCTTTT
1 TTTCTTTT
30182674 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:30186678 original size:23 final size:22
Alignment explanation
Indices: 30186626--30186678 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
30186616 TCCACGTCTT
*
30186626 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
30186648 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
30186671 TTTCTTTT
1 TTTCTTTT
30186679 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:30190526 original size:21 final size:22
Alignment explanation
Indices: 30190487--30190527 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
30190477 TCGATTTTGT
30190487 CACACGGGCATGTTGCCCCTCC
1 CACACGGGCATGTTGCCCCTCC
*
30190509 CACACGGGCGTG-TGCCCCT
1 CACACGGGCATGTTGCCCCT
30190528 GTGTTAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGGGCATGTTGCCCCTCC
Found at i:30192888 original size:20 final size:20
Alignment explanation
Indices: 30192863--30192904 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
30192853 TACACTTTGC
30192863 ACCTGCCAATCAACCACCAA
1 ACCTGCCAATCAACCACCAA
30192883 ACCTGCCAATCAACCACCAA
1 ACCTGCCAATCAACCACCAA
30192903 AC
1 AC
30192905 AAGTCCTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.45, G:0.05, T:0.10
Consensus pattern (20 bp):
ACCTGCCAATCAACCACCAA
Found at i:30194915 original size:16 final size:17
Alignment explanation
Indices: 30194891--30194930 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
30194881 TGCCCAAAAT
* *
30194891 ATTATTTATTT-AATCA
1 ATTAATTATTTAAATAA
30194907 ATTAATTATTTAAATAA
1 ATTAATTATTTAAATAA
30194924 ATTAATT
1 ATTAATT
30194931 TCTCAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAATTATTTAAATAA
Found at i:30197653 original size:18 final size:18
Alignment explanation
Indices: 30197630--30197666 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
30197620 TGTTTAAGTA
30197630 TGAATTGTGATAAATGTC
1 TGAATTGTGATAAATGTC
30197648 TGAATTGTGATAAATGTC
1 TGAATTGTGATAAATGTC
30197666 T
1 T
30197667 CGGTTGAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (18 bp):
TGAATTGTGATAAATGTC
Found at i:30204509 original size:27 final size:26
Alignment explanation
Indices: 30204436--30204550 Score: 113
Period size: 27 Copynumber: 4.3 Consensus size: 26
30204426 TGGAGGAAGC
*
30204436 GTTCTGGTGGCTATGCCACAAACATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
* * *
30204463 GTTTTTGATGGCTACGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
* *
30204491 ATTCTGGTGGCTTTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
30204517 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
30204544 GTTCTGG
1 GTTCTGG
30204551 CAGTCATGCT
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
26 13 0.18
27 38 0.52
28 22 0.30
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:30218635 original size:27 final size:26
Alignment explanation
Indices: 30218605--30218665 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
30218595 ATTTACTAGA
*
30218605 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCTAAG-ATGAAAATGACCATT
* *
30218632 ATACCCCT-AGGTGAAAATGACCGTT
1 ATACCCCTAAGATGAAAATGACCATT
30218657 ATACCCCTA
1 ATACCCCTA
30218666 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 20 0.67
26 2 0.07
27 8 0.27
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.26
Consensus pattern (26 bp):
ATACCCCTAAGATGAAAATGACCATT
Found at i:30218658 original size:25 final size:25
Alignment explanation
Indices: 30218618--30218667 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
30218608 CCCCTAAGTA
*
30218618 TGAAAATTACCATTATACCCCTAGG
1 TGAAAATGACCATTATACCCCTAGG
*
30218643 TGAAAATGACCGTTATACCCCTAGG
1 TGAAAATGACCATTATACCCCTAGG
30218668 GTTAATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (25 bp):
TGAAAATGACCATTATACCCCTAGG
Found at i:30220193 original size:68 final size:68
Alignment explanation
Indices: 30220047--30220202 Score: 158
Period size: 68 Copynumber: 2.2 Consensus size: 68
30220037 AGCTGATTTG
* * * * *
30220047 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGTGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGTGACCTAGCTACATA
*
30220112 TATC
65 TATA
*
30220116 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGTGACCTAGCTAC-
30220178 ATATAGTA
62 ATATA-TA
30220186 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
30220203 ACACATAATG
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
67 1 0.01
68 34 0.46
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGTGACCTAGCTACATAT
ATA
Found at i:30221503 original size:28 final size:27
Alignment explanation
Indices: 30221470--30221544 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
30221460 GGAGGAAGCG
*
30221470 TTCTGGTGGTTATGCCACAAACATCTA
1 TTCTGGTGGCTATGCCACAAACATCTA
* *
30221497 TTTCTGGTGGCTACGCCACAAATATCTA
1 -TTCTGGTGGCTATGCCACAAACATCTA
*
30221525 TTCTGGTGGCTCTGCCACAA
1 TTCTGGTGGCTATGCCACAA
30221545 TATCTGTATC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 18 0.43
28 24 0.57
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (27 bp):
TTCTGGTGGCTATGCCACAAACATCTA
Found at i:30221541 original size:27 final size:26
Alignment explanation
Indices: 30221470--30221583 Score: 104
Period size: 27 Copynumber: 4.2 Consensus size: 26
30221460 GGAGGAAGCG
* * *
30221470 TTCTGGTGGTTATGCCACAAACATCTA
1 TTCTGGTGGCTCTGCCAC-AATATCTA
30221497 TTTCTGGTGGCTAC-GCCACAAATATCTA
1 -TTCTGGTGGCT-CTGCCAC-AATATCTA
*
30221525 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTCTGCCACAATATCTA
** * *
30221551 TATCTGGTGAATCTGTCACAATATCTG
1 T-TCTGGTGGCTCTGCCACAATATCTA
30221578 TTCTGG
1 TTCTGG
30221584 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
26 14 0.18
27 39 0.51
28 23 0.30
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTA
Found at i:30223618 original size:46 final size:47
Alignment explanation
Indices: 30223531--30223658 Score: 231
Period size: 46 Copynumber: 2.7 Consensus size: 47
30223521 CATAACGTGC
30223531 CATTTGGTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGG
1 CATTTGGTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGG
30223578 CATTTGGTAAGACAAGGATA-CATGTAAGACCATGTTTGGAACATGG
1 CATTTGGTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGG
* *
30223624 CATTTGGTAAGATAAGGATATCATGTAAGACCATG
1 CATTTGGTAAGACAAGGATACCATGTAAGACCATG
30223659 CCAAGGCATG
Statistics
Matches: 79, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
46 45 0.57
47 34 0.43
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (47 bp):
CATTTGGTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGG
Found at i:30223776 original size:53 final size:53
Alignment explanation
Indices: 30223648--30223790 Score: 169
Period size: 53 Copynumber: 2.7 Consensus size: 53
30223638 AGGATATCAT
* * *
30223648 GTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTC-ATAAGGCAAGGAAACCAC
* * * * *
30223702 ATAAGACCATGCCAAGGCATGGTATTGGTGAGTTCATAAGGCAATGATACCAC
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGCAAGGAAACCAC
* * * *
30223755 GTAAGACTATGTCAAGACATGGCAATGGTAAGTTCA
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCA
30223791 AAAAGGAAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
53 43 0.58
54 31 0.42
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGCAAGGAAACCAC
Found at i:30225696 original size:43 final size:43
Alignment explanation
Indices: 30225648--30225733 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
30225638 ATCACATGTA
* * *
30225648 TCGCATCCATTATGAACTCGGACCACTCAACGAGCTCTGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
*
30225691 TCGCATCCATAATGACCTCAGACCACTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
30225734 CAAATATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
Found at i:30240831 original size:21 final size:22
Alignment explanation
Indices: 30240791--30240832 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
30240781 GCCTAAATGG
30240791 TCACACGGGCGTGTTGCCCCTC
1 TCACACGGGCGTGTTGCCCCTC
30240813 TCACACGGGCGTG-TGCCCCT
1 TCACACGGGCGTGTTGCCCCT
30240833 ATGTTAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.10, C:0.40, G:0.29, T:0.21
Consensus pattern (22 bp):
TCACACGGGCGTGTTGCCCCTC
Found at i:30246369 original size:21 final size:20
Alignment explanation
Indices: 30246341--30246380 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
30246331 ATCTATATAA
30246341 ATGAATTTAATAATCAATTT
1 ATGAATTTAATAATCAATTT
* *
30246361 ATGACATTTCATATTCAATT
1 ATGA-ATTTAATAATCAATT
30246381 GGATTCAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (20 bp):
ATGAATTTAATAATCAATTT
Found at i:30249455 original size:28 final size:27
Alignment explanation
Indices: 30249401--30249456 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
30249391 AATTTAATTA
*
30249401 TTTATACTACAATACTGAATGGGTTGT
1 TTTATACTACAATACTGAATGAGTTGT
* * *
30249428 TTTATACTAGGAATATTGATTGAGTTGT
1 TTTATACTA-CAATACTGAATGAGTTGT
30249456 T
1 T
30249457 AGGTTTCTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.45
Consensus pattern (27 bp):
TTTATACTACAATACTGAATGAGTTGT
Found at i:30251679 original size:16 final size:16
Alignment explanation
Indices: 30251655--30251697 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
30251645 TAAAAATAAT
* *
30251655 TTAAAATATAATTTTA
1 TTAATATATAAATTTA
30251671 TTAATATATATAAATTTA
1 TT-A-ATATATAAATTTA
30251689 TTAATATAT
1 TTAATATAT
30251698 GTAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
17 2 0.09
18 13 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATATATAAATTTA
Found at i:30251683 original size:18 final size:18
Alignment explanation
Indices: 30251660--30251702 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
30251650 ATAATTTAAA
*
30251660 ATATAATTTTATTAATAT
1 ATATAAATTTATTAATAT
30251678 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
30251696 ATGTAAA
1 ATATAAA
30251703 AATAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:30251814 original size:17 final size:18
Alignment explanation
Indices: 30251780--30251822 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
30251770 CTATACATCA
30251780 AAAAAATAAATTATTTTT
1 AAAAAATAAATTATTTTT
30251798 AAAAAATAAATTATTTTT
1 AAAAAATAAATTATTTTT
*
30251816 TAAAAAT
1 AAAAAAT
30251823 TACTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAAATAAATTATTTTT
Found at i:30251822 original size:14 final size:14
Alignment explanation
Indices: 30251805--30251847 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
30251795 TTTAAAAAAT
30251805 AAATTATTTTTTAA
1 AAATTATTTTTTAA
*
30251819 AAATTACTTTTTAA
1 AAATTATTTTTTAA
*
30251833 AAAATATTTTATTAA
1 AAATTATTTT-TTAA
30251848 CAAACAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 21 0.84
15 4 0.16
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
AAATTATTTTTTAA
Found at i:30251835 original size:15 final size:14
Alignment explanation
Indices: 30251805--30251842 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
30251795 TTTAAAAAAT
*
30251805 AAATTATTTTTTAA
1 AAATTATTTTTAAA
30251819 AAATTACTTTTTAAA
1 AAATTA-TTTTTAAA
30251834 AAA-TATTTT
1 AAATTATTTT
30251843 ATTAACAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 8 0.36
15 10 0.45
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
AAATTATTTTTAAA
Found at i:30258081 original size:22 final size:23
Alignment explanation
Indices: 30258042--30258086 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
30258032 AAAGCTCAGG
** *
30258042 AGAAAGGAGAGACTGAAAGGAAA
1 AGAAAGGAGAGAAAGAAAAGAAA
30258065 AGAAA-GAGAGAAAGAAAAGAAA
1 AGAAAGGAGAGAAAGAAAAGAAA
30258087 TGTGCTGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.64, C:0.02, G:0.31, T:0.02
Consensus pattern (23 bp):
AGAAAGGAGAGAAAGAAAAGAAA
Found at i:30262277 original size:20 final size:20
Alignment explanation
Indices: 30262254--30262299 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
30262244 TACCAAAATA
*
30262254 TCTAAGGATTTAACAATATT
1 TCTAAAGATTTAACAATATT
* *
30262274 TCTAAAGTTTTATCAATATT
1 TCTAAAGATTTAACAATATT
*
30262294 TATAAA
1 TCTAAA
30262300 CCTTAAACCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (20 bp):
TCTAAAGATTTAACAATATT
Found at i:30262700 original size:50 final size:50
Alignment explanation
Indices: 30262616--30262710 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
30262606 ATTTTATCCT
* * *
30262616 AATCAATGTCAAATAGAATGAGAGAATTTCTATACGAATTCTACTCGTAC
1 AATCAATATCAAATAGAATGAGAGAAGTTATATACGAATTCTACTCGTAC
*
30262666 AATCAATATCAAATAGAA-GAAGAGTAGTTATATACGAATTCTACT
1 AATCAATATCAAATAGAATG-AGAGAAGTTATATACGAATTCTACT
30262711 TGTATTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 1 0.03
50 39 0.98
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (50 bp):
AATCAATATCAAATAGAATGAGAGAAGTTATATACGAATTCTACTCGTAC
Found at i:30262811 original size:29 final size:29
Alignment explanation
Indices: 30262773--30262830 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
30262763 CCACCTTGAT
* * * *
30262773 ACGAATTCTCAACGAACAATTTCTTCACC
1 ACGAACTCTCAACAAACAAGTTCTCCACC
30262802 ACGAACTCTCAACAAACAAGTTCTCCACC
1 ACGAACTCTCAACAAACAAGTTCTCCACC
30262831 TTTTCCCCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.34, G:0.07, T:0.22
Consensus pattern (29 bp):
ACGAACTCTCAACAAACAAGTTCTCCACC
Found at i:30264847 original size:5 final size:5
Alignment explanation
Indices: 30264837--30264861 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
30264827 ATTGTGTGTA
30264837 TTGTT TTGTT TTGTT TTGTT TTGTT
1 TTGTT TTGTT TTGTT TTGTT TTGTT
30264862 GTGATGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TTGTT
Found at i:30264898 original size:28 final size:28
Alignment explanation
Indices: 30264867--30264945 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
30264857 TTGTTGTGAT
*
30264867 GTATTGTTATATTATTATTTTTGTTTTG
1 GTATTGTTATATTATTATTTTCGTTTTG
30264895 GTATTGTTATATTATTATTTTCGTTTTG
1 GTATTGTTATATTATTATTTTCGTTTTG
*
30264923 GTATTGTTATATCAATTATTTTC
1 GTATTGTTATAT-TATTATTTTC
30264946 CATGCATGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 39 0.81
29 9 0.19
ACGTcount: A:0.20, C:0.04, G:0.13, T:0.63
Consensus pattern (28 bp):
GTATTGTTATATTATTATTTTCGTTTTG
Found at i:30265371 original size:131 final size:131
Alignment explanation
Indices: 30265134--30265387 Score: 409
Period size: 131 Copynumber: 1.9 Consensus size: 131
30265124 TCATTCAAAA
* * * **
30265134 ATTCTTTAAAATGAAAGCAATGTTCGATGTTTGGCAATTCGGGAAATTGTGCCCTATCGTGTTGG
1 ATTCTTCAAAACGAAAGCAATGTTCGATGTTTGGCAATTCGGGAAATCGTGCCCTATCGTACTGG
* * *
30265199 GTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTCTTTAAA
66 GTTGCAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGTCTTTAAA
30265264 G
131 G
* * *
30265265 ATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTACTGG
1 ATTCTTCAAAACGAAAGCAATGTTCGATGTTTGGCAATTCGGGAAATCGTGCCCTATCGTACTGG
30265330 GTTGCAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGT
66 GTTGCAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGT
30265388 TCTCTAAATT
Statistics
Matches: 112, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 112 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (131 bp):
ATTCTTCAAAACGAAAGCAATGTTCGATGTTTGGCAATTCGGGAAATCGTGCCCTATCGTACTGG
GTTGCAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGTCTTTAAA
G
Found at i:30268760 original size:19 final size:19
Alignment explanation
Indices: 30268736--30268775 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
30268726 GATGGCTCCT
*
30268736 TTGCATT-CATGCATTTGCA
1 TTGCATTACAT-CATATGCA
30268755 TTGCATTACATCATATGCA
1 TTGCATTACATCATATGCA
30268774 TT
1 TT
30268776 AAAGGTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (19 bp):
TTGCATTACATCATATGCA
Found at i:30282469 original size:47 final size:47
Alignment explanation
Indices: 30282413--30282553 Score: 205
Period size: 47 Copynumber: 3.0 Consensus size: 47
30282403 GTTGAATTTA
30282413 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
*
30282460 AAGCTTGTTAAATTTGCTCTTAATATTTCTGGACAAGTTAC--AGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
* * * * * *
30282505 AAGCTTGTTAAATTTTCCCTTATTATTTTCGAATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
30282552 AA
1 AA
30282554 AGAAAATTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
45 38 0.45
47 46 0.55
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
Found at i:30283418 original size:45 final size:45
Alignment explanation
Indices: 30283353--30283465 Score: 153
Period size: 45 Copynumber: 2.6 Consensus size: 45
30283343 CGCACAGTAT
* *
30283353 TATTCGGGCCTTT-GAACCTAGCAGGCTATAATGTCGGTGAGAT-A
1 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGTCGGTGAAATGA
30283397 CTATTCGGGCTTTCGAGCCTAGCAGGCTATAATGTCGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGTCGGTGAAATGA
*
30283443 TA-TCGAGC-TTCGAGCCTAGCAGG
1 TATTCGGGCTTTCGAGCCTAGCAGG
30283466 TGAAATATTG
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
43 15 0.24
44 9 0.14
45 38 0.60
46 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGTCGGTGAAATGA
Found at i:30287368 original size:89 final size:90
Alignment explanation
Indices: 30287216--30287745 Score: 573
Period size: 89 Copynumber: 6.0 Consensus size: 90
30287206 CGACATTGGC
* * * * **
30287216 GAAGATTG-CAGATCTTGCCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGAAAGCAAGCCTTAAC
1 GAAGATTGATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAAC
30287280 CCCCTAAGTAGTAGGGTAACAGGCT
66 CCCCTAAGTAGTAGGGTAACAGGCT
* ** ** *
30287305 GAAGATTGA-AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGAGCATTAAC
1 GAAGATTGATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAAC
30287369 CCCCTAAGTAGTAGGGTAACAGGCT
66 CCCCTAAGTAGTAGGGTAACAGGCT
* * * *
30287394 G-A-ATTG-CAGATCTTATTTCCCTGAAGTTGCAGTGGAACAGATCAAACAAAGCAAGCCTTAAC
1 GAAGATTGATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAAC
*
30287456 CCCCTAAGTGGTAGGGTAACAGGCT
66 CCCCTAAGTAGTAGGGTAACAGGCT
* * * * **
30287481 GAAGA-TCATAGAAT-TTGTCTTCCTGAAGTTGCAGTGGAACAGCT-AGAAGATAGTGAGCCTTA
1 GAAGATTGATAG-ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCA-AAGAAAGCAAGCCTTA
* *
30287543 ACCCTCTAAGTAGTAGGGTAACATGCT
64 ACCCCCTAAGTAGTAGGGTAACAGGCT
* * *
30287570 G-A-ATT-ACAGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATCAAAGAAAGCAAGCCTTAAC
1 GAAGATTGATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAAC
* * * **
30287632 CTCTTAAGTGGTAGGGTAACAGTAT
66 CCCCTAAGTAGTAGGGTAACAGGCT
* * ** * *
30287657 GAAGA-TCATAGATCTTGTCTCCCTGAAGTTACAGTGGAACAGATCAAAGACGGTGAA-CTTTAA
1 GAAGATTGATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAG-CAAGCCTTAA
* *
30287720 CCCCCTAAGCAGTAGGGTAATAGGCT
65 CCCCCTAAGTAGTAGGGTAACAGGCT
30287746 AAAAATCACA
Statistics
Matches: 365, Mismatches: 62, Indels: 28
0.80 0.14 0.06
Matches are distributed among these distances:
86 2 0.01
87 139 0.38
88 9 0.02
89 211 0.58
90 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (90 bp):
GAAGATTGATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAAC
CCCCTAAGTAGTAGGGTAACAGGCT
Found at i:30287514 original size:176 final size:176
Alignment explanation
Indices: 30287220--30287745 Score: 750
Period size: 176 Copynumber: 3.0 Consensus size: 176
30287210 ATTGGCGAAG
** * * **
30287220 ATTGCAGATCTTGCCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGAAAGCAAGCCTTAACCCCCT
1 ATTGCAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCCT
* *
30287285 AAGTAGTAGGGTAACAGGCTGAAGATTGA-AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGAT
66 AAGTGGTAGGGTAACAGGCTGAAGA-TCATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGAT
30287349 CGAAGACGGTGAGCATTAACCCCCTAAGTAGTAGGGTAACAGGCTGA
130 CGAAGACGGTGAGCATTAACCCCCTAAGTAGTAGGGTAACAGGCTGA
* *
30287396 ATTGCAGATCTTATTTCCCTGAAGTTGCAGTGGAACAGATCAAACAAAGCAAGCCTTAACCCCCT
1 ATTGCAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCCT
* *
30287461 AAGTGGTAGGGTAACAGGCTGAAGATCATAGAAT-TTGTCTTCCTGAAGTTGCAGTGGAACAGCT
66 AAGTGGTAGGGTAACAGGCTGAAGATCATAG-ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGAT
* ** * * *
30287525 AGAAGATAGTGAGCCTTAACCCTCTAAGTAGTAGGGTAACATGCTGA
130 CGAAGACGGTGAGCATTAACCCCCTAAGTAGTAGGGTAACAGGCTGA
* * * *
30287572 ATTACAGATCTTATCTCCCTGAAGTTGTAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCTCTT
1 ATTGCAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCCT
** *
30287637 AAGTGGTAGGGTAACAGTATGAAGATCATAGATCTTGTCTCCCTGAAGTTACAGTGGAACAGATC
66 AAGTGGTAGGGTAACAGGCTGAAGATCATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC
* * * * *
30287702 AAAGACGGTGAACTTTAACCCCCTAAGCAGTAGGGTAATAGGCT
131 GAAGACGGTGAGCATTAACCCCCTAAGTAGTAGGGTAACAGGCT
30287746 AAAAATCACA
Statistics
Matches: 308, Mismatches: 39, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
175 4 0.01
176 302 0.98
177 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.24
Consensus pattern (176 bp):
ATTGCAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCCT
AAGTGGTAGGGTAACAGGCTGAAGATCATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC
GAAGACGGTGAGCATTAACCCCCTAAGTAGTAGGGTAACAGGCTGA
Found at i:30289312 original size:19 final size:19
Alignment explanation
Indices: 30289290--30289360 Score: 70
Period size: 19 Copynumber: 3.4 Consensus size: 19
30289280 TTGTTTATAT
30289290 GATTCATTATTTTTTAGGA
1 GATTCATTATTTTTTAGGA
*
30289309 GATTCATTTAATGCCTTTTTTAGGT
1 GATTCA-TT-A----TTTTTTAGGA
*
30289334 GATTCATTATTTTTGAGGA
1 GATTCATTATTTTTTAGGA
30289353 GATTCATT
1 GATTCATT
30289361 TAATGCCTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
19 22 0.51
20 2 0.05
21 1 0.02
23 1 0.02
24 2 0.05
25 15 0.35
ACGTcount: A:0.24, C:0.08, G:0.17, T:0.51
Consensus pattern (19 bp):
GATTCATTATTTTTTAGGA
Found at i:30289337 original size:25 final size:25
Alignment explanation
Indices: 30289299--30289376 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 25
30289289 TGATTCATTA
30289299 TTTTTTAGGAGATTCATTTAATGCC
1 TTTTTTAGGAGATTCATTTAATGCC
*
30289324 TTTTTTAGGTGATTCA-TT-A----
1 TTTTTTAGGAGATTCATTTAATGCC
*
30289343 TTTTTGAGGAGATTCATTTAATGCC
1 TTTTTTAGGAGATTCATTTAATGCC
30289368 TTTTTTAGG
1 TTTTTTAGG
30289377 TGTCAAAACT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
19 14 0.33
20 2 0.05
21 1 0.02
23 1 0.02
24 2 0.05
25 23 0.53
ACGTcount: A:0.22, C:0.09, G:0.18, T:0.51
Consensus pattern (25 bp):
TTTTTTAGGAGATTCATTTAATGCC
Found at i:30289337 original size:44 final size:44
Alignment explanation
Indices: 30289289--30289378 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
30289279 TTTGTTTATA
*
30289289 TGATTCATTATTTTTTAGGAGATTCATTTAATGCCTTTTTTAGG
1 TGATTCATTATTTTTGAGGAGATTCATTTAATGCCTTTTTTAGG
30289333 TGATTCATTATTTTTGAGGAGATTCATTTAATGCCTTTTTTAGG
1 TGATTCATTATTTTTGAGGAGATTCATTTAATGCCTTTTTTAGG
30289377 TG
1 TG
30289379 TCAAAACTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.22, C:0.09, G:0.18, T:0.51
Consensus pattern (44 bp):
TGATTCATTATTTTTGAGGAGATTCATTTAATGCCTTTTTTAGG
Found at i:30290789 original size:127 final size:127
Alignment explanation
Indices: 30290455--30290781 Score: 390
Period size: 131 Copynumber: 2.5 Consensus size: 127
30290445 TTTTATTAAA
*
30290455 AAAATTTTAAAATGAAGGCAATGTTCGATGTTTGGAAATTC-AGGAAATCGTGCCCTA-TCGTGC
1 AAAATTCTAAAAT-AAGGCAATGTTCGATGTTTGGAAATTCGAGG-AATCGTGCCCTACT-GTGC
* * * * * * *
30290518 TGGGTAGCAATTTCCCGTTTGTTTAAAATAATCGAATATTCCTTTGGAATTTCACTTATGTCTTT
63 TGGGTTGCAATTTTCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTGT
* * * * *
30290583 AAAGATTCTTCATAACAATGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACTGTG
1 AAA-ATTC-T-AAAATAA-GGCAATGTTCGATGTTTGGAAATTCGAGGAATCGTGCCCTACTGTG
*
30290648 CTGGGTTGCAATTTTCTGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTCT
62 CTGGGTTGCAATTTTCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATG-TCT
30290713 GT
126 GT
* * * * *
30290715 -AAATTCTAAAATAACGCAATGTTGGATGTCTAGAAATTCGAGGAATCGTGCCCTACTGTGATGG
1 AAAATTCTAAAATAAGGCAATGTTCGATGTTTGGAAATTCGAGGAATCGTGCCCTACTGTGCTGG
30290779 GTT
66 GTT
30290782 TTGATTTTTT
Statistics
Matches: 168, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
127 45 0.27
128 8 0.05
129 4 0.02
130 7 0.04
131 97 0.58
132 7 0.04
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (127 bp):
AAAATTCTAAAATAAGGCAATGTTCGATGTTTGGAAATTCGAGGAATCGTGCCCTACTGTGCTGG
GTTGCAATTTTCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTGT
Found at i:30293165 original size:48 final size:48
Alignment explanation
Indices: 30293109--30293204 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
30293099 AGCAATGAAT
*
30293109 GTGCACCTGTTTGTATCCACTGATGATGTGTTAGTAGTGGAGTTAAAA
1 GTGCACCTGTCTGTATCCACTGATGATGTGTTAGTAGTGGAGTTAAAA
30293157 GTGCACCTGTCTGTATCCACTGATGATGTGTTAGTAGTGGAGTTAAAA
1 GTGCACCTGTCTGTATCCACTGATGATGTGTTAGTAGTGGAGTTAAAA
30293205 ACAAAACCGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (48 bp):
GTGCACCTGTCTGTATCCACTGATGATGTGTTAGTAGTGGAGTTAAAA
Found at i:30298545 original size:47 final size:45
Alignment explanation
Indices: 30298492--30298612 Score: 127
Period size: 47 Copynumber: 2.6 Consensus size: 45
30298482 TGGCCATGAT
30298492 ATGTGATAAGGCCGAATGGCCAATGTGATGA-ATGTGGAAGTGCATAC
1 ATGTGATAAGGCCGAATGGCCAATGTGAT-ATATGTGGAAGTG-A-AC
* ** * * *
30298539 ATGTGATAAGGCCGGATGGTTAATGTGATATATGTGTACGTGAAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
* *
30298584 AGGTGATAAGGCCGAATGACCAATTGTGA
1 ATGTGATAAGGCCGAATGGCCAA-TGTGA
30298613 AAAGTGTGCA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
45 19 0.31
46 7 0.11
47 35 0.57
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.26
Consensus pattern (45 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
Found at i:30301139 original size:40 final size:40
Alignment explanation
Indices: 30301084--30301401 Score: 555
Period size: 40 Copynumber: 8.0 Consensus size: 40
30301074 TGAGAGTTAG
30301084 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
* *
30301124 ATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
30301164 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
*
30301204 ATATTCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
30301244 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
*
30301284 ATATCCGGGCTAAGTCTCAAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
*
30301324 ACATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
* * * *
30301364 ACATCCGGGCTAGGTCCCGAAGAGCATTCATGCTGGTG
1 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTG
30301402 ATGTGTATTC
Statistics
Matches: 266, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 266 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
Found at i:30305061 original size:22 final size:22
Alignment explanation
Indices: 30304986--30305062 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
30304976 TGGCCATGAT
**
30304986 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGATA
* ** *
30305008 ATGTGATGAATGTGGAAGTGCATA
1 ATGTGAT-AAGGCCGAA-TGGATA
*
30305032 CATGTGATAAGGCCGAATGGTTA
1 -ATGTGATAAGGCCGAATGGATA
30305055 ATGTGATA
1 ATGTGATA
30305063 TATGTGTACA
Statistics
Matches: 41, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
22 15 0.37
23 10 0.24
24 9 0.22
25 7 0.17
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGATA
Found at i:30305239 original size:39 final size:40
Alignment explanation
Indices: 30305180--30305264 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
30305170 AAATGAATTG
* * * * *
30305180 TGCTGAGATTGTATCTGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
*
30305219 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
30305259 TGCTGG
1 TGCTGG
30305265 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 17 0.44
40 22 0.56
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.31
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:30308179 original size:45 final size:45
Alignment explanation
Indices: 30308046--30308209 Score: 219
Period size: 45 Copynumber: 3.7 Consensus size: 45
30308036 AATATCATAC
* *
30308046 GATACTAATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGA
1 GATACTAATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
30308091 GATACTAATCGGGCCCTT-GAGCCTAGCAGGCTATAATGCCGGTGA
1 GATACTAATCGGG-CCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
* * **
30308136 GATACTATTCGGGCCTTCGAGCCTAACAGGCTATAATTTCGGTGA
1 GATACTAATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
*
30308181 AATGA-T-ATCGGG-CTTCGAGCCTAGCAGGC
1 GAT-ACTAATCGGGCCTTCGAGCCTAGCAGGC
30308210 AATATGTCGG
Statistics
Matches: 108, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
43 16 0.15
44 9 0.08
45 78 0.72
46 5 0.05
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (45 bp):
GATACTAATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:30311593 original size:46 final size:46
Alignment explanation
Indices: 30311503--30311713 Score: 205
Period size: 46 Copynumber: 4.5 Consensus size: 46
30311493 ATGCCAATGC
* * * * *
30311503 CATGTCCCAAACATGGTCTTACACTGACTATCATCTCTTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCTC-AAGGCCGATG
* *
30311550 CATATCCTAGACATGTCTTACACTGGCT-TACGTCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CGTCTCAAGGCCGATG
* * *
30311596 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAGGCCGATG
* * **
30311642 CCATGTCCCAGACATGGTCTTACACTGGCTCT--TATAATATGGTTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCTCA-A-GGCCGATG
30311690 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
30311714 AGGTCACACA
Statistics
Matches: 141, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
45 2 0.01
46 77 0.55
47 41 0.29
48 21 0.15
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAGGCCGATG
Found at i:30313948 original size:42 final size:44
Alignment explanation
Indices: 30313847--30313973 Score: 132
Period size: 42 Copynumber: 2.9 Consensus size: 44
30313837 ATGTGTTATT
* * * * * *
30313847 GTGTAAGACCACGTTTGGGACGTTGGCATCAATTTGTGATTTAC
1 GTGTAAGACCATGTCTAGGACATTGGCATCAATATATGATTTAC
*
30313891 GTGTAAGACCATGTCTAGGATATTGGCATC-ATATATGATTT-C
1 GTGTAAGACCATGTCTAGGACATTGGCATCAATATATGATTTAC
* * * * *
30313933 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATT
1 GTGTAAGACCATGTCTAGGACATTGGCATCAATATATGATT
30313974 ACACATAAGA
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 27 0.39
43 18 0.26
44 25 0.36
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (44 bp):
GTGTAAGACCATGTCTAGGACATTGGCATCAATATATGATTTAC
Found at i:30318722 original size:28 final size:29
Alignment explanation
Indices: 30318677--30318731 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
30318667 CAAAAAGTAT
*
30318677 TTTATGTATATATTTATT-ATTTAAATGG
1 TTTATGTATATATTTATTGATTAAAATGG
*
30318705 TTTATTTATAT-TTATATTGATTAAAAT
1 TTTATGTATATATT-TATTGATTAAAAT
30318732 ACAGTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (29 bp):
TTTATGTATATATTTATTGATTAAAATGG
Found at i:30319086 original size:36 final size:36
Alignment explanation
Indices: 30319046--30319135 Score: 162
Period size: 36 Copynumber: 2.5 Consensus size: 36
30319036 TTATAGATGT
*
30319046 GTTTAGGGATTATGGGTTTTGGGGTTGTGGTTTAAA
1 GTTTAGGGATTATGGGTTTTGGGATTGTGGTTTAAA
30319082 GTTTAGGGATTATGGGTTTTGGGATTGTGGTTTAAA
1 GTTTAGGGATTATGGGTTTTGGGATTGTGGTTTAAA
30319118 GTTTAGGGATTAGTGGGT
1 GTTTAGGGATTA-TGGGT
30319136 AAAGGTTAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
36 47 0.90
37 5 0.10
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (36 bp):
GTTTAGGGATTATGGGTTTTGGGATTGTGGTTTAAA
Found at i:30319126 original size:21 final size:21
Alignment explanation
Indices: 30319061--30319133 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
30319051 GGGATTATGG
* *
30319061 GTTTTGGGGTTGTGGTTTAAA
1 GTTTAGGGATTGTGGTTTAAA
*
30319082 GTTTAGGGATTATGG------
1 GTTTAGGGATTGTGGTTTAAA
*
30319097 GTTTTGGGATTGTGGTTTAAA
1 GTTTAGGGATTGTGGTTTAAA
30319118 GTTTAGGGATTAGTGG
1 GTTTAGGGATT-GTGG
30319134 GTAAAGGTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 13
0.67 0.10 0.22
Matches are distributed among these distances:
15 13 0.33
21 22 0.56
22 4 0.10
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (21 bp):
GTTTAGGGATTGTGGTTTAAA
Found at i:30319182 original size:29 final size:28
Alignment explanation
Indices: 30319124--30319202 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 28
30319114 TAAAGTTTAG
* *
30319124 GGATTAGTGGG-TAAAGGTTAAGGGTTAT
1 GGATTA-TGGGTTTAAGGTTAAGGGTCAT
30319152 GGATTATGGGTTTAAGGATTAAGGGTCAT
1 GGATTATGGGTTTAAGG-TTAAGGGTCAT
* *
30319181 GGGTTATGTGTTTAATGGTTAA
1 GGATTATGGGTTTAA-GGTTAA
30319203 AGGGATATGG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
27 4 0.09
28 11 0.25
29 27 0.61
30 2 0.05
ACGTcount: A:0.27, C:0.01, G:0.35, T:0.37
Consensus pattern (28 bp):
GGATTATGGGTTTAAGGTTAAGGGTCAT
Found at i:30319687 original size:26 final size:27
Alignment explanation
Indices: 30319614--30319688 Score: 109
Period size: 26 Copynumber: 2.9 Consensus size: 27
30319604 AATAATTTAA
*
30319614 AATTTTAAAGATTTCAAA-TTTAGAAT
1 AATTTTCAAGATTTCAAATTTTAGAAT
*
30319640 AAATTTCAAGATTTCAAATTTTA-AAT
1 AATTTTCAAGATTTCAAATTTTAGAAT
*
30319666 AATTTTCAATATTTCAAATTTTA
1 AATTTTCAAGATTTCAAATTTTA
30319689 TCTAATTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 40 0.91
27 4 0.09
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (27 bp):
AATTTTCAAGATTTCAAATTTTAGAAT
Found at i:30319833 original size:18 final size:17
Alignment explanation
Indices: 30319802--30319836 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
30319792 TAGTTGATTG
*
30319802 TTTTTTAATTTATATTA
1 TTTTTAAATTTATATTA
30319819 TTTTTAAATTATATATTA
1 TTTTTAAATT-TATATTA
30319837 AATAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTAAATTTATATTA
Found at i:30320308 original size:14 final size:13
Alignment explanation
Indices: 30320271--30320304 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
30320261 CCTTAAGTGT
30320271 TTTTCCCCTAAAA
1 TTTTCCCCTAAAA
*
30320284 CTTTCCCCTAAAA
1 TTTTCCCCTAAAA
30320297 TTTTCCCC
1 TTTTCCCC
30320305 CTAACCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.38, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTTCCCCTAAAA
Found at i:30323862 original size:9 final size:9
Alignment explanation
Indices: 30323848--30323964 Score: 101
Period size: 9 Copynumber: 12.3 Consensus size: 9
30323838 CTTAAAGAAA
30323848 TTACATAAC
1 TTACATAAC
30323857 TTACATAAC
1 TTACATAAC
* *
30323866 TCATATAAC
1 TTACATAAC
*
30323875 TTACATAAT
1 TTACATAAC
30323884 TTACATAACAAC
1 TTACAT---AAC
30323896 TTACATAAC
1 TTACATAAC
*
30323905 TCACATAAC
1 TTACATAAC
*
30323914 TTACATAAT
1 TTACATAAC
*
30323923 TTACATATC
1 TTACATAAC
*
30323932 TCACATAA-
1 TTACATAAC
30323940 TGTACATAACAAC
1 T-TACAT---AAC
30323953 TTACATAAC
1 TTACATAAC
30323962 TTA
1 TTA
30323965 ACTAATACAT
Statistics
Matches: 86, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
8 1 0.01
9 69 0.80
12 15 0.17
13 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.33
Consensus pattern (9 bp):
TTACATAAC
Found at i:30323906 original size:39 final size:39
Alignment explanation
Indices: 30323854--30323929 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
30323844 GAAATTACAT
*
30323854 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
30323893 AACTTACATAACTCACATAACTTACATAATTTACATA
1 AACTTACATAACTCACATAACTTACATAATTTACATA
30323930 TCTCACATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:30323938 original size:57 final size:57
Alignment explanation
Indices: 30323850--30323962 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
30323840 TAAAGAAATT
* * *
30323850 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAATGTACATAACAACTTACATAACTC
* * *
30323907 ACATAACTTACATAATTTACATATCTCACATAATGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAATGTACATAACAACTTACATAACT
30323963 TAACTAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAATGTACATAACAACTTACATAACTC
Done.