Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007905.1 Hibiscus syriacus cultivar Beakdansim tig00110299_pilon, whole genome shotgun sequence
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: 2946335
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 14
Found at i:1985970 original size:45 final size:45
Alignment explanation
Indices: 1985919--1986052 Score: 173
Period size: 45 Copynumber: 3.0 Consensus size: 45
1985909 GAAATATTCA
*
1985919 TAGTCATACATTATTACCACCTACTCCA-CTACTCAATTAAATTAC
1 TAGTCATACATTATT-CCACCTACTCCACCTACTCCATTAAATTAC
* * * *
1985964 TAGTCATACATTACGT-CACCTACTCCATCTAATCCATTAAATTGC
1 TAGTCATACATTA-TTCCACCTACTCCACCTACTCCATTAAATTAC
*
1986009 TAGTCATACATTATTGCCACCTATTCCACCTACTCCATTAAATT
1 TAGTCATACATTATT-CCACCTACTCCACCTACTCCATTAAATT
1986053 GAGAAACTTC
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
44 12 0.16
45 40 0.52
46 25 0.32
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.34
Consensus pattern (45 bp):
TAGTCATACATTATTCCACCTACTCCACCTACTCCATTAAATTAC
Found at i:1987288 original size:14 final size:14
Alignment explanation
Indices: 1987269--1987299 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1987259 AATGATAAAT
*
1987269 GAACACAAATGAAC
1 GAACACAAACGAAC
1987283 GAACACAAACGAAC
1 GAACACAAACGAAC
1987297 GAA
1 GAA
1987300 TATGAACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.23, G:0.16, T:0.03
Consensus pattern (14 bp):
GAACACAAACGAAC
Found at i:1987304 original size:24 final size:24
Alignment explanation
Indices: 1987277--1987338 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
1987267 ATGAACACAA
1987277 ATGAACGAACACAAACGAACGAAT
1 ATGAACGAACACAAACGAACGAAT
*
1987301 ATGAACGAACACAAACGAACGGAT
1 ATGAACGAACACAAACGAACGAAT
1987325 ATGAACGAACACAA
1 ATGAACGAACACAA
1987339 TATAAAAACG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.53, C:0.21, G:0.18, T:0.08
Consensus pattern (24 bp):
ATGAACGAACACAAACGAACGAAT
Found at i:1987376 original size:24 final size:23
Alignment explanation
Indices: 1987331--1987404 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
1987321 GGATATGAAC
*
1987331 GAACACAATATAA-AAACGTAAAT
1 GAACACAATA-AACGAACGTAAAT
* *
1987354 GAACACAAATGAACGAACGTAAAC
1 GAACAC-AATAAACGAACGTAAAT
* * *
1987378 AAACACAATAAATGAACATAAAT
1 GAACACAATAAACGAACGTAAAT
1987401 GAAC
1 GAAC
1987405 GTAAACGAAC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 24 0.60
24 16 0.40
ACGTcount: A:0.59, C:0.16, G:0.11, T:0.14
Consensus pattern (23 bp):
GAACACAATAAACGAACGTAAAT
Found at i:1987400 original size:10 final size:10
Alignment explanation
Indices: 1987385--1987423 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
1987375 AACAAACACA
1987385 ATAAATGAAC
1 ATAAATGAAC
1987395 ATAAATGAAC
1 ATAAATGAAC
* *
1987405 GTAAACGAAC
1 ATAAATGAAC
1987415 ATAAATGAA
1 ATAAATGAA
1987424 AATATATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.59, C:0.10, G:0.13, T:0.18
Consensus pattern (10 bp):
ATAAATGAAC
Found at i:1987414 original size:20 final size:20
Alignment explanation
Indices: 1987386--1987423 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1987376 ACAAACACAA
*
1987386 TAAATGAACATAAATGAACG
1 TAAACGAACATAAATGAACG
1987406 TAAACGAACATAAATGAA
1 TAAACGAACATAAATGAA
1987424 AATATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (20 bp):
TAAACGAACATAAATGAACG
Found at i:1989073 original size:31 final size:31
Alignment explanation
Indices: 1988912--1989065 Score: 245
Period size: 31 Copynumber: 5.0 Consensus size: 31
1988902 ACAATCCTCT
* * * *
1988912 AACATTTAGTTCATTTACAATATGATCCTCC
1 AACATTTAGTCCGTTTGCAATATGATCCCCC
* *
1988943 AACATTTAGTCTGTTTGCAATATGGTCCCCC
1 AACATTTAGTCCGTTTGCAATATGATCCCCC
1988974 AACATTTAGTCCGTTTGCAATATGATCCCCC
1 AACATTTAGTCCGTTTGCAATATGATCCCCC
1989005 AACATTTAGTCCGTTTGCAATATGATCCCCC
1 AACATTTAGTCCGTTTGCAATATGATCCCCC
*
1989036 AACATTTAGTCCGTTTGCAATATGGTCCCC
1 AACATTTAGTCCGTTTGCAATATGATCCCC
1989066 GACCATTTGA
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 114 1.00
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (31 bp):
AACATTTAGTCCGTTTGCAATATGATCCCCC
Found at i:1991079 original size:29 final size:29
Alignment explanation
Indices: 1991020--1991079 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
1991010 GCAAACGTAC
* * * *
1991020 TAAATGTTGGGGGACTATATTATAAGTTT
1 TAAAAGTTGGGGGACTAAATGATAAGCTT
1991049 TAAAAGTTGGGGGACCTAAATGA-AAGCTT
1 TAAAAGTTGGGGGA-CTAAATGATAAGCTT
1991078 TA
1 TA
1991080 GAAAAGTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (29 bp):
TAAAAGTTGGGGGACTAAATGATAAGCTT
Found at i:1991489 original size:11 final size:11
Alignment explanation
Indices: 1991466--1991498 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1991456 TTTTAATTTA
*
1991466 AAATAA-AAAT
1 AAATAATAATT
1991476 AAATAATAATT
1 AAATAATAATT
1991487 AAATAATAATT
1 AAATAATAATT
1991498 A
1 A
1991499 TGTATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAATAATAATT
Found at i:1999825 original size:231 final size:231
Alignment explanation
Indices: 1999477--1999949 Score: 689
Period size: 231 Copynumber: 2.0 Consensus size: 231
1999467 ATACTTAATA
* ** *
1999477 TTATCTTAAACTAACCTATTCACAACCCTAATTCTCTACTCTCATGCGTCTCTATTTTGAGAGTT
1 TTATCTTAAACTAACCTAATCACAACCCTAACGCTCTACTCTCATGCGCCTCTATTTTGAGAGTT
* *
1999542 TCAAACTCTCCCAAAACTTTCAACCGTGAAACATAGTGGTTAACTTTCCTCC-ACGCCAAACATT
66 TCAAACTCTCCCAAAACTTTCAACCGTGAAACATAGTGGTTAACTATCCTCCAAC-CCAAACATC
* * *
1999606 GTTCACCGATGAAAACCCATCTCCGGCTACTCCTCCCTTATCCTTAAACCACTCCCAAATTAATC
130 ATTCACCGATGAAAACCCATCTCCGACTACTCCTCCCTTATCCTCAAACCACTCCCAAATTAATC
* *
1999671 TAAAACTTTAATTTTCCTTGTATAACCTTCGTTCCTT
195 TAAAACTTTAACTTTCCTTCTATAACCTTCGTTCCTT
*
1999708 TTATTTTAAACTAACCTAATCACAACCCTAACGCTCTACTCTCATGCGCCTCTATTTTGAGAG-T
1 TTATCTTAAACTAACCTAATCACAACCCTAACGCTCTACTCTCATGCGCCTCTATTTTGAGAGTT
** *
1999772 TCAAACTCTTTCAAAACTTTCAACCGTGAAACCCTAGTGGTTAACTATCCTCCAACCCAAACATC
66 TCAAACTCTCCCAAAACTTTCAACCGTGAAA-CATAGTGGTTAACTATCCTCCAACCCAAACATC
* * * * * * *
1999837 ATTTATCGGTGGAATCCCATCTCCGACTACTTCTCCCTTATCCTCAAATCACTCCCAAATTAATC
130 ATTCACCGATGAAAACCCATCTCCGACTACTCCTCCCTTATCCTCAAACCACTCCCAAATTAATC
*
1999902 TAAAACTTTAACTTTCCTTCTATAACCTTCTTTCCTT
195 TAAAACTTTAACTTTCCTTCTATAACCTTCGTTCCTT
*
1999939 TTCTCTGTAAA
1 TTATCT-TAAA
1999950 ACCGAACACT
Statistics
Matches: 214, Mismatches: 25, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
230 30 0.14
231 178 0.83
232 6 0.03
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.34
Consensus pattern (231 bp):
TTATCTTAAACTAACCTAATCACAACCCTAACGCTCTACTCTCATGCGCCTCTATTTTGAGAGTT
TCAAACTCTCCCAAAACTTTCAACCGTGAAACATAGTGGTTAACTATCCTCCAACCCAAACATCA
TTCACCGATGAAAACCCATCTCCGACTACTCCTCCCTTATCCTCAAACCACTCCCAAATTAATCT
AAAACTTTAACTTTCCTTCTATAACCTTCGTTCCTT
Found at i:2000874 original size:2 final size:2
Alignment explanation
Indices: 2000867--2000903 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
2000857 TGTTGAACAT
* *
2000867 TA TA TA TA CA TA TA CA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2000904 CATGCCTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2001084 original size:29 final size:29
Alignment explanation
Indices: 2001042--2001129 Score: 131
Period size: 29 Copynumber: 3.0 Consensus size: 29
2001032 AATTCATTAT
2001042 TCTTTTATTCAATAATGTTTTACCGTTCA
1 TCTTTTATTCAATAATGTTTTACCGTTCA
2001071 TCTTTTATTCAATAATGTTTTACCGTTCA
1 TCTTTTATTCAATAATGTTTTACCGTTCA
* * * * *
2001100 TCGTTTACTCAACAATATTTAACCGTTCA
1 TCTTTTATTCAATAATGTTTTACCGTTCA
2001129 T
1 T
2001130 TTAACTGGCA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (29 bp):
TCTTTTATTCAATAATGTTTTACCGTTCA
Found at i:2001243 original size:81 final size:81
Alignment explanation
Indices: 2001103--2001417 Score: 472
Period size: 81 Copynumber: 3.9 Consensus size: 81
2001093 CCGTTCATCG
* * * * * *
2001103 TTTACTCAACAATATTTAACCGTTCATTTAACTGGCATAATTGATACCTTTCTGTCAAATGCACA
1 TTTACTCAACAGTACTTAACCGTTCATCTAACTGACATAATTGACACCTTTATGTCAAATGCACA
2001168 GCTAGGCCATTATTCT
66 GCTAGGCCATTATTCT
* * *
2001184 TTTATTCAACAGTACTTAACCGTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGCACA
1 TTTACTCAACAGTACTTAACCGTTCATCTAACTGACATAATTGACACCTTTATGTCAAATGCACA
*
2001249 ACTAGGCCATTATTCT
66 GCTAGGCCATTATTCT
* *
2001265 TTTACTC-ACGGTACTTAACCGTTCATCTAACTGACATAATTGACACCTTTATGTCAAATGAACA
1 TTTACTCAACAGTACTTAACCGTTCATCTAACTGACATAATTGACACCTTTATGTCAAATGCACA
2001329 GCTAGGCCATTATTCT
66 GCTAGGCCATTATTCT
* * *
2001345 TTTACTCAAC-GATACTTAACCGTTAATCTAACTGACATAATTGACACATTTTTGTCAAATGCAC
1 TTTACTCAACAG-TACTTAACCGTTCATCTAACTGACATAATTGACACCTTTATGTCAAATGCAC
2001409 AGCTAGGCC
65 AGCTAGGCC
2001418 TCAAAGGTAC
Statistics
Matches: 214, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
80 76 0.36
81 138 0.64
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (81 bp):
TTTACTCAACAGTACTTAACCGTTCATCTAACTGACATAATTGACACCTTTATGTCAAATGCACA
GCTAGGCCATTATTCT
Found at i:2001386 original size:161 final size:161
Alignment explanation
Indices: 2001118--2001417 Score: 476
Period size: 161 Copynumber: 1.9 Consensus size: 161
2001108 TCAACAATAT
* * * * *
2001118 TTAACCGTTCATTTAACTGGCATAATTGATACCTTTCTGTCAAATGCACAGCTAGGCCATTATTC
1 TTAACCGTTCATCTAACTGACATAATTGACACCTTTATGTCAAATGAACAGCTAGGCCATTATTC
* * * * *
2001183 TTTTATTCAACAGTACTTAACCGTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGCAC
66 TTTTACTCAACAGTACTTAACCGTTAATCTAACTGACATAATTGACACATTTATGTCAAATGCAC
2001248 AACTAGGCCATTATTCTTTTACTCACGGTAC
131 AACTAGGCCATTATTCTTTTACTCACGGTAC
2001279 TTAACCGTTCATCTAACTGACATAATTGACACCTTTATGTCAAATGAACAGCTAGGCCATTATTC
1 TTAACCGTTCATCTAACTGACATAATTGACACCTTTATGTCAAATGAACAGCTAGGCCATTATTC
*
2001344 TTTTACTCAAC-GATACTTAACCGTTAATCTAACTGACATAATTGACACATTTTTGTCAAATGCA
66 TTTTACTCAACAG-TACTTAACCGTTAATCTAACTGACATAATTGACACATTTATGTCAAATGCA
*
2001408 CAGCTAGGCC
130 CAACTAGGCC
2001418 TCAAAGGTAC
Statistics
Matches: 126, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
160 1 0.01
161 125 0.99
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (161 bp):
TTAACCGTTCATCTAACTGACATAATTGACACCTTTATGTCAAATGAACAGCTAGGCCATTATTC
TTTTACTCAACAGTACTTAACCGTTAATCTAACTGACATAATTGACACATTTATGTCAAATGCAC
AACTAGGCCATTATTCTTTTACTCACGGTAC
Found at i:2001606 original size:67 final size:68
Alignment explanation
Indices: 2001370--2001597 Score: 332
Period size: 68 Copynumber: 3.4 Consensus size: 68
2001360 TTAACCGTTA
* * * *
2001370 ATCTAACTGACATAATTGACACATTTTTGTCAAATGCACAGCTAGGCCTCAAAGGTACTTAACCT
1 ATCTAACTGACATAAATGACACCTTTTTGTCAAATGCACAGCTAGGCCTCAAAGGCACTTAGCCT
2001435 TTC
66 TTC
* * * * *
2001438 ATCTAACTGGCATAATTGAAACCTTTATGTCAAATGCACAACTAGGCCTCAAAGGCACTTAGCCT
1 ATCTAACTGACATAAATGACACCTTTTTGTCAAATGCACAGCTAGGCCTCAAAGGCACTTAGCCT
2001503 TTC
66 TTC
* * *
2001506 AT-TAACTGATATAAATGACACCTTTTTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAGCCT
1 ATCTAACTGACATAAATGACACCTTTTTGTCAAATGCACAGCTAGGCCTCAAAGGCACTTAGCCT
2001570 TTC
66 TTC
*
2001573 ATCTAACTGGCATAAATGACACCTT
1 ATCTAACTGACATAAATGACACCTT
2001598 CTGTCATATT
Statistics
Matches: 142, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
67 59 0.42
68 83 0.58
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (68 bp):
ATCTAACTGACATAAATGACACCTTTTTGTCAAATGCACAGCTAGGCCTCAAAGGCACTTAGCCT
TTC
Found at i:2001980 original size:59 final size:59
Alignment explanation
Indices: 2001899--2002059 Score: 198
Period size: 59 Copynumber: 2.7 Consensus size: 59
2001889 TATTTCCCAT
* * * * *
2001899 AAATTCATACATTTAGTATGAATCTCTTATCATTTTAGCACACAAGGTGCCCAATACAGA
1 AAATTCATACACTAAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC-GA
* * *
2001959 AAATT-ATACACTAAGTATGAATTTCCTAACATTTTAGCACACAAAGTGCCCTATACGG
1 AAATTCATACACTAAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGA
* * * *
2002017 TAATTCGTACACTGAGTATGAATTTATTAACATTTTAGCACAC
1 AAATTCATACACTAAGTATGAATTTCTTAACATTTTAGCACAC
2002060 TTAGTGCCAT
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
58 5 0.06
59 77 0.89
60 5 0.06
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (59 bp):
AAATTCATACACTAAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGA
Found at i:2002513 original size:95 final size:95
Alignment explanation
Indices: 2002350--2002573 Score: 292
Period size: 95 Copynumber: 2.4 Consensus size: 95
2002340 CTTAGTTCAA
* * * * * * *
2002350 TAGTATCGATACTAC-TACCCTGGTACCGATACTTCTATACTATGGTACCGATACCCCCTTATAG
1 TAGTATCGATAC-CCTTACCATGGTATCGATACTACCATACTATGGTACCAATACCCCCTTACAG
*
2002414 TATCGATATCAATTTTA-AGTTCGAAGTTGCC
65 TATCGATACCAATTTTAGA-TTCGAAGTTGCC
*
2002445 TAGTATCGATACCCTTACCATGAG-ATCGATACTACCATACTATGGTACCAATACCCCCTTACGG
1 TAGTATCGATACCCTTACCATG-GTATCGATACTACCATACTATGGTACCAATACCCCCTTACAG
* *
2002509 TATCGATACCAATTTTAGATTCGATGTTGCT
65 TATCGATACCAATTTTAGATTCGAAGTTGCC
*
2002540 TGGTATCGATACCCTTACCATGGTATCGATACTA
1 TAGTATCGATACCCTTACCATGGTATCGATACTA
2002574 ATTCAATCAG
Statistics
Matches: 113, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
94 2 0.02
95 109 0.96
96 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (95 bp):
TAGTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTACCAATACCCCCTTACAGT
ATCGATACCAATTTTAGATTCGAAGTTGCC
Found at i:2003131 original size:3 final size:3
Alignment explanation
Indices: 2003123--2003150 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2003113 TACTCATGTT
2003123 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
2003151 GAAATGCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:2007963 original size:140 final size:141
Alignment explanation
Indices: 2007702--2007963 Score: 350
Period size: 140 Copynumber: 1.9 Consensus size: 141
2007692 CTAAAAAAGG
* * * * *
2007702 AGGCTCTAATATTGATCGTAATCAATTTTTACCAATTATTGAATAGAATAGTCAAAATGGACCCT
1 AGGCTCTAATATTAATCATAATCAATTTTAACCAATTATTGAATAGAATAATCAAAATAGACCCT
*
2007767 CGAGCATTTTAATATGAGAGCCAAATCGAATTATTCCCTAAAATAAAGGACTAAAGTTAAATTAA
66 CGAGCATTTTAATATGAGAGCCAAATCGAATTATTCCCTAAAATAAAGGACGAAAGTTAAATTAA
2007832 ACCTAAAGTAT
131 ACCTAAAGTAT
** * * *
2007843 AGGCTCT-ATATTAATCATAATTTATTTTAACCAATTATTGAATCGAATAATCGAAATAGATCCT
1 AGGCTCTAATATTAATCATAATCAATTTTAACCAATTATTGAATAGAATAATCAAAATAGACCCT
* * * *
2007907 CGGGCATTTTAAT-TCGAGGGCCAAATTGAATTATTCCCT-AAATTAAGGTACGAAAGT
66 CGAGCATTTTAATAT-GAGAGCCAAATCGAATTATTCCCTAAAATAAAGG-ACGAAAGT
2007964 GTGAGAAATC
Statistics
Matches: 104, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
139 9 0.09
140 88 0.85
141 7 0.07
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (141 bp):
AGGCTCTAATATTAATCATAATCAATTTTAACCAATTATTGAATAGAATAATCAAAATAGACCCT
CGAGCATTTTAATATGAGAGCCAAATCGAATTATTCCCTAAAATAAAGGACGAAAGTTAAATTAA
ACCTAAAGTAT
Found at i:2010655 original size:21 final size:21
Alignment explanation
Indices: 2010610--2010656 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2010600 TGAGGGTTAT
** * *
2010610 ATGAGGTCTTTTGGGATATAT
1 ATGAGGTCTTTCAGGACATAC
2010631 ATGAGGTCTTTCAGGACATAC
1 ATGAGGTCTTTCAGGACATAC
2010652 ATGAG
1 ATGAG
2010657 TCCTCTGGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.34
Consensus pattern (21 bp):
ATGAGGTCTTTCAGGACATAC
Found at i:2013996 original size:19 final size:20
Alignment explanation
Indices: 2013953--2013996 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2013943 TTTTTTTTTG
*
2013953 ATAAATTTTTATCTATGAAA
1 ATAAATTTTTATCTATCAAA
* *
2013973 TTAAATTTTTAT-TTTCAAA
1 ATAAATTTTTATCTATCAAA
2013992 ATAAA
1 ATAAA
2013997 ATATTAAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (20 bp):
ATAAATTTTTATCTATCAAA
Found at i:2017287 original size:12 final size:13
Alignment explanation
Indices: 2017260--2017288 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2017250 TCAATTAGGA
2017260 TTTAGAATATTAT
1 TTTAGAATATTAT
2017273 TTTA-AATATTAT
1 TTTAGAATATTAT
2017285 TTTA
1 TTTA
2017289 TTTTATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TTTAGAATATTAT
Found at i:2017857 original size:18 final size:16
Alignment explanation
Indices: 2017817--2017861 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
2017807 TAAGTTTATC
2017817 TTTATC-TTTATTTAA
1 TTTATCTTTTATTTAA
2017832 TTT-T-TTTTATTTAA
1 TTTATCTTTTATTTAA
2017846 TTCTTATCTTTTATTT
1 -T-TTATCTTTTATTT
2017862 TAAAAACAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 10 0.40
15 4 0.16
16 2 0.08
17 1 0.04
18 8 0.32
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTATCTTTTATTTAA
Found at i:2018178 original size:33 final size:34
Alignment explanation
Indices: 2018141--2018238 Score: 85
Period size: 33 Copynumber: 2.7 Consensus size: 34
2018131 TTTGTTTTTA
2018141 TTTTCTCTTTTAACATTTTTTATATTT-TATTAT
1 TTTTCTCTTTTAACATTTTTTATATTTATATTAT
* *
2018174 TTTTCTTTTCTGAAATTTAATATTTTCTT-TATTTATTTTAT
1 TTTTC---TCT----TTTAACATTTT-TTATATTTATATTAT
2018215 TTTT-TCTTTTAACATTTTTTATAT
1 TTTTCTCTTTTAACATTTTTTATAT
2018239 AACATTTTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 20
0.69 0.04 0.27
Matches are distributed among these distances:
32 2 0.04
33 18 0.35
36 3 0.06
37 3 0.06
40 15 0.29
41 11 0.21
ACGTcount: A:0.21, C:0.08, G:0.01, T:0.69
Consensus pattern (34 bp):
TTTTCTCTTTTAACATTTTTTATATTTATATTAT
Found at i:2019217 original size:31 final size:31
Alignment explanation
Indices: 2019179--2019243 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
2019169 GGTTAGGACT
2019179 TGTTCAAAATTAGCATGCGGGATAGAGATCA
1 TGTTCAAAATTAGCATGCGGGATAGAGATCA
2019210 TGTTCAAAATTAGCATGCGGGATAGAGATCA
1 TGTTCAAAATTAGCATGCGGGATAGAGATCA
2019241 TGT
1 TGT
2019244 CCGGGTAGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (31 bp):
TGTTCAAAATTAGCATGCGGGATAGAGATCA
Found at i:2019280 original size:39 final size:38
Alignment explanation
Indices: 2019221--2019295 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 38
2019211 GTTCAAAATT
*
2019221 AGCATGCGGGATAGAGATCATGTCCGGGTAGGAATAATA
1 AGCATGCGGGATAGAGATCATAT-CGGGTAGGAATAATA
* * * *
2019260 AGCATGTGGGATGGATATCATATGGGGTAGGAATAA
1 AGCATGCGGGATAGAGATCATATCGGGTAGGAATAA
2019296 ATAACACTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
38 12 0.39
39 19 0.61
ACGTcount: A:0.33, C:0.09, G:0.35, T:0.23
Consensus pattern (38 bp):
AGCATGCGGGATAGAGATCATATCGGGTAGGAATAATA
Found at i:2026215 original size:18 final size:18
Alignment explanation
Indices: 2026192--2026264 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
2026182 ACTGAATATT
2026192 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
2026210 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* *
2026229 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
*
2026248 TTTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
2026265 GATAGTACCT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 31 0.65
19 2 0.04
20 15 0.31
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:2026239 original size:38 final size:38
Alignment explanation
Indices: 2026191--2026267 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
2026181 CACTGAATAT
*
2026191 TTGTCCCGAAGGACCACTATGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACTGA
* *
2026229 TTGTTCCGAAGAACCACTATTTCCCGAAGGACCACTGA
1 TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACTGA
2026267 T
1 T
2026268 AGTACCTCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (38 bp):
TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACTGA
Found at i:2026876 original size:35 final size:35
Alignment explanation
Indices: 2026825--2026898 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
2026815 TGTATCGATG
* *
2026825 CATCCCTTGACGGGTGCATCGATGCACAATTTATA
1 CATCCCTTGACAGGTGCATCGATGCACAATCTATA
*
2026860 CATCCCTTGACAGGTGCATCGATGCACAATCTATG
1 CATCCCTTGACAGGTGCATCGATGCACAATCTATA
2026895 CATC
1 CATC
2026899 GGTACATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (35 bp):
CATCCCTTGACAGGTGCATCGATGCACAATCTATA
Found at i:2026980 original size:64 final size:64
Alignment explanation
Indices: 2026912--2027033 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
2026902 ACATAAATCC
* * * * * *
2026912 CATTCGATGTTTGTATTTTAAGGGGGTGTATCGATGCA-CTACTTGTGCATCGATACACTAACGG
1 CATTCGATGTTTGTATTTTAAAGGAGTGCATAGATACACCT-CATGTGCATCGATACACTAACGG
*
2026976 CATTCGATGTTTTTATTTTAAAGGAGTGCATAGATACACCTCATGTGCATCGATACAC
1 CATTCGATGTTTGTATTTTAAAGGAGTGCATAGATACACCTCATGTGCATCGATACAC
2027034 CTTGAACAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 48 0.96
65 2 0.04
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (64 bp):
CATTCGATGTTTGTATTTTAAAGGAGTGCATAGATACACCTCATGTGCATCGATACACTAACGG
Found at i:2028646 original size:18 final size:18
Alignment explanation
Indices: 2028617--2028661 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
2028607 CTCATTAGAT
*
2028617 TATTTT-TTTAATTATTT
1 TATTTTATTTAATTATTA
* *
2028634 TCTTTTATTTAATTCTTA
1 TATTTTATTTAATTATTA
2028652 TATTTTATTT
1 TATTTTATTT
2028662 TAAAAACAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (18 bp):
TATTTTATTTAATTATTA
Found at i:2028773 original size:30 final size:32
Alignment explanation
Indices: 2028699--2028783 Score: 93
Period size: 35 Copynumber: 2.6 Consensus size: 32
2028689 TATCTTTACT
2028699 ACTATTATTTATTATTTTATTATATTTCCCTTTTTA
1 ACTATTA-TTATTATTTTATTATA--T-CCTTTTTA
**
2028735 TTTATTATTATTATTTTATTATA-CCTTTTTA
1 ACTATTATTATTATTTTATTATATCCTTTTTA
*
2028766 ACT-TTATTACTATTTTAT
1 ACTATTATTATTATTTTAT
2028784 GTTTATTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
30 14 0.32
31 9 0.20
35 16 0.36
36 5 0.11
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (32 bp):
ACTATTATTATTATTTTATTATATCCTTTTTA
Found at i:2028887 original size:10 final size:10
Alignment explanation
Indices: 2028872--2028976 Score: 59
Period size: 10 Copynumber: 9.7 Consensus size: 10
2028862 TTAACACTTC
2028872 TTTTTTTA-T
1 TTTTTTTATT
2028881 TTTTTTTATT
1 TTTTTTTATT
2028891 TTTATTTTCCCACTT
1 TTT-TTTT---A-TT
*
2028906 CTTTTTTATT
1 TTTTTTTATT
*
2028916 TTATTTTATT
1 TTTTTTTATT
*
2028926 TTATTTTATT
1 TTTTTTTATT
**
2028936 TTCTCTTTTAACA
1 TT-T-TTTT-ATT
*
2028949 TTTTTTTATA
1 TTTTTTTATT
*
2028959 TTTTATTATT
1 TTTTTTTATT
2028969 TTTCTTTT
1 TTT-TTTT
2028977 CTGAAATTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
9 8 0.11
10 39 0.51
11 12 0.16
12 5 0.07
13 3 0.04
14 5 0.07
15 4 0.05
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:2028916 original size:34 final size:35
Alignment explanation
Indices: 2028866--2028932 Score: 111
Period size: 34 Copynumber: 1.9 Consensus size: 35
2028856 TAAAAGTTAA
2028866 CACTTCTTTTTTTATTTT-TTTTATTTTTATTTTCC
1 CACTTCTTTTTTTATTTTATTTTA-TTTTATTTTCC
2028901 CACTTC-TTTTTTATTTTATTTTATTTTATTTT
1 CACTTCTTTTTTTATTTTATTTTATTTTATTTT
2028933 ATTTTCTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
34 20 0.65
35 11 0.35
ACGTcount: A:0.13, C:0.12, G:0.00, T:0.75
Consensus pattern (35 bp):
CACTTCTTTTTTTATTTTATTTTATTTTATTTTCC
Found at i:2028917 original size:5 final size:5
Alignment explanation
Indices: 2028909--2028937 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
2028899 CCCACTTCTT
2028909 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
2028938 CTCTTTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:2033028 original size:3 final size:3
Alignment explanation
Indices: 2033022--2033047 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2033012 CGGCGACGAA
2033022 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
2033048 TGATTAAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:2033997 original size:21 final size:22
Alignment explanation
Indices: 2033964--2034027 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
2033954 TAATTATTAA
*
2033964 AATATTTCA-AATATAT-TTATT
1 AATATTT-ATAATATATAATATT
2033985 AATATTTATAATAATATAATATT
1 AATATTTATAAT-ATATAATATT
*
2034008 -ATATTTTTAATATTATAATA
1 AATATTTATAATA-TATAATA
2034028 AAATAATCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 21 0.57
23 4 0.11
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATTTATAATATATAATATT
Found at i:2034011 original size:22 final size:23
Alignment explanation
Indices: 2033981--2034027 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
2033971 CAAATATATT
2033981 TATTAATATTTATAATAATATAA
1 TATTAATATTTATAATAATATAA
* *
2034004 TATT-ATATTTTTAATATTATAA
1 TATTAATATTTATAATAATATAA
2034026 TA
1 TA
2034028 AAATAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATATTTATAATAATATAA
Found at i:2034026 original size:30 final size:33
Alignment explanation
Indices: 2033975--2034054 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 33
2033965 ATATTTCAAA
*
2033975 TATATTTATTAATATTTATAATAATATAAT-AT
1 TATATTTATTAATATTTATAATAAAATAATAAT
2034007 TATATTT-TTAATA-TTATAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAATAAT-AAT
*
2034039 TATATTATAATAATAT
1 TATATT-TATTAATAT
2034055 AAGATGCTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
30 14 0.34
31 6 0.15
32 15 0.37
33 1 0.02
34 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (33 bp):
TATATTTATTAATATTTATAATAAAATAATAAT
Found at i:2041737 original size:3 final size:3
Alignment explanation
Indices: 2041731--2041794 Score: 89
Period size: 3 Copynumber: 21.7 Consensus size: 3
2041721 TTCATTTGAA
2041731 TAT TAT T-T ATAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2041775 TA- TAT ATAT TAT TAT TAT TA
1 TAT TAT -TAT TAT TAT TAT TA
2041795 AAAAAATAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
2 5 0.09
3 47 0.84
4 4 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2043001 original size:9 final size:9
Alignment explanation
Indices: 2042987--2043011 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2042977 GTTTACTTTT
2042987 TATTATTAC
1 TATTATTAC
2042996 TATTATTAC
1 TATTATTAC
2043005 TATTATT
1 TATTATT
2043012 TAACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (9 bp):
TATTATTAC
Found at i:2048419 original size:2 final size:2
Alignment explanation
Indices: 2048412--2048437 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2048402 TTATCCTTTA
2048412 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
2048438 CCTTTGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2051227 original size:114 final size:114
Alignment explanation
Indices: 2051027--2051364 Score: 568
Period size: 114 Copynumber: 3.0 Consensus size: 114
2051017 GTGTCAAGTT
* *
2051027 CTCATAGTAGAAATAAGGAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATG
2051092 GTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTG
66 GTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTG
2051141 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATG
* *
2051206 GTTTGGTATGAACCCTAAAACCAATCATTAGATTTAAAAGATGAATTTG
66 GTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTG
* * *
2051255 CTCATAGTAGAAATAAGGATACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATG
* * * * *
2051320 GTTCGGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 GTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAA
2051365 CTGAATGATC
Statistics
Matches: 210, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 210 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATG
GTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTG
Found at i:2054050 original size:22 final size:22
Alignment explanation
Indices: 2054021--2054075 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2054011 ATCTACACTC
*
2054021 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
2054043 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
2054065 TTCAAAGATGA
1 TTCAAAGATGA
2054076 AAGCTTTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:2054673 original size:112 final size:113
Alignment explanation
Indices: 2054469--2055368 Score: 1250
Period size: 113 Copynumber: 8.0 Consensus size: 113
2054459 TTTAGCAAAG
* * *
2054469 TTGAATTCATTATTCGATGGATTAACATTACCAG-GTCAAGTTCATAATGAGAAGAACTCATCTG
1 TTGAATTCATCATTCGATGGATCAACATTACCAGAG-CGAGTTCATAATGAGAAGAACTCATCTG
*
2054533 AAGAA-GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCAC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GC
* *
2054581 TTGAATTCATCATTCGATGGATC-ACATTACCAG-GTCGAGTTCATAATGAGAAGAACACATATG
1 TTGAATTCATCATTCGATGGATCAACATTACCAGAG-CGAGTTCATAATGAGAAGAACTCATCTG
* * *
2054644 AAGAAGGAATAAGAAGTTTATAATGAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * * * ** *
2054693 TTAAATCCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTAA
1 TTGAATTCATCATTCGATGGATCAACATTACCAGAGCGAGTTCATAATGAGAAGAACTCATCTGA
*
2054758 AGAA-GTAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GC
* * *
2054805 TTGAATTCATTATTCGATGGATCAGCATTACCAG-GTCGAGTTCATAATGAGAATAACTCATCTG
1 TTGAATTCATCATTCGATGGATCAACATTACCAGAG-CGAGTTCATAATGAGAAGAACTCATCTG
*
2054869 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * *
2054918 TTAAATTCATCACTT-GATGGATCAACTTTTCCAGAG-GAAGTTCATAATGAGAAGAACTCATCT
1 TTGAATTCATCA-TTCGATGGATCAACATTACCAGAGCG-AGTTCATAATGAGAAGAACTCATCT
2054981 GAAGAA-GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGC
64 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GC
*
2055030 TTGAATTCATCATTCGATGGATCAGCATTACCAG-GTCGAGTTCATAATGAGAAGAACTCATCTG
1 TTGAATTCATCATTCGATGGATCAACATTACCAGAG-CGAGTTCATAATGAGAAGAACTCATCTG
*
2055094 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * **
2055143 TTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATTCATCATTCGATGGATCAACATTACCAGAGCGAGTTCATAATGAGAAGAACTCATCTGA
* * *
2055208 AGTAGGAAGAAGAAATTCATAATGAGAAGAAATTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * * *
2055256 TTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAATTCATCTGA
1 TTGAATTCATCATTCGATGGATCAACATTACCAGAGCGAGTTCATAATGAGAAGAACTCATCTGA
* *
2055321 GGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
2055369 ATGATTCTAT
Statistics
Matches: 706, Mismatches: 64, Indels: 35
0.88 0.08 0.04
Matches are distributed among these distances:
111 56 0.08
112 258 0.37
113 377 0.53
114 15 0.02
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (113 bp):
TTGAATTCATCATTCGATGGATCAACATTACCAGAGCGAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
Found at i:2054939 original size:225 final size:225
Alignment explanation
Indices: 2054506--2055368 Score: 1453
Period size: 225 Copynumber: 3.8 Consensus size: 225
2054496 TTACCAGGTC
2054506 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
2054571 AACTTTTCACTTGAATTCATCATTCGATGGATCA-CATTACCAGGTCGAGTTCATAATGAGAAGA
66 AACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGA
* * * * *
2054635 ACACATATGAAGAAGGAATAAGAAGTTTATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATC
131 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATT
2054700 CATCACTCGATGGATCAACTTTTCCAGAGA
196 CATCACTCGATGGATCAACTTTTCCAGAGA
* *
2054730 AAGTTCATAATGAGAAGAACTCATCTAAAGAAGTAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
2054795 AACTTTTCGCTTGAATTCATTATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAATA
66 AACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGA
2054860 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATT
131 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATT
* *
2054925 CATCACTTGATGGATCAACTTTTCCAGAGG
196 CATCACTCGATGGATCAACTTTTCCAGAGA
2054955 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
2055020 AACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGA
66 AACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGA
*
2055085 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATT
131 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATT
2055150 CATCACTCGATGGATCAACTTTTCCAGAGA
196 CATCACTCGATGGATCAACTTTTCCAGAGA
* * *
2055180 AAGTTCATAATGAGAAGAACTCATCTGAAGTAGGAAGAAGAAATTCATAATGAGAAGAAATTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * *
2055245 CAACCTTTT-GCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAG-AGAGTTCATAATGAGA
65 CAA-CTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAG-GTCGAGTTCATAATGAGA
* * * *
2055308 AGAATTCATCTGAGGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGC
128 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
2055369 ATGATTCTAT
Statistics
Matches: 604, Mismatches: 31, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
224 95 0.16
225 365 0.60
226 138 0.23
227 6 0.01
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (225 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGA
ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATT
CATCACTCGATGGATCAACTTTTCCAGAGA
Found at i:2055633 original size:3 final size:3
Alignment explanation
Indices: 2055627--2055683 Score: 80
Period size: 3 Copynumber: 18.7 Consensus size: 3
2055617 TTCATTTGAA
*
2055627 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TCT TAT TAT ATAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
2055673 TAT TAT TAT TA
1 TAT TAT TAT TA
2055684 AAAAAATAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 44 0.90
4 4 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2055886 original size:22 final size:22
Alignment explanation
Indices: 2055858--2055916 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
2055848 CGTTGAAGCC
2055858 CTATGGTGAGTCACCACTATAG
1 CTATGGTGAGTCACCACTATAG
2055880 CTATGGTGAGTCACCACTATAG
1 CTATGGTGAGTCACCACTATAG
*
2055902 CTATGGTGACTCACC
1 CTATGGTGAGTCACC
2055917 GAAGCTTCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (22 bp):
CTATGGTGAGTCACCACTATAG
Found at i:2056953 original size:9 final size:9
Alignment explanation
Indices: 2056939--2056963 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2056929 GTTTACTTTT
2056939 TATTATTAC
1 TATTATTAC
2056948 TATTATTAC
1 TATTATTAC
2056957 TATTATT
1 TATTATT
2056964 TAACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (9 bp):
TATTATTAC
Found at i:2056975 original size:2 final size:2
Alignment explanation
Indices: 2056968--2056997 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2056958 ATTATTTAAC
*
2056968 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2056998 ATAAATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:2065899 original size:21 final size:21
Alignment explanation
Indices: 2065869--2065998 Score: 106
Period size: 21 Copynumber: 6.0 Consensus size: 21
2065859 GATTTACATA
*
2065869 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
2065890 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
2065911 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
2065934 TT--CGTTGCGATAGTCGAATCCAAG
1 TTCGCGTTGCGATA---G--TCCAAG
* *
2065958 TTCGCGTTGCGATTTGTTCCAAA
1 TTCGCGTTGCGA-TAG-TCCAAG
2065981 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
2065999 AATCGCAACT
Statistics
Matches: 90, Mismatches: 9, Indels: 22
0.74 0.07 0.18
Matches are distributed among these distances:
19 7 0.08
20 2 0.02
21 47 0.52
23 16 0.18
24 9 0.10
26 8 0.09
27 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.33
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:2065921 original size:42 final size:41
Alignment explanation
Indices: 2065869--2065995 Score: 121
Period size: 47 Copynumber: 2.9 Consensus size: 41
2065859 GATTTACATA
2065869 TTCGCATTGCGA-TAGTCCAAGTTCGCGTTGCGATAGTCGAAG
1 TTCGCATTGCGATTAGTCCAAGTT--CGTTGCGATAGTCGAAG
* *
2065911 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAATCCAAG
1 TTCGCATTGCGA-TTAGTCCAAGTTCGTTGCGATAGTCG-----AAG
* * *
2065958 TTCGCGTTGCGATTTGTTCCAAATTCGTTGCGATAGTC
1 TTCGCATTGCGATTAG-TCCAAGTTCGTTGCGATAGTC
2065996 CAAAATCGCA
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
42 25 0.35
44 10 0.14
46 2 0.03
47 35 0.49
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (41 bp):
TTCGCATTGCGATTAGTCCAAGTTCGTTGCGATAGTCGAAG
Found at i:2065960 original size:24 final size:23
Alignment explanation
Indices: 2065928--2065995 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
2065918 TGCGATTTAT
2065928 TCCAAGTTCGTTGCGATAGTCGAA
1 TCCAAGTTCGTTGCGATAGTCG-A
* *
2065952 TCCAAGTTCGCGTTGCGAT--TTGT
1 TCCAAGTT--CGTTGCGATAGTCGA
*
2065975 TCCAAATTCGTTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTC
2065996 CAAAATCGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
21 9 0.25
23 8 0.22
24 10 0.28
26 9 0.25
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (23 bp):
TCCAAGTTCGTTGCGATAGTCGA
Found at i:2066600 original size:6 final size:6
Alignment explanation
Indices: 2066589--2066621 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
2066579 TCTCGTCTCG
2066589 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
2066622 AATACTTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:2067007 original size:21 final size:21
Alignment explanation
Indices: 2066711--2067037 Score: 223
Period size: 21 Copynumber: 16.0 Consensus size: 21
2066701 CATTGCGATT
*
2066711 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
2066730 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
2066753 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* *
2066772 TTTGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* * * *
2066795 TTCGACTATTGCAA--TGAAT
1 TTGGACTATCGCAACGCGAAC
* *
2066814 TTGGAATAAATCGCAACGGGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
2066837 TTCGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
**
2066856 TTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
2066877 TTCGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
**
2066896 TTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
2066917 TTCGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
** *
2066936 TTGGAAAATTGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
** *
2066957 TTCAACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
**
2066976 TTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
2066997 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
2067018 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
2067038 TATGTAAATC
Statistics
Matches: 230, Mismatches: 58, Indels: 38
0.71 0.18 0.12
Matches are distributed among these distances:
19 80 0.35
21 123 0.53
23 27 0.12
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:2067037 original size:42 final size:40
Alignment explanation
Indices: 2066714--2067012 Score: 481
Period size: 40 Copynumber: 7.3 Consensus size: 40
2066704 TGCGATTTTG
*
2066714 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTC
*
2066756 GACTATCGCAACGAATTTTGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAA-TTTGGA-AAATCGCAACGCGAACTTC
* * *
2066798 GACTATTGCAATGAATTTGGAATAAATCGCAACGGGAACTTC
1 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTC
2066840 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
2066880 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
*
2066920 GACTATCGCAACGAATTTGGAAAATTGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
*
2066960 AACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
2067000 GACTATCGCAACG
1 GACTATCGCAACG
2067013 CGAACTTGGA
Statistics
Matches: 242, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
40 147 0.61
41 5 0.02
42 86 0.36
43 4 0.02
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (40 bp):
GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
Found at i:2067075 original size:21 final size:21
Alignment explanation
Indices: 2067046--2067098 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
2067036 AATATGTAAA
*
2067046 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
2067067 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
2067088 TCGCGTTGCGA
1 TCGCGTTGCGA
2067099 ATCTGAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:2067432 original size:11 final size:12
Alignment explanation
Indices: 2067416--2067444 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
2067406 AATATAAAGA
2067416 TAAATTTATTT-
1 TAAATTTATTTG
2067427 TAAATTTATTTG
1 TAAATTTATTTG
2067439 TAAATT
1 TAAATT
2067445 AAATTCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (12 bp):
TAAATTTATTTG
Found at i:2074019 original size:72 final size:72
Alignment explanation
Indices: 2073938--2074072 Score: 243
Period size: 72 Copynumber: 1.9 Consensus size: 72
2073928 GTCATGATTT
*
2073938 GTGACACTAATTTATAATTAAGGTTTTCTTGTGCTAATTAAAAATAAAATTGCATATAAATTTGG
1 GTGAAACTAATTTATAATTAAGGTTTTCTTGTGCTAATTAAAAATAAAATTGCATATAAATTTGG
2074003 ATGATCC
66 ATGATCC
* *
2074010 GTGAAACTAATTTGTAATTAATGTTTTCTTGTGCTAATTAAAAATAAAATTGCATATAAATTT
1 GTGAAACTAATTTATAATTAAGGTTTTCTTGTGCTAATTAAAAATAAAATTGCATATAAATTT
2074073 AGGTAATCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.41
Consensus pattern (72 bp):
GTGAAACTAATTTATAATTAAGGTTTTCTTGTGCTAATTAAAAATAAAATTGCATATAAATTTGG
ATGATCC
Found at i:2074403 original size:31 final size:30
Alignment explanation
Indices: 2074359--2074424 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
2074349 TCAAAAAACA
*
2074359 TAAGATATTGTCACGTTT-ATTTTTATTTAAT
1 TAAGATATGGTCAC-TTTCA-TTTTATTTAAT
*
2074390 TAAGATGTGGTCACTTTCATTTTATTTAAT
1 TAAGATATGGTCACTTTCATTTTATTTAAT
2074420 TAAGA
1 TAAGA
2074425 CGCAATCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
30 19 0.59
31 13 0.41
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (30 bp):
TAAGATATGGTCACTTTCATTTTATTTAAT
Found at i:2078602 original size:16 final size:15
Alignment explanation
Indices: 2078583--2078612 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
2078573 TTAAATTGTT
2078583 TTTTTAAAAAATAAAA
1 TTTTT-AAAAATAAAA
2078599 TTTTTAAAAATAAA
1 TTTTTAAAAATAAA
2078613 TAAATGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TTTTTAAAAATAAAA
Found at i:2079575 original size:23 final size:23
Alignment explanation
Indices: 2079549--2079617 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
2079539 CACCACAACT
*
2079549 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
2079572 CGTAGAATTGCAACTAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
*
2079595 TGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
2079618 TATAAGATGT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:2082453 original size:14 final size:13
Alignment explanation
Indices: 2082382--2082455 Score: 87
Period size: 14 Copynumber: 5.5 Consensus size: 13
2082372 CTTCTTATGC
2082382 ATAT-TATATATT
1 ATATATATATATT
*
2082394 ATATCTATATTATT
1 ATATATATA-TATT
*
2082408 ATATATCTATATAT
1 ATATATATATAT-T
2082422 ATATATATATATAT
1 ATATATATATAT-T
2082436 ATATATATATATT
1 ATATATATATATT
2082449 CATATAT
1 -ATATAT
2082456 TCTTTTCTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
12 4 0.07
13 8 0.15
14 43 0.78
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (13 bp):
ATATATATATATT
Found at i:2082455 original size:2 final size:2
Alignment explanation
Indices: 2082382--2082447 Score: 86
Period size: 2 Copynumber: 35.0 Consensus size: 2
2082372 CTTCTTATGC
* *
2082382 AT AT -T AT AT AT -T AT AT CT AT AT -T AT -T AT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2082420 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
2082448 TCATATATTC
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
1 4 0.07
2 52 0.93
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2084033 original size:2 final size:2
Alignment explanation
Indices: 2084021--2084071 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
2084011 TGCATCCAAA
2084021 AT AT A- AT 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
2084062 AT AT AT AT AT
1 AT AT AT AT AT
2084072 GTACTTATTG
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2090896 original size:377 final size:376
Alignment explanation
Indices: 2090194--2090947 Score: 1310
Period size: 377 Copynumber: 2.0 Consensus size: 376
2090184 TTGTATTTGA
2090194 AGATTTATTTTCATGTTAAATTTGGATGTTGGATTAAAGTGGCAAAATGCATTTTTGGAAAATTG
1 AGATTTATTTTCATGTTAAATTTGGATGTTGGATTAAAGTGGCAAAATGCATTTTTGGAAAATTG
*
2090259 CTTGGTAAAATTTGAAAAAGGGTAAAATAATTTGTTCATCTTTGCTTTTGAAAGATATAAGGTTA
66 CTTGGTAAAATTTGAAAAAGGGTAAAATAATTTGTTCATCTTTGATTTTGAAAGATATAAGGTTA
2090324 TGTGGCTTGGTTGGATGGTAATTATCAAGTTCATTAATGGAAAATGGACATTGTCATTAAATGAA
131 TGTGGCTTGGTTGGATGGTAATTATCAAGTTCATTAATGGAAAATGGACATTGTCATTAAATGAA
2090389 TATTTATTCATTTTAAGCTTAATAAGGTTAAATTAACATGAAAATTAAGTTAGAAATTCATGAAA
196 TATTTATTCATTTTAAGCTTAATAAGGTTAAATTAACATG-AAATTAAGTTAGAAATTCATGAAA
*
2090454 CTTAGCTTATTTCTAGCATCAGCTGTTAACACTGTATAAGGAGAGATTTTTTTTTTTGATTTTGA
260 CTTAGCTTATTTCTAGCATCAGCTGTTAACACTGTATAAGGAGAGATATTTTTTTTTGATTTTGA
* *
2090519 GTAATTTCCTTTGGATTTTGGCTCATGTCGTGAAATAGAAAATTGTTCCACGC
325 GTAATTTCCTTT-GATTTTGGATAATGTCGTGAAATAGAAAATTGTTCCACGC
2090572 AGATTTATTTTCATGTTAAATTTGGATGTTGGATT-AAGTGGCAAAATGCATTTTTGGAAAATTG
1 AGATTTATTTTCATGTTAAATTTGGATGTTGGATTAAAGTGGCAAAATGCATTTTTGGAAAATTG
2090636 C-TGGTAAAATTTG-AAAAGGGTAAAATAATTTGTTCATCTTTGAATTTTGAAAGATATAAGGTT
66 CTTGGTAAAATTTGAAAAAGGGTAAAATAATTTGTTCATCTTTG-ATTTTGAAAGATATAAGG-T
2090699 TATGTGGCTTGG-TGGATGGTAATTATCAAGTTTCATTAATGGAAAATGGACATTTGTCATTAAA
129 TATGTGGCTTGGTTGGATGGTAATTATCAAG-TTCATTAATGGAAAATGGACA-TTGTCATTAAA
2090763 TGAATATTTTATTCATTTTAAGCTTAAATAAGGTTAAATTAACA-G-AATTAAGTTAGAAATTTC
192 TGAATA-TTTATTCATTTTAAGCTT-AATAAGGTTAAATTAACATGAAATTAAGTTAGAAA-TTC
2090826 ATGAAACTTAGCTTATTT-TAGCATCAGCTGTTAACACTGTATAAGGTA-AGA-ATTTTTTTTTG
254 ATGAAACTTAGCTTATTTCTAGCATCAGCTGTTAACACTGTATAAGG-AGAGATATTTTTTTTTG
2090888 ATTTTTGAGTAATTTCCTTTGATTTTGGATAATGTCGTGAAATAGAAAATTGTTCCACGC
318 A-TTTTGAGTAATTTCCTTTGATTTTGGATAATGTCGTGAAATAGAAAATTGTTCCACGC
2090948 GAAAAAAAAC
Statistics
Matches: 363, Mismatches: 4, Indels: 20
0.94 0.01 0.05
Matches are distributed among these distances:
375 29 0.08
376 96 0.26
377 127 0.35
378 74 0.20
379 19 0.05
380 18 0.05
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (376 bp):
AGATTTATTTTCATGTTAAATTTGGATGTTGGATTAAAGTGGCAAAATGCATTTTTGGAAAATTG
CTTGGTAAAATTTGAAAAAGGGTAAAATAATTTGTTCATCTTTGATTTTGAAAGATATAAGGTTA
TGTGGCTTGGTTGGATGGTAATTATCAAGTTCATTAATGGAAAATGGACATTGTCATTAAATGAA
TATTTATTCATTTTAAGCTTAATAAGGTTAAATTAACATGAAATTAAGTTAGAAATTCATGAAAC
TTAGCTTATTTCTAGCATCAGCTGTTAACACTGTATAAGGAGAGATATTTTTTTTTGATTTTGAG
TAATTTCCTTTGATTTTGGATAATGTCGTGAAATAGAAAATTGTTCCACGC
Found at i:2091040 original size:18 final size:18
Alignment explanation
Indices: 2091017--2091057 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
2091007 CCAAATTTAG
2091017 GGTTTGTGTTCACATTAT
1 GGTTTGTGTTCACATTAT
2091035 GGTTTGTGTTCACATTAT
1 GGTTTGTGTTCACATTAT
2091053 GGTTT
1 GGTTT
2091058 TATGAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.15, C:0.10, G:0.24, T:0.51
Consensus pattern (18 bp):
GGTTTGTGTTCACATTAT
Found at i:2092332 original size:53 final size:53
Alignment explanation
Indices: 2092269--2092425 Score: 235
Period size: 53 Copynumber: 3.0 Consensus size: 53
2092259 CTTTGTGTAC
*
2092269 TTTCAGCACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCA
1 TTTCGGCACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCA
* *
2092322 TTTTGGCACTATATGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCA
1 TTTCGGCACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCA
* * * *
2092375 TTTCGACACTATGTGTGCACCCATGATATTCATAATGAAG-TCGTGAATTAC
1 TTTCGGCACTATGTGTGCATCCATGGTATTCATAATG-AGTTTGTGAATTAC
2092426 TATTCCGTTA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
53 92 0.98
54 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (53 bp):
TTTCGGCACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCA
Found at i:2098635 original size:22 final size:23
Alignment explanation
Indices: 2098594--2098637 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2098584 TCTAAGGTAA
*
2098594 GAGAAAATTTCTTTTTTATTTTT
1 GAGAAAATTTCTTTTATATTTTT
*
2098617 GAGAAATTTTC-TTTATATTTT
1 GAGAAAATTTCTTTTATATTTT
2098638 GAATTATGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.59
Consensus pattern (23 bp):
GAGAAAATTTCTTTTATATTTTT
Found at i:2100087 original size:53 final size:53
Alignment explanation
Indices: 2100030--2100179 Score: 248
Period size: 53 Copynumber: 2.8 Consensus size: 53
2100020 TCGGCTCTAG
*
2100030 GTGTGCATCCATGGTATTCATAATAAGTTTGTGAATTACCATTTCGACACTAT
1 GTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGACACTAT
*
2100083 GTGTGTATCCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGACACTAT
1 GTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGACACTAT
* *
2100136 GTGTGCA-CCTATAGTATTCATAATGAGGTTGTGAATTACCATTT
1 GTGTGCATCC-ATGGTATTCATAATGAGTTTGTGAATTACCATTT
2100180 TGTTACATTA
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
52 2 0.02
53 89 0.98
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (53 bp):
GTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGACACTAT
Found at i:2103103 original size:18 final size:19
Alignment explanation
Indices: 2103062--2103112 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
2103052 TTTTCCTTGA
2103062 GGGGGTATCGGTACACTAT
1 GGGGGTATCGGTACACTAT
* *
2103081 AGGGG-ATCGGTACAGTAT
1 GGGGGTATCGGTACACTAT
*
2103099 GGGGGTATCAGTAC
1 GGGGGTATCGGTAC
2103113 CCAAATTAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.24, C:0.14, G:0.39, T:0.24
Consensus pattern (19 bp):
GGGGGTATCGGTACACTAT
Found at i:2106370 original size:15 final size:15
Alignment explanation
Indices: 2106350--2106382 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
2106340 ACTCATTATT
2106350 ATATTCGTAATCATA
1 ATATTCGTAATCATA
2106365 ATATTCGTAATCATA
1 ATATTCGTAATCATA
2106380 ATA
1 ATA
2106383 AACATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (15 bp):
ATATTCGTAATCATA
Found at i:2108879 original size:2 final size:2
Alignment explanation
Indices: 2108872--2108897 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2108862 CAAATTTTAT
2108872 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
2108898 AATTAGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2109710 original size:20 final size:22
Alignment explanation
Indices: 2109685--2109724 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2109675 AGTCGTATAT
2109685 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
2109705 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
2109725 TCCTGCAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:2109922 original size:20 final size:20
Alignment explanation
Indices: 2109899--2109939 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2109889 GGTGAATCGA
* *
2109899 TGCACAGTGCATGGATGCAC
1 TGCACAATGCATGGATACAC
2109919 TGCACAATGCATGGATACAC
1 TGCACAATGCATGGATACAC
2109939 T
1 T
2109940 TTGACACCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.22
Consensus pattern (20 bp):
TGCACAATGCATGGATACAC
Found at i:2110198 original size:21 final size:19
Alignment explanation
Indices: 2110164--2110221 Score: 82
Period size: 18 Copynumber: 3.0 Consensus size: 19
2110154 ATTTTTAATG
*
2110164 AAAAATATACCAATTGTTA
1 AAAAATATATCAATTGTTA
2110183 ACAAAATGATATCAATTGTTA
1 A-AAAAT-ATATCAATTGTTA
2110204 AAAAA-ATATCAATTGTTA
1 AAAAATATATCAATTGTTA
2110222 CCAATTGTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 13 0.36
19 1 0.03
20 9 0.25
21 13 0.36
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.33
Consensus pattern (19 bp):
AAAAATATATCAATTGTTA
Found at i:2110271 original size:12 final size:12
Alignment explanation
Indices: 2110254--2110278 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2110244 AAATGTTAAG
2110254 CTCCCCATTTTT
1 CTCCCCATTTTT
2110266 CTCCCCATTTTT
1 CTCCCCATTTTT
2110278 C
1 C
2110279 ATTAAGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.44, G:0.00, T:0.48
Consensus pattern (12 bp):
CTCCCCATTTTT
Found at i:2112659 original size:20 final size:20
Alignment explanation
Indices: 2112634--2112671 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2112624 CCGTTGCAGC
*
2112634 CAGGGTGCATCGATGCACAG
1 CAGGGTACATCGATGCACAG
2112654 CAGGGTACATCGATGCAC
1 CAGGGTACATCGATGCAC
2112672 TAATTACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.32, T:0.16
Consensus pattern (20 bp):
CAGGGTACATCGATGCACAG
Found at i:2112717 original size:20 final size:20
Alignment explanation
Indices: 2112690--2112741 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
2112680 TTCAGTGTTT
*
2112690 GAGTGCATGGGTGCATTACA
1 GAGTGCATGGATGCATTACA
* * *
2112710 GGGTGCATCGATGCATTGCA
1 GAGTGCATGGATGCATTACA
2112730 GAGTGCATGGAT
1 GAGTGCATGGAT
2112742 ACACTTTGAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.37, T:0.25
Consensus pattern (20 bp):
GAGTGCATGGATGCATTACA
Found at i:2113912 original size:23 final size:21
Alignment explanation
Indices: 2113862--2113920 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 21
2113852 AAGATTCAAG
*
2113862 AGGGTACCGATAC-TCATTCT
1 AGGGTATCGATACTTCATTCT
*
2113882 TGGGTATCGATACTTCATCTCCT
1 AGGGTATCGATACTTCAT-T-CT
2113905 AGGGTATCGATACTTC
1 AGGGTATCGATACTTC
2113921 CTCGAGTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.33
21 4 0.12
22 1 0.03
23 17 0.52
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (21 bp):
AGGGTATCGATACTTCATTCT
Found at i:2114834 original size:17 final size:18
Alignment explanation
Indices: 2114798--2114837 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
2114788 AGAATAAGAA
2114798 AAGAGAAAAGAAAATGTG
1 AAGAGAAAAGAAAATGTG
2114816 AAGA-AAAAGAAAA-GATG
1 AAGAGAAAAGAAAATG-TG
2114833 AAGAG
1 AAGAG
2114838 CCTTCCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 1 0.05
17 15 0.75
18 4 0.20
ACGTcount: A:0.65, C:0.00, G:0.28, T:0.07
Consensus pattern (18 bp):
AAGAGAAAAGAAAATGTG
Found at i:2124465 original size:32 final size:32
Alignment explanation
Indices: 2124424--2124497 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
2124414 TAAGTATATT
*
2124424 TTATTTATTATATATTTATTTCACTTACATTA
1 TTATATATTATATATTTATTTCACTTACATTA
* *
2124456 TTATGTATTATATATTTATTTCACTTACATTG
1 TTATATATTATATATTTATTTCACTTACATTA
2124488 TTATATATTA
1 TTATATATTA
2124498 CTTTATTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (32 bp):
TTATATATTATATATTTATTTCACTTACATTA
Found at i:2128359 original size:31 final size:31
Alignment explanation
Indices: 2128321--2128476 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
2128311 CCCGAAGGAC
* *
2128321 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
2128352 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2128383 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2128414 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2128445 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2128476 C
1 C
2128477 CCTCGACCCT
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 117 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:2128699 original size:24 final size:22
Alignment explanation
Indices: 2128654--2128699 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
2128644 ATATACTTGT
*
2128654 TTTCACATATATATTCATATCA
1 TTTCACATATACATTCATATCA
2128676 TTTCACATATACACTTTCATATCA
1 TTTCACATATACA--TTCATATCA
2128700 CAGGCCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
24 9 0.43
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTCACATATACATTCATATCA
Found at i:2129242 original size:21 final size:21
Alignment explanation
Indices: 2129212--2129255 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2129202 ATTCTGTCGT
* *
2129212 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2129233 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2129254 TT
1 TT
2129256 ACCCAGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2132287 original size:31 final size:31
Alignment explanation
Indices: 2132249--2132404 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
2132239 CCCGAAGGAC
* *
2132249 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
2132280 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2132311 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2132342 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2132373 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2132404 C
1 C
2132405 CCTCGACCCT
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 117 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:2132607 original size:23 final size:24
Alignment explanation
Indices: 2132581--2132627 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
2132571 ATATACTTGT
*
2132581 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
2132604 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
2132628 CAGGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:2133169 original size:21 final size:21
Alignment explanation
Indices: 2133139--2133182 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2133129 ATTCTGTCGT
* *
2133139 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2133160 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2133181 TT
1 TT
2133183 ACCCAGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2136314 original size:10 final size:11
Alignment explanation
Indices: 2136284--2136321 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
2136274 AGGAGGCAAT
2136284 ATTTTTTCAAA
1 ATTTTTTCAAA
*
2136295 ATTATTTTCAAT
1 ATT-TTTTCAAA
2136307 A-TTTTTCAAA
1 ATTTTTTCAAA
2136317 ATTTT
1 ATTTT
2136322 GAAAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 8 0.35
11 7 0.30
12 8 0.35
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTTTTTCAAA
Found at i:2137606 original size:67 final size:65
Alignment explanation
Indices: 2137412--2137635 Score: 290
Period size: 66 Copynumber: 3.4 Consensus size: 65
2137402 TTTCTACTCA
*
2137412 AAACAAATTTTGTATCTCTTGAGACAATTTCTCTTGAAACA-AAATCTTTGATTATGTTTCCCTT
1 AAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACACAAATCTTTGA-TATGTTTCCCTT
2137476 G
65 G
2137477 AAACAAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAAC-CAAAATCTTTGTATATGTTTCCC
1 AAAC-AAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAC-AAATCTTTG-ATATGTTTCCC
2137541 TTG
63 TTG
* * * * * *
2137544 AAACAAAGTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACCAATCTTTGACATCGTTTTCCTT
1 AAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACACAAATCTTTGATAT-GTTTCCCTT
2137609 G
65 G
* * * *
2137610 AAACGAACTTCGTCTCGCTTGAGACA
1 AAACAAATTTTGTCTCTCTTGAGACA
2137636 GTTTTCCCTC
Statistics
Matches: 142, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
65 7 0.05
66 107 0.75
67 27 0.19
68 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (65 bp):
AAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACACAAATCTTTGATATGTTTCCCTTG
Found at i:2137747 original size:39 final size:39
Alignment explanation
Indices: 2137690--2137775 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
2137680 TTAAAACCAT
* * *
2137690 AAGATTTTATCTCGCTTGAGATTA-TTTCACTCGAAATAG
1 AAGATTTTATCTCACTTGAGA-TAGTTTCACTCGAAACAA
*
2137729 AAGATTTTATCTCACTTGAGATAGTTTCGCTCGAAACAA
1 AAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAA
2137768 AAGATTTT
1 AAGATTTT
2137776 TAGAAACTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 2 0.05
39 40 0.95
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (39 bp):
AAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAA
Found at i:2137840 original size:53 final size:53
Alignment explanation
Indices: 2137777--2137968 Score: 233
Period size: 53 Copynumber: 3.6 Consensus size: 53
2137767 AAAGATTTTT
* * * *
2137777 AGAAACTAAGCTTGATTTTCAGGGGTTTCTCGATGTTTTCAAATGAATTTGAA
1 AGAAACTAAGCCTAATTTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTTAA
* * *
2137830 AGAAGCTAAGCCTAATTTT-AGGTGTTTCTTAATGTTTTCAAATGAATTTTAA
1 AGAAACTAAGCCTAATTTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTTAA
* * * * * **
2137882 AGAAATTAAGCCTAATTTTTAAGGATTTCTTGATGTTTTCAAATGATTTTTTT
1 AGAAACTAAGCCTAATTTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTTAA
* *
2137935 AGAAACTAAGCCTGATTTTCAGGGGTTCCTTGAT
1 AGAAACTAAGCCTAATTTTCAGGGGTTTCTTGAT
2137969 AATGATTTTC
Statistics
Matches: 116, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
52 46 0.40
53 70 0.60
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (53 bp):
AGAAACTAAGCCTAATTTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTTAA
Found at i:2138413 original size:144 final size:144
Alignment explanation
Indices: 2138153--2138668 Score: 703
Period size: 144 Copynumber: 3.6 Consensus size: 144
2138143 AGCAAAATGA
* ** * * *
2138153 TAAGTCCTTCTGGCCATCCATAAGATATTCGAGCATGATGTTTTCAACATTTCCTTTGCTTGATT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAACATTTCCTTTGCTCGATT
* **
2138218 CACAACACTTCGAATTAGCAACACCCCACCAGAGGGGTTAACATTTCCTATTGCTCGATTCACAC
66 CACAACACTTCGAATCAGCAATGCCCCACCAGAGGGGTTAACATTTCCTATTGCTCGATTCACAC
2138283 ACTTCGAATCAGCT
131 ACTTCGAATCAGCT
* * * * *
2138297 TAAGTCCTTCGGGCCATCCATATGACCTTCGGGCAAGAAGTTTTCAATATTTCCTTTTCTCGATT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAACATTTCCTTTGCTCGATT
* * * *
2138362 CACAACACTTTGAATCAGCAATGCCCCACTAGATGGGTTAACATTTCCTATTGATCGATTCACAC
66 CACAACACTTCGAATCAGCAATGCCCCACCAGAGGGGTTAACATTTCCTATTGCTCGATTCACAC
*
2138427 ACTTCGAAACAGCT
131 ACTTCGAATCAGCT
* ** * * *
2138441 TAAGTCCTTCGTGCCATCCATAAGACCTTCGGGCAGGGCGTTTTCAATATTTTCTTTACTCGATT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAACATTTCCTTTGCTCGATT
* * * * *
2138506 CACAACACTTCGAATTAGTAATGCCCCACCATAGGGGTTAATATTTCCTATTGCTCAATTCACAC
66 CACAACACTTCGAATCAGCAATGCCCCACCAGAGGGGTTAACATTTCCTATTGCTCGATTCACAC
*
2138571 ACTTCAAATCAGCT
131 ACTTCGAATCAGCT
* *
2138585 TAAGT-CTATTGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAACATTTCCTTTGCTAGAT
1 TAAGTCCT-TCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAACATTTCCTTTGCTCGAT
*
2138649 TCATAA-ACTTCGAATCAGCA
65 TCACAACACTTCGAATCAGCA
2138669 TAAGTCCTTC
Statistics
Matches: 324, Mismatches: 47, Indels: 3
0.87 0.13 0.01
Matches are distributed among these distances:
143 14 0.04
144 310 0.96
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (144 bp):
TAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAACATTTCCTTTGCTCGATT
CACAACACTTCGAATCAGCAATGCCCCACCAGAGGGGTTAACATTTCCTATTGCTCGATTCACAC
ACTTCGAATCAGCT
Found at i:2138694 original size:20 final size:20
Alignment explanation
Indices: 2138669--2138744 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
2138659 CGAATCAGCA
2138669 TAAGTCCTTCGAGCCATCAG
1 TAAGTCCTTCGAGCCATCAG
* * *
2138689 TAAGTCTTTCGAGCATGATGAG
1 TAAGTCCTTCGAGC--CATCAG
* *
2138711 TAAGTTCTTCGGGCCATCAG
1 TAAGTCCTTCGAGCCATCAG
*
2138731 TAAGTCTTTCGAGC
1 TAAGTCCTTCGAGC
2138745 ATGATTCTTA
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 28 0.65
22 15 0.35
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (20 bp):
TAAGTCCTTCGAGCCATCAG
Found at i:2138715 original size:22 final size:22
Alignment explanation
Indices: 2138684--2138786 Score: 76
Period size: 22 Copynumber: 4.9 Consensus size: 22
2138674 CCTTCGAGCC
2138684 ATCAGTAAGTCTTTCGAGCATG
1 ATCAGTAAGTCTTTCGAGCATG
* * *
2138706 ATGAGTAAGT-TCTTCGGGC--C
1 ATCAGTAAGTCT-TTCGAGCATG
2138726 ATCAGTAAGTCTTTCGAGCATG
1 ATCAGTAAGTCTTTCGAGCATG
* * * *
2138748 ATTC-TTAAATCTTTCG-G-GTC
1 A-TCAGTAAGTCTTTCGAGCATG
2138768 ATCA-TAAGTCTTTCGAGCA
1 ATCAGTAAGTCTTTCGAGCA
2138787 AGATGATAAG
Statistics
Matches: 61, Mismatches: 12, Indels: 17
0.68 0.13 0.19
Matches are distributed among these distances:
19 12 0.20
20 18 0.30
21 3 0.05
22 26 0.43
23 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (22 bp):
ATCAGTAAGTCTTTCGAGCATG
Found at i:2138721 original size:42 final size:41
Alignment explanation
Indices: 2138668--2138810 Score: 173
Period size: 42 Copynumber: 3.5 Consensus size: 41
2138658 TCGAATCAGC
* *
2138668 ATAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
*
2138709 AGTAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATTC
1 A-TAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATGA-TG
* * * *
2138752 TTAA-ATCTTTCGGGTCATCA-TAAGTCTTTCGAGCAAGATG
1 ATAAGTTC-TTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
*
2138792 ATAAGTGCTTCGGGCCATC
1 ATAAGTTCTTCGGGCCATC
2138811 CATAAGACCT
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
40 14 0.16
41 21 0.24
42 50 0.58
43 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (41 bp):
ATAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
Found at i:2140014 original size:102 final size:101
Alignment explanation
Indices: 2139898--2140096 Score: 290
Period size: 102 Copynumber: 2.0 Consensus size: 101
2139888 GATTCACGGC
* * *
2139898 ATTTCGAATCAGTGACGCCTCTCTTGAGCAATAAATATTTCAAATGGAGAGTAAATAATGAGAAG
1 ATTTCGAATCAGTGACGCCTCGCTTGAGCAATAAACACTTCAAATGGAGAGTAAATAATGAGAAG
2139963 AACTCATCCAGAAAAAAAGAGAAGAAGTTCATACGAT
66 AACTCATCC-GAAAAAAAGAGAAGAAGTTCATACGAT
* ** * **
2140000 ATTTCGATTCAGTGACGCCTCGCTTGAGGGATTAACACTTCAAATGGAGAGTTCATAATGAGAAG
1 ATTTCGAATCAGTGACGCCTCGCTTGAGCAATAAACACTTCAAATGGAGAGTAAATAATGAGAAG
**
2140065 AACTCATCCGAAAAAGGGAGAAGAAGTTCATA
66 AACTCATCCGAAAAAAAGAGAAGAAGTTCATA
2140097 ATGAGAAAAG
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 21 0.24
102 65 0.76
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.24
Consensus pattern (101 bp):
ATTTCGAATCAGTGACGCCTCGCTTGAGCAATAAACACTTCAAATGGAGAGTAAATAATGAGAAG
AACTCATCCGAAAAAAAGAGAAGAAGTTCATACGAT
Found at i:2140308 original size:132 final size:134
Alignment explanation
Indices: 2140025--2140385 Score: 424
Period size: 132 Copynumber: 2.7 Consensus size: 134
2140015 CGCCTCGCTT
* * *
2140025 GAGGGATTAACACTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAA
1 GAGGGATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACACATCCG-AAGA-GGAGAAGAA
* * * * * * ** *
2140090 GTTCATAATGAGAAAAGCTTATTCAACTTATCGCTCGATTCACGACATTTCGAATCAGTTATACC
64 GTTCATAATGAGAAGAGCTTGTTCAACCTATCGCTCGATTCACAACACTTCAAATCAGCAACACC
* *
2140155 TCGCTT
129 TCACTC
* * *
2140161 GAGGGATTAACATTTCAAATAGAGAGTTCATAATGAGAATAACACATCCGACGAGG-G-AGAAGT
1 GAGGGATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACACATCCGAAGAGGAGAAGAAGT
* * *
2140224 TCATAATGAGAAGAGTTTGTTCAACCTATC-ATCTGATTTACAACACTTCAAATCAGCAACACCT
66 TCATAATGAGAAGAGCTTGTTCAACCTATCGCTC-GATTCACAACACTTCAAATCAGCAACACCT
2140288 CACTC
130 CACTC
* * * *
2140293 GAGGGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAA-ATCATCCTATGAAGGAGAAGAA
1 GAGGGATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACA-CATCCGAAG-AGGAGAAGAA
*
2140357 GTTCATAATGAGAAGAACTTGTTCAACCT
64 GTTCATAATGAGAAGAGCTTGTTCAACCT
2140386 CTCTTGTTTC
Statistics
Matches: 192, Mismatches: 28, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
131 3 0.02
132 103 0.54
133 4 0.02
134 3 0.02
135 33 0.17
136 46 0.24
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (134 bp):
GAGGGATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACACATCCGAAGAGGAGAAGAAGT
TCATAATGAGAAGAGCTTGTTCAACCTATCGCTCGATTCACAACACTTCAAATCAGCAACACCTC
ACTC
Found at i:2143452 original size:17 final size:16
Alignment explanation
Indices: 2143419--2143464 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
2143409 AGAAGGTAAA
*
2143419 ATTATTTTTTA-TTAT
1 ATTATATTTTATTTAT
2143434 ATTATATTTTATTTCAT
1 ATTATATTTTATTT-AT
*
2143451 ATT-TAATTTATTTA
1 ATTATATTTTATTTA
2143465 ACCAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 11 0.41
16 11 0.41
17 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTATATTTTATTTAT
Found at i:2146749 original size:21 final size:21
Alignment explanation
Indices: 2146725--2146770 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
2146715 ACCCTATGGT
* *
2146725 GGTGGCATCTGAACCGGTTGC
1 GGTGCCATCTGAAACGGTTGC
2146746 GGTGCCATCTGAAACGGTTGC
1 GGTGCCATCTGAAACGGTTGC
2146767 GGTG
1 GGTG
2146771 TATCCATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.39, T:0.24
Consensus pattern (21 bp):
GGTGCCATCTGAAACGGTTGC
Found at i:2149311 original size:2 final size:2
Alignment explanation
Indices: 2149306--2149353 Score: 51
Period size: 2 Copynumber: 23.0 Consensus size: 2
2149296 AAACACACTC
* * *
2149306 AT AT AT AT AT AT AT AT AT AT GT GT GAT CAA 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
2149350 AT AT
1 AT AT
2149354 GATCAAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2149344 original size:24 final size:24
Alignment explanation
Indices: 2149312--2149364 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
2149302 ACTCATATAT
* *
2149312 ATATATATATATATGTGTGATCAA
1 ATATATATATATATATATGATCAA
2149336 ATATATATATATATATATGATCAA
1 ATATATATATATATATATGATCAA
2149360 ATATA
1 ATATA
2149365 GATTTTATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (24 bp):
ATATATATATATATATATGATCAA
Found at i:2154388 original size:24 final size:24
Alignment explanation
Indices: 2154361--2154452 Score: 130
Period size: 24 Copynumber: 3.7 Consensus size: 24
2154351 TTTTAATTTT
2154361 AATATTAATTTTTTAAATAAATTA
1 AATATTAATTTTTTAAATAAATTA
*
2154385 AATATTAATTTTTTAATATTATATTA
1 AATATTAATTTTTTAA-A-TAAATTA
*
2154411 TAGATATTAATTTTTTAAATAAATAA
1 -A-ATATTAATTTTTTAAATAAATTA
2154437 AATATTAATTTTTTAA
1 AATATTAATTTTTTAA
2154453 TATTATATTA
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
24 31 0.51
25 2 0.03
26 11 0.18
27 2 0.03
28 15 0.25
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (24 bp):
AATATTAATTTTTTAAATAAATTA
Found at i:2154421 original size:28 final size:25
Alignment explanation
Indices: 2154362--2154477 Score: 128
Period size: 24 Copynumber: 4.4 Consensus size: 25
2154352 TTTAATTTTA
*
2154362 ATATTAATTTTTTAAATAAATTAA-
1 ATATTAATTTTTTAAATATATTAAG
2154386 ATATTAATTTTTTAATATTATATTATAG
1 ATATTAATTTTTTAA-A-TATATTA-AG
* *
2154414 ATATTAATTTTTTAAATA-AATAAA
1 ATATTAATTTTTTAAATATATTAAG
2154438 ATATTAATTTTTTAATATTATATTATAG
1 ATATTAATTTTTTAA-A-TATATTA-AG
2154466 ATATTTAATTTT
1 ATA-TTAATTTT
2154478 ATATCATATA
Statistics
Matches: 78, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
24 31 0.40
25 5 0.06
26 10 0.13
27 5 0.06
28 19 0.24
29 8 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
ATATTAATTTTTTAAATATATTAAG
Found at i:2154424 original size:52 final size:52
Alignment explanation
Indices: 2154362--2154477 Score: 214
Period size: 52 Copynumber: 2.2 Consensus size: 52
2154352 TTTAATTTTA
*
2154362 ATATTAATTTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAG
1 ATATTAATTTTTTAAATAAATAAAATATTAATTTTTTAATATTATATTATAG
2154414 ATATTAATTTTTTAAATAAATAAAATATTAATTTTTTAATATTATATTATAG
1 ATATTAATTTTTTAAATAAATAAAATATTAATTTTTTAATATTATATTATAG
2154466 ATATTTAATTTT
1 ATA-TTAATTTT
2154478 ATATCATATA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 54 0.87
53 8 0.13
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (52 bp):
ATATTAATTTTTTAAATAAATAAAATATTAATTTTTTAATATTATATTATAG
Found at i:2154533 original size:20 final size:19
Alignment explanation
Indices: 2154473--2154534 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
2154463 TAGATATTTA
*
2154473 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
2154492 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
2154510 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
2154530 ATTTT
1 ATTTT
2154535 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:2155893 original size:43 final size:43
Alignment explanation
Indices: 2155836--2155919 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
2155826 CGACGTTTAA
* *
2155836 GAAAATGTTGCTATTTATCTTTTCTTTAGTGGCGTTTGTTCTC
1 GAAAACGTTGCTATTTATCTTTTCTTTAGTGACGTTTGTTCTC
*
2155879 GAAAACGTTTCTATTTATCTTTTCTTTAGTGACGTTTGTTC
1 GAAAACGTTGCTATTTATCTTTTCTTTAGTGACGTTTGTTC
2155920 CCAAAAATGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.18, C:0.14, G:0.17, T:0.51
Consensus pattern (43 bp):
GAAAACGTTGCTATTTATCTTTTCTTTAGTGACGTTTGTTCTC
Found at i:2155979 original size:44 final size:44
Alignment explanation
Indices: 2155931--2156049 Score: 125
Period size: 45 Copynumber: 2.7 Consensus size: 44
2155921 CAAAAATGCT
* *
2155931 GCAAAAGGTTAGGTCATTTAGCAGCGTTTTTTGGAACAACCGAC
1 GCAAAAGGTTAGGTCATTTAGTAGCGTTTTTTGGAACAAACGAC
* * * * * *
2155975 GCAAAAAGGTTATGTCATTTTGTGGCG-TTTTGGGAAGAAACGTC
1 GC-AAAAGGTTAGGTCATTTAGTAGCGTTTTTTGGAACAAACGAC
* *
2156019 GCAAAAGG-TAGGTAATTTAGTAGCATTTTTT
1 GCAAAAGGTTAGGTCATTTAGTAGCGTTTTTT
2156050 AAAGTAAAAC
Statistics
Matches: 59, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
42 12 0.20
43 10 0.17
44 17 0.29
45 20 0.34
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (44 bp):
GCAAAAGGTTAGGTCATTTAGTAGCGTTTTTTGGAACAAACGAC
Found at i:2156060 original size:44 final size:42
Alignment explanation
Indices: 2156012--2156100 Score: 142
Period size: 44 Copynumber: 2.1 Consensus size: 42
2156002 TTTTGGGAAG
*
2156012 AAACGTCGCAAAAGGTAGGTAATTTAGTAGCATTTTTTAAAGTA
1 AAACGTCGCAAAAAGTAGGTAATTTAGTAGCA-TTTTT-AAGTA
*
2156056 AAACGTCGCAAAAAGTAGGTAATTTAGTGGCATTTTTAAGTA
1 AAACGTCGCAAAAAGTAGGTAATTTAGTAGCATTTTTAAGTA
2156098 AAA
1 AAA
2156101 TGCCACAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 8 0.19
43 5 0.12
44 30 0.70
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.30
Consensus pattern (42 bp):
AAACGTCGCAAAAAGTAGGTAATTTAGTAGCATTTTTAAGTA
Found at i:2156536 original size:27 final size:30
Alignment explanation
Indices: 2156506--2156568 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
2156496 TTCGAACTAA
2156506 TTCGGTTAA-CCGATC-G-AACCGAATTAG
1 TTCGGTTAATCCGATCGGCAACCGAATTAG
* * *
2156533 TTCGGTTAATTCGGTCGGCCACCGAATTAG
1 TTCGGTTAATCCGATCGGCAACCGAATTAG
2156563 TTCGGT
1 TTCGGT
2156569 CGGTTAACAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 9 0.30
28 4 0.13
29 1 0.03
30 16 0.53
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (30 bp):
TTCGGTTAATCCGATCGGCAACCGAATTAG
Found at i:2159362 original size:42 final size:42
Alignment explanation
Indices: 2159157--2159506 Score: 217
Period size: 42 Copynumber: 8.4 Consensus size: 42
2159147 TCCAAGACGA
* * ** * *
2159157 CGTTTTAATAACAAATGCCACTAAAAATACGACTCTATTGTGG
1 CGTTTTAGTAACAAACGCCACT-AAGGTTCGCCTCTATTGTGG
** * * * * * *
2159200 TATTTTAATAACAAACTCCACTAACGTGT-GCTTCTACTGTGA
1 CGTTTTAGTAACAAACGCCACTAAGGT-TCGCCTCTATTGTGG
* * ** ** * * *
2159242 TGTTTCAACAACAAACGCCACTAACATGCGCCTATATTGCGG
1 CGTTTTAGTAACAAACGCCACTAAGGTTCGCCTCTATTGTGG
* * * * **
2159284 CATTTTAATAATAAACGCCACTAAGGTACGAATCTATTGTGG
1 CGTTTTAGTAACAAACGCCACTAAGGTTCGCCTCTATTGTGG
*
2159326 CGTTTTAGTAACAAACGCCACTAAGGTTCACCTCTATTGTGG
1 CGTTTTAGTAACAAACGCCACTAAGGTTCGCCTCTATTGTGG
* * * * * * * *
2159368 TGTTTTTA-TAACAGATGCCACTAAGGTACGGCTCTGTAGTGC
1 CG-TTTTAGTAACAAACGCCACTAAGGTTCGCCTCTATTGTGG
* * **
2159410 CGTTTTAGTGACAAACGCCACTAAGGTTCTCCTCTATTGCAG
1 CGTTTTAGTAACAAACGCCACTAAGGTTCGCCTCTATTGTGG
* * *
2159452 CGTTTCAGCAACAAA-GTCACTAAGG-T-GCCTCTATTGTGG
1 CGTTTTAGTAACAAACGCCACTAAGGTTCGCCTCTATTGTGG
2159491 CGTTTTTA-TAACAAAC
1 CG-TTTTAGTAACAAAC
2159507 ATCTATAGCG
Statistics
Matches: 230, Mismatches: 71, Indels: 15
0.73 0.22 0.05
Matches are distributed among these distances:
39 18 0.08
40 5 0.02
41 14 0.06
42 170 0.74
43 23 0.10
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (42 bp):
CGTTTTAGTAACAAACGCCACTAAGGTTCGCCTCTATTGTGG
Found at i:2162101 original size:30 final size:30
Alignment explanation
Indices: 2162067--2162125 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
2162057 TAATACGTGG
* * *
2162067 GAGGTGGAGGTGATTTGTAGACGTATGGAC
1 GAGGTGGAGGTGACTTGTACACATATGGAC
*
2162097 GAGGTGGGGGTGACTTGTACACATATGGA
1 GAGGTGGAGGTGACTTGTACACATATGGA
2162126 GACGGAGGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.42, T:0.25
Consensus pattern (30 bp):
GAGGTGGAGGTGACTTGTACACATATGGAC
Found at i:2162352 original size:60 final size:60
Alignment explanation
Indices: 2162097--2162396 Score: 172
Period size: 60 Copynumber: 5.0 Consensus size: 60
2162087 ACGTATGGAC
* * *
2162097 GAGGTGGGGGTGACTTGTACACATATGGA-GACGGAGGTGGTGATTCATACTTGTATGG-A
1 GAGGTGGTGGTGACTTGTACACATATGGAGGA-GGAGGTAGTGATTCATACTTGTATGGTG
* * * * ** * *
2162156 GATGGTAGAGGTGACTTGTATACATATGAAGGAGGAGCCAGTGACTTGTATAC----AT-ATG
1 GA-GGTGGTGGTGACTTGTACACATATGGAGGAGGAGGTAGTGA-TT-CATACTTGTATGGTG
** * *** * *
2162214 GAGGTCCTGATGA-TTCGTACTTGTATGGAGGAGGAGG-AGGTTATTCATATTTGTATGGTG
1 GAGGTGGTGGTGACTT-GTACACATATGGAGGAGGAGGTA-GTGATTCATACTTGTATGGTG
* * * * *
2162274 GAGGAAGG-AGTGATTTGTACACATATGGAGGTGGAGGTAGTGATTCATGCTTGTATGGTG
1 GAGG-TGGTGGTGACTTGTACACATATGGAGGAGGAGGTAGTGATTCATACTTGTATGGTG
* *** ** *
2162334 GAGGTGGTGGTGACTTGTATACATACAAAGGAGGAGG-AGGTGATTTGTACTTGTATGGAG
1 GAGGTGGTGGTGACTTGTACACATATGGAGGAGGAGGTA-GTGATTCATACTTGTATGGTG
2162394 GAG
1 GAG
2162397 ACGGCGATGA
Statistics
Matches: 176, Mismatches: 48, Indels: 33
0.68 0.19 0.13
Matches are distributed among these distances:
55 3 0.02
56 5 0.03
57 25 0.14
58 4 0.02
59 7 0.04
60 121 0.69
61 7 0.04
62 4 0.02
ACGTcount: A:0.26, C:0.08, G:0.37, T:0.29
Consensus pattern (60 bp):
GAGGTGGTGGTGACTTGTACACATATGGAGGAGGAGGTAGTGATTCATACTTGTATGGTG
Found at i:2162396 original size:30 final size:30
Alignment explanation
Indices: 2162230--2163266 Score: 508
Period size: 30 Copynumber: 34.7 Consensus size: 30
2162220 CTGATGATTC
* *
2162230 GTACTTGTATGGAGGAGGAGGAGGTTA-TT
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * * * *
2162259 CATATTTGTATGGTGGAGGAAGG-AGTGATTT
1 -GTACTTGTATGGAGGAGG-AGGTGGTGACTT
*** * *
2162290 GTACACATATGGAGGTGGAGGTAGTGA-TT
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * * *
2162319 CATGCTTGTATGGTGGAGGTGGTGGTGACTT
1 -GTACTTGTATGGAGGAGGAGGTGGTGACTT
** *** * *
2162350 GTA-TACATACAAAGGAGGAGGAGGTGATTT
1 GTACT-TGTATGGAGGAGGAGGTGGTGACTT
* *
2162380 GTACTTGTATGGAGGA-GACGGCGATGA-TT
1 GTACTTGTATGGAGGAGGA-GGTGGTGACTT
* * * *
2162409 CATATTTGTATGGAGGAGGTGGGGGTGACTT
1 -GTACTTGTATGGAGGAGGAGGTGGTGACTT
*** * * *
2162440 GTACACATATGGAGGTGTAGGTGGT-AATT
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
*
2162469 CGTACTTGTATGGAGGAGGTGGTGGTGACTT
1 -GTACTTGTATGGAGGAGGAGGTGGTGACTT
** * * *
2162500 GTACACGTATGAAGGAGGAGATGGTGATTT
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * * *
2162530 GTA-TATGTACGGAGGTGGTGGTGGTGTCTT
1 GTACT-TGTATGGAGGAGGAGGTGGTGACTT
** *
2162560 GTA-TACATATGGAGGAGGAGGTGGTGATTT
1 GTACT-TGTATGGAGGAGGAGGTGGTGACTT
* *
2162590 GTACTTGTATGGAGGAGGATGTAGTGA-TT
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * * *
2162619 CATATTTATAT-GAGGAAGGTGG-GAGTGACTT
1 -GTACTTGTATGGAGG-AGGAGGTG-GTGACTT
*** * *
2162650 GTACACATATGGAGGTGGAGTTGGTGA-TT
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * * *
2162679 CGTAGTTGTATGGAAGAGGTGGAGGTGACTT
1 -GTACTTGTATGGAGGAGGAGGTGGTGACTT
*** * *
2162710 GTACACATATGGAAGAGGAGGTGGTGATTT
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * *
2162740 GTA-TATGTATGGAGGTGGTGGTGGTGACTC
1 GTACT-TGTATGGAGGAGGAGGTGGTGACTT
* * * * * *
2162770 ATATTTGTACGGAGGTGGTGGTGGTGATTT
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * *
2162800 GTACTTGTACGGAGGTGGAGGTGGTGACTC
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * * * * *
2162830 GTAATTGTATGGGGGAGGTGGTAGCGATTT
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* *** * * * *
2162860 GTTCTTGTACATAGAATGAGGTGGTTG-GTC
1 GTACTTGTATGGAGGAGGAGGTGG-TGACTT
* * *
2162890 ATACTTGTACGGAGG-TG-GG-GGTGACTT
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * * * * * *
2162917 GTATTTGTATAGAGGTGAAGGTGGAGTCTC
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* ** * * * * *
2162947 ATACTTGTACAGAGGTGAAGTTGGAGACTC
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * * *
2162977 ATACTTGTACGGAGGTGGTGGTGGTGACTT
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * *
2163007 GTACTGGTATGGAGGTGGAGGTGGTGACTC
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * * *
2163037 GTACTTGTACGGAGGAGGTGCTGGCGACTT
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* ** * *
2163067 GTATTTGTATGGAGCTGGAGGTGGGGACTC
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * * *
2163097 ATACTTGTACGGAGGTGGTGGTGGTGACTT
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* *
2163127 GTACTTGTATGGAGGCGGAGGTGGTGACTC
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * *
2163157 GTACTTGTACGGAGGAAGAGATGGTGACTT
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * *
2163187 GTACTTGTATGGAGGTGAAGGTGGTGACTC
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* * *
2163217 GTACTTGTACGGAGGAAGAGGTGGTGGCTT
1 GTACTTGTATGGAGGAGGAGGTGGTGACTT
* *
2163247 GTATTTGTATGGAGGTGGAG
1 GTACTTGTATGGAGGAGGAG
2163267 ACTCATATTT
Statistics
Matches: 742, Mismatches: 235, Indels: 60
0.72 0.23 0.06
Matches are distributed among these distances:
26 2 0.00
27 14 0.02
28 2 0.00
29 25 0.03
30 673 0.91
31 26 0.04
ACGTcount: A:0.22, C:0.08, G:0.39, T:0.31
Consensus pattern (30 bp):
GTACTTGTATGGAGGAGGAGGTGGTGACTT
Found at i:2162793 original size:60 final size:60
Alignment explanation
Indices: 2162724--2163386 Score: 238
Period size: 60 Copynumber: 11.2 Consensus size: 60
2162714 ACATATGGAA
* * * *
2162724 GAGGAGGTGGTGATTTGTA-TATGTATGGAGGTGGTGGTGGTGACTCATATTTGTACGGAG
1 GAGGTGGTGGTGATTTGTACT-TGTACGGAGGTGGAGGTGGTGACTCATAATTGTACGGAG
* * * *
2162784 GTGGTGGTGGTGATTTGTACTTGTACGGAGGTGGAGGTGGTGACTCGTAATTGTATGGGG
1 GAGGTGGTGGTGATTTGTACTTGTACGGAGGTGGAGGTGGTGACTCATAATTGTACGGAG
* * * ** * * *
2162844 GAGGTGGTAGCGATTTGTTCTTGTACATAGAAT-GAGGTGGTTG-GTCATACTTGTAC---G
1 GAGGTGGTGGTGATTTGTACTTGTACGGAG-GTGGAGGTGG-TGACTCATAATTGTACGGAG
* * * ** * * * * *
2162901 GAGGTGGGGGTGACTTGTATTTGTATAGAGGTGAAGGTGGAGTCTCATACTTGTACAGAG
1 GAGGTGGTGGTGATTTGTACTTGTACGGAGGTGGAGGTGGTGACTCATAATTGTACGGAG
* ** * * * ** * ** * * *
2162961 GTGAAGTTGGAGACTCATACTTGTACGGAGGTGGTGGTGGTGACTTGTACTGGTATGGAG
1 GAGGTGGTGGTGATTTGTACTTGTACGGAGGTGGAGGTGGTGACTCATAATTGTACGGAG
* * * * * * * * ** * *
2163021 GTGGAGGTGGTGACTCGTACTTGTACGGAGGAGGTGCTGGCGACTTGTATTTGTATGGAG
1 GAGGTGGTGGTGATTTGTACTTGTACGGAGGTGGAGGTGGTGACTCATAATTGTACGGAG
** * * * ** * ** * *
2163081 CTGGAGGTGGGGACTCATACTTGTACGGAGGTGGTGGTGGTGACTTGTACTTGTATGGAG
1 GAGGTGGTGGTGATTTGTACTTGTACGGAGGTGGAGGTGGTGACTCATAATTGTACGGAG
* * * * ** * ** * *
2163141 GCGGAGGTGGTGACTCGTACTTGTACGGAGGAAGAGATGGTGACTTGTACTTGTATGGAG
1 GAGGTGGTGGTGATTTGTACTTGTACGGAGGTGGAGGTGGTGACTCATAATTGTACGGAG
* ** * * ** * ** * *
2163201 GTGAAGGTGGTGACTCGTACTTGTACGGAGGAAGAGGTGGTGGCTTGTATTTGTA---TG
1 GAGGTGGTGGTGATTTGTACTTGTACGGAGGTGGAGGTGGTGACTCATAATTGTACGGAG
* * ** * * ** * * * *
2163258 GA---GGTGGAGACTCATATTTGTAAGGAGGAAGAGGCGGTGACTCGTATTTGTACAGAG
1 GAGGTGGTGGTGATTTGTACTTGTACGGAGGTGGAGGTGGTGACTCATAATTGTACGGAG
* ** * ** *
2163315 AAAATGGTGGTGACTT-TACTTGTACGGAGGTGGAGGTGAAGACTCATACTTGTACGGA-
1 GAGGTGGTGGTGATTTGTACTTGTACGGAGGTGGAGGTGGTGACTCATAATTGTACGGAG
2163373 GACGGTGGTGGTGA
1 GA-GGTGGTGGTGA
2163387 CTTATAAGTG
Statistics
Matches: 482, Mismatches: 106, Indels: 31
0.78 0.17 0.05
Matches are distributed among these distances:
54 43 0.09
56 2 0.00
57 45 0.09
58 1 0.00
59 41 0.09
60 346 0.72
61 4 0.01
ACGTcount: A:0.21, C:0.10, G:0.40, T:0.30
Consensus pattern (60 bp):
GAGGTGGTGGTGATTTGTACTTGTACGGAGGTGGAGGTGGTGACTCATAATTGTACGGAG
Found at i:2163286 original size:54 final size:55
Alignment explanation
Indices: 2162972--2163309 Score: 264
Period size: 60 Copynumber: 5.8 Consensus size: 55
2162962 TGAAGTTGGA
* ** * * *
2162972 GACTCATACTTGTACGGAGGTGGTGGTGGTGACTTGTACTGGTATGGAGGTGGAGGTGGT
1 GACTCGTACTTGTACGGAGGAAGAGGTGGTGACTTGTA-T--T-TGTATG-GGAGGTGGT
* * * * *
2163032 GACTCGTACTTGTACGGAGGAGGTGCTGGCGACTTGTATTTGTATGGAGCTGGAGGTGGG
1 GACTCGTACTTGTACGGAGGAAGAGGTGGTGACTTGTATTTGTAT---G--GGAGGTGGT
* ** * *
2163092 GACTCATACTTGTACGGAGGTGGTGGTGGTGACTTGTACTTGTATGGAGGCGGAGGTGGT
1 GACTCGTACTTGTACGGAGGAAGAGGTGGTGACTTGTATTTGTAT----G-GGAGGTGGT
* *
2163152 GACTCGTACTTGTACGGAGGAAGAGATGGTGACTTGTACTTGTATGGAGGTGAAGGTGGT
1 GACTCGTACTTGTACGGAGGAAGAGGTGGTGACTTGTATTTGTAT---GG-G-AGGTGGT
* *
2163212 GACTCGTACTTGTACGGAGGAAGAGGTGGTGGCTTGTATTTGTAT-GGAGGTGGA
1 GACTCGTACTTGTACGGAGGAAGAGGTGGTGACTTGTATTTGTATGGGAGGTGGT
* * * * *
2163266 GACTCATATTTGTAAGGAGGAAGAGGCGGTGACTCGTATTTGTA
1 GACTCGTACTTGTACGGAGGAAGAGGTGGTGACTTGTATTTGTA
2163310 CAGAGAAAAT
Statistics
Matches: 238, Mismatches: 33, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
54 44 0.18
55 1 0.00
56 4 0.02
57 1 0.00
58 1 0.00
59 5 0.02
60 180 0.76
61 2 0.01
ACGTcount: A:0.20, C:0.11, G:0.40, T:0.29
Consensus pattern (55 bp):
GACTCGTACTTGTACGGAGGAAGAGGTGGTGACTTGTATTTGTATGGGAGGTGGT
Found at i:2168950 original size:43 final size:43
Alignment explanation
Indices: 2168898--2169191 Score: 279
Period size: 43 Copynumber: 6.9 Consensus size: 43
2168888 TTTTTTAAAA
* * *
2168898 AAAAACGCCGCAATGGGTATTGATATTTAGCGGCGTTTGTCAC
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAT
*
2168941 AAAAACGCCGTAATAGGTGTTGATATTTAGCGGCGTTTGTCAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAT
* * **
2168984 AAAAATGCCACAATAAATGTTGATATTTAGCGGCGTTTGTCAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAT
* * * *
2169027 AAAAACGCCGCAATAGGTGTAGATATTTAGCGGCGTTTTTTAG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAT
* * * *
2169070 ACAAACGCCGCAATAGGT-TATGATGTTTAGCGGTGTTT-TTAT
1 AAAAACGCCGCAATAGGTGT-TGATATTTAGCGGCGTTTGTCAT
* * ** * * * **
2169112 CTAAAACACTACAGTAGGTGTTGATGTTTTGCGGCGTTT-TCCC
1 -AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAT
* * * * *
2169155 ATAAACGCCGCAGTAGGTTTTGATGTTTTGCGGCGTT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTT
2169192 AAGGTCTGTA
Statistics
Matches: 209, Mismatches: 39, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
42 35 0.17
43 173 0.83
44 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAT
Found at i:2169622 original size:12 final size:12
Alignment explanation
Indices: 2169602--2169636 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2169592 TCTCTTTGTG
*
2169602 CTGCCGCTGCTT
1 CTGCTGCTGCTT
*
2169614 TTGCTGCTGCTT
1 CTGCTGCTGCTT
2169626 CTGCTGCTGCT
1 CTGCTGCTGCT
2169637 CTCTCTACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.34, G:0.26, T:0.40
Consensus pattern (12 bp):
CTGCTGCTGCTT
Found at i:2169629 original size:18 final size:17
Alignment explanation
Indices: 2169585--2169630 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
2169575 TCTGCTAATA
2169585 TGCTGCTTCT-C-TTTG
1 TGCTGCTTCTGCTTTTG
**
2169600 TGCTGCCGCTGCTTTTG
1 TGCTGCTTCTGCTTTTG
2169617 CTGCTGCTTCTGCT
1 -TGCTGCTTCTGCT
2169631 GCTGCTCTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 8 0.33
16 1 0.04
17 4 0.17
18 11 0.46
ACGTcount: A:0.00, C:0.30, G:0.24, T:0.46
Consensus pattern (17 bp):
TGCTGCTTCTGCTTTTG
Found at i:2176258 original size:28 final size:28
Alignment explanation
Indices: 2176218--2176277 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
2176208 TTCAGCGATG
*
2176218 AAGGTTTAAGAGGATCAAAATTCGTCGT
1 AAGGTTTAAGAGGATCAAAATTCGCCGT
2176246 AAGGTTTAAGAGGATCAAAATTCGCCGT
1 AAGGTTTAAGAGGATCAAAATTCGCCGT
2176274 AAGG
1 AAGG
2176278 ATTTCAGGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.25
Consensus pattern (28 bp):
AAGGTTTAAGAGGATCAAAATTCGCCGT
Done.