Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 195 of 216
Found at i:60552507 original size:27 final size:27
Alignment explanation
Indices: 60552476--60552529 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
60552466 TTTATCGAGG
* *
60552476 TTATTAGTTTATTGATAAATGAATATT
1 TTATTAATTTATCGATAAATGAATATT
*
60552503 TTATTAATTTATCGATAAATTAATATT
1 TTATTAATTTATCGATAAATGAATATT
60552530 AATTTAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (27 bp):
TTATTAATTTATCGATAAATGAATATT
Found at i:60552655 original size:34 final size:37
Alignment explanation
Indices: 60552611--60552682 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 37
60552601 GAATCAAAGC
60552611 TAATTAGTTAATGTAA-C-AAA-AAAAAAGAGTTAAT
1 TAATTAGTTAATGTAACCAAAAGAAAAAAGAGTTAAT
*
60552645 TAATTGGTTAATGTAACCAAAAAGAAAAAAGAGTTAAT
1 TAATTAGTTAATGTAACC-AAAAGAAAAAAGAGTTAAT
60552683 GGTTTCAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
34 15 0.45
35 1 0.03
37 3 0.09
38 14 0.42
ACGTcount: A:0.54, C:0.04, G:0.14, T:0.28
Consensus pattern (37 bp):
TAATTAGTTAATGTAACCAAAAGAAAAAAGAGTTAAT
Found at i:60566081 original size:21 final size:21
Alignment explanation
Indices: 60566043--60566084 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
60566033 TACACGGACA
**
60566043 ATACGAAATCAATAAAAAAAT
1 ATACGAAAGAAATAAAAAAAT
*
60566064 ATACGAAAGAAATCAAAAAAT
1 ATACGAAAGAAATAAAAAAAT
60566085 TTTAAAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (21 bp):
ATACGAAAGAAATAAAAAAAT
Found at i:60566798 original size:20 final size:21
Alignment explanation
Indices: 60566760--60566799 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
60566750 GTTTTTATAT
60566760 TATTTTCATATATTATTATTA
1 TATTTTCATATATTATTATTA
60566781 TATTTT-ATA-ATGTATTATT
1 TATTTTCATATAT-TATTATT
60566800 CTTTAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 10 0.56
21 6 0.33
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (21 bp):
TATTTTCATATATTATTATTA
Found at i:60567110 original size:36 final size:35
Alignment explanation
Indices: 60567052--60567119 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
60567042 ATATATAATT
*
60567052 TTAAAACCTATTTTTATTTATACATGATTTGTATC
1 TTAAAACCTATTTTTATATATACATGATTTGTATC
* *
60567087 TTAAAACCCTA-TTTTATCATATACGTGGTTTGT
1 TTAAAA-CCTATTTTTAT-ATATACATGATTTGT
60567120 CTCAACTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 12 0.43
36 16 0.57
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (35 bp):
TTAAAACCTATTTTTATATATACATGATTTGTATC
Found at i:60570406 original size:19 final size:19
Alignment explanation
Indices: 60570360--60570406 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
60570350 GCAAACTCTC
*
60570360 AAAAGCAAAGAAGCAACAA
1 AAAAGCAAAAAAGCAACAA
**
60570379 ACAAA-CAAAAAAGTGACAA
1 A-AAAGCAAAAAAGCAACAA
60570398 AAAAGCAAA
1 AAAAGCAAA
60570407 TGCACTACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.13
19 17 0.74
20 3 0.13
ACGTcount: A:0.70, C:0.15, G:0.13, T:0.02
Consensus pattern (19 bp):
AAAAGCAAAAAAGCAACAA
Found at i:60571151 original size:35 final size:35
Alignment explanation
Indices: 60571102--60571191 Score: 139
Period size: 35 Copynumber: 2.6 Consensus size: 35
60571092 GAAAAGAAAA
*
60571102 AGAACTACAGAAAAAAAT-GAACCAGCTGCGAGAAG
1 AGAAC-ACAAAAAAAAATAGAACCAGCTGCGAGAAG
60571137 AGAACACAAAAAAAAATAGAACCAGCTGCGAGAAG
1 AGAACACAAAAAAAAATAGAACCAGCTGCGAGAAG
*
60571172 AGAACA-GAAAAAAAATAGAA
1 AGAACACAAAAAAAAATAGAA
60571192 GAGAGAAAAG
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
34 24 0.46
35 28 0.54
ACGTcount: A:0.59, C:0.14, G:0.20, T:0.07
Consensus pattern (35 bp):
AGAACACAAAAAAAAATAGAACCAGCTGCGAGAAG
Found at i:60571207 original size:19 final size:18
Alignment explanation
Indices: 60571177--60571217 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
60571167 AGAAGAGAAC
* *
60571177 AGAAAAAAAATAGAAGAG
1 AGAAAAAAAATAAAAAAG
60571195 AGAAAAGAAAATAAAAAAG
1 AGAAAA-AAAATAAAAAAG
60571214 AGAA
1 AGAA
60571218 TACAATAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.05
Consensus pattern (18 bp):
AGAAAAAAAATAAAAAAG
Found at i:60578980 original size:18 final size:18
Alignment explanation
Indices: 60578957--60578991 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60578947 TTTTAAATGT
60578957 TATTTTAATAAGTAATAA
1 TATTTTAATAAGTAATAA
* *
60578975 TATTTTATTAATTAATA
1 TATTTTAATAAGTAATA
60578992 TTATAATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TATTTTAATAAGTAATAA
Found at i:60579349 original size:28 final size:28
Alignment explanation
Indices: 60579309--60579364 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
60579299 TATTAGAAGT
60579309 GTGAAAAATGAATAAAAATGAATGGGGA
1 GTGAAAAATGAATAAAAATGAATGGGGA
*
60579337 GTGAAAAATGAATAAAAATGGATGGGGA
1 GTGAAAAATGAATAAAAATGAATGGGGA
60579365 AATAGAGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.30, T:0.18
Consensus pattern (28 bp):
GTGAAAAATGAATAAAAATGAATGGGGA
Found at i:60592768 original size:42 final size:42
Alignment explanation
Indices: 60592720--60592814 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 42
60592710 CTCGGTATCT
* *
60592720 CACACTTAGTGCCCGTTATTCAACATTATCATTTTAATTTCG
1 CACACTTAGTGCCCATTATTCAACATCATCATTTTAATTTCG
* *
60592762 CACACTTAGTGCCCATTATTCAACATCGTCATTTTAGTTTCG
1 CACACTTAGTGCCCATTATTCAACATCATCATTTTAATTTCG
60592804 CACACTTAGTG
1 CACACTTAGTG
60592815 TCGTTCATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (42 bp):
CACACTTAGTGCCCATTATTCAACATCATCATTTTAATTTCG
Found at i:60594525 original size:17 final size:17
Alignment explanation
Indices: 60594505--60594537 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
60594495 TTTTAATTAG
60594505 TGAAATTTGTGATTTAT
1 TGAAATTTGTGATTTAT
*
60594522 TGAATTTTGTGATTTA
1 TGAAATTTGTGATTTA
60594538 AAAAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (17 bp):
TGAAATTTGTGATTTAT
Found at i:60595814 original size:46 final size:46
Alignment explanation
Indices: 60595761--60595944 Score: 305
Period size: 46 Copynumber: 4.0 Consensus size: 46
60595751 CCATGGAAAA
* *
60595761 TTGTGAAAAGTAGGTCTGGTGTTTCAGTGAAGAAAGCCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
60595807 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* *
60595853 TTGTGAAAAGTAGGTATGATGTTTCAGTGAAGAAAACCATACTGAA
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * *
60595899 TTGTGAAAAGTAGGTATGGTATTTCCGTAAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
60595945 CTATATCAAT
Statistics
Matches: 129, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:60601282 original size:21 final size:21
Alignment explanation
Indices: 60601258--60601390 Score: 117
Period size: 21 Copynumber: 6.3 Consensus size: 21
60601248 GTGTTTTTCT
*
60601258 TTCTGTTTAGCTCTTTCGAGC
1 TTCTGTTCAGCTCTTTCGAGC
* *
60601279 TTCTGTTTAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTTCGAGC
* **
60601300 TTCTGTTCAACTCTTAT-GAAT
1 TTCTGTTCAGCTCTT-TCGAGC
* * *
60601321 TTTTGTTCAGCTCCTCCGAGC
1 TTCTGTTCAGCTCTTTCGAGC
* * *
60601342 TTTTGTTTAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTTCGAGC
*
60601363 TTCTGTTCAACTCTTAT-GAGC
1 TTCTGTTCAGCTCTT-TCGAGC
60601384 TTCTGTT
1 TTCTGTT
60601391 GACGTGTCTG
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
21 90 1.00
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTTCGAGC
Found at i:60606526 original size:62 final size:62
Alignment explanation
Indices: 60606429--60606559 Score: 235
Period size: 62 Copynumber: 2.1 Consensus size: 62
60606419 CAAGTGTGAC
*
60606429 ATGTTGAGATAATAAGGTTTTCGATGTTGAATTTATAGGAAATATGTTCAAGTATGCTAACA
1 ATGTTGAGATAATAAGGTTATCGATGTTGAATTTATAGGAAATATGTTCAAGTATGCTAACA
*
60606491 ATGTTGAGATAATAAGGTTATCGATGTTGAATTTATATGAAATATGTTCAAGTATGCTAACA
1 ATGTTGAGATAATAAGGTTATCGATGTTGAATTTATAGGAAATATGTTCAAGTATGCTAACA
60606553 AGTGTTG
1 A-TGTTG
60606560 TTGTTTGATG
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
62 61 0.92
63 5 0.08
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.37
Consensus pattern (62 bp):
ATGTTGAGATAATAAGGTTATCGATGTTGAATTTATAGGAAATATGTTCAAGTATGCTAACA
Found at i:60609500 original size:43 final size:43
Alignment explanation
Indices: 60609430--60609631 Score: 196
Period size: 43 Copynumber: 4.7 Consensus size: 43
60609420 GTAAAGATCT
* * * * * * *
60609430 TACAATGCCCACGTCCTAGATAAGGTCTTGCATGT-AATCAAA
1 TACAATGCCAATGTCCCAGACAGGGTCTTACACGTAAATCAAA
* *
60609472 TATCAATGCCACTGTCCCAGACAGGGTCTTACACGTAAATCATA
1 TA-CAATGCCAATGTCCCAGACAGGGTCTTACACGTAAATCAAA
* * *
60609516 TACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATA
1 TACAATGCCAATGTCCCAGACAGGGTCTTACACGTAAATCAAA
* * *
60609559 TACGATGCCAATGTCCCAGACATGGTCTTACACGTAGATCTCAAA
1 TACAATGCCAATGTCCCAGACAGGGTCTTACACGTA-A-ATCAAA
60609604 T-CAATGCC-ATCGTCCCAGAC-GTGGTCTT
1 TACAATGCCAAT-GTCCCAGACAG-GGTCTT
60609632 TCACAATATT
Statistics
Matches: 138, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
42 2 0.01
43 101 0.73
44 30 0.22
45 5 0.04
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACAGGGTCTTACACGTAAATCAAA
Found at i:60616134 original size:43 final size:43
Alignment explanation
Indices: 60616075--60616227 Score: 220
Period size: 43 Copynumber: 3.6 Consensus size: 43
60616065 CAATGCCCAC
* * *
60616075 GTCCCAGACGA-GGTCTTGCATGT-AATCAAATATCGATGCCACT
1 GTCCCAGAC-ATGGTCTTACACGTAAATCAAATA-CGATGCCAAT
* *
60616118 GTCCTAGACATGGTCTTACACGTAAATCATATACGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATACGATGCCAAT
*
60616161 GTCCCAGACATGGTCTTACACGTAAATCATATACGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATACGATGCCAAT
60616204 GTCCCAGACATGGTCTTACACGTA
1 GTCCCAGACATGGTCTTACACGTA
60616228 GATCTCAAAT
Statistics
Matches: 102, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
42 1 0.01
43 93 0.91
44 8 0.08
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATACGATGCCAAT
Found at i:60618483 original size:19 final size:21
Alignment explanation
Indices: 60618459--60618501 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
60618449 GCACCTAAGA
60618459 TGATTGT-TTTGA-CATGTTT
1 TGATTGTATTTGATCATGTTT
*
60618478 TGATTGTATTTGATCGTGTTT
1 TGATTGTATTTGATCATGTTT
60618499 TGA
1 TGA
60618502 ATTGGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.16, C:0.05, G:0.23, T:0.56
Consensus pattern (21 bp):
TGATTGTATTTGATCATGTTT
Found at i:60623948 original size:18 final size:19
Alignment explanation
Indices: 60623913--60623951 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60623903 AGTACATATT
60623913 TTTTAAAAAAATTATAAAA
1 TTTTAAAAAAATTATAAAA
* *
60623932 TTTTGAAAATATT-TAAAA
1 TTTTAAAAAAATTATAAAA
60623950 TT
1 TT
60623952 CGAAGAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
TTTTAAAAAAATTATAAAA
Found at i:60625959 original size:65 final size:67
Alignment explanation
Indices: 60625844--60625975 Score: 164
Period size: 67 Copynumber: 2.0 Consensus size: 67
60625834 AGATGCACGA
60625844 GTCTGTAGGTGTTAAATATATATATGCGTGAGATTGGAGTCATAAATAT-A-ATATATATGAGTG
1 GTCTGTAGGTGTTAAATATATATATGCGTGAGATTGGAGTCATAAATATAATATATATATGAGTG
60625907 GG
66 GG
* * * ***
60625909 GTCTGTTGGTGTTAAACATATATATATGCGTGAGTTTGG-GT-TTTTTTATAATATATATATGAG
1 GTCTGTAGGTGTT-AA-ATATATATATGCGTGAGATTGGAGTCATAAATATAATATATATATGAG
60625972 TGGG
64 TGGG
60625976 TTTATATATA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
65 16 0.28
66 5 0.09
67 36 0.63
ACGTcount: A:0.30, C:0.05, G:0.26, T:0.40
Consensus pattern (67 bp):
GTCTGTAGGTGTTAAATATATATATGCGTGAGATTGGAGTCATAAATATAATATATATATGAGTG
GG
Found at i:60650122 original size:26 final size:27
Alignment explanation
Indices: 60650085--60650140 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
60650075 CTTAAATAAA
*
60650085 TTTATTTAACTTTACTCGATTTG-AAT
1 TTTATTTAACTTGACTCGATTTGTAAT
* * *
60650111 TTTATTTCACTTGATTCGGTTTGTAAT
1 TTTATTTAACTTGACTCGATTTGTAAT
60650138 TTT
1 TTT
60650141 TTAAAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.57
Consensus pattern (27 bp):
TTTATTTAACTTGACTCGATTTGTAAT
Found at i:60656887 original size:25 final size:25
Alignment explanation
Indices: 60656848--60656900 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
60656838 TTACCAATAC
*
60656848 TCAGCTCACATGAGCTTCCCGTTAT
1 TCAGCTCACACGAGCTTCCCGTTAT
*
60656873 TCAGCTCGCACGAGCTTCCCGTTAT
1 TCAGCTCACACGAGCTTCCCGTTAT
60656898 TCA
1 TCA
60656901 TCTGGGAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.19, C:0.34, G:0.17, T:0.30
Consensus pattern (25 bp):
TCAGCTCACACGAGCTTCCCGTTAT
Found at i:60656912 original size:25 final size:25
Alignment explanation
Indices: 60656848--60656914 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
60656838 TTACCAATAC
* *
60656848 TCAGCTCACATGAGCTTCCCGTTAT
1 TCAGCTCGCAAGAGCTTCCCGTTAT
*
60656873 TCAGCTCGCACGAGCTTCCCGTTAT
1 TCAGCTCGCAAGAGCTTCCCGTTAT
* * *
60656898 TCATCTGGGAAGAGCTT
1 TCAGCTCGCAAGAGCTT
60656915 ACTGTTTACA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (25 bp):
TCAGCTCGCAAGAGCTTCCCGTTAT
Found at i:60656960 original size:24 final size:24
Alignment explanation
Indices: 60656906--60656951 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
60656896 ATTCATCTGG
*
60656906 GAAGAGCTTACTGTTTACAGCTTA
1 GAAGAGCTTACCGTTTACAGCTTA
60656930 GAAGAGCTTACCGTTTACAGCT
1 GAAGAGCTTACCGTTTACAGCT
60656952 CGTATGAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
GAAGAGCTTACCGTTTACAGCTTA
Found at i:60661848 original size:27 final size:27
Alignment explanation
Indices: 60661784--60661886 Score: 98
Period size: 27 Copynumber: 3.7 Consensus size: 27
60661774 TACTATTACA
* * *
60661784 ACAACAACAACAACAATGGCTACACTCTC
1 ACAACTACAACAACAATGGCTACA-AC-G
* *
60661813 AGCAGCTACAACAACAATGGCTACAGCG
1 A-CAACTACAACAACAATGGCTACAACG
** * *
60661841 GGAACTACAACACCAATGGCTACAATG
1 ACAACTACAACAACAATGGCTACAACG
60661868 ACAACTACAACAACAATGG
1 ACAACTACAACAACAATGG
60661887 GTATGAGACA
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
27 37 0.62
29 2 0.03
30 21 0.35
ACGTcount: A:0.44, C:0.29, G:0.15, T:0.13
Consensus pattern (27 bp):
ACAACTACAACAACAATGGCTACAACG
Found at i:60664540 original size:3 final size:3
Alignment explanation
Indices: 60664529--60664589 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
60664519 CAATAATACC
* * *
60664529 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
60664574 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
60664590 GCAAAAGTAC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 1 0.02
3 49 0.98
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:60666232 original size:87 final size:87
Alignment explanation
Indices: 60666116--60666496 Score: 219
Period size: 87 Copynumber: 4.4 Consensus size: 87
60666106 AGACTTGATG
* * * * * * * *
60666116 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCACTCCACTGTAACT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTC-TGACTTCAATCCACTCCACTGTAACC
* *
60666180 TCAGGGAGATAGGATAGTG-TCTT
65 TCAGGGAGATAAGAT-CTGATCTT
* **
60666203 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCACTCCACTGTAACCT
60666268 CAGGGAGATAAGATCTGAAATTCTT
66 CAGGGAGATAAGATCTG--A-TCTT
* * * * * ** * *
60666293 TGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA-C-CTGA-TGT-GATCTTCTCTACTGTAACT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGACT-TCAATCCACTCCACTGTAACC
*
60666354 TCAGAGAGATAAGATC----CTT
65 TCAGGGAGATAAGATCTGATCTT
** * ** * * ** ** * *
60666373 TAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-TACT-ATCTTTGATCTGCTCCGCTGTAAT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGA-CTTCAATCCACTCCACTGTAAC
60666436 CTCAGGGAGATAAGATCTGAAATTCTT
64 CTCAGGGAGATAAGATCTG--A-TCTT
* * * *
60666463 TGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
60666497 CCTGTATTAT
Statistics
Matches: 232, Mismatches: 43, Indels: 35
0.75 0.14 0.11
Matches are distributed among these distances:
80 30 0.13
81 1 0.00
82 3 0.01
83 30 0.13
86 2 0.01
87 96 0.41
88 5 0.02
89 1 0.00
90 64 0.28
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (87 bp):
CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCACTCCACTGTAACCT
CAGGGAGATAAGATCTGATCTT
Found at i:60666319 original size:46 final size:45
Alignment explanation
Indices: 60666167--60666496 Score: 239
Period size: 44 Copynumber: 7.6 Consensus size: 45
60666157 TTTTAATCCA
* * *
60666167 CTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGTGTCTTCGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT-TCTTTGATCTG
* * * **
60666210 CTCCGCTGTAATCTCAGGGAGATAAGATCT--CTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTTGATCTG
* *
60666254 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGATCTG
* * * *
60666300 TTCCACTGTAATCTCAGGGAGATAAGACCTG-A---TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGATCTG
* * * *
60666341 CTCTACTGTAA-CTTCAGAGAGATAAGATC------CTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTGAATTCTTTGATCTG
* * * *
60666380 CTCCATTGTAATCTCAAGGAGATAGGAT-T-ACTATCTTTGATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTTGATCTG
* *
60666424 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGATCTG
*
60666470 TTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
60666497 CCTGTATTAT
Statistics
Matches: 228, Mismatches: 41, Indels: 33
0.75 0.14 0.11
Matches are distributed among these distances:
39 26 0.11
40 2 0.01
41 29 0.13
43 23 0.10
44 73 0.32
45 2 0.01
46 70 0.31
47 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (45 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGATCTG
Found at i:60679144 original size:3 final size:3
Alignment explanation
Indices: 60679133--60679193 Score: 63
Period size: 3 Copynumber: 20.3 Consensus size: 3
60679123 CAATAATACC
* * *
60679133 AAT ACT AAT AAT AGT AA- AGAT GAT AA- AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
60679177 AAT AAT AAAT AAT AAT A
1 AAT AAT -AAT AAT AAT A
60679194 GCAAAAGTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 3 0.06
3 42 0.88
4 3 0.06
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:60681466 original size:43 final size:42
Alignment explanation
Indices: 60681403--60681520 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
60681393 TTTTTTTAAG
* *
60681403 CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT-TTCCCACAAA
1 CGCCGCTAAAGAAC-AGACCTTTAGCGACGCTTCTT-CCACAAA
* *
60681446 CGCCACTAAAGAACATGACCTTTAGCGACGCTTCTTTCACAAA
1 CGCCGCTAAAGAACA-GACCTTTAGCGACGCTTCTTCCACAAA
* * *
60681489 CGCCGCAAAAAAACAAACCTTTAGCGACGCTT
1 CGCCGCTAAAGAACAGACCTTTAGCGACGCTT
60681521 GTAGCAAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
42 17 0.26
43 46 0.71
44 2 0.03
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.19
Consensus pattern (42 bp):
CGCCGCTAAAGAACAGACCTTTAGCGACGCTTCTTCCACAAA
Found at i:60686124 original size:147 final size:147
Alignment explanation
Indices: 60685946--60686304 Score: 429
Period size: 147 Copynumber: 2.4 Consensus size: 147
60685936 AGGGGGATTT
* * *
60685946 TATAAAATGGC-TCAATTTTTTAAAAGTAAAATTGTTTTTTGTGGCGTTTTTTATAAAAACGCCG
1 TATAAAATGACGTTAATTTTTT-AAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCG
* * * * ** * * *
60686010 CTATTGTTTAGCTTTTACGGCGTTTTTCA-GAAAAATGTC-TTAAAAAATTATTTTATTTGGAAT
65 CTATTGCTCA-CTTTTACGGCGTTTTT-ATGAAAAACGCCGCAAAAAAATCATTTCATTCGGAAT
* *
60686073 AAAACGACATTGTTTTGTTA
128 AAAACGACACTGTTTTGCTA
* *
60686093 TATAAAATGACGTTAATTTTTTAAACTAAAATTACTTTTTGTGGCGTTTTTTATAAAAACGCCGC
1 TATAAAATGACGTTAATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGC
* *
60686158 TATTGCTCACTTTTGCGGCGTTTTTATGTAAAACGCCGCAAAAAAATCATTTCATTCGGAATAAA
66 TATTGCTCACTTTTACGGCGTTTTTATGAAAAACGCCGCAAAAAAATCATTTCATTCGGAATAAA
60686223 ACGACACTGTTTTGCTA
131 ACGACACTGTTTTGCTA
* ** * * *
60686240 TGCTAAAAATCTCGCT-ATTTTTTAAAGTAAAACTATTTTTTGTGGCATTTTTTATAAAAACGCC
1 T-AT-AAAATGACGTTAATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCC
60686304 G
64 G
60686305 TAAAAAATAT
Statistics
Matches: 181, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
145 1 0.01
146 22 0.12
147 95 0.52
148 55 0.30
149 8 0.04
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (147 bp):
TATAAAATGACGTTAATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGC
TATTGCTCACTTTTACGGCGTTTTTATGAAAAACGCCGCAAAAAAATCATTTCATTCGGAATAAA
ACGACACTGTTTTGCTA
Found at i:60686769 original size:56 final size:55
Alignment explanation
Indices: 60686573--60686807 Score: 278
Period size: 55 Copynumber: 4.2 Consensus size: 55
60686563 CTAATTAATC
* *
60686573 TAAACCCTAACCCGACCCTTGAATCCCTAAA-CCTTAAATCCTAAACTCTAAACTT
1 TAAACCCTAACCCGACCCTTGAATCCCTAAATCC-TAAACCCTAAACACTAAACTT
* ** *
60686628 TAAACCATAACCCGACCCTTGAATCCCTAACCCCTAAACCCTAAACTCTAAACTT
1 TAAACCCTAACCCGACCCTTGAATCCCTAAATCCTAAACCCTAAACACTAAACTT
* * *
60686683 TAAACCCTAACCCGACCATTGAATCTCTAAATCCTAACCCCTAAATCACTAACAC-T
1 TAAACCCTAACCCGACCCTTGAATCCCTAAATCCTAAACCCTAAA-CACTAA-ACTT
* * * *
60686739 TAACCCCTAACCTGACCCTTGAATCCCTAAATCATAACCCCTAAATCACT-AACTAT
1 TAAACCCTAACCCGACCCTTGAATCCCTAAATCCTAAACCCTAAA-CACTAAACT-T
*
60686795 TAACCCCTAACCC
1 TAAACCCTAACCC
60686808 ATAACTACTA
Statistics
Matches: 159, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
54 2 0.01
55 89 0.56
56 66 0.42
57 2 0.01
ACGTcount: A:0.36, C:0.37, G:0.03, T:0.23
Consensus pattern (55 bp):
TAAACCCTAACCCGACCCTTGAATCCCTAAATCCTAAACCCTAAACACTAAACTT
Found at i:60686782 original size:14 final size:15
Alignment explanation
Indices: 60686763--60686791 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
60686753 ACCCTTGAAT
60686763 CCCTAAATCA-TAAC
1 CCCTAAATCACTAAC
60686777 CCCTAAATCACTAAC
1 CCCTAAATCACTAAC
60686792 TATTAACCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCACTAAC
Found at i:60686814 original size:21 final size:22
Alignment explanation
Indices: 60686773--60686828 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
60686763 CCCTAAATCA
* *
60686773 TAACCCCTAAATCACTAACTAT
1 TAACCCCTAAACCACTAACTAC
*
60686795 TAACCCCTAACCCA-TAACTAC
1 TAACCCCTAAACCACTAACTAC
60686816 TAACCCCTAAACC
1 TAACCCCTAAACC
60686829 TTAAATCACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.21
Consensus pattern (22 bp):
TAACCCCTAAACCACTAACTAC
Found at i:60687205 original size:15 final size:15
Alignment explanation
Indices: 60687170--60687208 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
60687160 AACTTTTGAA
60687170 CCATAAACC-ATAAC
1 CCATAAACCTATAAC
* *
60687184 CCTTAAACCTATAAT
1 CCATAAACCTATAAC
60687199 CCATAAACCT
1 CCATAAACCT
60687209 TAAAATGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (15 bp):
CCATAAACCTATAAC
Found at i:60687697 original size:114 final size:114
Alignment explanation
Indices: 60687375--60687892 Score: 745
Period size: 114 Copynumber: 4.6 Consensus size: 114
60687365 CTTTAAAATG
* * * *
60687375 CCGCTAAATCCCCGAAAGCTTAAAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTCCC
1 CCGCTAAATCCCCGAGAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCC
* * *
60687440 CAAAAACACCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACA
66 CAAAAACGCCACTAAAGACCTGAGCATTAGCGGCGCTTCCTTAAAAACA
* * ** *
60687489 CCGCTAAATCCCCGAAAGCTTAG-AAACGGCACCGTTGGGCTTATGTTTTTTTGCGGCGC-TTCC
1 CCGCTAAATCCCCGAGAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCC
* *
60687552 CTAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACA
66 C-AAAAACGCCACTAAAGACCTGAGCATTAGCGGCGCTTCCTTAAAAACA
* * * *
60687602 CCGCTAAATCCTCGAGAGCTCATAAAACGGCGTTGTTGGGCTTAGGTTTTTTTCCGGCGCTTTCC
1 CCGCTAAATCCCCGAGAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCC
* * *
60687667 CAAAAACGCCACTAAAGACCTGAGCTTTAGCCGCGCTTCCTTAAAAACG
66 CAAAAACGCCACTAAAGACCTGAGCATTAGCGGCGCTTCCTTAAAAACA
* *
60687716 CCGCTAAATCCCCGAGAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCGGTGCTTTCC
1 CCGCTAAATCCCCGAGAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCC
* * *
60687781 CAAAAACGCCACTAAAGACCTGATCTTTAGCGGCGCTTCCTTAAAAACG
66 CAAAAACGCCACTAAAGACCTGAGCATTAGCGGCGCTTCCTTAAAAACA
* **
60687830 CTGCTAAATCCCCGAGAGCTCAGAAAACAACGTCGTTGGGCTTAGG-TTTTTTGCGGCGCTTTC
1 CCGCTAAATCCCCGAGAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
60687893 TGGAAAATGC
Statistics
Matches: 370, Mismatches: 31, Indels: 7
0.91 0.08 0.02
Matches are distributed among these distances:
112 4 0.01
113 115 0.31
114 246 0.66
115 5 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (114 bp):
CCGCTAAATCCCCGAGAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCC
CAAAAACGCCACTAAAGACCTGAGCATTAGCGGCGCTTCCTTAAAAACA
Found at i:60688998 original size:17 final size:17
Alignment explanation
Indices: 60688963--60688995 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
60688953 TACGATTTGG
60688963 TTGAGAAACTTATTTAA
1 TTGAGAAACTTATTTAA
60688980 TTGAGAAA-TTATTTAA
1 TTGAGAAACTTATTTAA
60688996 ATTAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (17 bp):
TTGAGAAACTTATTTAA
Found at i:60689919 original size:84 final size:84
Alignment explanation
Indices: 60689774--60689940 Score: 257
Period size: 84 Copynumber: 2.0 Consensus size: 84
60689764 TATGTTTTAT
* *
60689774 TATGGTACCTGTACTTTCATAAAATGTCAAATGTGATACCTGCACTTTGAAAATGTTCAATATGG
1 TATGGTACCTGTACTTTCATAAAATGTCAAATGTGATACCTGCACTTTGAAAATATCCAATATGG
60689839 TATTTGAACTATCAATATG
66 TATTTGAACTATCAATATG
* **
60689858 TATGGTACTTGGT-CTTTCATAAAATGTCAAATGT-AGTATTTGCACTTTGAAAATATCCAATAT
1 TATGGTACCT-GTACTTTCATAAAATGTCAAATGTGA-TACCTGCACTTTGAAAATATCCAATAT
60689921 GGTATTTGAACTATCAATAT
64 GGTATTTGAACTATCAATAT
60689941 ATGCTTTATT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
83 1 0.01
84 73 0.96
85 2 0.03
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (84 bp):
TATGGTACCTGTACTTTCATAAAATGTCAAATGTGATACCTGCACTTTGAAAATATCCAATATGG
TATTTGAACTATCAATATG
Found at i:60707888 original size:97 final size:99
Alignment explanation
Indices: 60707713--60707911 Score: 244
Period size: 97 Copynumber: 2.0 Consensus size: 99
60707703 GGTTACTTGC
* * * * *
60707713 ATTTCAATCAATTTTAGATTGGATTTTATTTAGAGGAGCTCTTGGGTTAAGTCAAATTTTAGGGG
1 ATTTCAATCAATTTTAGATTGGATTCTATCTAGAGGAGCTCGTGGGTCAAGTCAAATTTCAGGGG
* * *
60707778 TGAAGTTAGAAA-TTTTTTA-GGGCTAAAATTAA
66 CGAAGTTAAAAATTTTTTTAGGGGCCAAAATTAA
* ** *
60707810 ATTTCAATCAATTTTAGATTGGATTCTATCTAGAAGTA-CTCGTGGGTCGGGTCAAA-TTCATGG
1 ATTTCAATCAATTTTAGATTGGATTCTATCTAG-AGGAGCTCGTGGGTCAAGTCAAATTTCAGGG
60707873 GCGAAGTTATAAAATTTTTTTAGGGGCCAAAATTAA
65 GCGAAGTTA-AAAATTTTTTTAGGGGCCAAAATTAA
60707909 ATT
1 ATT
60707912 ATAATTTTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
96 13 0.15
97 48 0.56
98 10 0.12
99 15 0.17
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (99 bp):
ATTTCAATCAATTTTAGATTGGATTCTATCTAGAGGAGCTCGTGGGTCAAGTCAAATTTCAGGGG
CGAAGTTAAAAATTTTTTTAGGGGCCAAAATTAA
Found at i:60712500 original size:13 final size:14
Alignment explanation
Indices: 60712475--60712503 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
60712465 TGTTGGCCTA
60712475 TTGTTGTTGTTGTT
1 TTGTTGTTGTTGTT
60712489 TTGTTG-TGTTGTT
1 TTGTTGTTGTTGTT
60712502 TT
1 TT
60712504 CGTCTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (14 bp):
TTGTTGTTGTTGTT
Found at i:60719963 original size:20 final size:20
Alignment explanation
Indices: 60719938--60719978 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
60719928 CCAAACCTTA
60719938 AGATACAAACCCTCTCAAAG
1 AGATACAAACCCTCTCAAAG
60719958 AGATACAAACCCTCTCAAAG
1 AGATACAAACCCTCTCAAAG
60719978 A
1 A
60719979 AATAATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.29, G:0.10, T:0.15
Consensus pattern (20 bp):
AGATACAAACCCTCTCAAAG
Found at i:60722409 original size:23 final size:22
Alignment explanation
Indices: 60722366--60722409 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
60722356 TTCTAAGTCG
60722366 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
60722389 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
60722410 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:60722519 original size:45 final size:45
Alignment explanation
Indices: 60722455--60722542 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
60722445 ACAGATACTC
* * *
60722455 GGTGGATTCAGCACGTAGCAACCACCTTATTAATCAATGATGTCT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCT
60722500 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
60722543 TCGGTTCACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCT
Found at i:60722616 original size:51 final size:50
Alignment explanation
Indices: 60722553--60722739 Score: 198
Period size: 51 Copynumber: 3.7 Consensus size: 50
60722543 TCGGTTCACA
* *
60722553 TAGTAGCATGCACATAGTACTACACATGTGACCATTACCATTCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATTCGATACACG
* * * * * * *
60722604 TAGTAGCCTGCACATAGAACTACACACATGATCGAAACTA-TCTGATACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATTC-GATACACG
* * * *
60722655 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATT-CGATACACG
*
60722705 TAGTAGCCTGCACATAGTACTATACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
60722740 CACTTTCACT
Statistics
Matches: 108, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 2 0.02
50 39 0.36
51 65 0.60
52 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATTCGATACACG
Found at i:60722759 original size:101 final size:99
Alignment explanation
Indices: 60722550--60722731 Score: 258
Period size: 101 Copynumber: 1.8 Consensus size: 99
60722540 TGTTCGGTTC
* *
60722550 ACATAGTAGCATGCACATAGTACTACACATGTGACCATTACCATTCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATTCGATACACGTAGTAGCCTGC
*
60722615 ACATAGAACTACACACATGATCGAAACTATCTGAT
65 ACATAGAACTACACACATGATCCAAACTATCTGAT
* *
60722650 ACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCT
1 A--CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATT-CGATACACGTAGTAGCCT
* *
60722714 GCACATAGTACTATACAC
63 GCACATAGAACTACACAC
60722732 GTGACCATCA
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 7 0.10
101 33 0.45
102 33 0.45
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.24
Consensus pattern (99 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATTCGATACACGTAGTAGCCTGCA
CATAGAACTACACACATGATCCAAACTATCTGAT
Found at i:60728866 original size:20 final size:20
Alignment explanation
Indices: 60728837--60728885 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
60728827 TTATTATTTA
*
60728837 AATTAATCTCT-AATCTTAAT
1 AATTATTCTCTAAAT-TTAAT
60728857 AATTATTCTCTCTAAATTTAAT
1 AATTA-T-TCTCTAAATTTAAT
60728879 AATTATT
1 AATTATT
60728886 TTCATCTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 6 0.24
21 1 0.04
22 15 0.60
23 3 0.12
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTATTCTCTAAATTTAAT
Found at i:60728871 original size:22 final size:22
Alignment explanation
Indices: 60728843--60728885 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
60728833 TTTAAATTAA
60728843 TCTCT-AATCTTAATAATTATTC
1 TCTCTAAAT-TTAATAATTATTC
60728865 TCTCTAAATTTAATAATTATT
1 TCTCTAAATTTAATAATTATT
60728886 TTCATCTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (22 bp):
TCTCTAAATTTAATAATTATTC
Found at i:60734139 original size:19 final size:19
Alignment explanation
Indices: 60734115--60734156 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
60734105 TTTATAAGGA
60734115 ATAAATATTAGATTT-ATAT
1 ATAAATATTAG-TTTAATAT
*
60734134 ATAAATTTTAGTTTAATAT
1 ATAAATATTAGTTTAATAT
60734153 ATAA
1 ATAA
60734157 TTTAATACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (19 bp):
ATAAATATTAGTTTAATAT
Found at i:60734857 original size:7 final size:7
Alignment explanation
Indices: 60734841--60734885 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
60734831 TCACATTTTG
60734841 AAAT-TC
1 AAATATC
60734847 AAATATC
1 AAATATC
60734854 AAATATC
1 AAATATC
60734861 AAATATC
1 AAATATC
60734868 AAATATC
1 AAATATC
60734875 AAATATC
1 AAATATC
60734882 AAAT
1 AAAT
60734886 TTTAAAAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.11
7 34 0.89
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (7 bp):
AAATATC
Found at i:60736388 original size:50 final size:49
Alignment explanation
Indices: 60736206--60736392 Score: 257
Period size: 50 Copynumber: 3.7 Consensus size: 49
60736196 GATAATAACA
* * *
60736206 TGCCAAAGCCATGTCCCAGACATGGTCTTACACGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGG--GTTCTCATCTCGG
* * **
60736257 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGGTCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGGT-TCTCATCTCGG
*
60736307 TGCCAACGCCATGTCCCATACATGGTCTTACATGGGGCTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGG-TTCTCATCTCGG
*
60736357 TGCTAACGCCATGTCCCAGACATGGTCTTACATGGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGG
60736393 ACCTCTTTAC
Statistics
Matches: 122, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
49 2 0.02
50 87 0.71
51 33 0.27
ACGTcount: A:0.19, C:0.30, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGGTTCTCATCTCGG
Found at i:60741430 original size:100 final size:104
Alignment explanation
Indices: 60741254--60741500 Score: 349
Period size: 100 Copynumber: 2.4 Consensus size: 104
60741244 TGGTAAAAAC
** *
60741254 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCCATGCCATG
*
60741319 TCCCAGACATGGTCTTACGGGGGACCTCTC-ATCTC-GG
66 TCCCAGACATGGTCTTACAGGGGACCTCTCGATCTCAGG
* * *
60741356 -TGCCAACGCCATGTCCTAGACATGGCCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCCATGCCATG
*
60741419 TCCTAGACATGGTCTTACAGGGGACCTCTCGTGATCTCAAGG
66 TCCCAGACATGGTCTTACAGGGGACCTCTC--GATCTC-AGG
* *
60741461 ATGCCAATGCCATGTCCCATACATGGTCTTACATGGGATC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATC
60741501 TCATTACCCA
Statistics
Matches: 126, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
100 51 0.40
101 34 0.27
103 5 0.04
105 2 0.02
106 33 0.26
107 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCCATGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCGATCTCAGG
Found at i:60741471 original size:56 final size:50
Alignment explanation
Indices: 60741255--60741498 Score: 290
Period size: 50 Copynumber: 4.7 Consensus size: 50
60741245 GGTAAAAACA
* * ** *
60741255 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
60741306 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
60741356 TGCCAACGCCATGTCCTAGACATGGCCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
60741406 TGCCCATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCGTGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATCTC--GG
* *
60741461 ATGCCAATGCCATGTCCCATACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA
60741499 TCTCATTACC
Statistics
Matches: 166, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
50 93 0.56
51 33 0.20
53 5 0.03
55 2 0.01
56 33 0.20
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:60746620 original size:50 final size:50
Alignment explanation
Indices: 60746456--60746649 Score: 244
Period size: 51 Copynumber: 3.8 Consensus size: 50
60746446 GATAATAACA
* * ** * *
60746456 TGCCAAAGCCATGTCCCAGACATGGTCTTACATTGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTTGG
* * * ** *
60746507 TGCCGATGCCATGTCCCAGACCTGGTCTTACGGGGGGGCCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTTGG
* *
60746558 TGCCAACACCATGTCCCAGATATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
60746608 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
60746650 TTACCCAAAT
Statistics
Matches: 121, Mismatches: 21, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
50 56 0.46
51 63 0.52
52 2 0.02
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
Found at i:60746634 original size:101 final size:102
Alignment explanation
Indices: 60746456--60746638 Score: 262
Period size: 101 Copynumber: 1.8 Consensus size: 102
60746446 GATAATAACA
* ** * *
60746456 TGCCAAAGCCATGTCCCAGACATGGTCTTACATTGGATGTTCTCATATCGGTGCCGATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATATCGGTGCCAACGCCATGT
*
60746521 CCCAGACCTGGTCTTACGGGGGGGCCTCTCATCTTGG
66 CCCAGACATGGTCTTACGGGGGGGCCTCTCATCTTGG
* * *
60746558 TGCCAACA-CCATGTCCCAGATATGGTCTTACATGGGA-CCTCTCATCTTGGTGCCAACGCCATG
1 TGCCAA-AGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATATCGGTGCCAACGCCATG
60746621 TCCCAGACATGGTCTTAC
65 TCCCAGACATGGTCTTAC
60746639 ATGGGACCTC
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 37 0.52
102 33 0.46
103 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (102 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATATCGGTGCCAACGCCATGT
CCCAGACATGGTCTTACGGGGGGGCCTCTCATCTTGG
Found at i:60751423 original size:41 final size:41
Alignment explanation
Indices: 60751366--60751463 Score: 169
Period size: 41 Copynumber: 2.4 Consensus size: 41
60751356 CTTTGAATGT
*
60751366 AAGGGGTTGCTAAGTGCAGATTCCCTGAATCATTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAA
*
60751407 AAGGGGTTGCTAAGTGCAGATTCCCCGAATTATTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAA
*
60751448 AAGGGGTTGGTAAGTG
1 AAGGGGTTGCTAAGTG
60751464 TGTTATGGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAA
Found at i:60751533 original size:13 final size:14
Alignment explanation
Indices: 60751509--60751537 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
60751499 AGGTTGTTAG
60751509 TATCAGTTAGCAGT
1 TATCAGTTAGCAGT
60751523 TATCA-TTAGCAGT
1 TATCAGTTAGCAGT
60751536 TA
1 TA
60751538 ATAAACCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (14 bp):
TATCAGTTAGCAGT
Found at i:60755658 original size:44 final size:44
Alignment explanation
Indices: 60755521--60755719 Score: 230
Period size: 44 Copynumber: 4.6 Consensus size: 44
60755511 TTGTTTATAA
* * * *
60755521 AGGTGGTTCCTAAGTGCTGATTCCACC-GTATCC-TTGATTGTG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAATATG
* * * * * * *
60755563 AAAG-GGTTGCTATGTGCTGATTCC-TC-GTAT-CATTGATTATA
1 -AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAATATG
60755604 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAATATG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAATATG
*
60755648 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAATATG
*
60755692 AGGTGGTTGCTAAGTGCTAATTCCACCG
1 AGGTGGTTGCTAAGTGCTGATTCCACCG
60755720 TGTAACGGTT
Statistics
Matches: 136, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
40 3 0.02
41 31 0.23
42 19 0.14
43 5 0.04
44 78 0.57
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (44 bp):
AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAATATG
Found at i:60764045 original size:96 final size:97
Alignment explanation
Indices: 60763945--60764166 Score: 265
Period size: 96 Copynumber: 2.3 Consensus size: 97
60763935 TTTTTAATAA
* * *
60763945 AAAAATTAATTAAATTAGGGTTTAGA-GTTACTTGAGTAATTTAATTAAAAATTATTTA-AAAAT
1 AAAAATCAAATAAATTAGGGTTTAGAGGTTACTTGAGTAAATTAATT-AAAATTATTTATAAAAT
* *
60764008 TAGATAAGG-GTTTAGAGTTAAGGGTTTTTAAGG
65 TAGATAAGGAG-TTAGAGTTAAGGGGTTTTAAGC
* * *
60764041 AAAAATCAAATAAATTAGGG-TTAAAGGTTACTTGAGTAAATTAATTATAATTTTTTATAAAATT
1 AAAAATCAAATAAATTAGGGTTTAGAGGTTACTTGAGTAAATTAATTAAAATTATTTATAAAATT
* * * *
60764105 TGATTAGGAGTTAGTGTTTAGGGGTTTTAAGC
66 AGATAAGGAGTTAGAGTTAAGGGGTTTTAAGC
*
60764137 AAAAACTCAAATAAATTAAGGTTTAG-GGTT
1 AAAAA-TCAAATAAATTAGGGTTTAGAGGTT
60764167 TAGGGTTACT
Statistics
Matches: 107, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
95 13 0.12
96 72 0.67
97 19 0.18
98 3 0.03
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (97 bp):
AAAAATCAAATAAATTAGGGTTTAGAGGTTACTTGAGTAAATTAATTAAAATTATTTATAAAATT
AGATAAGGAGTTAGAGTTAAGGGGTTTTAAGC
Found at i:60764424 original size:126 final size:127
Alignment explanation
Indices: 60764199--60764738 Score: 822
Period size: 126 Copynumber: 4.3 Consensus size: 127
60764189 TTGTTAATTT
* *
60764199 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
*
60764264 ATTTCTGAGCAAATAGTGTCAAAAAA-GCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * *
60764325 AAAGAAGCTCCCACATAGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTTGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
*
60764390 GTTTCTGAGCAAATAGTG-CAAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAATTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * *
60764451 AAAGAAGCTCCCACGTAGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTAGAGTAGAT
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * * *
60764516 GTTTTTGAGCAAATAGTGT-AAAAAATGCTTTAAGCAGGATGTTTTGTTAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* ** * *
60764577 AAAGAAGATCCCACGTGGACGCATTTTTTCTACAGTAGCTCCCGAAAAAATAATTTCGAGTAG--
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * *
60764640 GTTTCTGAGAAAATAGTGTC-TAAAACGCCTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* *
60764701 AAAGAAGATCCCACGTGGACGCGCTTTTGCTAGAGTAG
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
60764739 AGCATGTTTG
Statistics
Matches: 377, Mismatches: 34, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
124 87 0.23
125 7 0.02
126 283 0.75
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (127 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:60766856 original size:11 final size:11
Alignment explanation
Indices: 60766840--60766906 Score: 66
Period size: 11 Copynumber: 6.0 Consensus size: 11
60766830 ATTTTAAATA
60766840 GAAATTTGAGAG
1 GAAA-TTGAGAG
*
60766852 GAATTTGAGAG
1 GAAATTGAGAG
*
60766863 GAAATTGAAAG
1 GAAATTGAGAG
*
60766874 GAAATTGA-AA
1 GAAATTGAGAG
60766884 GAATATT-AGAG
1 GAA-ATTGAGAG
60766895 AGAAATTGAGAG
1 -GAAATTGAGAG
60766907 AAAGGATTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
10 5 0.11
11 31 0.67
12 10 0.22
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.22
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:60772534 original size:26 final size:26
Alignment explanation
Indices: 60772505--60772557 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
60772495 TCTGGAGTGA
60772505 AACAAAGTACTGAGAAGCTCTAGTTC
1 AACAAAGTACTGAGAAGCTCTAGTTC
*
60772531 AACAATGTACTGAGAAGCTCTAGTTC
1 AACAAAGTACTGAGAAGCTCTAGTTC
60772557 A
1 A
60772558 CACCAATTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (26 bp):
AACAAAGTACTGAGAAGCTCTAGTTC
Found at i:60773955 original size:6 final size:6
Alignment explanation
Indices: 60773944--60773982 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
60773934 ACAAAGAAGA
* *
60773944 AAAATC AAAATC AAAATC AAAGTC AAAATG AAAAT- AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
60773983 AAGGAGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.69, C:0.10, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:60774397 original size:13 final size:13
Alignment explanation
Indices: 60774354--60774389 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
60774344 GATTTCAAAA
* *
60774354 AAAAAAGAAGATG
1 AAAAATGAAAATG
60774367 AAAAATGAAAATG
1 AAAAATGAAAATG
60774380 AAAAATGAAA
1 AAAAATGAAA
60774390 GAGTAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.11
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:60775735 original size:87 final size:88
Alignment explanation
Indices: 60775621--60775861 Score: 396
Period size: 87 Copynumber: 2.8 Consensus size: 88
60775611 AGTGAAAATC
*
60775621 GAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCT
1 GAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCC
*
60775686 TGCGTTAACAGCAAAGTAGAT-A
66 TGCGTTAACAGCAAAGCAGATCA
* * *
60775708 GAAAATAAAGCCTTGCCTCCATTGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCC
1 GAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCC
*
60775773 TGCGTTAACAGCGAAGCAGATCA
66 TGCGTTAACAGCAAAGCAGATCA
* *
60775796 -AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTACCCTCC
1 GAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCC
60775860 TG
66 TG
60775862 TGTCGACAGA
Statistics
Matches: 142, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
87 141 0.99
88 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (88 bp):
GAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCC
TGCGTTAACAGCAAAGCAGATCA
Found at i:60776408 original size:139 final size:141
Alignment explanation
Indices: 60776001--60776523 Score: 838
Period size: 139 Copynumber: 3.7 Consensus size: 141
60775991 AGTGTAATGA
* * *
60776001 AGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATT-AA-AAAGGATCT
1 AGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAATAAAGGATCT
* *
60776064 TATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAATCCAGAAATCTTATCTCCATGA
66 TATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGA
*
60776129 GATTACAACGG
131 GATTACAGCGG
*
60776140 AGCAGATGGAAGCTAGTAATCCTATCTACCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATC
1 AGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAATAAAGGATC
60776205 TTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTG
65 TTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTG
60776270 AGATTACAGCGG
130 AGATTACAGCGG
* * * *
60776282 AGCAGATGGAAGCTAGTAATCCTATCTCCTTGAGATTATAGTAGAGTGGATT-AA-AAAGGATCT
1 AGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAATAAAGGATCT
* *
60776345 TATCTCTCTGAAGTTACAGTAAAGTAAATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGA
66 TATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGA
60776410 GATTACAGCGG
131 GATTACAGCGG
60776421 AGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATC
1 AGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAATAAAGGATC
* * ** *
60776486 TTATCTCTATAAAGTTACAACAGAATAGATCGCATCAG
65 TTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
60776524 GTCTTATCTC
Statistics
Matches: 353, Mismatches: 25, Indels: 9
0.91 0.06 0.02
Matches are distributed among these distances:
139 179 0.51
140 2 0.01
141 4 0.01
142 168 0.48
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (141 bp):
AGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAATAAAGGATCT
TATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGA
GATTACAGCGG
Found at i:60776447 original size:44 final size:44
Alignment explanation
Indices: 60776379--60776467 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
60776369 TAAATCGCAT
* *
60776379 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATGGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
* * *
60776423 CAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATGGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
60776467 C
1 C
60776468 GGATTAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (44 bp):
CAGATGGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
Found at i:60776504 original size:281 final size:281
Alignment explanation
Indices: 60776001--60776523 Score: 902
Period size: 281 Copynumber: 1.9 Consensus size: 281
60775991 AGTGTAATGA
* *
60776001 AGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAAAGGATCTTA
1 AGCAGATGGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTAGAGTGGATTAAAAAGGATCTTA
* * *
60776066 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAATCCAGAAATCTTATCTCCATGAGA
66 TCTCTCTGAAGTTACAGTAAAGTAAATCGCATCAGATTGAAGCCAGAAATCTTATCTCCATGAGA
60776131 TTACAACGGAGCAGATGGAAGCTAGTAATCCTATCTACCTGAGATTACAGTGGAGCGGATTAAAA
131 TTACAACGGAGCAGATGGAAGCTAGTAATCCTATCTACCTGAGATTACAGTGGAGCGGATTAAAA
* * ** *
60776196 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTT
196 TAAAGGATCTTATCTCTATAAAGTTACAACAGAATAGATCGCATCAGATTGAAGCCAGAAATCTT
60776261 ATCTCCCTGAGATTACAGCGG
261 ATCTCCCTGAGATTACAGCGG
* * *
60776282 AGCAGATGGAAGCTAGTAATCCTATCTCCTTGAGATTATAGTAGAGTGGATTAAAAAGGATCTTA
1 AGCAGATGGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTAGAGTGGATTAAAAAGGATCTTA
*
60776347 TCTCTCTGAAGTTACAGTAAAGTAAATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGA
66 TCTCTCTGAAGTTACAGTAAAGTAAATCGCATCAGATTGAAGCCAGAAATCTTATCTCCATGAGA
* *
60776412 TTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
131 TTACAACGGAGCAGATGGAAGCTAGTAATCCTATCTACCTGAGATTACAGTGGAGCGGATTAAAA
60776477 TAAAGGATCTTATCTCTATAAAGTTACAACAGAATAGATCGCATCAG
196 TAAAGGATCTTATCTCTATAAAGTTACAACAGAATAGATCGCATCAG
60776524 GTCTTATCTC
Statistics
Matches: 226, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
281 226 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (281 bp):
AGCAGATGGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTAGAGTGGATTAAAAAGGATCTTA
TCTCTCTGAAGTTACAGTAAAGTAAATCGCATCAGATTGAAGCCAGAAATCTTATCTCCATGAGA
TTACAACGGAGCAGATGGAAGCTAGTAATCCTATCTACCTGAGATTACAGTGGAGCGGATTAAAA
TAAAGGATCTTATCTCTATAAAGTTACAACAGAATAGATCGCATCAGATTGAAGCCAGAAATCTT
ATCTCCCTGAGATTACAGCGG
Found at i:60776645 original size:50 final size:50
Alignment explanation
Indices: 60776569--60776777 Score: 172
Period size: 50 Copynumber: 4.2 Consensus size: 50
60776559 AATAATTACA
* * * * * *
60776569 GCGAATCTTACCTCCCAGGCGA-TGCAGTGGAACAGATTAATGCCACAACG
1 GCGAATCTTGCTTCCCCGGC-ATTGCAGTGAAAAAGATTAAAGCCACAACG
* * * *
60776619 GCGAATCTTGCTTCCCCGGTATTGCAGTTAAAAAGATTAAAGCTACAACA
1 GCGAATCTTGCTTCCCCGGCATTGCAGTGAAAAAGATTAAAGCCACAACG
* * * * *
60776669 GCGAATCTTACCTT-CCAGGCAATGCAGTGGAACAA-ATTAATGCCACAACG
1 GCGAATCTT-GCTTCCCCGGCATTGCAGT-GAAAAAGATTAAAGCCACAACG
* * * * * *
60776719 GTGAATCTTGCATCCCCGACATTACAGTTAAAAAGATTAAAGCCACAATG
1 GCGAATCTTGCTTCCCCGGCATTGCAGTGAAAAAGATTAAAGCCACAACG
*
60776769 GTGAATCTT
1 GCGAATCTT
60776778 ACTTTCCAAA
Statistics
Matches: 124, Mismatches: 30, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
49 7 0.06
50 110 0.89
51 7 0.06
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (50 bp):
GCGAATCTTGCTTCCCCGGCATTGCAGTGAAAAAGATTAAAGCCACAACG
Found at i:60776747 original size:100 final size:100
Alignment explanation
Indices: 60776566--60776785 Score: 323
Period size: 100 Copynumber: 2.2 Consensus size: 100
60776556 CAGAATAATT
* * * *
60776566 ACAGCGAATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAATGCCACAACGGCGAATCTTGCT
1 ACAGCGAATCTTACCTTCCAGGCAATGCAGTGGAACAAATTAATGCCACAACGGCGAATCTTGCA
** * *
60776631 TCCCCGGTATTGCAGTTAAAAAGATTAAAGCTACA
66 TCCCCGACATTACAGTTAAAAAGATTAAAGCCACA
*
60776666 ACAGCGAATCTTACCTTCCAGGCAATGCAGTGGAACAAATTAATGCCACAACGGTGAATCTTGCA
1 ACAGCGAATCTTACCTTCCAGGCAATGCAGTGGAACAAATTAATGCCACAACGGCGAATCTTGCA
60776731 TCCCCGACATTACAGTTAAAAAGATTAAAGCCACA
66 TCCCCGACATTACAGTTAAAAAGATTAAAGCCACA
** * *
60776766 ATGGTGAATCTTACTTTCCA
1 ACAGCGAATCTTACCTTCCA
60776786 AAAGTTACGA
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 107 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (100 bp):
ACAGCGAATCTTACCTTCCAGGCAATGCAGTGGAACAAATTAATGCCACAACGGCGAATCTTGCA
TCCCCGACATTACAGTTAAAAAGATTAAAGCCACA
Found at i:60779724 original size:21 final size:19
Alignment explanation
Indices: 60779698--60779737 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
60779688 TATCAAATTT
60779698 TATTAAAAACTTAAATATAAA
1 TATTAAAAA-TTAAAT-TAAA
*
60779719 TATTAAATATTAAATTAAA
1 TATTAAAAATTAAATTAAA
60779738 ATGTAACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TATTAAAAATTAAATTAAA
Found at i:60781145 original size:19 final size:18
Alignment explanation
Indices: 60781108--60781146 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
60781098 TTTTATAAAT
**
60781108 TGTGAATTATATTTGATA
1 TGTGAATTATATTCAATA
60781126 TGTGAATTAATATTCAATA
1 TGTGAATT-ATATTCAATA
60781145 TG
1 TG
60781147 GAAGGAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (18 bp):
TGTGAATTATATTCAATA
Found at i:60781402 original size:23 final size:23
Alignment explanation
Indices: 60781376--60781419 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
60781366 TTATTGATCA
60781376 GTGGTAGCTTCGGCTACATATTT
1 GTGGTAGCTTCGGCTACATATTT
*
60781399 GTGGTAGCTTTGGCTACATAT
1 GTGGTAGCTTCGGCTACATAT
60781420 CAGTGTGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.39
Consensus pattern (23 bp):
GTGGTAGCTTCGGCTACATATTT
Found at i:60787747 original size:23 final size:23
Alignment explanation
Indices: 60787721--60787796 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
60787711 AGTGTTATTG
60787721 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
60787744 ATCAGTGGAAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
60787767 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
60787790 ATCAGTG
1 ATCAGTG
60787797 TGGCACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:60788403 original size:12 final size:12
Alignment explanation
Indices: 60788386--60788427 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
60788376 AACTAATCCT
60788386 CTCTCAAATTTC
1 CTCTCAAATTTC
60788398 CTCTC-AATTTC
1 CTCTCAAATTTC
*
60788409 CT-TCAAAATT-
1 CTCTCAAATTTC
60788419 CTCTCAAAT
1 CTCTCAAAT
60788428 CCATATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 4 0.15
11 17 0.65
12 5 0.19
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:60791142 original size:126 final size:125
Alignment explanation
Indices: 60790915--60791265 Score: 544
Period size: 123 Copynumber: 2.8 Consensus size: 125
60790905 CCCAAACATG
*
60790915 CTACTGTAGCAAAAGCGAGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * *
60790980 TAGACGCGATTTTATACTATTTGCTTAGAAAAGTCAAAAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAA-TATTTCTTCAATGAC
*
60791041 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGA
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
60791106 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTC--AAAAAAAATATTTCTTCAATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATATTTCTTCAATGAC
* * * *
60791164 CTACTGTAGCAAAAACACGCCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * * *
60791229 TCGAAGCAATTTTGTACTATTTGATCACAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
60791266 CTCGAAATTA
Statistics
Matches: 207, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
123 104 0.50
124 8 0.04
126 95 0.46
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATATTTCTTCAATGAC
Found at i:60791766 original size:3 final size:3
Alignment explanation
Indices: 60791758--60791797 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
60791748 AACAAAAAAT
*
60791758 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
60791798 AATGAAGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:60797726 original size:18 final size:19
Alignment explanation
Indices: 60797703--60797755 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
60797693 AATCGTGTGG
60797703 TTCATTTTCAAAAT-ATTA
1 TTCATTTTCAAAATCATTA
* *
60797721 TTCATTTAC-AAATCGTTA
1 TTCATTTTCAAAATCATTA
*
60797739 TTCAATTTCAAAA-CATT
1 TTCATTTTCAAAATCATT
60797756 TTTTTATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 4 0.14
18 21 0.75
19 3 0.11
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.45
Consensus pattern (19 bp):
TTCATTTTCAAAATCATTA
Found at i:60804372 original size:25 final size:25
Alignment explanation
Indices: 60804307--60804375 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 25
60804297 GTCCCGATAT
* *
60804307 ATGGCTTTTCGGAGCCTCCTAATTA
1 ATGGCTCTTCGGAGCTTCCTAATTA
* ** *
60804332 TTGGCTCTTATGAGCTTCCTGATTA
1 ATGGCTCTTCGGAGCTTCCTAATTA
60804357 ATGGCTCTTCGGAGCTTCC
1 ATGGCTCTTCGGAGCTTCC
60804376 CGATATTGGT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.38
Consensus pattern (25 bp):
ATGGCTCTTCGGAGCTTCCTAATTA
Found at i:60804460 original size:25 final size:25
Alignment explanation
Indices: 60804413--60804474 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
60804403 TTACAGCTCC
* * *
60804413 TATGAGCTTCTCGTTATACAGCTCGA
1 TATGAGCTTCCCGCTACACAGCT-GA
* *
60804439 -ATGAGCTTCCCGCTACATAGCTTA
1 TATGAGCTTCCCGCTACACAGCTGA
60804463 TATGAGCTTCCC
1 TATGAGCTTCCC
60804475 ATTATATGGC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (25 bp):
TATGAGCTTCCCGCTACACAGCTGA
Found at i:60810201 original size:35 final size:35
Alignment explanation
Indices: 60810162--60810255 Score: 143
Period size: 35 Copynumber: 2.7 Consensus size: 35
60810152 TCCAACCAAG
**
60810162 ACACACCAATGCTTGTAAGAGCTAATCCCTCTGAA
1 ACACACCAATGCTCATAAGAGCTAATCCCTCTGAA
* * *
60810197 ACACACCAATGCTCATAAAAGTTAATCCCTTTGAA
1 ACACACCAATGCTCATAAGAGCTAATCCCTCTGAA
60810232 ACACACCAATGCTCATAAGAGCTA
1 ACACACCAATGCTCATAAGAGCTA
60810256 GTCCAACCGA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.38, C:0.28, G:0.12, T:0.22
Consensus pattern (35 bp):
ACACACCAATGCTCATAAGAGCTAATCCCTCTGAA
Found at i:60810268 original size:35 final size:35
Alignment explanation
Indices: 60810150--60810271 Score: 120
Period size: 35 Copynumber: 3.5 Consensus size: 35
60810140 GTACATCGTC
**
60810150 AATCCAACC-AAGACACACCAATGCTTGTAAGAGCT
1 AATCCAACCGAA-ACACACCAATGCTCATAAGAGCT
** * * *
60810185 AATCCCTCTGAAACACACCAATGCTCATAAAAGTT
1 AATCCAACCGAAACACACCAATGCTCATAAGAGCT
****
60810220 AATCCCTTTGAAACACACCAATGCTCATAAGAGCT
1 AATCCAACCGAAACACACCAATGCTCATAAGAGCT
*
60810255 AGTCCAACCGAAACACA
1 AATCCAACCGAAACACA
60810272 GCAAACAGAG
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
35 69 0.97
36 2 0.03
ACGTcount: A:0.40, C:0.30, G:0.11, T:0.19
Consensus pattern (35 bp):
AATCCAACCGAAACACACCAATGCTCATAAGAGCT
Found at i:60811029 original size:19 final size:19
Alignment explanation
Indices: 60811005--60811043 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
60810995 CATCAATGTA
60811005 AACTTAAAAAAATTTGAAC
1 AACTTAAAAAAATTTGAAC
60811024 AACTTAAAAAAATTTGAAC
1 AACTTAAAAAAATTTGAAC
60811043 A
1 A
60811044 GAATCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (19 bp):
AACTTAAAAAAATTTGAAC
Found at i:60811052 original size:20 final size:19
Alignment explanation
Indices: 60811010--60811053 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
60811000 ATGTAAACTT
* *
60811010 AAAAAAATTTGAACAACTT
1 AAAAAAATTTGAACAAATC
60811029 AAAAAAATTTGAACAGAATC
1 AAAAAAATTTGAACA-AATC
60811049 AAAAA
1 AAAAA
60811054 CGATGGTACG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.64, C:0.09, G:0.07, T:0.20
Consensus pattern (19 bp):
AAAAAAATTTGAACAAATC
Found at i:60819233 original size:18 final size:18
Alignment explanation
Indices: 60819206--60819241 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
60819196 AATTTCACTT
*
60819206 TCATGTAAAACACTAAGA
1 TCATGGAAAACACTAAGA
60819224 TCATGGAAAACACTAAGA
1 TCATGGAAAACACTAAGA
60819242 AAAACATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (18 bp):
TCATGGAAAACACTAAGA
Found at i:60820712 original size:18 final size:17
Alignment explanation
Indices: 60820689--60820725 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
60820679 ACAAAATTCA
*
60820689 TCCATTATTTATATCTAG
1 TCCATTATTAATAT-TAG
60820707 TCCATTATTAATATTAG
1 TCCATTATTAATATTAG
60820724 TC
1 TC
60820726 TGCCCTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (17 bp):
TCCATTATTAATATTAG
Found at i:60827364 original size:13 final size:13
Alignment explanation
Indices: 60827346--60827372 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60827336 CCTTTTGACA
60827346 CCCATTCTTGTAC
1 CCCATTCTTGTAC
60827359 CCCATTCTTGTAC
1 CCCATTCTTGTAC
60827372 C
1 C
60827373 AACATATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.41, G:0.07, T:0.37
Consensus pattern (13 bp):
CCCATTCTTGTAC
Found at i:60840819 original size:24 final size:24
Alignment explanation
Indices: 60840792--60840843 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
60840782 AATCAAAGTC
* *
60840792 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
60840816 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
60840840 AAAT
1 AAAT
60840844 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:60842271 original size:61 final size:62
Alignment explanation
Indices: 60842157--60842276 Score: 188
Period size: 61 Copynumber: 2.0 Consensus size: 62
60842147 AAACTTTTAG
* * *
60842157 AATTAGAATTAAAATGACAAATTATTCTAAATTTTAAGGGCTAAATTTATTGAATTTTTTCA
1 AATTAGAATTAAAATGAAAAATTATTCTAAATATCAAGGGCTAAATTTATTGAATTTTTTCA
* *
60842219 AATTAGAATTAAAATGAAAAATT-TTGTAAATATCAAGGGCTAAATTTGTTGAATTTTT
1 AATTAGAATTAAAATGAAAAATTATTCTAAATATCAAGGGCTAAATTTATTGAATTTTT
60842277 AGATTTATGA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
61 31 0.58
62 22 0.42
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.41
Consensus pattern (62 bp):
AATTAGAATTAAAATGAAAAATTATTCTAAATATCAAGGGCTAAATTTATTGAATTTTTTCA
Found at i:60859905 original size:16 final size:17
Alignment explanation
Indices: 60859884--60859921 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
60859874 TATATTTATG
*
60859884 TATTTA-AATTTTATTT
1 TATTTATAATTTAATTT
60859900 TATTTATAATTTAATTT
1 TATTTATAATTTAATTT
*
60859917 AATTT
1 TATTT
60859922 TTTAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTATAATTTAATTT
Found at i:60861139 original size:16 final size:15
Alignment explanation
Indices: 60861117--60861178 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 15
60861107 TTTACTTATT
60861117 ATAATATATAATATA
1 ATAATATATAATATA
*
60861132 AT-ATATATACTTAATA
1 ATAATATATA-AT-ATA
* *
60861148 ATGAAGATATAATATT
1 AT-AATATATAATATA
60861164 ATAATATTATAATAT
1 ATAATA-TATAATAT
60861179 TTATTTATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
14 7 0.19
15 6 0.16
16 17 0.46
17 1 0.03
18 6 0.16
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAATATATAATATA
Found at i:60861168 original size:8 final size:8
Alignment explanation
Indices: 60861155--60861179 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
60861145 ATAATGAAGA
60861155 TATAATAT
1 TATAATAT
60861163 TATAATAT
1 TATAATAT
60861171 TATAATAT
1 TATAATAT
60861179 T
1 T
60861180 TATTTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TATAATAT
Found at i:60867731 original size:37 final size:41
Alignment explanation
Indices: 60867701--60867775 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
60867691 TCATCGGCTA
*
60867701 AACCGAAGT-A-AA-TTGGCACCCAGTGGCTCATCGAATAT
1 AACCGAAGTAATAATTTGACACCCAGTGGCTCATCGAATAT
* *
60867739 ATCCGAAGTAATAATTTGACACCCAGTGTCTCATCGA
1 AACCGAAGTAATAATTTGACACCCAGTGGCTCATCGA
60867776 CTCGAAGTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 8 0.26
39 1 0.03
40 2 0.06
41 20 0.65
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (41 bp):
AACCGAAGTAATAATTTGACACCCAGTGGCTCATCGAATAT
Found at i:60867955 original size:15 final size:15
Alignment explanation
Indices: 60867906--60867957 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
60867896 CAATTCAAAT
*
60867906 AATCAATATATATTC
1 AATCAATATAAATTC
*
60867921 AATATATATATACCAATTC
1 AAT-CA-ATATA--AATTC
60867940 AATCAATATAAATTC
1 AATCAATATAAATTC
60867955 AAT
1 AAT
60867958 AAATTCATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 11 0.37
16 1 0.03
17 10 0.33
18 1 0.03
19 7 0.23
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
AATCAATATAAATTC
Found at i:60873953 original size:20 final size:20
Alignment explanation
Indices: 60873928--60873965 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
60873918 TTAATAAATA
*
60873928 ACATTATAATTATATGACAG
1 ACATTATAACTATATGACAG
60873948 ACATTATAACTATATGAC
1 ACATTATAACTATATGAC
60873966 TACGGGTATA
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:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (20 bp):
ACATTATAACTATATGACAG
Found at i:60874727 original size:22 final size:22
Alignment explanation
Indices: 60874700--60874742 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
60874690 CAAAAATAAT
*
60874700 ATATATG-AATAAATTTATTAAA
1 ATATATGTAA-AAAATTATTAAA
60874722 ATATATGTAAAAAATTATTAA
1 ATATATGTAAAAAATTATTAA
60874743 TATGCCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (22 bp):
ATATATGTAAAAAATTATTAAA
Found at i:60876134 original size:2 final size:2
Alignment explanation
Indices: 60876127--60876152 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
60876117 CGAATAGGAA
60876127 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
60876153 TAAGAAAAGC
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:60878070 original size:28 final size:27
Alignment explanation
Indices: 60878020--60878075 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
60878010 CTTTTATTAA
*
60878020 TTTAATTTTAAATAAAATTAAAATCATG
1 TTTAATTTTAAATAAAATGAAAA-CATG
*
60878048 TTTAATATTTAATTAAAA-GAAAACATG
1 TTTAAT-TTTAAATAAAATGAAAACATG
60878075 T
1 T
60878076 CTACCCCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 10 0.40
29 10 0.40
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (27 bp):
TTTAATTTTAAATAAAATGAAAACATG
Found at i:60880190 original size:21 final size:22
Alignment explanation
Indices: 60880166--60880206 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
60880156 TTAAAATATG
60880166 TAAATT-TATAAATT-CATTTAA
1 TAAATTAT-TAAATTGCATTTAA
60880187 TAAATTATTAAATTGCATTT
1 TAAATTATTAAATTGCATTT
60880207 TTCGATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (22 bp):
TAAATTATTAAATTGCATTTAA
Found at i:60880309 original size:17 final size:18
Alignment explanation
Indices: 60880279--60880318 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
60880269 AAAATGATAA
*
60880279 TTATATTTAATTATT-TT
1 TTATAGTTAATTATTCTT
*
60880296 TTATAGTTAGTTATTCTT
1 TTATAGTTAATTATTCTT
60880314 TTATA
1 TTATA
60880319 ACAATGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (18 bp):
TTATAGTTAATTATTCTT
Found at i:60880770 original size:16 final size:15
Alignment explanation
Indices: 60880742--60880779 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
60880732 ATGAAAATTA
60880742 AATTTTA-TTGAAACT
1 AATTTTATTTGAAA-T
60880757 AATTTTATTTGAAAT
1 AATTTTATTTGAAAT
*
60880772 AATATTAT
1 AATTTTAT
60880780 GTATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (15 bp):
AATTTTATTTGAAAT
Found at i:60884271 original size:18 final size:19
Alignment explanation
Indices: 60884248--60884283 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
60884238 GGGCAAAATG
60884248 TAATAGAC-AAAATTAATA
1 TAATAGACTAAAATTAATA
*
60884266 TAATAGACTAATATTAAT
1 TAATAGACTAAAATTAAT
60884284 TTTTCCCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (19 bp):
TAATAGACTAAAATTAATA
Found at i:60894023 original size:39 final size:39
Alignment explanation
Indices: 60893969--60894045 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
60893959 TAGAAGTGGT
60893969 ATATTCATTGTTCATAATTACGGCACTAGTAAAATCTAA
1 ATATTCATTGTTCATAATTACGGCACTAGTAAAATCTAA
60894008 ATATTCATTGTTCATAATTACGGCACTAGTAAAATCTA
1 ATATTCATTGTTCATAATTACGGCACTAGTAAAATCTA
60894046 TCTCATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (39 bp):
ATATTCATTGTTCATAATTACGGCACTAGTAAAATCTAA
Found at i:60897190 original size:21 final size:21
Alignment explanation
Indices: 60897157--60897202 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
60897147 CCTAGGGCTT
* *
60897157 CACACATATGGTTTGCATATA
1 CACACATAGGGTTTACATATA
*
60897178 CACAGATAGGGTTTACATATA
1 CACACATAGGGTTTACATATA
60897199 CACA
1 CACA
60897203 AATATGTGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (21 bp):
CACACATAGGGTTTACATATA
Found at i:60897219 original size:23 final size:22
Alignment explanation
Indices: 60897157--60897219 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 22
60897147 CCTAGGGCTT
* *
60897157 CACACATA-TGGTTTGCATATA
1 CACAAATAGTGGTTAGCATATA
*
60897178 CACAGATAG-GGTTTA-CATATA
1 CACAAATAGTGG-TTAGCATATA
60897199 CACAAATATGTGGTTAGCATA
1 CACAAATA-GTGGTTAGCATA
60897220 ATAAACATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
21 22 0.65
22 6 0.18
23 6 0.18
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (22 bp):
CACAAATAGTGGTTAGCATATA
Found at i:60897295 original size:23 final size:22
Alignment explanation
Indices: 60897265--60897308 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
60897255 GGTTCGCTAC
*
60897265 TACAATATGA-AGGTTTTGCATG
1 TACAATAT-ATAGGGTTTGCATG
60897287 TACACATATATAGGGTTTGCAT
1 TACA-ATATATAGGGTTTGCAT
60897309 AATAACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.36
Consensus pattern (22 bp):
TACAATATATAGGGTTTGCATG
Found at i:60897316 original size:23 final size:23
Alignment explanation
Indices: 60897290--60897411 Score: 68
Period size: 23 Copynumber: 5.0 Consensus size: 23
60897280 TTGCATGTAC
60897290 ACATATATAGGGTTTGCATAATA
1 ACATATATAGGGTTTGCATAATA
* * *
60897313 ACATGTATAAGGTTTGCATATACA
1 ACATATATAGGGTTTGCATA-ATA
*
60897337 CACGTATATATAAAGAGTTTGCATAGATA
1 -AC--ATATAT--AGGGTTTGCATA-ATA
* ** *
60897366 A-ACATGCAGGGTTCGCAT-ATA
1 ACATATATAGGGTTTGCATAATA
* *
60897387 CACATATATAGGGTTCGCATCATA
1 -ACATATATAGGGTTTGCATAATA
60897411 A
1 A
60897412 ACATTTTTGG
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
21 3 0.04
22 1 0.01
23 42 0.57
24 5 0.07
25 5 0.07
27 5 0.07
28 1 0.01
29 12 0.16
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (23 bp):
ACATATATAGGGTTTGCATAATA
Found at i:60902357 original size:34 final size:34
Alignment explanation
Indices: 60902311--60902381 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
60902301 TGCCACTGAG
*
60902311 TTGAACTATTATAAACGTATTAATTGCTACTGTA
1 TTGAACTATTATAAACATATTAATTGCTACTGTA
* * *
60902345 TTGAACTGTTATAAGCATATTGATTGCTACTGTA
1 TTGAACTATTATAAACATATTAATTGCTACTGTA
60902379 TTG
1 TTG
60902382 TTCTATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.42
Consensus pattern (34 bp):
TTGAACTATTATAAACATATTAATTGCTACTGTA
Found at i:60902395 original size:34 final size:34
Alignment explanation
Indices: 60902311--60902402 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 34
60902301 TGCCACTGAG
*
60902311 TTGAACTATTATAAA-CGTATTAATTGCTACTGTA
1 TTGAACTATTA-AAAGCATATTAATTGCTACTGTA
* * *
60902345 TTGAACTGTTATAAGCATATTGATTGCTACTGTA
1 TTGAACTATTAAAAGCATATTAATTGCTACTGTA
**
60902379 TTGTTCTATTAAAAGCATAATTAA
1 TTGAACTATTAAAAGCAT-ATTAA
60902403 ATACTATCGT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
33 2 0.04
34 41 0.87
35 4 0.09
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (34 bp):
TTGAACTATTAAAAGCATATTAATTGCTACTGTA
Found at i:60903830 original size:33 final size:36
Alignment explanation
Indices: 60903784--60903865 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
60903774 AAAAAATTAT
*
60903784 TATTTATTATATTATT-AA-TTTGAA-ATTTAAATAA
1 TATTTATTATATTATTAAATTTTGAATATTGAAA-AA
*
60903818 T-TTTATTTTATTATTAAATTTTGAATATTGAAAAA
1 TATTTATTATATTATTAAATTTTGAATATTGAAAAA
60903853 TATTTATTATATT
1 TATTTATTATATT
60903866 TAAGCTTAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 13 0.32
34 3 0.07
35 9 0.22
36 16 0.39
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (36 bp):
TATTTATTATATTATTAAATTTTGAATATTGAAAAA
Found at i:60903901 original size:16 final size:17
Alignment explanation
Indices: 60903875--60903919 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
60903865 TTAAGCTTAA
60903875 GGTGAAAAAAAGTCTTT
1 GGTGAAAAAAAGTCTTT
60903892 GGTGAAAAAAAGTCTTT
1 GGTGAAAAAAAGTCTTT
*
60903909 AGTGAAAAAAA
1 GGTGAAAAAAA
60903920 TTCAATTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.49, C:0.04, G:0.22, T:0.24
Consensus pattern (17 bp):
GGTGAAAAAAAGTCTTT
Found at i:60904736 original size:20 final size:21
Alignment explanation
Indices: 60904702--60904740 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60904692 GATCATTTTT
*
60904702 ATTATTTTATAATTTTTTACA
1 ATTATTTAATAATTTTTTACA
60904723 ATTATTTAAT-ATTTTTTA
1 ATTATTTAATAATTTTTTA
60904741 TAATATTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTATTTAATAATTTTTTACA
Found at i:60905185 original size:23 final size:23
Alignment explanation
Indices: 60905159--60905212 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
60905149 TTTAAAATTT
*
60905159 AATAATAAAATAAAAAT-TATTCA
1 AATAATAAAATAAAAATATAAT-A
*
60905182 AAT-ATCAAAATAATAATATAATA
1 AATAAT-AAAATAAAAATATAATA
60905205 AATAATAA
1 AATAATAA
60905213 TTTTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 2 0.08
23 19 0.73
24 5 0.19
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (23 bp):
AATAATAAAATAAAAATATAATA
Found at i:60919278 original size:11 final size:11
Alignment explanation
Indices: 60919262--60919287 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60919252 CTGTTTTTCC
60919262 TTCTCATCTTG
1 TTCTCATCTTG
60919273 TTCTCATCTTG
1 TTCTCATCTTG
60919284 TTCT
1 TTCT
60919288 TAGCTAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.27, G:0.08, T:0.58
Consensus pattern (11 bp):
TTCTCATCTTG
Found at i:60926217 original size:21 final size:21
Alignment explanation
Indices: 60926193--60926248 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
60926183 CATTGTTTTT
*
60926193 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
60926214 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
60926235 AATCTCACCGCTAC
1 AATCTCACCGCTAC
60926249 CGCTGTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.30, C:0.39, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:60928405 original size:20 final size:18
Alignment explanation
Indices: 60928370--60928411 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 18
60928360 TTTTTTAGAA
60928370 TTTTTTAATTTCTTATATG
1 TTTTTTAATTTCTTATA-G
60928389 TTTTTCTAAGTTT-TTATAG
1 TTTTT-TAA-TTTCTTATAG
60928408 TTTT
1 TTTT
60928412 GCACTCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 10 0.48
20 8 0.38
21 3 0.14
ACGTcount: A:0.19, C:0.05, G:0.07, T:0.69
Consensus pattern (18 bp):
TTTTTTAATTTCTTATAG
Found at i:60928503 original size:16 final size:17
Alignment explanation
Indices: 60928472--60928504 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
60928462 ATGTACATTT
*
60928472 TATTTATTTTAAAAAAA
1 TATTTATTTGAAAAAAA
60928489 TATTT-TTTGAAAAAAA
1 TATTTATTTGAAAAAAA
60928505 AATATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TATTTATTTGAAAAAAA
Found at i:60944192 original size:27 final size:29
Alignment explanation
Indices: 60944144--60944197 Score: 94
Period size: 27 Copynumber: 1.9 Consensus size: 29
60944134 TGATTTGACA
60944144 AAAAATATAAATTTAAAAGTTAAAATATG
1 AAAAATATAAATTTAAAAGTTAAAATATG
60944173 AAAAAT-TAAA-TTAAAAGTTAAAATA
1 AAAAATATAAATTTAAAAGTTAAAATA
60944198 AGTAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 15 0.60
28 4 0.16
29 6 0.24
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.30
Consensus pattern (29 bp):
AAAAATATAAATTTAAAAGTTAAAATATG
Found at i:60944329 original size:8 final size:8
Alignment explanation
Indices: 60944316--60944340 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
60944306 CAAAAGCCAA
60944316 ACATTATT
1 ACATTATT
60944324 ACATTATT
1 ACATTATT
60944332 ACATTATT
1 ACATTATT
60944340 A
1 A
60944341 TTATTCCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (8 bp):
ACATTATT
Found at i:60946265 original size:16 final size:16
Alignment explanation
Indices: 60946244--60946274 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
60946234 GGTAATAATG
60946244 CCAACTAAACTAAGAC
1 CCAACTAAACTAAGAC
60946260 CCAACTAAACTAAGA
1 CCAACTAAACTAAGA
60946275 ATACTTGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.29, G:0.06, T:0.13
Consensus pattern (16 bp):
CCAACTAAACTAAGAC
Found at i:60950353 original size:20 final size:22
Alignment explanation
Indices: 60950323--60950366 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
60950313 AGAAAAAGAG
60950323 AAATACAAAAA-AGAATAG-ATC
1 AAATACAAAAAGA-AATAGAATC
60950344 AAAT-CAAAAAGAAATAGAATC
1 AAATACAAAAAGAAATAGAATC
60950365 AA
1 AA
60950367 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.68, C:0.09, G:0.09, T:0.14
Consensus pattern (22 bp):
AAATACAAAAAGAAATAGAATC
Done.