Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold14
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: 2879421
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 64274 characters in sequence are not A, C, G, or T
File 17 of 17
Found at i:2742637 original size:13 final size:13
Alignment explanation
Indices: 2742619--2742656 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2742609 ATAAACACCC
2742619 TGTATCGATACAG
1 TGTATCGATACAG
*
2742632 TGTATCGATACAT
1 TGTATCGATACAG
2742645 TGTATCGATACA
1 TGTATCGATACA
2742657 AATAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2744756 original size:15 final size:15
Alignment explanation
Indices: 2744736--2744766 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2744726 ATTTCGTTTG
*
2744736 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2744751 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2744766 G
1 G
2744767 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2748845 original size:13 final size:13
Alignment explanation
Indices: 2748827--2748852 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2748817 CAATTTTTTG
2748827 TGTATCGATACAT
1 TGTATCGATACAT
2748840 TGTATCGATACAT
1 TGTATCGATACAT
2748853 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2748917 original size:21 final size:21
Alignment explanation
Indices: 2748891--2748966 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2748881 CTGCCAAGAA
*
2748891 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2748912 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2748932 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2748953 ATGTATCGATACAT
1 ATGTATCGATACAT
2748967 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2748937 original size:20 final size:20
Alignment explanation
Indices: 2748912--2748984 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2748902 CATCTTTTTT
2748912 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2748932 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2748953 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2748973 ATGTATCGATAC
1 ATGTATCGATAC
2748985 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2748948 original size:41 final size:41
Alignment explanation
Indices: 2748891--2748984 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2748881 CTGCCAAGAA
*
2748891 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2748932 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2748973 ATGTATCGATAC
1 ATGTATCGATAC
2748985 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2761379 original size:2 final size:2
Alignment explanation
Indices: 2761372--2761429 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
2761362 GGCTAACAAA
2761372 AT AT AT AT AT -T AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2761412 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
2761430 TTGAATAACA
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 52 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2766645 original size:18 final size:18
Alignment explanation
Indices: 2766622--2766673 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
2766612 TGTGACAGTT
2766622 ATTTGTGATACAATTTTC
1 ATTTGTGATACAATTTTC
2766640 ATTTGTGATACAATTTTC
1 ATTTGTGATACAATTTTC
*
2766658 ATTTGTGATAGAATTT
1 ATTTGTGATACAATTT
2766674 AGTAACAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (18 bp):
ATTTGTGATACAATTTTC
Found at i:2766918 original size:22 final size:21
Alignment explanation
Indices: 2766878--2766918 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2766868 ACATCGTCAA
*
2766878 AAAATTTGTAACAGAATTACT
1 AAAATTTGTAACAAAATTACT
*
2766899 AAAATTTGTGACAAATATTA
1 AAAATTTGTAACAAA-ATTA
2766919 TTAATAAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (21 bp):
AAAATTTGTAACAAAATTACT
Found at i:2767927 original size:18 final size:18
Alignment explanation
Indices: 2767906--2767956 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
2767896 ATATTTAAAA
*
2767906 TATTATATTATATATATT
1 TATTATATAATATATATT
* *
2767924 TATTAAATAATATA-AAT
1 TATTATATAATATATATT
2767941 T-TTATATAATATATAT
1 TATTATATAATATATAT
2767957 GAACATAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 11 0.41
17 4 0.15
18 12 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTATATAATATATATT
Found at i:2770213 original size:18 final size:18
Alignment explanation
Indices: 2770190--2770224 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2770180 GACTTTCATC
2770190 AATTTT-ATGTTAAAATTA
1 AATTTTAAT-TTAAAATTA
2770208 AATTTTAATTTAAAATT
1 AATTTTAATTTAAAATT
2770225 TGATATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
AATTTTAATTTAAAATTA
Found at i:2771646 original size:2 final size:2
Alignment explanation
Indices: 2771639--2771681 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2771629 AACAAAAGAT
2771639 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2771681 T
1 T
2771682 CGGATGTGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2774788 original size:2 final size:2
Alignment explanation
Indices: 2774783--2774828 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
2774773 AATGACACTA
*
2774783 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2774825 AT AT
1 AT AT
2774829 GATGCTCGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2775997 original size:23 final size:24
Alignment explanation
Indices: 2775954--2776002 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
2775944 GAATTAAAAA
2775954 AAAAAATTTAAAATATGTGAT-TT
1 AAAAAATTTAAAATATGTGATATT
* * *
2775977 AAAAAATTTTAATTATTTGATATT
1 AAAAAATTTAAAATATGTGATATT
2776001 AA
1 AA
2776003 TGTGAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (24 bp):
AAAAAATTTAAAATATGTGATATT
Found at i:2776567 original size:22 final size:21
Alignment explanation
Indices: 2776542--2776582 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2776532 ATATATTTTT
2776542 TATA-AAAT-TTAATTATAAAA
1 TATATAAATATTAA-TATAAAA
2776562 TATATAAATATTAATATAAAA
1 TATATAAATATTAATATAAAA
2776583 ATAATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TATATAAATATTAATATAAAA
Found at i:2777081 original size:16 final size:16
Alignment explanation
Indices: 2777014--2777117 Score: 61
Period size: 16 Copynumber: 6.5 Consensus size: 16
2777004 CCGAACTAAA
* *
2777014 AAATAATCCGAACCTG
1 AAATGATCCGAAACTG
* **
2777030 AAATGA-CCTAAATCCA
1 AAATGATCCGAAA-CTG
* *
2777046 AAATGAT-CTAAACTTA
1 AAATGATCCGAAAC-TG
*
2777062 AAATGATCCGAATCTG
1 AAATGATCCGAAACTG
*
2777078 AAATGATTC-AAACTAG
1 AAATGATCCGAAACT-G
* *
2777094 AAATGATCCGAACCCG
1 AAATGATCCGAAACTG
2777110 AAATGATC
1 AAATGATC
2777118 TAAACCCAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
15 9 0.13
16 52 0.76
17 7 0.10
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.22
Consensus pattern (16 bp):
AAATGATCCGAAACTG
Found at i:2777082 original size:32 final size:31
Alignment explanation
Indices: 2777040--2777138 Score: 110
Period size: 32 Copynumber: 3.1 Consensus size: 31
2777030 AAATGACCTA
*
2777040 AATCCAAAATGATCTAAACTTAAAATGATCCG
1 AATCCGAAATGATCTAAAC-TAAAATGATCCG
*
2777072 AATCTGAAATGAT-TCAAACTAGAAATGATCCG
1 AATCCGAAATGATCT-AAACTA-AAATGATCCG
* * *
2777104 AACCCGAAATGATCTAAACCCAAAATGACCCG
1 AATCCGAAATGATCTAAA-CTAAAATGATCCG
2777136 AAT
1 AAT
2777139 AATTAACTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
31 3 0.05
32 50 0.89
33 3 0.05
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.21
Consensus pattern (31 bp):
AATCCGAAATGATCTAAACTAAAATGATCCG
Found at i:2777123 original size:16 final size:16
Alignment explanation
Indices: 2777024--2777131 Score: 56
Period size: 16 Copynumber: 6.8 Consensus size: 16
2777014 AAATAATCCG
* *
2777024 AACCTGAAATGACCTA
1 AACCCGAAATGATCTA
* *
2777040 AATCCAAAATGATCTA
1 AACCCGAAATGATCTA
*** **
2777056 AACTTAAAATGATCCG
1 AACCCGAAATGATCTA
* *
2777072 AATCTGAAATGAT-TCA
1 AACCCGAAATGATCT-A
** **
2777088 AACTAGAAATGATCCG
1 AACCCGAAATGATCTA
2777104 AACCCGAAATGATCTA
1 AACCCGAAATGATCTA
*
2777120 AACCCAAAATGA
1 AACCCGAAATGA
2777132 CCCGAATAAT
Statistics
Matches: 66, Mismatches: 24, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
16 66 1.00
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.21
Consensus pattern (16 bp):
AACCCGAAATGATCTA
Found at i:2778055 original size:16 final size:17
Alignment explanation
Indices: 2778034--2778072 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
2778024 TGAGAATTCG
2778034 AAATGACT-CGAACTCA
1 AAATGACTCCGAACTCA
*
2778050 AAATGA-TCCGAACTCG
1 AAATGACTCCGAACTCA
2778066 AAATGAC
1 AAATGAC
2778073 CTAAACCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.18
Consensus pattern (17 bp):
AAATGACTCCGAACTCA
Found at i:2778916 original size:18 final size:19
Alignment explanation
Indices: 2778879--2778917 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
2778869 AAAAATTATT
* *
2778879 TATATTTTTATATTTTAAA
1 TATATTTTTATAATTAAAA
2778898 TATA-TTTTATAATTAAAA
1 TATATTTTTATAATTAAAA
2778916 TA
1 TA
2778918 AAATTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTTTTATAATTAAAA
Found at i:2791476 original size:14 final size:14
Alignment explanation
Indices: 2791457--2791489 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
2791447 AGTAGTAATA
2791457 AATGAGTTAAGAAT
1 AATGAGTTAAGAAT
2791471 AATGAGTTAAGAAT
1 AATGAGTTAAGAAT
2791485 AATGA
1 AATGA
2791490 TCTGAGGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.27
Consensus pattern (14 bp):
AATGAGTTAAGAAT
Found at i:2792472 original size:2 final size:2
Alignment explanation
Indices: 2792421--2792453 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2792411 ACTCACATAC
*
2792421 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2792454 AAACCTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2797149 original size:34 final size:34
Alignment explanation
Indices: 2797109--2797264 Score: 276
Period size: 34 Copynumber: 4.6 Consensus size: 34
2797099 AATATCTTAC
* *
2797109 TCACCTAACACACCTAATATTTTCACCAAATACA
1 TCACCTAACACACCTAACATTCTCACCAAATACA
* *
2797143 TTACCTAACACATCTAACATTCTCACCAAATACA
1 TCACCTAACACACCTAACATTCTCACCAAATACA
2797177 TCACCTAACACACCTAACATTCTCACCAAATACA
1 TCACCTAACACACCTAACATTCTCACCAAATACA
2797211 TCACCTAACACACCTAACATTCTCACCAAATACA
1 TCACCTAACACACCTAACATTCTCACCAAATACA
2797245 TCACCTAACACACCTAACAT
1 TCACCTAACACACCTAACAT
2797265 GCTTCACCTA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 116 1.00
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.23
Consensus pattern (34 bp):
TCACCTAACACACCTAACATTCTCACCAAATACA
Found at i:2797185 original size:25 final size:25
Alignment explanation
Indices: 2797156--2797254 Score: 74
Period size: 25 Copynumber: 4.2 Consensus size: 25
2797146 CCTAACACAT
2797156 CTAACATTCTCACCAAATACATCAC
1 CTAACATTCTCACCAAATACATCAC
*
2797181 CTAACA----CACCTAACATTC-TCAC
1 CTAACATTCTCACC-AA-ATACATCAC
* *
2797203 C-AA-ATACATCACC-TA-ACA-CAC
1 CTAACATTC-TCACCAAATACATCAC
2797224 CTAACATTCTCACCAAATACATCAC
1 CTAACATTCTCACCAAATACATCAC
2797249 CTAACA
1 CTAACA
2797255 CACCTAACAT
Statistics
Matches: 56, Mismatches: 5, Indels: 26
0.64 0.06 0.30
Matches are distributed among these distances:
20 1 0.02
21 11 0.20
22 15 0.27
23 7 0.12
24 3 0.05
25 19 0.34
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.21
Consensus pattern (25 bp):
CTAACATTCTCACCAAATACATCAC
Found at i:2802052 original size:34 final size:34
Alignment explanation
Indices: 2802013--2802147 Score: 207
Period size: 34 Copynumber: 4.0 Consensus size: 34
2802003 AAATATCTTA
* * * *
2802013 CTCACCTAACACATTACCTAACACACCTAATATT
1 CTCACCAAATACATCACCTAACACACCTAACATT
* * *
2802047 TTCACCAAATACATTACCTAACACATCTAACATT
1 CTCACCAAATACATCACCTAACACACCTAACATT
2802081 CTCACCAAATACATCACCTAACACACCTAACATT
1 CTCACCAAATACATCACCTAACACACCTAACATT
2802115 CTCACCAAATACATCACCTAACACACCTAACAT
1 CTCACCAAATACATCACCTAACACACCTAACAT
2802148 GCTTCACTTA
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 93 1.00
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.24
Consensus pattern (34 bp):
CTCACCAAATACATCACCTAACACACCTAACATT
Found at i:2805983 original size:27 final size:26
Alignment explanation
Indices: 2805946--2806032 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 26
2805936 GATATCACAT
*
2805946 TTATTATAATTACGAATATAAT-AAATA
1 TTATCATAATTA--AATATAATAAAATA
*
2805973 TTATCATAATTAATTATAATAAAATA
1 TTATCATAATTAAATATAATAAAATA
* *
2805999 TCAATCATAATATTAATAATAATGAAAAGTA
1 T-TATCATAAT-TAAAT-ATAAT-AAAA-TA
2806030 TTA
1 TTA
2806033 ATATTATTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
25 7 0.15
26 6 0.12
27 19 0.40
28 3 0.06
29 5 0.10
30 5 0.10
31 3 0.06
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (26 bp):
TTATCATAATTAAATATAATAAAATA
Found at i:2808101 original size:26 final size:26
Alignment explanation
Indices: 2808072--2808144 Score: 65
Period size: 30 Copynumber: 2.7 Consensus size: 26
2808062 TTCTTTCAAA
* *
2808072 AATACTATATAGTTTATAGTGATCAT
1 AATAATATATAGTTTATACTGATCAT
*
2808098 AATAAATATTTTATAGTTTATACTGATTAT
1 AAT-AATA---TATAGTTTATACTGATCAT
* *
2808128 AATATTTTATAGTTTAT
1 AATAATATATAGTTTAT
2808145 CCACTTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
26 13 0.34
27 3 0.08
29 2 0.05
30 20 0.53
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.49
Consensus pattern (26 bp):
AATAATATATAGTTTATACTGATCAT
Found at i:2808113 original size:30 final size:26
Alignment explanation
Indices: 2808079--2808144 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 26
2808069 AAAAATACTA
*
2808079 TATAGTTTATAGTGATCATAATAAATATTT
1 TATAGTTTATACTGAT--T-AT-AATATTT
2808109 TATAGTTTATACTGATTATAATATTT
1 TATAGTTTATACTGATTATAATATTT
2808135 TATAGTTTAT
1 TATAGTTTAT
2808145 CCACTTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
26 17 0.49
27 2 0.06
28 1 0.03
30 15 0.43
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (26 bp):
TATAGTTTATACTGATTATAATATTT
Found at i:2808933 original size:21 final size:20
Alignment explanation
Indices: 2808908--2808956 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
2808898 TAAAGCAGAT
2808908 TTTATTAATTTTATT-TATCTA
1 TTTATTAA-TTTATTAT-TCTA
*
2808929 TTTATTTATTTATTATTCTA
1 TTTATTAATTTATTATTCTA
2808949 TATTATTA
1 T-TTATTA
2808957 TATTATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTATTAATTTATTATTCTA
Found at i:2808962 original size:21 final size:20
Alignment explanation
Indices: 2808925--2808964 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
2808915 ATTTTATTTA
2808925 TCTATTTATTTATTTATTAT
1 TCTATTTATTTATTTATTAT
2808945 TCTATATTA-TTATATTATTA
1 TCTAT-TTATTTAT-TTATTA
2808965 ATACTATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
TCTATTTATTTATTTATTAT
Found at i:2809786 original size:17 final size:17
Alignment explanation
Indices: 2809764--2809813 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
2809754 TGAATTATTT
2809764 TATTATATTAATAATTA
1 TATTATATTAATAATTA
* *
2809781 TTTTATATTAATATTTA
1 TATTATATTAATAATTA
*
2809798 TATAAT-TTAATAATTA
1 TATTATATTAATAATTA
2809814 AATATAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTATATTAATAATTA
Found at i:2809802 original size:25 final size:22
Alignment explanation
Indices: 2809747--2809804 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 22
2809737 AAATTTAAGT
2809747 TATTTAT-TGAATTATTTTATTA
1 TATTTATAT-AATTATTTTATTA
2809769 TA-TTA-ATAATTATTTTATATTAA
1 TATTTATATAATTA-TTT-TATT-A
2809792 TATTTATATAATT
1 TATTTATATAATT
2809805 TAATAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
20 5 0.17
21 7 0.23
22 6 0.20
23 3 0.10
24 3 0.10
25 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TATTTATATAATTATTTTATTA
Found at i:2810983 original size:24 final size:25
Alignment explanation
Indices: 2810920--2810984 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 25
2810910 TACAGCTGAT
*
2810920 TTTTTATTAAAATTTTAAAATTTTGA
1 TTTTAATT-AAATTTTAAAATTTTGA
* *
2810946 TTTTTATT-ATTTTTAAAATATTT-A
1 TTTTAATTAAATTTTAAAAT-TTTGA
2810970 -TTTAATTAAATTTTA
1 TTTTAATTAAATTTTA
2810985 GAAAAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 6 0.18
24 17 0.50
25 3 0.09
26 8 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTAATTAAATTTTAAAATTTTGA
Found at i:2812632 original size:57 final size:58
Alignment explanation
Indices: 2812540--2812666 Score: 161
Period size: 57 Copynumber: 2.2 Consensus size: 58
2812530 AAATATTTAG
* * * *
2812540 ATTTAATAATTTTTTATTTTTATATTATGTTAATATATT-TTA-TTATATTATAATAAT
1 ATTTAA-AATATTTTATATTTATATAATGTTAATATATTATAATTTATATTATAATAAT
*
2812597 ATTTAAAATATTTTATATTTATATAAATTTTAATATATTAATAATTTATATTATAATAAT
1 ATTTAAAATATTTTATATTTATAT-AATGTTAATATATT-ATAATTTATATTATAATAAT
2812657 -TTTAAAATAT
1 ATTTAAAATAT
2812667 ATATTCGTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
56 16 0.26
57 18 0.30
59 12 0.20
60 15 0.25
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.57
Consensus pattern (58 bp):
ATTTAAAATATTTTATATTTATATAATGTTAATATATTATAATTTATATTATAATAAT
Found at i:2812645 original size:33 final size:32
Alignment explanation
Indices: 2812582--2812666 Score: 92
Period size: 32 Copynumber: 2.8 Consensus size: 32
2812572 ATATATTTTA
2812582 TTATATTATAATAATATTTAAAATATT--T--T
1 TTATATTATAATAAT-TTTAAAATATTAATAAT
* *
2812611 ATAT-TTAT-ATAAATTTTAATATATTAATAAT
1 TTATATTATAAT-AATTTTAAAATATTAATAAT
2812642 TTATATTATAATAATTTTAAAATAT
1 TTATATTATAATAATTTTAAAATAT
2812667 ATATTCGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
27 12 0.27
28 7 0.16
29 4 0.09
31 4 0.09
32 16 0.36
33 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TTATATTATAATAATTTTAAAATATTAATAAT
Found at i:2812651 original size:18 final size:18
Alignment explanation
Indices: 2812558--2812656 Score: 63
Period size: 18 Copynumber: 5.9 Consensus size: 18
2812548 ATTTTTTATT
*
2812558 TTTATATTATGTTAATATA
1 TTTATATTATATTAATA-A
2812577 TTT-TATTATATT-ATAA
1 TTTATATTATATTAATAA
* * *
2812593 -TAATATT-TA-AAATAT
1 TTTATATTATATTAATAA
2812608 TTTATATT-TA-T-ATAAA
1 TTTATATTATATTAAT-AA
*
2812624 TTT-TAATATATTAATAA
1 TTTATATTATATTAATAA
*
2812641 TTTATATTATAATAAT
1 TTTATATTATATTAAT
2812657 TTTAAAATAT
Statistics
Matches: 62, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
15 11 0.18
16 19 0.31
17 9 0.15
18 20 0.32
19 3 0.05
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (18 bp):
TTTATATTATATTAATAA
Found at i:2814220 original size:20 final size:23
Alignment explanation
Indices: 2814192--2814238 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 23
2814182 TACATAATCA
*
2814192 TTATTTTAA-TTAA-ATTATT-T
1 TTATGTTAATTTAATATTATTCT
2814212 TTATGTTAATTTAATATTATTCT
1 TTATGTTAATTTAATATTATTCT
2814235 TTAT
1 TTAT
2814239 TTTTAAATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 4 0.17
22 6 0.26
23 5 0.22
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
TTATGTTAATTTAATATTATTCT
Found at i:2814306 original size:16 final size:15
Alignment explanation
Indices: 2814264--2814306 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
2814254 ATAAAATTTT
*
2814264 ATTTATTTATTTTAA
1 ATTTATTAATTTTAA
* *
2814279 ATTTAATAATTTTCA
1 ATTTATTAATTTTAA
2814294 ATATTATTAATTT
1 AT-TTATTAATTT
2814307 ATCGAATTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTATTAATTTTAA
Found at i:2821291 original size:21 final size:23
Alignment explanation
Indices: 2821248--2821297 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
2821238 ATGTAAAAAA
**
2821248 TAAATTGATCTTTTTTTTTTCAAG
1 TAAATTGATC-TTTTTTAGTCAAG
2821272 -AAATTGATC-TTTTTAGTCAAG
1 TAAATTGATCTTTTTTAGTCAAG
2821293 TAAAT
1 TAAAT
2821298 GATTTTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 10 0.43
22 4 0.17
23 9 0.39
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.50
Consensus pattern (23 bp):
TAAATTGATCTTTTTTAGTCAAG
Found at i:2823746 original size:25 final size:25
Alignment explanation
Indices: 2823712--2823761 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
2823702 TCTTCTTTTT
2823712 TAATCCATATATAGGTTACAACTTA
1 TAATCCATATATAGGTTACAACTTA
2823737 TAATCCATATATAGGTTACAACTTA
1 TAATCCATATATAGGTTACAACTTA
2823762 AAGGTGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (25 bp):
TAATCCATATATAGGTTACAACTTA
Found at i:2825024 original size:20 final size:20
Alignment explanation
Indices: 2824993--2825041 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
2824983 TTTATTAAAT
2824993 AATTATTATATTTAATATTAA
1 AATTATT-TATTTAATATTAA
* *
2825014 AATTATTTATTTTATATTTA
1 AATTATTTATTTAATATTAA
2825034 AATTATTT
1 AATTATTT
2825042 TTAACTAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTATTTATTTAATATTAA
Found at i:2825880 original size:15 final size:15
Alignment explanation
Indices: 2825860--2825889 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2825850 TGCTGATAGT
2825860 GATAGAATAGAAAAA
1 GATAGAATAGAAAAA
*
2825875 GATAGAGTAGAAAAA
1 GATAGAATAGAAAAA
2825890 ACAGAGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.13
Consensus pattern (15 bp):
GATAGAATAGAAAAA
Found at i:2828070 original size:20 final size:23
Alignment explanation
Indices: 2828042--2828088 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 23
2828032 TACATAATCA
*
2828042 TTATTTTAA-TTAA-ATTATT-T
1 TTATGTTAATTTAATATTATTCT
2828062 TTATGTTAATTTAATATTATTCT
1 TTATGTTAATTTAATATTATTCT
2828085 TTAT
1 TTAT
2828089 TTTTAAATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 4 0.17
22 6 0.26
23 5 0.22
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
TTATGTTAATTTAATATTATTCT
Found at i:2828156 original size:16 final size:15
Alignment explanation
Indices: 2828114--2828156 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
2828104 ATAAAATTTT
*
2828114 ATTTATTTATTTTAA
1 ATTTATTAATTTTAA
* *
2828129 ATTTAATAATTTTCA
1 ATTTATTAATTTTAA
2828144 ATATTATTAATTT
1 AT-TTATTAATTT
2828157 ATCGAATTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTATTAATTTTAA
Found at i:2831635 original size:21 final size:21
Alignment explanation
Indices: 2831602--2831642 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2831592 AAACAATTCA
* *
2831602 AAGAGTAAGACATAACCTTTG
1 AAGAATAAAACATAACCTTTG
2831623 AAGAATAAAACATAACCTTT
1 AAGAATAAAACATAACCTTT
2831643 TCGATAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (21 bp):
AAGAATAAAACATAACCTTTG
Found at i:2835160 original size:21 final size:23
Alignment explanation
Indices: 2835109--2835157 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
2835099 ATGTAAAAAA
**
2835109 TAAATTGATCTTTTTTTTTCAAG
1 TAAATTGATCTTTTTTAGTCAAG
2835132 -AAATTGATC-TTTTTAGTCAAG
1 TAAATTGATCTTTTTTAGTCAAG
2835153 TAAAT
1 TAAAT
2835158 GATTTTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (23 bp):
TAAATTGATCTTTTTTAGTCAAG
Found at i:2837000 original size:18 final size:18
Alignment explanation
Indices: 2836977--2837016 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
2836967 AAAGTAAGTT
2836977 TATATATTACTATAACAG
1 TATATATTACTATAACAG
2836995 TATATATTACTATAACAG
1 TATATATTACTATAACAG
2837013 TATA
1 TATA
2837017 CAAATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (18 bp):
TATATATTACTATAACAG
Found at i:2838876 original size:20 final size:20
Alignment explanation
Indices: 2838845--2838893 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
2838835 TTTATTAAAT
2838845 AATTATTATATTTAATATTAA
1 AATTATT-TATTTAATATTAA
* *
2838866 AATTATTTATTTTATATTTA
1 AATTATTTATTTAATATTAA
2838886 AATTATTT
1 AATTATTT
2838894 TTAACTAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTATTTATTTAATATTAA
Found at i:2839731 original size:15 final size:15
Alignment explanation
Indices: 2839711--2839740 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2839701 TGCTGATAGT
2839711 GATAGAATAGAAAAA
1 GATAGAATAGAAAAA
*
2839726 GATAGAGTAGAAAAA
1 GATAGAATAGAAAAA
2839741 AAAAAGAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.13
Consensus pattern (15 bp):
GATAGAATAGAAAAA
Found at i:2844581 original size:36 final size:37
Alignment explanation
Indices: 2844508--2844581 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 37
2844498 TACTTTCAGC
* **
2844508 TTGTTTGATAGTGTCTTTGGCTCAACTTGCCTTAATGG
1 TTGTTTGATAG-GTCCTTGGCTCAACTTGCCCCAATGG
2844546 TTGTTTGATA-GTCCTTGGCTCAACTTGCCCCAATGG
1 TTGTTTGATAGGTCCTTGGCTCAACTTGCCCCAATGG
2844582 ATCTCTTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 23 0.70
38 10 0.30
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (37 bp):
TTGTTTGATAGGTCCTTGGCTCAACTTGCCCCAATGG
Found at i:2846106 original size:16 final size:16
Alignment explanation
Indices: 2846085--2846139 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
2846075 AACTTATAAG
2846085 ATAATAATCATTAATT
1 ATAATAATCATTAATT
2846101 ATAATAAT--TTAATT
1 ATAATAATCATTAATT
2846115 ATTTAATAATCA--AATT
1 A--TAATAATCATTAATT
2846131 GATAATAAT
1 -ATAATAAT
2846140 TTTATAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
14 7 0.21
15 7 0.21
16 19 0.56
17 1 0.03
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (16 bp):
ATAATAATCATTAATT
Found at i:2846151 original size:32 final size:31
Alignment explanation
Indices: 2846086--2846151 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
2846076 ACTTATAAGA
*
2846086 TAATAATCATTAATTATAATAATTTAATTATT
1 TAATAATCA-TAATTATAATAATTTAATAATT
*
2846118 TAATAATCA-AATTGATAATAATTTTATAAATT
1 TAATAATCATAATT-ATAATAATTTAAT-AATT
2846150 TA
1 TA
2846152 CTCATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 4 0.13
31 12 0.40
32 14 0.47
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (31 bp):
TAATAATCATAATTATAATAATTTAATAATT
Found at i:2846162 original size:32 final size:30
Alignment explanation
Indices: 2846089--2846163 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 30
2846079 TATAAGATAA
*
2846089 TAATCATT-AATTATAATAATTTAATTATT
1 TAATCATTAAATTATAATAATTTAATAATT
* * *
2846118 TAATAATCAAATTGATAATAATTTTATAAATT
1 TAATCATTAAATT-ATAATAATTTAAT-AATT
*
2846150 TACTCATTAAATTA
1 TAATCATTAAATTA
2846164 AAAAAATTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
29 6 0.17
30 4 0.11
31 13 0.36
32 13 0.36
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (30 bp):
TAATCATTAAATTATAATAATTTAATAATT
Found at i:2846307 original size:21 final size:22
Alignment explanation
Indices: 2846272--2846314 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2846262 TAATATTTAT
*
2846272 TATTTTATTTATTTTAAAAATA
1 TATTTTATATATTTTAAAAATA
*
2846294 TATTTT-TATATTTTATAAATA
1 TATTTTATATATTTTAAAAATA
2846315 ATTAAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTATATATTTTAAAAATA
Found at i:2851141 original size:30 final size:31
Alignment explanation
Indices: 2851075--2851254 Score: 222
Period size: 31 Copynumber: 5.9 Consensus size: 31
2851065 ATACCTTCTT
* * *
2851075 AAAGTCTACAACTCAGTGGCATCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTCC
2851106 AAAGTCCACGACTCAGTGGCAT-TTTGTC-CC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTCC
* * *
2851136 AAAGTCCATGACTTAGTGGCATCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTCC
*
2851167 AAAGTCCACGACTCAGTGGCATCTCTT-TCC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTCC
*
2851197 AAAGTCCACGACTCAGTGGCATCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTCC
* * * *
2851228 AAAGCCCACAACTCCGTGGCACCTTTT
1 AAAGTCCACGACTCAGTGGCATCTTTT
2851255 TCTTTTCAAA
Statistics
Matches: 129, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
30 54 0.42
31 75 0.58
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTCC
Found at i:2851170 original size:61 final size:61
Alignment explanation
Indices: 2851075--2851248 Score: 253
Period size: 61 Copynumber: 2.9 Consensus size: 61
2851065 ATACCTTCTT
* *
2851075 AAAGTCTACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAT-T-TTGTCCC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTT-T-CC
* *
2851136 AAAGTCCATGACTTAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCC
* * *
2851197 AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCA
2851249 CCTTTTTCTT
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
61 98 0.96
62 2 0.02
63 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (61 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCC
Found at i:2851265 original size:34 final size:33
Alignment explanation
Indices: 2851197--2851580 Score: 363
Period size: 34 Copynumber: 11.8 Consensus size: 33
2851187 ATCTCTTTCC
* * * * *
2851197 AAAGTCCACGACTCAGTGGCATC-TTTTC-TTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
2851228 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
2851261 CAAAGCCCACCACTCCGTGGCACCTTTTTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
* *
2851296 AAAGCTCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTT-CTTTT
* * *
2851330 AAAGTCCACAACTCCATGGCACCTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
2851363 -AAGTCCACAACTCCGTGGCACCTTTCTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
2851396 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTT-T
* *
2851431 -AAGTCCACAACTCTGTGGCACC-----C-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
2851457 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTT-T
* *
2851492 -AAGTCCACAACTCTGTGGCACC-----C-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
2851518 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
* * *
2851554 -AAGTCCACAACTCCATGGCACCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTT
2851581 AAGTCCACAA
Statistics
Matches: 295, Mismatches: 30, Indels: 53
0.78 0.08 0.14
Matches are distributed among these distances:
26 2 0.01
27 42 0.14
28 4 0.01
31 19 0.06
32 30 0.10
33 14 0.05
34 148 0.50
35 33 0.11
36 3 0.01
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:2851465 original size:61 final size:61
Alignment explanation
Indices: 2851393--2851607 Score: 355
Period size: 61 Copynumber: 3.5 Consensus size: 61
2851383 CCTTTCTCTT
2851393 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTCTAAGTCCACAACTCTGTGGCACCC
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTCTAAGTCCACAACTCTGTGGCACCC
2851454 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTCTAAGTCCACAACTCTGTGGCACCC
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTCTAAGTCCACAACTCTGTGGCACCC
**
2851515 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT-TAAGTCCACAACTCCATGGCACCC
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTT--CTTTCTAAGTCCACAACTCTGTGGCACCC
* *
2851577 TTTTAAGTCCACAACTCCGTGGCA-T-TTTTTC
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
2851608 CCTCCAAAGC
Statistics
Matches: 148, Mismatches: 4, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
58 1 0.01
60 5 0.03
61 94 0.64
62 44 0.30
63 4 0.03
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (61 bp):
TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTCTAAGTCCACAACTCTGTGGCACCC
Found at i:2851466 original size:27 final size:27
Alignment explanation
Indices: 2851435--2851600 Score: 116
Period size: 27 Copynumber: 5.6 Consensus size: 27
2851425 CTTTCTAAGT
*
2851435 CCACAACTCTGTGGCACCCTTTAAAGC
1 CCACAACTCCGTGGCACCCTTTAAAGC
* *
2851462 CCACAACTCCGTGGCACTCTTTTTCTTTCTAAGT
1 CCACAACTCCGTGGCAC-C-----CTTT-AAAGC
*
2851496 CCACAACTCTGTGGCACCCTTTAAAGC
1 CCACAACTCCGTGGCACCCTTTAAAGC
* *
2851523 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCA--------CCCTTTAAAGC
* * *
2851558 CCACAACTCCATGGCACCCTTTTAAGT
1 CCACAACTCCGTGGCACCCTTTAAAGC
2851585 CCACAACTCCGTGGCA
1 CCACAACTCCGTGGCA
2851601 TTTTTTCCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 30
0.73 0.07 0.19
Matches are distributed among these distances:
27 60 0.53
28 5 0.04
33 5 0.04
34 19 0.17
35 24 0.21
ACGTcount: A:0.22, C:0.36, G:0.13, T:0.28
Consensus pattern (27 bp):
CCACAACTCCGTGGCACCCTTTAAAGC
Found at i:2851551 original size:35 final size:35
Alignment explanation
Indices: 2851512--2851580 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
2851502 CTCTGTGGCA
* *
2851512 CCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCTTTAAAGCCCACAACTCCATGGCACCCTTTTT
* *
2851547 CCCTTTTAAGTCCACAACTCCATGGCACCCTTTT
1 CCCTTTAAAGCCCACAACTCCATGGCACCCTTTT
2851581 AAGTCCACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.20, C:0.38, G:0.10, T:0.32
Consensus pattern (35 bp):
CCCTTTAAAGCCCACAACTCCATGGCACCCTTTTT
Found at i:2851650 original size:33 final size:32
Alignment explanation
Indices: 2851613--2851797 Score: 221
Period size: 33 Copynumber: 5.7 Consensus size: 32
2851603 TTTTCCCTCC
2851613 AAAGCCCACACAAGTCGGTGGCAACCTTTTTCT
1 AAAGCCCACACAAGTCGGTGGCAACC-TTTTCT
*
2851646 AAAGCCCACACAAGTCAGTGGCAATCC--TTCT
1 AAAGCCCACACAAGTCGGTGGCAA-CCTTTTCT
*
2851677 AAAGCCCACACAATTCGGTGGCAACCTTTTTCT
1 AAAGCCCACACAAGTCGGTGGCAACC-TTTTCT
* *** *
2851710 AAAGCCCACACAAGTTGGTGGCAACCCCCTCC
1 AAAGCCCACACAAGTCGGTGGCAACCTTTTCT
* *
2851742 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCA
1 AAAGCCCACACAAGTCGGTGGCAA-CCTTTTCT
* *
2851775 AAAGCCCACATAAGTTGGTGGCA
1 AAAGCCCACACAAGTCGGTGGCA
2851798 TTTCCTTAAG
Statistics
Matches: 132, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.02
31 26 0.20
32 25 0.19
33 77 0.58
34 2 0.02
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.19
Consensus pattern (32 bp):
AAAGCCCACACAAGTCGGTGGCAACCTTTTCT
Found at i:2851687 original size:64 final size:65
Alignment explanation
Indices: 2851607--2851789 Score: 269
Period size: 64 Copynumber: 2.8 Consensus size: 65
2851597 GGCATTTTTT
*
2851607 CCCTCCAAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCAGTGGCAA-T
1 CCCTCCAAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCAGTGGCAACC
* * * **
2851671 CCTTCTAAAGCCCACACAATTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTTGGTGGCAACC
1 CCCTCCAAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCAGTGGCAACC
* * * *
2851736 CCCTCCAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAAGCCCACATAAGT
1 CCCTCCAAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGT
2851790 TGGTGGCATT
Statistics
Matches: 105, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
64 58 0.55
65 47 0.45
ACGTcount: A:0.30, C:0.35, G:0.16, T:0.19
Consensus pattern (65 bp):
CCCTCCAAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCAGTGGCAACC
Found at i:2851861 original size:49 final size:50
Alignment explanation
Indices: 2851803--2852331 Score: 547
Period size: 49 Copynumber: 10.7 Consensus size: 50
2851793 TGGCATTTCC
*
2851803 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC-CCCTTCATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTCATCT
* * *
2851852 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCATTTGTCATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGC-CTT-TCATCT
*
2851904 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTCATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTCATCT
* * *
2851953 TTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCC-TT-TCATC-T
* * ** *
2852006 TTAAGCCCAATGTCGCTGGCCTTCAATCAGCACATTGGCATC-TTCATCG
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTCATCT
* *
2852055 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCC-TT-TCATC-T
* * *
2852108 TTAAGTCCAATGTCACTAGCCTTGAATCAGCACATT-G-G-----CACCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTCATCT
* *
2852151 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTTTCATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCC--TTTCATCT
* *
2852203 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT-A---
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTCATCT
* ** * * *
2852249 --AA-TCCAATAT-AATGGCCTTGAATCAACATATTGGCACCTTTCCCATC-
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTT--CATCT
* *
2852296 TTGAGTCCAATGTAGCTGGCCTTGAATCAGCACATT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT
2852332 AGCACAAGCC
Statistics
Matches: 398, Mismatches: 53, Indels: 56
0.79 0.10 0.11
Matches are distributed among these distances:
42 27 0.07
43 39 0.10
44 6 0.02
45 2 0.01
49 119 0.30
50 17 0.04
51 23 0.06
52 97 0.24
53 68 0.17
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (50 bp):
TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTCATCT
Found at i:2852066 original size:102 final size:99
Alignment explanation
Indices: 2851803--2852336 Score: 755
Period size: 102 Copynumber: 5.4 Consensus size: 99
2851793 TGGCATTTCC
*
2851803 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCCCCTTCATCTTTAAGTCCAATATCGC
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG-CACTTCATC-TTAAGTCCAATATCGC
*
2851868 TGGCCTTGAATCAGCATATTGGCGCATTTGTCATCT
64 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
*
2851904 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATTGC
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTCATC-TTAAGTCCAATATCGC
2851969 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
64 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC-T
* *
2852006 TTAAGCCCAATGTCGCTGGCCTTCAATCAGCACATTGGCATCTTCATCGTTAAGTCCAATATCGC
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTCATC-TTAAGTCCAATATCGC
2852071 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
64 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC-T
* *
2852108 TTAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCAC--C-T-TTAAGTCCAATATCGCTG
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTAAGTCCAATATCGCTG
*
2852169 GCCTTGAATCAGCATATTGGCGCCTTTTTCATCT
66 GCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
* * **
2852203 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC--C-T-TTAAATCCAATAT-AATG
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTAAGTCCAATATCGCTG
* * **
2852263 GCCTTGAATCAACATATTGGCACCTTTCCCATC-
66 GCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
* * *
2852296 TTGAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCAC
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
2852337 AAGCCCAATA
Statistics
Matches: 404, Mismatches: 27, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
93 37 0.09
94 31 0.08
95 53 0.13
96 50 0.12
98 1 0.00
99 1 0.00
100 1 0.00
101 96 0.24
102 134 0.33
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (99 bp):
TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTAAGTCCAATATCGCTG
GCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
Found at i:2852173 original size:43 final size:43
Alignment explanation
Indices: 2852107--2852374 Score: 186
Period size: 43 Copynumber: 6.0 Consensus size: 43
2852097 TTTGTCATCT
* * *
2852107 TTTAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC
* *
2852150 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATT-G-G-------CACC
* *
2852202 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC
* ** * *
2852245 TTTAAATCCAATAT-AATGGCCTTGAATCAACATATTGGCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC
* * *
2852287 TTTCCCATCTTGAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCA-C
1 TTT---A-----AGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC
* * *
2852337 ---AAGCCCAATATCGTTGGCCGTGAATCAGCACATTGGCA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
2852375 TTTTTCTTCA
Statistics
Matches: 178, Mismatches: 29, Indels: 40
0.72 0.12 0.16
Matches are distributed among these distances:
39 31 0.17
42 27 0.15
43 47 0.26
44 2 0.01
45 2 0.01
50 10 0.06
51 22 0.12
52 37 0.21
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (43 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:2852247 original size:52 final size:52
Alignment explanation
Indices: 2852149--2852247 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
2852139 ACATTGGCAC
* * *
2852149 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTTTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCAT
*
2852201 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT
2852248 AAATCCAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.33
Consensus pattern (52 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCAT
Found at i:2852288 original size:21 final size:21
Alignment explanation
Indices: 2852222--2852288 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 21
2852212 ATGTCGCTGG
* *
2852222 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAACATATTGGCA
* * *
2852243 CCTTTAAATCCAATATAATGG--
1 CC-TTGAAT-CAACATATTGGCA
2852264 CCTTGAATCAACATATTGGCA
1 CCTTGAATCAACATATTGGCA
2852285 CCTT
1 CCTT
2852289 TCCCATCTTG
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 9 0.26
20 5 0.15
21 8 0.24
22 5 0.15
23 7 0.21
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.30
Consensus pattern (21 bp):
CCTTGAATCAACATATTGGCA
Found at i:2853193 original size:32 final size:32
Alignment explanation
Indices: 2853157--2853219 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
2853147 TTCAACGATT
*
2853157 TGTATTGATACATAAGTATTATATCGATACAA
1 TGTATCGATACATAAGTATTATATCGATACAA
* *
2853189 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTATTATATCGATACA
2853220 TATGAAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTATATCGATACAA
Found at i:2853281 original size:13 final size:13
Alignment explanation
Indices: 2853263--2853287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2853253 ATTACTCAAA
2853263 TGTATCGATACAT
1 TGTATCGATACAT
2853276 TGTATCGATACA
1 TGTATCGATACA
2853288 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2853400 original size:51 final size:52
Alignment explanation
Indices: 2853296--2853423 Score: 195
Period size: 51 Copynumber: 2.5 Consensus size: 52
2853286 CACTGATCTT
* * * *
2853296 TGTATCAATACACACAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
2853348 TGTATCGATACATACAGGCAAATTT-CCCAAATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
* *
2853399 TGTATTGATACATACCGGCAAATTT
1 TGTATCGATACATACAGGCAAATTT
2853424 TCATATTTCG
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
51 47 0.67
52 23 0.33
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
Found at i:2858422 original size:18 final size:18
Alignment explanation
Indices: 2858401--2858460 Score: 70
Period size: 17 Copynumber: 3.4 Consensus size: 18
2858391 TTTTTATTTT
* *
2858401 TATTTATTATAATGTTAA
1 TATTTATTATATTATTAA
*
2858419 TATTT-TTATATTATTAT
1 TATTTATTATATTATTAA
*
2858436 TATTTTTTATATTATTAA
1 TATTTATTATATTATTAA
2858454 -ATTTATT
1 TATTTATT
2858461 GTTATATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
17 20 0.56
18 16 0.44
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TATTTATTATATTATTAA
Found at i:2858451 original size:47 final size:48
Alignment explanation
Indices: 2858380--2858473 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 48
2858370 TTATTAAATT
* * *
2858380 TATTATATTCTTTTTTATTTTTATT-TATTATAATGTTA-ATATTTTTA
1 TATTATATTATTTTTTATTATTATTAAATT-TAATGTTATATATTTTTA
*
2858427 TATTATTATTATTTTTTA-TATTATTAAATTTATTGTTATATATTTTT
1 TATTA-TATTATTTTTTATTATTATTAAATTTAATGTTATATATTTTT
2858474 TTAAAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
47 18 0.45
48 22 0.55
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.68
Consensus pattern (48 bp):
TATTATATTATTTTTTATTATTATTAAATTTAATGTTATATATTTTTA
Found at i:2858547 original size:19 final size:19
Alignment explanation
Indices: 2858499--2858547 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
2858489 ACAATTAGGG
*
2858499 TTATTAAAAATCATTTTAA
1 TTATTAAAAATTATTTTAA
* * *
2858518 ATA-TAATAATTATTTTTA
1 TTATTAAAAATTATTTTAA
2858536 TTATTAAAAATT
1 TTATTAAAAATT
2858548 TTATTAGTAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATTAAAAATTATTTTAA
Found at i:2861173 original size:24 final size:24
Alignment explanation
Indices: 2861146--2861223 Score: 111
Period size: 24 Copynumber: 3.1 Consensus size: 24
2861136 TTTAAATTAC
2861146 AAAATATAAAGAAACAATTGTTAT
1 AAAATATAAAGAAACAATTGTTAT
*
2861170 AAAATATAAAGAAATAACAATTATTAT
1 AAAATATAAAG--A-AACAATTGTTAT
*
2861197 AAAATATAAAGAAACAACTGTTAT
1 AAAATATAAAGAAACAATTGTTAT
2861221 AAA
1 AAA
2861224 GAGATTAATC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
24 24 0.50
25 1 0.02
26 1 0.02
27 22 0.46
ACGTcount: A:0.62, C:0.05, G:0.06, T:0.27
Consensus pattern (24 bp):
AAAATATAAAGAAACAATTGTTAT
Found at i:2861188 original size:27 final size:26
Alignment explanation
Indices: 2861141--2861210 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 26
2861131 ATAAATTTAA
*
2861141 ATTACAAAATATAAAG--AAACAATT
1 ATTATAAAATATAAAGAAAAACAATT
*
2861165 GTTATAAAATATAAAGAAATAACAATT
1 ATTATAAAATATAAAGAAA-AACAATT
2861192 ATTATAAAATATAAAGAAA
1 ATTATAAAATATAAAGAAA
2861211 CAACTGTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 14 0.35
26 1 0.03
27 25 0.62
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (26 bp):
ATTATAAAATATAAAGAAAAACAATT
Found at i:2862912 original size:42 final size:42
Alignment explanation
Indices: 2862865--2862948 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
2862855 GATTTTTTCT
2862865 AACCATCTTCAAAATGAAAAAACAAATCATTATAGAGTCTAA
1 AACCATCTTCAAAATGAAAAAACAAATCATTATAGAGTCTAA
2862907 AACCATCTTCAAAATGAAAAAACAAATCATTATAGAGTCTAA
1 AACCATCTTCAAAATGAAAAAACAAATCATTATAGAGTCTAA
2862949 CCTCTAATGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (42 bp):
AACCATCTTCAAAATGAAAAAACAAATCATTATAGAGTCTAA
Found at i:2864836 original size:80 final size:80
Alignment explanation
Indices: 2864703--2865316 Score: 621
Period size: 80 Copynumber: 7.7 Consensus size: 80
2864693 TAGAGATAAA
** ** *
2864703 AACGGGGTTAAAGTATCATCGATTATGAAAAAAT-TGATGTTTTGGAAATAAAATCGAGGTTGGA
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAAATCAG-TGTTTTGGAAATAAAATCGAGGTTGGA
2864767 GTATCCCCTCGAAAAT
65 GTATCCCCTCGAAAAT
* *
2864783 AACGGGGTTGGAGTATCCCCGATTATGAAAAAATTAGTGTTTTGGAAACAAAATCG-GGTTTGGA
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAAATCAGTGTTTTGGAAATAAAATCGAGG-TTGGA
*
2864847 GTATCCCCTCAAAAAT
65 GTATCCCCTCGAAAAT
* * *
2864863 AACGGGATTGGAGTATCCCTGATTATGAAAAAATCAGTGTTTTGGAAATAAAATAG-GGATTGGA
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAAATCAGTGTTTTGGAAATAAAATCGAGG-TTGGA
* *
2864927 GTATCCTCTCAAAAAT
65 GTATCCCCTCGAAAAT
* * * ** * * *
2864943 AACGGGGTTGGAGTATCCTCGATTGTAAAAAAAAAAGGGTGTTTTGCAAATAAAACCGGGGTTGG
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAAATCA--GTGTTTTGGAAATAAAATCGAGGTTGG
*
2865008 AGTATCCCCTCGGAAAT
64 AGTATCCCCTCGAAAAT
* ** * * * * * *
2865025 AACAGGGTTGGAGTATCCCCGATGGTG-GAACACCTGTGTTTTAGAAATAAAATTGAGGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAAATCAGTGTTTTGGAAATAAAATCGAGGTTGGAG
2865089 TATCCCCTCGAAAAT
66 TATCCCCTCGAAAAT
* * * * * * * * * **
2865104 AGCGAGATTAGAGTATCCCCGATTGTGAAAAAAATCAATGTTTTGAAAACAAAA-CTGGGGTTAA
1 AACGGGGTTGGAGTATCCCCGATTATG-AAAAAATCAGTGTTTTGGAAATAAAATC-GAGGTTGG
2865168 AGTATCCCCTCGAAAAT
64 AGTATCCCCTCGAAAAT
* * * *
2865185 AACGGGGTTGGAGTAT-CCCGATTATGAAAAAAATCAATATTTTGAAAATAAAATCGAGATTGGA
1 AACGGGGTTGGAGTATCCCCGATTATG-AAAAAATCAGTGTTTTGGAAATAAAATCGAGGTTGGA
*
2865249 GTATCCCCTCAAAAAT
65 GTATCCCCTCGAAAAT
* * ** * * *
2865265 AACGAGGCTGGAGTATCCCCGATGGTG-AAAAATCGGTATTTTAGAAATAAAA
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAAATCAGTGTTTTGGAAATAAAA
2865317 AACATGAATG
Statistics
Matches: 444, Mismatches: 80, Indels: 21
0.81 0.15 0.04
Matches are distributed among these distances:
79 82 0.18
80 238 0.54
81 64 0.14
82 58 0.13
83 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (80 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAAAATCAGTGTTTTGGAAATAAAATCGAGGTTGGAG
TATCCCCTCGAAAAT
Found at i:2869534 original size:27 final size:28
Alignment explanation
Indices: 2869503--2869567 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 28
2869493 AAAGTACATG
* **
2869503 AAATTTATATTTTAATA-TATTACTATT
1 AAATTTATATTTTAATAGTATCAAAATT
2869530 AAA--T-TATTTTAATAGTATCAAAATT
1 AAATTTATATTTTAATAGTATCAAAATT
2869555 -AATTTATATTTTA
1 AAATTTATATTTTA
2869568 CCTTTCAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 12 0.39
25 8 0.26
26 1 0.03
27 10 0.32
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (28 bp):
AAATTTATATTTTAATAGTATCAAAATT
Found at i:2869561 original size:25 final size:24
Alignment explanation
Indices: 2869510--2869561 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
2869500 ATGAAATTTA
* **
2869510 TATTTTAATATATTACTATTAAAT
1 TATTTTAATATATCAAAATTAAAT
*
2869534 TATTTTAATAGTATCAAAATTAATT
1 TATTTTAATA-TATCAAAATTAAAT
2869559 TAT
1 TAT
2869562 ATTTTACCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
TATTTTAATATATCAAAATTAAAT
Found at i:2869972 original size:17 final size:17
Alignment explanation
Indices: 2869942--2870010 Score: 52
Period size: 17 Copynumber: 4.1 Consensus size: 17
2869932 AAATTAAATT
* *
2869942 AAATTGATTGATTTAAA
1 AAATTAATTAATTTAAA
*
2869959 AAATTAATTAATTTAAT
1 AAATTAATTAATTTAAA
* *
2869976 AATTTAATAATATATTAAA
1 AAATTAATTA-AT-TTAAA
*
2869995 AATTTAA--AATTTAAA
1 AAATTAATTAATTTAAA
2870010 A
1 A
2870011 TTATTTAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
15 6 0.14
16 2 0.05
17 23 0.52
18 2 0.05
19 11 0.25
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AAATTAATTAATTTAAA
Found at i:2869986 original size:16 final size:16
Alignment explanation
Indices: 2869952--2870052 Score: 59
Period size: 17 Copynumber: 6.1 Consensus size: 16
2869942 AAATTGATTG
*
2869952 ATTTAAAAAATTAATTA
1 ATTTAAAAATTTAA-TA
*
2869969 ATTTAATAATTTAATAA
1 ATTTAAAAATTTAAT-A
2869986 TATATTAAAAATTTAA-A
1 -AT-TTAAAAATTTAATA
2870003 ATTTAAAATTATTTAA-A
1 ATTTAAAA--ATTTAATA
2870020 ATTATTAAAAA-TTAA-A
1 A-T-TTAAAAATTTAATA
*
2870036 AATTAAATAA-TTAATA
1 ATTTAAA-AATTTAATA
2870052 A
1 A
2870053 AAAAATTAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 19
0.76 0.04 0.20
Matches are distributed among these distances:
14 5 0.07
15 12 0.17
16 11 0.15
17 23 0.32
18 3 0.04
19 17 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTAAAAATTTAATA
Found at i:2870008 original size:26 final size:25
Alignment explanation
Indices: 2869968--2870040 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 25
2869958 AAAATTAATT
2869968 AATTTAATAATTTAATAATATATTAAA
1 AATTTAATAATTTAA-AAT-TATTAAA
2869995 AATTTAA-AATTTAAAATTATTTAAA
1 AATTTAATAATTTAAAATTA-TTAAA
* * *
2870020 ATTATTAAAAATTAAAAATTA
1 AAT-TTAATAATTTAAAATTA
2870041 AATAATTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.05
25 10 0.24
26 11 0.27
27 18 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AATTTAATAATTTAAAATTATTAAA
Found at i:2870008 original size:34 final size:33
Alignment explanation
Indices: 2869954--2870052 Score: 103
Period size: 34 Copynumber: 2.9 Consensus size: 33
2869944 ATTGATTGAT
*
2869954 TTAAAAAATTAATTAATTTAATAATTTAATAATATA
1 TTAAAAATTTAA--AATTTAATAATTTAATAAT-TA
*
2869990 TTAAAAATTTAAAATTTAAAATTATTTAA-AATTA
1 TTAAAAATTTAAAATTT--AATAATTTAATAATTA
* *
2870024 TTAAAAATTAAAAATTAAATAA-TTAATAA
1 TTAAAAATTTAAAATTTAATAATTTAATAA
2870053 AAAAATTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
31 4 0.07
32 6 0.11
34 22 0.40
35 3 0.05
36 20 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
TTAAAAATTTAAAATTTAATAATTTAATAATTA
Found at i:2870018 original size:10 final size:10
Alignment explanation
Indices: 2870003--2870033 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2869993 AAAATTTAAA
2870003 ATTTAAAATT
1 ATTTAAAATT
2870013 ATTTAAAATT
1 ATTTAAAATT
*
2870023 ATTAAAAATT
1 ATTTAAAATT
2870033 A
1 A
2870034 AAAATTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATTTAAAATT
Found at i:2870035 original size:7 final size:7
Alignment explanation
Indices: 2869989--2870071 Score: 53
Period size: 7 Copynumber: 10.9 Consensus size: 7
2869979 TTAATAATAT
2869989 ATTAAAA
1 ATTAAAA
2869996 ATTTAAAA
1 A-TTAAAA
*
2870004 TTTAAAA
1 ATTAAAA
2870011 TTATTTAAAA
1 --A-TTAAAA
2870021 TTATTAAAA
1 --ATTAAAA
2870030 ATTAAAA
1 ATTAAAA
2870037 ATTAAATA
1 ATTAAA-A
*
2870045 ATTAATA
1 ATTAAAA
2870052 A--AAAA
1 ATTAAAA
2870057 ATTAATAAA
1 ATT-A-AAA
2870066 ATTAAA
1 ATTAAA
2870072 TATTTTATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
5 4 0.06
7 24 0.38
8 14 0.22
9 12 0.19
10 9 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
ATTAAAA
Found at i:2870037 original size:17 final size:17
Alignment explanation
Indices: 2869971--2870040 Score: 72
Period size: 17 Copynumber: 4.0 Consensus size: 17
2869961 ATTAATTAAT
*
2869971 TTAATAATTTAATAATATA
1 TTAAAAATTTAA-AAT-TA
2869990 TTAAAAATTTAAAA-T-
1 TTAAAAATTTAAAATTA
2870005 TTAAAATTATTTAAAATTA
1 TTAAAA--ATTTAAAATTA
*
2870024 TTAAAAATTAAAAATTA
1 TTAAAAATTTAAAATTA
2870041 AATAATTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
15 6 0.13
16 1 0.02
17 18 0.40
18 3 0.07
19 17 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAAAATTTAAAATTA
Found at i:2870061 original size:34 final size:34
Alignment explanation
Indices: 2869979--2870076 Score: 92
Period size: 34 Copynumber: 2.9 Consensus size: 34
2869969 ATTTAATAAT
* *
2869979 TTAAT-AATATATTAAAAATTTAAAATTTAA-AA
1 TTAATAAAAATATTAAAAATTAAAAATTTAATAA
* * *
2870011 TTATTTAAAATTATTAAAAATTAAAAATTAAATAA
1 TTA-ATAAAAATATTAAAAATTAAAAATTTAATAA
* *
2870046 TTAATAAAAAAATTAATAAAATTAAATATTT
1 TTAATAAAAATATT-A-AAAATTAAAAATTT
2870077 TATTTTTAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
32 3 0.06
33 1 0.02
34 29 0.57
35 6 0.12
36 12 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (34 bp):
TTAATAAAAATATTAAAAATTAAAAATTTAATAA
Found at i:2870093 original size:16 final size:16
Alignment explanation
Indices: 2870069--2870100 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2870059 TAATAAAATT
2870069 AAATATTTTATTTTTA
1 AAATATTTTATTTTTA
*
2870085 AAATTTTTTATTTTTA
1 AAATATTTTATTTTTA
2870101 TTTATATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
AAATATTTTATTTTTA
Found at i:2870522 original size:17 final size:18
Alignment explanation
Indices: 2870502--2870536 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2870492 AATTTGATTA
2870502 TTATATATTT-ATTAAAT
1 TTATATATTTAATTAAAT
*
2870519 TTATTTATTTAATTAAAT
1 TTATATATTTAATTAAAT
2870537 AAAAATTTAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATATATTTAATTAAAT
Found at i:2871381 original size:26 final size:25
Alignment explanation
Indices: 2871356--2871404 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2871346 TTAAAATTTA
*
2871356 AATTTA-ATTTGATATAAATTTTTTT
1 AATTTATATTT-AAATAAATTTTTTT
*
2871381 ATTTTATATTTAAATAAATTTTTT
1 AATTTATATTTAAATAAATTTTTT
2871405 GATAATTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
AATTTATATTTAAATAAATTTTTTT
Found at i:2872291 original size:30 final size:31
Alignment explanation
Indices: 2872250--2872311 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
2872240 CAACTTGCAT
*
2872250 GCTACTTCAACGCGAAC-ACCTCATAACGAC
1 GCTACTCCAACGCGAACAACCTCATAACGAC
2872280 GCTACTCCAACGCGAACAATACCTCATAACGA
1 GCTACTCCAACGCGAAC-A-ACCTCATAACGA
2872312 ATATAGTCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 16 0.57
33 12 0.43
ACGTcount: A:0.35, C:0.35, G:0.13, T:0.16
Consensus pattern (31 bp):
GCTACTCCAACGCGAACAACCTCATAACGAC
Found at i:2874466 original size:17 final size:15
Alignment explanation
Indices: 2874446--2874484 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
2874436 TTAATTCAAC
*
2874446 AATTTTTATAATTTCCA
1 AATTTTTAAAATTT--A
2874463 AATTTTTAAAATTTA
1 AATTTTTAAAATTTA
2874478 AATTTTT
1 AATTTTT
2874485 TGAAATTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
17 13 0.62
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (15 bp):
AATTTTTAAAATTTA
Found at i:2876206 original size:32 final size:33
Alignment explanation
Indices: 2876162--2876232 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 33
2876152 ATTTTATTGT
* *
2876162 TTATATATATTTTAATATA-TTAAAAATTTATA
1 TTATATAAATTTTAAAATATTTAAAAATTTATA
* *
2876194 TTATATAAATTTTAAAATATTTATATATTTATA
1 TTATATAAATTTTAAAATATTTAAAAATTTATA
*
2876227 ATATAT
1 TTATAT
2876233 TACCTTATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
32 17 0.52
33 16 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
TTATATAAATTTTAAAATATTTAAAAATTTATA
Found at i:2876280 original size:16 final size:16
Alignment explanation
Indices: 2876249--2876291 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2876239 ATTTTTTATT
* *
2876249 TATTAATTATATTTTA
1 TATTAATTTTAATTTA
2876265 TATTAATTTTAATTTA
1 TATTAATTTTAATTTA
*
2876281 TTTTACATTTT
1 TATTA-ATTTT
2876292 TTTCATGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTAATTTTAATTTA
Done.