Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 21 of 295
Found at i:6381499 original size:58 final size:59
Alignment explanation
Indices: 6381422--6381544 Score: 207
Period size: 58 Copynumber: 2.1 Consensus size: 59
6381412 CATGTGAACA
6381422 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* *
6381481 TGTGA-TATGTGATTCCGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGAT-T-
1 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
6381537 TGTGATTA
1 TGTGATTA
6381545 CGTGTAAGAC
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
56 5 0.08
57 3 0.05
58 48 0.79
59 5 0.08
ACGTcount: A:0.23, C:0.12, G:0.30, T:0.35
Consensus pattern (59 bp):
TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:6381551 original size:49 final size:49
Alignment explanation
Indices: 6381481--6381575 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
6381471 AAGTGATATG
* *
6381481 TGTGATATGTGATTCCGTGTAAGACCATAGTTGGGCTATGGCATCGGTA
1 TGTGATATGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCGGTA
*
6381530 TGTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 TGTGATATGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
6381576 AGAAAACGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (49 bp):
TGTGATATGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCGGTA
Found at i:6384787 original size:52 final size:51
Alignment explanation
Indices: 6384716--6384918 Score: 290
Period size: 52 Copynumber: 4.0 Consensus size: 51
6384706 ATCAAGTGAC
* **
6384716 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
6384768 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
6384814 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
*
6384865 AAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGTGATAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATC-AAGTGACAAGTG
6384918 A
1 A
6384919 TAGCTTCGGC
Statistics
Matches: 136, Mismatches: 8, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
46 44 0.32
52 81 0.60
53 11 0.08
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:6384822 original size:98 final size:98
Alignment explanation
Indices: 6384702--6385061 Score: 563
Period size: 98 Copynumber: 3.7 Consensus size: 98
6384692 TTTGAGTACT
* *
6384702 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
6384767 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
6384800 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
6384865 AAAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
6384898 TCTG----A-T--CAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
6384956 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
6384989 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
*
6385054 GATAAGTG
65 GAAAAGTG
6385062 GCTACACTTA
Statistics
Matches: 242, Mismatches: 12, Indels: 15
0.90 0.04 0.06
Matches are distributed among these distances:
91 88 0.36
93 1 0.00
94 1 0.00
95 1 0.00
98 140 0.58
99 11 0.05
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:6384920 original size:39 final size:39
Alignment explanation
Indices: 6384866--6384956 Score: 166
Period size: 39 Copynumber: 2.4 Consensus size: 39
6384856 TGACAAGTGA
6384866 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATC
6384905 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATC
*
6384944 -AAGTGACAAGTGA
1 AAAGTGATAAGTGA
6384957 AAAGTGATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 12 0.24
39 39 0.76
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (39 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATC
Found at i:6384966 original size:52 final size:52
Alignment explanation
Indices: 6384905--6385061 Score: 218
Period size: 52 Copynumber: 3.1 Consensus size: 52
6384895 TTATCTGATC
*
6384905 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAGTGA
*
6384957 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAGTGA
**
6385003 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC-AAGTGA
*
6385056 TAAGTG
1 AAAGTG
6385062 GCTACACTTA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
46 43 0.47
52 44 0.48
53 5 0.05
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.27
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAGTGA
Found at i:6385031 original size:189 final size:190
Alignment explanation
Indices: 6384715--6385061 Score: 597
Period size: 189 Copynumber: 1.8 Consensus size: 190
6384705 GATCAAGTGA
* * *
6384715 CAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
1 CAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGT
* *
6384780 AATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTT
66 AATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTT
*
6384845 ATCTGATCAAGTGAC-AAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
131 ATCTGATCAAGAGACAAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
*
6384904 CAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGT
1 CAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGT
* *
6384969 GATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTT
66 AATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTT
*
6385034 ATCTGATCAAGAGACAAAGTGATAAGTG
131 ATCTGATCAAGAGACAAAGTGAAAAGTG
6385062 GCTACACTTA
Statistics
Matches: 147, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
189 136 0.93
190 11 0.07
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (190 bp):
CAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGT
AATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTT
ATCTGATCAAGAGACAAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
Found at i:6385051 original size:46 final size:44
Alignment explanation
Indices: 6384957--6385172 Score: 190
Period size: 37 Copynumber: 5.3 Consensus size: 44
6384947 TGACAAGTGA
*
6384957 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
6385003 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
6385049 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
6385086 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
* *
6385123 AAAGTGAT-AG-G-T-G---GTTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
6385159 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
6385173 CATACGTAAG
Statistics
Matches: 159, Mismatches: 6, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
35 7 0.04
36 7 0.04
37 88 0.55
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 51 0.32
47 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:6385069 original size:37 final size:37
Alignment explanation
Indices: 6385025--6385170 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
6385015 GATAGCTTTA
*
6385025 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
6385062 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
6385099 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* **
6385136 GTTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
6385171 ATCATACGTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:6388577 original size:26 final size:26
Alignment explanation
Indices: 6388524--6388579 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
6388514 AGTTAATAGG
* **
6388524 ATCAGTTGGTCAAATCAATTAATACA
1 ATCAGTTAGTCAAATCAACCAATACA
* *
6388550 ATCAGTTAGTCAAATCAACCATTGCA
1 ATCAGTTAGTCAAATCAACCAATACA
6388576 ATCA
1 ATCA
6388580 ATTATTAGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (26 bp):
ATCAGTTAGTCAAATCAACCAATACA
Found at i:6392963 original size:30 final size:29
Alignment explanation
Indices: 6392927--6392985 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
6392917 ACTTAACAAG
6392927 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAAC-AAATTAA
*
6392957 CAAATGTCTTTAAAATAATAACAAATTAA
1 CAAATGTCTCTAAAATAATAACAAATTAA
6392986 TAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (29 bp):
CAAATGTCTCTAAAATAATAACAAATTAA
Found at i:6398587 original size:198 final size:199
Alignment explanation
Indices: 6398248--6399044 Score: 922
Period size: 198 Copynumber: 4.1 Consensus size: 199
6398238 TACTTTTACC
* *
6398248 TTTT-AACCTAAACATCATAATCACGGATGCGTGATCATAAAAACTAAGAAATAAAGATTAAAAT
1 TTTTCAACCTAAACATCATAATCACGGATGCATGATCATAAAAACTAAGAAATAAAGATTAAATT
* * *
6398312 CTA-C-CA--TCTCCTTTAGCATGCTATTTTCCAATTCCAT-GACGGCTGAATGAGATGTTATCG
66 CTATCACATTTCTTCTTCAGCATGCTATTTTCCAATTCCATGGA-GGATGAATGAGATGTTATCG
* *
6398372 AGCTACTATTCGATATTTTCCTCAATAGGAAAGAAGCTTATAGAGAAAAGAGATCGTACA-TTGT
130 AGCTACTATTCGATATTTTCCTCAATAGAAAAGAAGCTTATAGAGAAAAGAGATCGTACAGTGGT
*
6398436 TTCCA
195 TTCAA
** * *** * *
6398441 TTTTGGACCTAAACATCACAATCATTTATTCATGATCATAAAAACTAAGAAGTAAAGATTAAATT
1 TTTTCAACCTAAACATCATAATCACGGATGCATGATCATAAAAACTAAGAAATAAAGATTAAATT
* * *
6398506 CTATTACATTTCTTCATT-AGCATGCTATTTTCTGAA-TCCATGGAGGATTAATGAGATGTTATC
66 CTATCACATTTCTTC-TTCAGCATGCTATTTTC-CAATTCCATGGAGGATGAATGAGATGTTATC
* * * * *
6398569 GAGCAACTATTCGATATTTTCATCAATAGAAAAGAAGCTTATAGAGAAAAGAAACCTTA-AGTGG
129 GAGCTACTATTCGATATTTTCCTCAATAGAAAAGAAGCTTATAGAGAAAAGAGATCGTACAGTGG
6398633 TTTCAA
194 TTTCAA
** *
6398639 TTTTCAACCTAAACATCATAATCACGGATGCATGATTGTAAAAACTAAGAAATAAAGATCAAATT
1 TTTTCAACCTAAACATCATAATCACGGATGCATGATCATAAAAACTAAGAAATAAAGATTAAATT
* * * * * * *
6398704 CTATCATATTTCTTCTTCAACATGCTAGTTTCCAAATCCATGGTGAATGAATGAGATGTTATCTA
66 CTATCACATTTCTTCTTCAGCATGCTATTTTCCAATTCCATGGAGGATGAATGAGATGTTATCGA
** * * * *
6398769 GCTTTTATTCGATATTTTCTTCACTAGAAAAGAAGCTTATCA-AGAAATGAGATCGT-CAGAGGT
131 GCTACTATTCGATATTTTCCTCAATAGAAAAGAAGCTTAT-AGAGAAAAGAGATCGTACAGTGGT
6398832 TTCAA
195 TTCAA
* * * * *
6398837 TTTTCAACCTAAACAGCATAATCACGGATGCATGATCTTAGAAGCTAAGAAACT-AATATTAAAT
1 TTTTCAACCTAAACATCATAATCACGGATGCATGATCATAAAAACTAAGAAA-TAAAGATTAAAT
* * *
6398901 TCTATCATATTTCTTCTTCAGCATGCTATTTTCCAATTCCATGGTGGATGAATGAGATATTATCG
65 TCTATCACATTTCTTCTTCAGCATGCTATTTTCCAATTCCATGGAGGATGAATGAGATGTTATCG
* * ** * * *
6398966 AGCTGCTATTTGATATTACCCTCGAGA-AAATAGAAGCTTATAGAGAAAAGAGATCGTAAAG-GG
130 AGCTACTATTCGATATTTTCCTCAATAGAAA-AGAAGCTTATAGAGAAAAGAGATCGTACAGTGG
*
6399029 TTTCGA
194 TTTCAA
*
6399035 TTTTGAACCT
1 TTTTCAACCT
6399045 GTTGGAGAAT
Statistics
Matches: 509, Mismatches: 78, Indels: 29
0.83 0.13 0.05
Matches are distributed among these distances:
193 4 0.01
194 54 0.11
196 2 0.00
197 9 0.02
198 430 0.84
199 10 0.02
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (199 bp):
TTTTCAACCTAAACATCATAATCACGGATGCATGATCATAAAAACTAAGAAATAAAGATTAAATT
CTATCACATTTCTTCTTCAGCATGCTATTTTCCAATTCCATGGAGGATGAATGAGATGTTATCGA
GCTACTATTCGATATTTTCCTCAATAGAAAAGAAGCTTATAGAGAAAAGAGATCGTACAGTGGTT
TCAA
Found at i:6400802 original size:15 final size:14
Alignment explanation
Indices: 6400775--6400816 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
6400765 AACTCAATCC
6400775 AATTTAT-ATTTTA
1 AATTTATAATTTTA
6400788 AAGTTTATAATTTTA
1 AA-TTTATAATTTTA
*
6400803 TATTATATAATTTT
1 AATT-TATAATTTT
6400817 TTTATATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 2 0.08
14 7 0.28
15 16 0.64
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
AATTTATAATTTTA
Found at i:6400825 original size:15 final size:15
Alignment explanation
Indices: 6400793--6400824 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6400783 TTTTAAAGTT
6400793 TATAATTTTATATTA
1 TATAATTTTATATTA
6400808 TATAATTTT-T-TTA
1 TATAATTTTATATTA
6400821 TATA
1 TATA
6400825 TTATGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 1 0.06
15 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATAATTTTATATTA
Found at i:6402230 original size:15 final size:15
Alignment explanation
Indices: 6402208--6402246 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
6402198 GTTGGGCTAG
*
6402208 TTTTTATATAT-TAA
1 TTTTTATAAATGTAA
6402222 TTATTTATAAATGTAA
1 TT-TTTATAAATGTAA
6402238 TTTTTATAA
1 TTTTTATAA
6402247 TATAATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 15 0.68
16 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTTTATAAATGTAA
Found at i:6402254 original size:14 final size:14
Alignment explanation
Indices: 6402208--6402254 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
6402198 GTTGGGCTAG
6402208 TTTTTAT-ATATTAA
1 TTTTTATAATA-TAA
*
6402222 TTATTTATAAATGTAA
1 TT-TTTAT-AATATAA
6402238 TTTTTATAATATAA
1 TTTTTATAATATAA
6402252 TTT
1 TTT
6402255 ATATGTAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 11 0.39
15 10 0.36
16 5 0.18
17 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
TTTTTATAATATAA
Found at i:6408912 original size:14 final size:14
Alignment explanation
Indices: 6408893--6408922 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6408883 TTATATCGAG
6408893 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
6408907 ACCAATCCAATTCA
1 ACCAATCCAAATCA
6408921 AC
1 AC
6408923 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:6416547 original size:39 final size:39
Alignment explanation
Indices: 6416446--6416552 Score: 108
Period size: 39 Copynumber: 2.7 Consensus size: 39
6416436 TATGGTATTT
* * * * *
6416446 AAAATATATATATATATATATGTATATATAATAGTATTTA
1 AAAATATATACATA-ATATATATATAAATAATAGCATTAA
* * * * *
6416486 AGAATATATACATAAGAAATATATAACTAATGGCATTAA
1 AAAATATATACATAATATATATATAAATAATAGCATTAA
6416525 AAAATATATACATAATATATATA-AAATA
1 AAAATATATACATAATATATATATAAATA
6416553 CCTAAAAAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
38 4 0.08
39 37 0.70
40 12 0.23
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.36
Consensus pattern (39 bp):
AAAATATATACATAATATATATATAAATAATAGCATTAA
Found at i:6421070 original size:39 final size:40
Alignment explanation
Indices: 6421014--6421119 Score: 101
Period size: 44 Copynumber: 2.5 Consensus size: 40
6421004 TTTTCTTATG
*
6421014 CTATTACAACATC-ATTCCATTCAACCAAACA-TAAGAATT-
1 CTATTACAGC-TCTATTCCATTCAACCAAACAGT-AGAATTA
*
6421053 CTATTACAGCTCTATTCCATTCCATTCAACCAAACAGTTGAATTA
1 CTATTACAGCTC---T--ATTCCATTCAACCAAACAGTAGAATTA
6421098 CTGATTACAGCTCTATTCCATT
1 CT-ATTACAGCTCTATTCCATT
6421120 ACAGCTCTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
38 2 0.04
39 9 0.16
41 8 0.14
43 1 0.02
44 23 0.41
45 3 0.05
46 10 0.18
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (40 bp):
CTATTACAGCTCTATTCCATTCAACCAAACAGTAGAATTA
Found at i:6421096 original size:44 final size:46
Alignment explanation
Indices: 6421026--6421119 Score: 149
Period size: 44 Copynumber: 2.1 Consensus size: 46
6421016 ATTACAACAT
6421026 CATTCCATTCAACCAAACATAAGAATT-CT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACATAAGAATTACTGATTACAGCTCTATTC
*
6421070 CATTCCATTCAACCAAACAGT-TGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACA-TAAGAATTACTGATTACAGCTCTATTC
6421116 CATT
1 CATT
6421120 ACAGCTCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
44 24 0.52
45 3 0.07
46 19 0.41
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (46 bp):
CATTCCATTCAACCAAACATAAGAATTACTGATTACAGCTCTATTC
Found at i:6421122 original size:16 final size:16
Alignment explanation
Indices: 6421101--6421155 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
6421091 TGAATTACTG
6421101 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
6421117 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
6421133 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
6421149 ATTACAG
1 ATTACAG
6421156 TGAACCAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:6421772 original size:48 final size:46
Alignment explanation
Indices: 6421646--6421803 Score: 176
Period size: 46 Copynumber: 3.4 Consensus size: 46
6421636 TCAACTTGTA
* * *
6421646 GCCGATGCATGTCCTAGACATGTCTTACACTGGCT-TACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAAG
* * * *
6421692 GCTGATGCATATCCCAGACATGTCTTATACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAG
* * *
6421738 GCCGATGCCATGTCCCGGACATGGTCTTACACTAGCTCTCGTAAT-ATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGT-CTCAAG
6421786 GCCGATGCATGTCCCAGA
1 GCCGATGCATGTCCCAGA
6421804 TGTAATACCC
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
46 43 0.46
47 23 0.25
48 26 0.28
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAG
Found at i:6427076 original size:24 final size:24
Alignment explanation
Indices: 6427049--6427098 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
6427039 ATCAAAAATA
*
6427049 CTAAAAAATTAAAATAAATATTTT
1 CTAAAAAATTAAAATAAATATATT
* * *
6427073 CTAATAAATTAATATATATATATT
1 CTAAAAAATTAAAATAAATATATT
6427097 CT
1 CT
6427099 TAAATAACAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (24 bp):
CTAAAAAATTAAAATAAATATATT
Found at i:6430515 original size:20 final size:20
Alignment explanation
Indices: 6430490--6430527 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6430480 ACTTTTGTGT
* *
6430490 CTTTATTTTTATTTTATTTA
1 CTTTATGTTTATTATATTTA
6430510 CTTTATGTTTATTATATT
1 CTTTATGTTTATTATATT
6430528 AATTTAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (20 bp):
CTTTATGTTTATTATATTTA
Found at i:6430551 original size:16 final size:16
Alignment explanation
Indices: 6430519--6430552 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6430509 ACTTTATGTT
**
6430519 TATTATATTAATTTAA
1 TATTATATTAACATAA
6430535 TATTATATTAACATAA
1 TATTATATTAACATAA
6430551 TA
1 TA
6430553 ATTAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTATATTAACATAA
Found at i:6430561 original size:23 final size:21
Alignment explanation
Indices: 6430531--6430574 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
6430521 TTATATTAAT
6430531 TTAATATTATATTAACATAATAA
1 TTAATATT-TATTAA-ATAATAA
*
6430554 TTAATATTTCTTAAATAATAA
1 TTAATATTTATTAAATAATAA
6430575 ATAAATACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 8 0.40
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAATATTTATTAAATAATAA
Found at i:6430600 original size:23 final size:23
Alignment explanation
Indices: 6430573--6430619 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6430563 CTTAAATAAT
6430573 AAATAAATACATATATGTATTAC
1 AAATAAATACATATATGTATTAC
* ** *
6430596 AAATATATTTATATATTTATTAC
1 AAATAAATACATATATGTATTAC
6430619 A
1 A
6430620 TATTTATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATAAATACATATATGTATTAC
Found at i:6430627 original size:23 final size:23
Alignment explanation
Indices: 6430583--6430636 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
6430573 AAATAAATAC
*
6430583 ATATATGTATTACAAATATATTT
1 ATATATTTATTACAAATATATTT
* *
6430606 ATATATTTATTACATATTTATTT
1 ATATATTTATTACAAATATATTT
*
6430629 -TATTTTTA
1 ATATATTTA
6430637 CCTCACAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (23 bp):
ATATATTTATTACAAATATATTT
Found at i:6431202 original size:9 final size:8
Alignment explanation
Indices: 6431181--6431205 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6431171 TTAGTGTCGA
6431181 GAAAAATT
1 GAAAAATT
6431189 GAAAAATT
1 GAAAAATT
6431197 GAAAAATT
1 GAAAAATT
6431205 G
1 G
6431206 TTTGACTAAT
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:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (8 bp):
GAAAAATT
Found at i:6433928 original size:159 final size:162
Alignment explanation
Indices: 6433703--6434016 Score: 442
Period size: 159 Copynumber: 2.0 Consensus size: 162
6433693 AAAAATTAGA
* * *
6433703 GAGTGTTATTTTTTACGGATTTGCTTGTTGTCTTCAAGGTGTCACTTTCAGTAAGTTCTTTGATT
1 GAGTGTTATTTTTTACGGAGTTGCTTGTTGTCTTCAAGGTGTCACTTTCAGTAAATTCATTGATT
* *
6433768 TGCTTTTTAGTTATTTCA-T-ATGGCTTCCTGATTTTAAGTGTCA-TTTGACTTCAATTTGGATT
66 TGCTTTTTAGTTATTTCATTCATGGCTTCCTAATTTTAAGGGT-AGTTTGACTT-AATTTGGATT
6433830 TGCATCTGCTTTTCTGAA-TCTTTTTTTAAATTG
129 TGCATCTGCTTTTCTGAATTCTTTTTTTAAATTG
* * **
6433863 GAGTGTTA-TTTTTACGGAGTTGCTTGTTGTTTTGAAGGTGTCACTTTTTGTAAATT-ATTGAAT
1 GAGTGTTATTTTTTACGGAGTTGCTTGTTGTCTTCAAGGTGTCACTTTCAGTAAATTCATTG-AT
* * *
6433926 TTGCTTTTTATTTATTTCATTCATGGCTTCCTAATTTTAAGGGTAGTTTGAGTTAGTTTGGATTT
65 TTGCTTTTTAGTTATTTCATTCATGGCTTCCTAATTTTAAGGGTAGTTTGACTTAATTTGGATTT
*
6433991 GCATTTGCTTTTCTGAATTCTTTTTT
130 GCATCTGCTTTTCTGAATTCTTTTTT
6434017 CTTTTTGAAA
Statistics
Matches: 136, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
158 3 0.02
159 62 0.46
160 36 0.26
161 35 0.26
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (162 bp):
GAGTGTTATTTTTTACGGAGTTGCTTGTTGTCTTCAAGGTGTCACTTTCAGTAAATTCATTGATT
TGCTTTTTAGTTATTTCATTCATGGCTTCCTAATTTTAAGGGTAGTTTGACTTAATTTGGATTTG
CATCTGCTTTTCTGAATTCTTTTTTTAAATTG
Found at i:6440925 original size:146 final size:146
Alignment explanation
Indices: 6440555--6440945 Score: 428
Period size: 146 Copynumber: 2.6 Consensus size: 146
6440545 TTTTGGATAT
* * * *
6440555 TAGGTTGCATGACGGGGGGAAGGATGTTCCTGGAGGCTACAAAAATTTTGACTAAGCTTTTTCCA
1 TAGGTTGCATGACAGGGGGAAGGAAGTTCCAGAAGGCTACAAAAATTTTGACTAAGCTTTTTCCA
* * **** * *
6440620 AATAAAATTACCACGTT-AGAGGCTGTTTTCTAGGTCATTGTTAACTTAATGGGTGTAATGTTTT
66 AATAAAGTTACCA--TTCACA---TGCCAACCAGGTCATTGTTAACTTAAGGGGTGTAATGTTTT
*
6440684 GATATTTCAGGGTAGTGTTGG
126 GATATTTCAGGATAGTGTTGG
* ** * *
6440705 TAGGTTGCGTGACAGGGGGAAGGAAGTTCAGATTTCAGAAGGCTACTTAAATTTTTACTAAGCAT
1 TAGGTTGCATGACAGGGGGAAGGAAGTTC------CAGAAGGCTACAAAAATTTTGACTAAGCTT
* * * * *
6440770 TTTCCAAATAAAGTTACCATTCATATGCCAACCATGTTATTGTTAATTTAAGGGGTGTGATGTTT
60 TTTCCAAATAAAGTTACCATTCACATGCCAACCAGGTCATTGTTAACTTAAGGGGTGTAATGTTT
*
6440835 TGCTATTTTCAGGATAGCT-TTGG
125 TGATA-TTTCAGGATAG-TGTTGG
6440858 TAGGTTGCATGACAGGGGGAAGGAAGTTCC-GAAGGCTACAAAAATTTTGACTAAGCTTTTTCCA
1 TAGGTTGCATGACAGGGGGAAGGAAGTTCCAGAAGGCTACAAAAATTTTGACTAAGCTTTTTCCA
6440922 AATAAAGTTACCATTCACATGCCA
66 AATAAAGTTACCATTCACATGCCA
6440946 CAGGTCCGTA
Statistics
Matches: 203, Mismatches: 29, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
146 53 0.26
147 1 0.00
150 26 0.13
152 34 0.17
153 42 0.21
154 3 0.01
155 2 0.01
156 42 0.21
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (146 bp):
TAGGTTGCATGACAGGGGGAAGGAAGTTCCAGAAGGCTACAAAAATTTTGACTAAGCTTTTTCCA
AATAAAGTTACCATTCACATGCCAACCAGGTCATTGTTAACTTAAGGGGTGTAATGTTTTGATAT
TTCAGGATAGTGTTGG
Found at i:6443736 original size:16 final size:16
Alignment explanation
Indices: 6443717--6443750 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6443707 CAGAAAACTA
*
6443717 TTTTTCTTT-TTTCCT
1 TTTTTCTTTACTTCCT
6443732 TTTTTCTTTACTTCCT
1 TTTTTCTTTACTTCCT
6443748 TTT
1 TTT
6443751 GATGCAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCTTTACTTCCT
Found at i:6463086 original size:13 final size:13
Alignment explanation
Indices: 6463068--6463129 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
6463058 TTTGGCAATA
6463068 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
6463081 CTTTTGAAGAGTG
1 CTTTTGAAAAGTG
*
6463094 -TTGTTGAGAAGTG
1 CTT-TTGAAAAGTG
* *
6463107 ATTTTGAGAAGTG
1 CTTTTGAAAAGTG
*
6463120 CTTTGGAAAA
1 CTTTTGAAAA
6463130 ATTTAAGTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
12 2 0.05
13 37 0.90
14 2 0.05
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:6473352 original size:127 final size:127
Alignment explanation
Indices: 6473044--6473360 Score: 420
Period size: 127 Copynumber: 2.5 Consensus size: 127
6473034 CGAAAACCGG
* * * * *
6473044 AACCCAGCATGGTAGGGCACAATTCCTCGAATTTCCAAACATTGAACATTGACTTGCTTTAGAAT
1 AACCCAGCACGATAGGGCACAATTCCTCGAATTTCCAAACATTGAACATTGCCTTGTTTTAAAAT
* * *
6473109 TTAGAAAACCAGAGTGAAATTCAAAAGGAATATTTGGTTATTTTGAACAAATAGGAAATCAA
66 TTAGAAAACCAGAGTGAAATTCAAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCAA
* * * * *
6473171 AACCCAGCACGATAGGGCACGATTCCCCGAATTTTCAAACATTGAATATAGCCTTGTTTTAAAAT
1 AACCCAGCACGATAGGGCACAATTCCTCGAATTTCCAAACATTGAACATTGCCTTGTTTTAAAAT
* * * *
6473236 TTGGGAAACGC-GAGTGAAATTCTAAAGGAATATTCGATTATTTTGAGCAAACAGGAAATCAA
66 TTAGAAAAC-CAGAGTGAAATTCAAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCAA
* * **
6473298 AACCCAGCACGATAGGACACAATTTCTCGAATTTCCAAACATCAAACATTGCCTTCGTTTTAA
1 AACCCAGCACGATAGGGCACAATTCCTCGAATTTCCAAACATTGAACATTGCCTT-GTTTTAA
6473361 GGAATTTTCA
Statistics
Matches: 162, Mismatches: 26, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
127 154 0.95
128 8 0.05
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (127 bp):
AACCCAGCACGATAGGGCACAATTCCTCGAATTTCCAAACATTGAACATTGCCTTGTTTTAAAAT
TTAGAAAACCAGAGTGAAATTCAAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCAA
Found at i:6489478 original size:178 final size:178
Alignment explanation
Indices: 6489006--6489973 Score: 1372
Period size: 178 Copynumber: 5.5 Consensus size: 178
6488996 TTCACAGATT
* * * *
6489006 TTATCTCCATGTATCGACTATGGAGCAGATCAAAAAAGGCGAATCTTATCTCCATGTATCGGCTA
1 TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTATCTTCATGTATCGGCTA
* * *
6489071 TGAAGCAAATTTTAGCCACCAGCCTTATTTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
66 TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
*
6489136 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGGAAATTACAGGTC
131 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTC
* * * * * *
6489184 TTATCTCCATGTACCGAC-ATGAAGCAGATTGAAAATGGCGAATCTTATCTCCTTGTATCGGCTA
1 TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTATCTTCATGTATCGGCTA
* * * *
6489248 TAGAGCAGATTTCAGCTACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGGTTGAAGATACAA
66 TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
* * *
6489313 GTCTTATATTCCTAAGGTAGCAAAGAAGCAGACTGAAAATTACAGGTC
131 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTC
* * *
6489361 TTGTCTCCATGTATCGGCTATGGAGGAGATCGAAAATGGCGAATCTTATCTTTATGTATCGGCTA
1 TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTATCTTCATGTATCGGCTA
*
6489426 TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCGAGAGAGCAGGTTGAAGATACAA
66 TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
*
6489491 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTTAAAATTACAGGTC
131 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTC
* *
6489539 TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTTTCTTCATGTATCGGTTA
1 TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTATCTTCATGTATCGGCTA
*
6489604 TGGAGTAGATTTCAGCCATCAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA----G--
66 TGGAGCAGATTT------T-AGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA
*
6489663 G-T-----TCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAAATTACAGGTC
124 GATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTC
* * *
6489712 TTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGTGAATCTTTTCTTCATGTATCGGCTA
1 TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTATCTTCATGTATCGGCTA
*
6489777 TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGATACAA
66 TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
* *
6489842 G-CATTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAAATTACAGATC
131 GTC-TTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTC
* * * * * *
6489890 TTATCTCCATGTATCGGTTATGGAGCAGATTGAAGATGGTGAGTCTTATC-TCATGTATTGGCTA
1 TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTATCTTCATGTATCGGCTA
*
6489954 TGGAGCAGATCTTAGCCACC
66 TGGAGCAGATTTTAGCCACC
6489974 GATATTATCT
Statistics
Matches: 711, Mismatches: 58, Indels: 43
0.88 0.07 0.05
Matches are distributed among these distances:
166 37 0.05
167 1 0.00
170 1 0.00
172 1 0.00
173 119 0.17
177 191 0.27
178 321 0.45
179 1 0.00
181 1 0.00
184 1 0.00
185 37 0.05
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (178 bp):
TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTATCTTCATGTATCGGCTA
TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTC
Found at i:6489808 original size:351 final size:350
Alignment explanation
Indices: 6489006--6489971 Score: 1385
Period size: 351 Copynumber: 2.7 Consensus size: 350
6488996 TTCACAGATT
* * *
6489006 TTATCTCCATGTATCGACTATGGAGCAGATCAAAAAAGGCGAATCTTATCTCCATGTATCGGCTA
1 TTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAATCTTATCTTCATGTATCGGCTA
* * *
6489071 TGAAGCAAATTTTAGCCACCAGCCTTATTTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
66 TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
* * *
6489136 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGGAAATTACAGGTCTTATCTCCATGTACCGA
131 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTCTTATCTCCATGTATCGG
* * * *
6489201 C-ATGAAGCAGATTGAAAATGGCGAATCTTATCTCCTTGTATCGGCTATAGAGCAGATTTCAG-C
196 CTATGGAGCAGATTGAAAATGGCGAATCTTATCTTCATGTATCGGCTATGGAGCAGATTTCAGCC
*
6489264 -TACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGGTTGAAGATACAAGTCTTATATTCCTAA
261 ATACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA-G--G-AGAT---A-TCTTATATTCCTAA
6489328 GGTAGCAAAGAAGCAGACTGAAAATTACAGGTC
318 GGTAGCAAAGAAGCAGACTGAAAATTACAGGTC
* * * *
6489361 TTGTCTCCATGTATCGGCTATGGAGGAGATCGAAAATGGCGAATCTTATCTTTATGTATCGGCTA
1 TTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAATCTTATCTTCATGTATCGGCTA
*
6489426 TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCGAGAGAGCAGGTTGAAGATACAA
66 TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
*
6489491 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTTAAAATTACAGGTCTTATCTCCATGTATCGG
131 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTCTTATCTCCATGTATCGG
* * * *
6489556 CTATGGAGCAGATCGAAAATGGCGAATCTTTTCTTCATGTATCGGTTATGGAGTAGATTTCAGCC
196 CTATGGAGCAGATTGAAAATGGCGAATCTTATCTTCATGTATCGGCTATGGAGCAGATTTCAGCC
* *
6489621 ATCAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA-G-G-T-TCTTATCTTCCTGAGGT
261 AT-----ACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGAGATATCTTATATTCCTAAGGT
* *
6489682 AGCAAGGAAGTAGACTGAAAATTACAGGTC
321 AGCAAAGAAGCAGACTGAAAATTACAGGTC
* *
6489712 TTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGTGAATCTTTTCTTCATGTATCGGCTA
1 TTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAATCTTATCTTCATGTATCGGCTA
*
6489777 TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGATACAA
66 TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
* *
6489842 G-CATTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAAATTACAGATCTTATCTCCATGTATCG
131 GTC-TTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTCTTATCTCCATGTATCG
* * * * *
6489906 GTTATGGAGCAGATTGAAGATGGTGAGTCTTATC-TCATGTATTGGCTATGGAGCAGATCTT-AG
195 GCTATGGAGCAGATTGAAAATGGCGAATCTTATCTTCATGTATCGGCTATGGAGCAGAT-TTCAG
6489969 CCA
259 CCA
6489972 CCGATATTAT
Statistics
Matches: 553, Mismatches: 48, Indels: 25
0.88 0.08 0.04
Matches are distributed among these distances:
350 27 0.05
351 254 0.46
355 181 0.33
356 54 0.10
357 2 0.00
358 1 0.00
359 1 0.00
363 33 0.06
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (350 bp):
TTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAATCTTATCTTCATGTATCGGCTA
TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTCTTATCTCCATGTATCGG
CTATGGAGCAGATTGAAAATGGCGAATCTTATCTTCATGTATCGGCTATGGAGCAGATTTCAGCC
ATACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGAGATATCTTATATTCCTAAGGTAGCAA
AGAAGCAGACTGAAAATTACAGGTC
Found at i:6491307 original size:32 final size:32
Alignment explanation
Indices: 6491210--6491315 Score: 88
Period size: 32 Copynumber: 3.2 Consensus size: 32
6491200 TTACTCTAAG
* ** *
6491210 TATACATTATTGATTTCCTATTATTTTACGTA
1 TATATATTATTGATTTTATATTATTTTATGTA
* * * *
6491242 AATAT-TTCCTTTGATTTTTTATTTTTTTATATGTA
1 TATATATT--ATTGATTTTATA-TTATTT-TATGTA
6491277 TATATATTATTGATTTTATATTATTTTATGTA
1 TATATATTATTGATTTTATATTATTTTATGTA
*
6491309 TGTATAT
1 TATATAT
6491316 CTTCTTCTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
31 2 0.04
32 15 0.26
33 14 0.25
34 15 0.26
35 9 0.16
36 2 0.04
ACGTcount: A:0.27, C:0.06, G:0.07, T:0.60
Consensus pattern (32 bp):
TATATATTATTGATTTTATATTATTTTATGTA
Found at i:6500343 original size:255 final size:255
Alignment explanation
Indices: 6499892--6500407 Score: 969
Period size: 255 Copynumber: 2.0 Consensus size: 255
6499882 CAAGCTCAAC
6499892 ACTAATAAAGCTCTTTTGAGGCCTACATAGCATGCTACCTTAGTATTGCAAATTTTCGGTAAAAG
1 ACTAATAAAGCTCTTTTGAGGCCTACATAGCATGCTACCTTAGTATTGCAAATTTTCGGTAAAAG
* *
6499957 TACCACGGAGGCCTTTTTATTAGGAGTCGGATTGCATTTTGCTCCCTCAACTCAAAAAATGAGTA
66 TACCACGAAGGCCTTTGTATTAGGAGTCGGATTGCATTTTGCTCCCTCAACTCAAAAAATGAGTA
* *
6500022 AATTAGACCCTATACGTTAGACTAAAGGGCAAAGTAGTCCTTTTGTTATAAATTCTATCCATTTA
131 AATTAGACCCTATACGTTAGACTAAAGAGCAAAGTAGTCCTTCTGTTATAAATTCTATCCATTTA
*
6500087 TATTGTTAAAAACTGGTCCCTGTATGTCTACATAAGAGTACATGTGGCACGTCAAGTGTA
196 TATTGTTAAAAACTGGTCCCTGTATGTCTACATAAGAGTACATGAGGCACGTCAAGTGTA
*
6500147 ACTAATAAAGCTCTTTTGAGGCCTACATAGCATGCTACCTTAGTATTGCAATTTTTCGGTAAAAG
1 ACTAATAAAGCTCTTTTGAGGCCTACATAGCATGCTACCTTAGTATTGCAAATTTTCGGTAAAAG
*
6500212 TATCACGAAGGCCTTTGTATTAGGAGTCGGATTGCATTTTGCTCCCTCAACTCAAAAAATGAGTA
66 TACCACGAAGGCCTTTGTATTAGGAGTCGGATTGCATTTTGCTCCCTCAACTCAAAAAATGAGTA
6500277 AATTAGACCCTATACGTTAGACTAAAGAGCAAAGTAGTCCTTCTGTTATAAATTCTATCCATTTA
131 AATTAGACCCTATACGTTAGACTAAAGAGCAAAGTAGTCCTTCTGTTATAAATTCTATCCATTTA
6500342 TATTGTTAAAAACTGGTCCCTGTATGTCTACATAAGAGTACATGAGGCACGTCAAGTGTA
196 TATTGTTAAAAACTGGTCCCTGTATGTCTACATAAGAGTACATGAGGCACGTCAAGTGTA
6500402 ACTAAT
1 ACTAAT
6500408 TGGTTATTTC
Statistics
Matches: 254, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
255 254 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (255 bp):
ACTAATAAAGCTCTTTTGAGGCCTACATAGCATGCTACCTTAGTATTGCAAATTTTCGGTAAAAG
TACCACGAAGGCCTTTGTATTAGGAGTCGGATTGCATTTTGCTCCCTCAACTCAAAAAATGAGTA
AATTAGACCCTATACGTTAGACTAAAGAGCAAAGTAGTCCTTCTGTTATAAATTCTATCCATTTA
TATTGTTAAAAACTGGTCCCTGTATGTCTACATAAGAGTACATGAGGCACGTCAAGTGTA
Found at i:6503014 original size:21 final size:21
Alignment explanation
Indices: 6502989--6503041 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
6502979 CTCTATTTTT
* *
6502989 AATCTCACCGCTAGAATATCC
1 AATCTCACCGCTACAATAACC
* *
6503010 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
6503031 AATCTCACCGC
1 AATCTCACCGC
6503042 CACCTCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.36, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:6504290 original size:7 final size:7
Alignment explanation
Indices: 6504278--6504306 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
6504268 TGATATGGGG
6504278 TCTTGAC
1 TCTTGAC
6504285 TCTTGAC
1 TCTTGAC
6504292 TCTTGAC
1 TCTTGAC
6504299 TCTTGAC
1 TCTTGAC
6504306 T
1 T
6504307 GTTGCATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCTTGAC
Found at i:6510254 original size:20 final size:20
Alignment explanation
Indices: 6510226--6510288 Score: 63
Period size: 25 Copynumber: 2.9 Consensus size: 20
6510216 TCATGGAAAC
*
6510226 CTTTCGGGAATGCAATGTTT
1 CTTTGGGGAATGCAATGTTT
6510246 CTTTGGGGAGTGCAATGCAATGTTT
1 CTTT--GG-G-G-AATGCAATGTTT
*
6510271 CTTTGGGGAGTGCAATGT
1 CTTTGGGGAATGCAATGT
6510289 GTCACTCTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
20 13 0.36
21 1 0.03
22 2 0.06
23 3 0.08
24 1 0.03
25 16 0.44
ACGTcount: A:0.19, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
CTTTGGGGAATGCAATGTTT
Found at i:6510268 original size:25 final size:25
Alignment explanation
Indices: 6510234--6510287 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
6510224 ACCTTTCGGG
6510234 AATGCAATGTTTCTTTGGGGAGTGC
1 AATGCAATGTTTCTTTGGGGAGTGC
6510259 AATGCAATGTTTCTTTGGGGAGTGC
1 AATGCAATGTTTCTTTGGGGAGTGC
6510284 AATG
1 AATG
6510288 TGTCACTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.11, G:0.31, T:0.35
Consensus pattern (25 bp):
AATGCAATGTTTCTTTGGGGAGTGC
Found at i:6511503 original size:49 final size:49
Alignment explanation
Indices: 6511439--6511536 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
6511429 TTATACATTA
*
6511439 GCATAAGGTACACCTAACATGTCATATGCCACTATCTGGTTATTCCGTC
1 GCATAAGGTACACCTAACATGTCATATGCCAATATCTGGTTATTCCGTC
*
6511488 GCATAAGGTATACCTAACATGTCATATGCCAATATCTGGTTATTCCGTC
1 GCATAAGGTACACCTAACATGTCATATGCCAATATCTGGTTATTCCGTC
6511537 ACTCAAAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (49 bp):
GCATAAGGTACACCTAACATGTCATATGCCAATATCTGGTTATTCCGTC
Found at i:6514153 original size:11 final size:10
Alignment explanation
Indices: 6514102--6514157 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
6514092 CTATGAATAA
*
6514102 AAAATAAAAC
1 AAAATTAAAC
6514112 AAAAATTAAAC
1 -AAAATTAAAC
* *
6514123 TAAATTAAAA
1 AAAATTAAAC
*
6514133 AAAATTATAC
1 AAAATTAAAC
6514143 AAAATTAATAC
1 AAAATTAA-AC
6514154 AAAA
1 AAAA
6514158 CATACGTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
10 22 0.59
11 15 0.41
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAATTAAAC
Found at i:6517734 original size:30 final size:30
Alignment explanation
Indices: 6517700--6517759 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
6517690 ACTTAACAAG
*
6517700 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
6517730 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
6517760 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:6519169 original size:13 final size:15
Alignment explanation
Indices: 6519144--6519182 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
6519134 TCAATATTTT
*
6519144 AATATTTTTAATAT-
1 AATATTTTAAATATG
6519158 AA-ATTTTAAATATG
1 AATATTTTAAATATG
6519172 AATATTTTAAA
1 AATATTTTAAA
6519183 AAATATGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 10 0.45
14 4 0.18
15 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
AATATTTTAAATATG
Found at i:6519169 original size:22 final size:24
Alignment explanation
Indices: 6519121--6519170 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 24
6519111 AGTATATATT
*
6519121 ATATATTTTGATATCAATATTTTA
1 ATATATTTTAATATCAATATTTTA
6519145 ATAT-TTTTAATAT-AA-ATTTTA
1 ATATATTTTAATATCAATATTTTA
6519166 A-ATAT
1 ATATAT
6519171 GAATATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 8 0.33
22 2 0.08
23 8 0.33
24 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
ATATATTTTAATATCAATATTTTA
Found at i:6519727 original size:38 final size:38
Alignment explanation
Indices: 6519638--6519726 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 38
6519628 AAAAATTATA
* * * *
6519638 TTTAATACAATAAACCATTTATTATATTTATTTATGTT
1 TTTAATATAATAAAACATTTATTATATTTATATATATT
6519676 TTTAATATAATAAAACATTTATTATATTTATGATAGTATTT
1 TTTAATATAATAAAACATTTATTATATTTAT-ATA-TA-TT
6519717 TTTAATATAA
1 TTTAATATAA
6519727 ATATTTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 29 0.66
39 2 0.05
40 1 0.02
41 12 0.27
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.52
Consensus pattern (38 bp):
TTTAATATAATAAAACATTTATTATATTTATATATATT
Found at i:6525694 original size:114 final size:114
Alignment explanation
Indices: 6525494--6525725 Score: 455
Period size: 114 Copynumber: 2.0 Consensus size: 114
6525484 TATAATTCTT
6525494 AATTTGCATGTTTTGTTTGTACAATTTAATATATCTAGATTTATGGGTTTGTACAATTTCTAAAG
1 AATTTGCATGTTTTGTTTGTACAATTTAATATATCTAGATTTATGGGTTTGTACAATTTCTAAAG
6525559 TTATGATAAAAAATTATATTATTTATAAGGAGGACTATGAAGTTATTAG
66 TTATGATAAAAAATTATATTATTTATAAGGAGGACTATGAAGTTATTAG
*
6525608 AATTTGCATGTTTTGTTTGTACAATTTCATATATCTAGATTTATGGGTTTGTACAATTTCTAAAG
1 AATTTGCATGTTTTGTTTGTACAATTTAATATATCTAGATTTATGGGTTTGTACAATTTCTAAAG
6525673 TTATGATAAAAAATTATATTATTTATAAGGAGGACTATGAAGTTATTAG
66 TTATGATAAAAAATTATATTATTTATAAGGAGGACTATGAAGTTATTAG
6525722 AATT
1 AATT
6525726 ATTATAAAAC
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 117 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.44
Consensus pattern (114 bp):
AATTTGCATGTTTTGTTTGTACAATTTAATATATCTAGATTTATGGGTTTGTACAATTTCTAAAG
TTATGATAAAAAATTATATTATTTATAAGGAGGACTATGAAGTTATTAG
Found at i:6526490 original size:16 final size:16
Alignment explanation
Indices: 6526469--6526511 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
6526459 TTTTAGAAAA
6526469 TTTTTAAATTTATAAT
1 TTTTTAAATTTATAAT
**
6526485 TTTTTAAAAATATAAT
1 TTTTTAAATTTATAAT
* *
6526501 TGTTGAAATTT
1 TTTTTAAATTT
6526512 TTATAAATAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (16 bp):
TTTTTAAATTTATAAT
Found at i:6532222 original size:61 final size:61
Alignment explanation
Indices: 6532147--6532279 Score: 194
Period size: 61 Copynumber: 2.2 Consensus size: 61
6532137 ATCAATCGAG
* *
6532147 ACTATTAGTAATAGAGATGTATCTATTTATCACTAGAGTAAGCTACACCCAAAGTCACTAA
1 ACTATTAGTAATAGAAATGCATCTATTTATCACTAGAGTAAGCTACACCCAAAGTCACTAA
*** * * *
6532208 ACTATTAGTAATAGAAATGCATCTATTTATTGTTAGAGTAAGCTACACTCAAGGTCATTAA
1 ACTATTAGTAATAGAAATGCATCTATTTATCACTAGAGTAAGCTACACCCAAAGTCACTAA
6532269 ACTATTAGTAA
1 ACTATTAGTAA
6532280 GTTTACATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (61 bp):
ACTATTAGTAATAGAAATGCATCTATTTATCACTAGAGTAAGCTACACCCAAAGTCACTAA
Found at i:6536976 original size:22 final size:24
Alignment explanation
Indices: 6536928--6536973 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
6536918 GTAAGGCCCC
*
6536928 TTCTCTTGCTGCTGTTCAATTTCCG
1 TTCTCTTGCTGCTGGT-AATTTCCG
6536953 TTCTCTTGCTGCTGGT-ATTTC
1 TTCTCTTGCTGCTGGTAATTTC
6536974 GTTTCCTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
25 15 0.75
ACGTcount: A:0.07, C:0.26, G:0.17, T:0.50
Consensus pattern (24 bp):
TTCTCTTGCTGCTGGTAATTTCCG
Found at i:6539013 original size:20 final size:20
Alignment explanation
Indices: 6538985--6539033 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
6538975 CAATTTAAAA
6538985 TATAAAAATTTATTAATATT
1 TATAAAAATTTATTAATATT
* *
6539005 TATATAAATTTATTAATATA
1 TATAAAAATTTATTAATATT
*
6539025 TGTAAAAAT
1 TATAAAAAT
6539034 AACTTTTACG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TATAAAAATTTATTAATATT
Found at i:6539146 original size:20 final size:20
Alignment explanation
Indices: 6539121--6539160 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6539111 AAATATTTTC
*
6539121 AGTAAATCATTTTCTAGAAA
1 AGTAAATCATTTTCCAGAAA
*
6539141 AGTAAATTATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
6539161 TCATTTTCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:6546129 original size:10 final size:10
Alignment explanation
Indices: 6546114--6546139 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6546104 GTCTGATTAG
6546114 TTGGTTTGAT
1 TTGGTTTGAT
6546124 TTGGTTTGAT
1 TTGGTTTGAT
6546134 TTGGTT
1 TTGGTT
6546140 CGTGTTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (10 bp):
TTGGTTTGAT
Found at i:6547197 original size:19 final size:18
Alignment explanation
Indices: 6547167--6547227 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 18
6547157 TTCATTTTAA
6547167 TAAAATTTATAAAAATTAT
1 TAAAA-TTATAAAAATTAT
*
6547186 TAAGAATTATAAAAATTAA
1 TAA-AATTATAAAAATTAT
*
6547205 TAAAAATATTAAAAATTA-
1 TAAAATTA-TAAAAATTAT
6547223 TAAAA
1 TAAAA
6547228 AAATTACAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 9 0.24
19 27 0.71
20 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
TAAAATTATAAAAATTAT
Found at i:6547228 original size:9 final size:9
Alignment explanation
Indices: 6547166--6547311 Score: 79
Period size: 9 Copynumber: 15.8 Consensus size: 9
6547156 ATTCATTTTA
*
6547166 ATAAAATTT
1 ATAAAAATT
6547175 ATAAAAATT
1 ATAAAAATT
*
6547184 ATTAAGAATT
1 A-TAAAAATT
6547194 ATAAAAATT
1 ATAAAAATT
6547203 AATAAAAA-T
1 -ATAAAAATT
6547212 ATTAAAAATT
1 A-TAAAAATT
6547222 ATAAAAAAATT
1 AT--AAAAATT
* **
6547233 ACAAGTCATT
1 ATAA-AAATT
6547243 ATAATAATATT
1 ATAA-AA-ATT
**
6547254 -TAAATTTT
1 ATAAAAATT
6547262 ATAAAAA-T
1 ATAAAAATT
6547270 A-AGAAAATT
1 ATA-AAAATT
6547279 AT-AAAA-T
1 ATAAAAATT
*
6547286 ATTAAAAAGT
1 A-TAAAAATT
*
6547296 AGAAAAATT
1 ATAAAAATT
6547305 ATAAAAA
1 ATAAAAA
6547312 CATTATAATT
Statistics
Matches: 105, Mismatches: 17, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
7 3 0.03
8 14 0.13
9 49 0.47
10 28 0.27
11 11 0.10
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:6547228 original size:19 final size:19
Alignment explanation
Indices: 6547176--6547319 Score: 63
Period size: 19 Copynumber: 7.6 Consensus size: 19
6547166 ATAAAATTTA
* *
6547176 TAAAAATTATTAAGAAT-T
1 TAAAAATTATAAAAAATAT
6547194 ATAAAAATTA-ATAAAAATAT
1 -TAAAAATTATA-AAAAATAT
6547214 TAAAAATTATAAAAAA-AT
1 TAAAAATTATAAAAAATAT
* *
6547232 TACAAGTCATTAT-AATAATAT
1 TA-AA--AATTATAAAAAATAT
* *
6547253 T-TAAATTTTATAAAAATA-
1 TAAAAATTATA-AAAAATAT
6547271 -AGAAAATTAT--AAAATAT
1 TA-AAAATTATAAAAAATAT
* * *
6547288 TAAAAAGTAGAAAAATTAT
1 TAAAAATTATAAAAAATAT
*
6547307 AAAAACATTATAA
1 TAAAA-ATTATAA
6547320 TTATGCCAAC
Statistics
Matches: 93, Mismatches: 16, Indels: 31
0.66 0.11 0.22
Matches are distributed among these distances:
16 6 0.06
17 10 0.11
18 5 0.05
19 53 0.57
20 11 0.12
21 8 0.09
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (19 bp):
TAAAAATTATAAAAAATAT
Found at i:6547293 original size:26 final size:27
Alignment explanation
Indices: 6547255--6547319 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
6547245 AATAATATTT
*
6547255 AAATTTTATAAAAATA-AGAAAATTATA
1 AAATATTATAAAAATAGA-AAAATTATA
*
6547282 AAATATTA-AAAAGTAGAAAAATTATAA
1 AAATATTATAAAAATAGAAAAATTAT-A
*
6547309 AAACATTATAA
1 AAATATTATAA
6547320 TTATGCCAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 14 0.44
27 16 0.50
28 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (27 bp):
AAATATTATAAAAATAGAAAAATTATA
Found at i:6550488 original size:3 final size:3
Alignment explanation
Indices: 6550480--6550537 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
6550470 CCTAACATAC
6550480 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6550528 ATA ATA ATA A
1 ATA ATA ATA A
6550538 GATGTGCTTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6552116 original size:9 final size:10
Alignment explanation
Indices: 6552067--6552117 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
6552057 AATAATTTAA
*
6552067 TTTTTTTTTC
1 TTTTATTTTC
*
6552077 TTTTATATTC
1 TTTTATTTTC
6552087 TTTTAACTTTTC
1 TTTT-A-TTTTC
*
6552099 TTTTTTTTTC
1 TTTTATTTTC
6552109 -TTTATTTTC
1 TTTTATTTTC
6552118 CATTATCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 8 0.24
10 17 0.50
11 1 0.03
12 8 0.24
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTATTTTC
Found at i:6552128 original size:31 final size:32
Alignment explanation
Indices: 6552067--6552128 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
6552057 AATAATTTAA
**
6552067 TTTTTTTTTCTTTTATATTCTTTTAACTTTTC
1 TTTTTTTTTCTTTTATATTCCATTAACTTTTC
* *
6552099 TTTTTTTTTC-TTTATTTTCCATTATCTTTT
1 TTTTTTTTTCTTTTATATTCCATTAACTTTT
6552129 GCTTCTCCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (32 bp):
TTTTTTTTTCTTTTATATTCCATTAACTTTTC
Found at i:6552585 original size:21 final size:21
Alignment explanation
Indices: 6552559--6552599 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6552549 AATTTGGTAT
*
6552559 TTTTTATGTAATATTGTATTA
1 TTTTTATGTAATATAGTATTA
*
6552580 TTTTTATTTAATATAGTATT
1 TTTTTATGTAATATAGTATT
6552600 TGTATTTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (21 bp):
TTTTTATGTAATATAGTATTA
Found at i:6553559 original size:15 final size:15
Alignment explanation
Indices: 6553518--6553559 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6553508 TATTTATATT
6553518 ATATTATATTTT-AA
1 ATATTATATTTTAAA
*
6553532 TTATT-TATGTTTAAA
1 ATATTATAT-TTTAAA
6553547 ATATTATATTTTA
1 ATATTATATTTTA
6553560 GTTATGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 3 0.13
14 7 0.30
15 10 0.43
16 3 0.13
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
ATATTATATTTTAAA
Found at i:6554905 original size:14 final size:14
Alignment explanation
Indices: 6554886--6554913 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6554876 ATTGTTACAC
6554886 TATTAACGACAATT
1 TATTAACGACAATT
6554900 TATTAACGACAATT
1 TATTAACGACAATT
6554914 AATATTCGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
TATTAACGACAATT
Found at i:6556176 original size:24 final size:25
Alignment explanation
Indices: 6556149--6556199 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
6556139 ATATAATTGC
6556149 TACATGAAGTTT-TTTTTA-AATAAA
1 TACATGAA-TTTGTTTTTATAATAAA
*
6556173 TACATTAATTTGTTTTTATAATAAA
1 TACATGAATTTGTTTTTATAATAAA
6556198 TA
1 TA
6556200 AATAAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 3 0.12
24 13 0.54
25 8 0.33
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (25 bp):
TACATGAATTTGTTTTTATAATAAA
Found at i:6557021 original size:18 final size:17
Alignment explanation
Indices: 6557000--6557047 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
6556990 TTATAACATT
*
6557000 TTTATGATTTTTATAATA
1 TTTATAATTTTTA-AATA
6557018 TTTAATAATTTTTAAATA
1 TTT-ATAATTTTTAAATA
*
6557036 TTTATTATTTTT
1 TTTATAATTTTT
6557048 TGAAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 8 0.30
18 10 0.37
19 9 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTATAATTTTTAAATA
Found at i:6557048 original size:19 final size:18
Alignment explanation
Indices: 6557006--6557053 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
6556996 CATTTTTATG
6557006 ATTTTTATAATATTTAATA
1 ATTTTTA-AATATTTAATA
*
6557025 ATTTTTAAATATTTATTA
1 ATTTTTAAATATTTAATA
*
6557043 TTTTTTGAAAT
1 ATTTTT-AAAT
6557054 TAAAATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTTTAAATATTTAATA
Found at i:6560937 original size:13 final size:13
Alignment explanation
Indices: 6560919--6560945 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6560909 AAAATATCAT
6560919 TGAATTATTTTAA
1 TGAATTATTTTAA
6560932 TGAATTATTTTAA
1 TGAATTATTTTAA
6560945 T
1 T
6560946 TTTTTTATTT
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:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TGAATTATTTTAA
Found at i:6562504 original size:33 final size:33
Alignment explanation
Indices: 6562462--6562528 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
6562452 GTGTAACGGT
6562462 AAGCTGATGTGGCACGTTAAAGCATCATTTCAA
1 AAGCTGATGTGGCACGTTAAAGCATCATTTCAA
6562495 AAGCTGATGTGGCACGTTAAAGCATCATTTCAA
1 AAGCTGATGTGGCACGTTAAAGCATCATTTCAA
6562528 A
1 A
6562529 CAAAAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (33 bp):
AAGCTGATGTGGCACGTTAAAGCATCATTTCAA
Found at i:6563036 original size:38 final size:38
Alignment explanation
Indices: 6562955--6563029 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
6562945 TACTAAATAT
6562955 ATTTTACTTTTATTTACGTCTAAAATTATCAAATTATA
1 ATTTTACTTTTATTTACGTCTAAAATTATCAAATTATA
6562993 ATTTTACTTTTATTTACGTCTAAAATTATCAAATTAT
1 ATTTTACTTTTATTTACGTCTAAAATTATCAAATTAT
6563030 CTTTTTAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.11, G:0.03, T:0.51
Consensus pattern (38 bp):
ATTTTACTTTTATTTACGTCTAAAATTATCAAATTATA
Found at i:6571597 original size:27 final size:27
Alignment explanation
Indices: 6571562--6571615 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
6571552 TTTTAAAAAA
6571562 TAAAATACATGACAATTTTTAAAATTT
1 TAAAATACATGACAATTTTTAAAATTT
6571589 TAAAATACATGACAATTTTTAAAATTT
1 TAAAATACATGACAATTTTTAAAATTT
6571616 ACTCGTGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (27 bp):
TAAAATACATGACAATTTTTAAAATTT
Found at i:6571616 original size:26 final size:26
Alignment explanation
Indices: 6571552--6571616 Score: 103
Period size: 27 Copynumber: 2.5 Consensus size: 26
6571542 AAAATAAATA
**
6571552 TTTTAAAAAATAAAATACATGACAAT
1 TTTTAAAATTTAAAATACATGACAAT
6571578 TTTTAAAATTTTAAAATACATGACAAT
1 TTTTAAAA-TTTAAAATACATGACAAT
6571605 TTTTAAAATTTA
1 TTTTAAAATTTA
6571617 CTCGTGGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 12 0.33
27 24 0.67
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (26 bp):
TTTTAAAATTTAAAATACATGACAAT
Found at i:6576197 original size:26 final size:29
Alignment explanation
Indices: 6576151--6576216 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 29
6576141 AAACATCATT
6576151 AAAA-ATAATA-AAAATACAAATT-T-TA
1 AAAATATAATATAAAATACAAATTGTATA
*
6576176 AAAATATAATATACAATA-AAATTGTATA
1 AAAATATAATATAAAATACAAATTGTATA
*
6576204 AATAATTTAATAT
1 AA-AATATAATAT
6576217 TTGTAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 4 0.12
26 11 0.32
27 6 0.18
28 4 0.12
29 9 0.26
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAATATAATATAAAATACAAATTGTATA
Found at i:6583862 original size:19 final size:18
Alignment explanation
Indices: 6583823--6583863 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
6583813 ACTTTGCTTA
* *
6583823 TTTGTTTAAATTTTAAGG
1 TTTGTTTAAATTTGAAAG
6583841 TTTGTTTGAAATTTGAAAG
1 TTTGTTT-AAATTTGAAAG
6583860 TTTG
1 TTTG
6583864 GACAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (18 bp):
TTTGTTTAAATTTGAAAG
Found at i:6586217 original size:24 final size:23
Alignment explanation
Indices: 6586185--6586233 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
6586175 ATCAGGTAGT
6586185 TCACAAAGAACCATATCGGGAAGC
1 TCACAAAGAACC-TATCGGGAAGC
* *
6586209 TCACGAAGAGCCTATCGGGAAGC
1 TCACAAAGAACCTATCGGGAAGC
6586232 TC
1 TC
6586234 TAGATAGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.35, C:0.27, G:0.24, T:0.14
Consensus pattern (23 bp):
TCACAAAGAACCTATCGGGAAGC
Found at i:6587930 original size:18 final size:20
Alignment explanation
Indices: 6587903--6587951 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
6587893 TAATTAATAA
* *
6587903 TAAAATAATAAAATATCTCAT
1 TAAAATAAT-ATATATCTAAT
6587924 TAAAATAATATATATCTAAT
1 TAAAATAATATATATCTAAT
6587944 T-AAATAAT
1 TAAAATAAT
6587952 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 9 0.35
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATATATATCTAAT
Found at i:6587940 original size:20 final size:21
Alignment explanation
Indices: 6587903--6587962 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
6587893 TAATTAATAA
*
6587903 TAAAATAATAAAATATCTCAT
1 TAAAATAATAAAATATCTAAT
*
6587924 TAAAATAAT-ATATATCTAAT
1 TAAAATAATAAAATATCTAAT
*
6587944 TAAATAATCATAAAATATC
1 T-AA-AATAATAAAATATC
6587963 ATCAACATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.31
21 11 0.34
22 5 0.16
23 6 0.19
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATAATAAAATATCTAAT
Found at i:6590152 original size:16 final size:17
Alignment explanation
Indices: 6590121--6590153 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6590111 TTCATAAGTA
6590121 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
6590138 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
6590154 GCTTCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:6590499 original size:46 final size:46
Alignment explanation
Indices: 6590439--6590706 Score: 288
Period size: 46 Copynumber: 5.8 Consensus size: 46
6590429 TTTGACATGA
* * * *
6590439 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCACGT
* ** * *
6590485 TGCCATGGTATCTTTCAACCATGGTCCTGTTCATTTCATGTTACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
* * * ** *
6590531 TGCCATGGTATTTTTCAACCATGGTCTTATTTA-TTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
** * *
6590576 TGCCATGGTATCTTTCAACCATAATCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
* * * *
6590622 TGCCATGGTATCTTTCAACCATGGTCTCACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
* *
6590668 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
6590707 TTCAGAAAGC
Statistics
Matches: 184, Mismatches: 36, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
45 39 0.21
46 145 0.79
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
Found at i:6590595 original size:91 final size:92
Alignment explanation
Indices: 6590439--6590693 Score: 314
Period size: 91 Copynumber: 2.8 Consensus size: 92
6590429 TTTGACATGA
* * * * *
6590439 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
* *
6590504 CATGGTCCTGTTCATTTCATGTTACAT
66 CATGGTCCTATTCATTTCATGTCACAT
* * * *
6590531 TGCCATGGTATTTTTCAACCATGGTCTTATTTA-TTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
** * * *
6590595 CATAATCTTATTCTTTTCATGTCACGT
66 CATGGTCCTATTCATTTCATGTCACAT
* * * * *
6590622 TGCCATGGTATCTTTCAACCATGGTCTCACACATTTCATATCATGTTGCCATGGTGTCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
6590687 CATGGTC
66 CATGGTC
6590694 TTACACATTT
Statistics
Matches: 135, Mismatches: 27, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
91 76 0.56
92 59 0.44
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCCTATTCATTTCATGTCACAT
Found at i:6590671 original size:137 final size:137
Alignment explanation
Indices: 6590434--6590696 Score: 341
Period size: 137 Copynumber: 1.9 Consensus size: 137
6590424 TTATCTTTGA
* * ** *
6590434 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCAGGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATAATCTTACTCATTTTCTGTCACGTTGCCATGGTATCTT
*** * * *
6590499 TCAACCATGGTCCTGTTCATTTCATGTTACATTGCCATGGTATTTTTCAACCATGGTCTTATTTA
66 TCAACCATGGTCCTACACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTATTTA
6590564 TTCCCGT
131 TTCCCGT
* * *
6590571 CATGTTGCCATGGTATCTTTCAACCATAATCTTATTC-TTTTCATGTCACGTTGCCATGGTATCT
1 CATGATGCCATAGTATCTTTCAACCATAATCTTACTCATTTTC-TGTCACGTTGCCATGGTATCT
** *
6590635 TTCAACCATGGT-CTCACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCATGGTCTTA
65 TTCAACCATGGTCCT-ACACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTA
6590697 CACATTTCAT
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
136 7 0.07
137 100 0.93
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (137 bp):
CATGATGCCATAGTATCTTTCAACCATAATCTTACTCATTTTCTGTCACGTTGCCATGGTATCTT
TCAACCATGGTCCTACACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTATTTA
TTCCCGT
Found at i:6598889 original size:159 final size:152
Alignment explanation
Indices: 6598552--6598939 Score: 419
Period size: 151 Copynumber: 2.5 Consensus size: 152
6598542 CATACAATTG
* * *
6598552 TTTCA-TTATTACAGTTCAAGATTGTAAAAGCTGTAACAATTCATTCATGAGGAG-AAAAGGATA
1 TTTCACTT-TTACAGTTCAAGATGGTTAAAGCTGTAAGAATTCATTCATGAGGAGAAAAAGGATA
* * * * * * * *
6598615 AATGAAAAGAAAAAGTAAGAGATGATACGCTTTATCCATCTTCAATGTCAACTTGGTTTGGTTCA
65 AAGGAAAAGAAAAAGTAAGACATGATACACTTTAACCATCTGCAATGTCAAATTGGTTCGATTCA
* * *
6598680 ATCACATCCGCTTGTAGCGTATA
130 ATCACATCCACTTGCAGCATATA
*
6598703 TTTCACTTTTACAGTTCATGATGGTTAAAGCTGTAAGAATTCATTCATGAGGAGAAAAAGGATAA
1 TTTCACTTTTACAGTTCAAGATGGTTAAAGCTGTAAGAATTCATTCATGAGGAGAAAAAGGATAA
* *
6598768 AGGAAAAGAACAAGGTAAGACATGATACACTTTAACCGTCTGCAGA-GTTCAAATTGGTTCGATT
66 AGGAAAAGAA-AAAGTAAGACATGATACACTTTAACCATCTGCA-ATG-TCAAATTGGTTCGATT
* * **
6598832 CACTCACTTCCACTTGCATTATATAA
128 CAATCACATCCACTTGCAGCATAT-A
* * *
6598858 TCGTTCCATTTTATACAGTTCAAGATGGTTAAAGCTGTAAG-ATCCATTCATGA-G-GACAAAGG
1 T--TT-CACTTT-TACAGTTCAAGATGGTTAAAGCTGTAAGAATTCATTCATGAGGAGAAAAAGG
6598920 AATAAAGGAAAAGGAAAAAG
62 -ATAAAGGAAAA-GAAAAAG
6598940 AAAAAGAAAA
Statistics
Matches: 199, Mismatches: 26, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
151 47 0.24
152 21 0.11
153 28 0.14
154 31 0.16
155 2 0.01
156 7 0.04
157 17 0.09
158 19 0.10
159 27 0.14
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (152 bp):
TTTCACTTTTACAGTTCAAGATGGTTAAAGCTGTAAGAATTCATTCATGAGGAGAAAAAGGATAA
AGGAAAAGAAAAAGTAAGACATGATACACTTTAACCATCTGCAATGTCAAATTGGTTCGATTCAA
TCACATCCACTTGCAGCATATA
Found at i:6606459 original size:80 final size:79
Alignment explanation
Indices: 6606375--6606546 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
6606365 GGACTAAGAT
*
6606375 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
6606439 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
6606455 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
6606520 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
6606534 CCGAAGGCATTTG
1 CCGAAGGCATTTG
6606547 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:6606526 original size:39 final size:39
Alignment explanation
Indices: 6606322--6606544 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
6606312 TTAAATGCTG
* * * * *
6606322 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
6606362 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
6606401 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
6606442 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
6606482 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
6606521 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
6606545 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:6606564 original size:79 final size:80
Alignment explanation
Indices: 6606402--6606569 Score: 180
Period size: 79 Copynumber: 2.1 Consensus size: 80
6606392 AGATACAAAT
* * *
6606402 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
6606467 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * * *
6606482 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
6606546 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
6606561 TCC-GGTTAA
1 TCCGGGTTAA
6606570 ATTCCGAAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
78 6 0.08
79 48 0.67
80 18 0.25
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:6608691 original size:27 final size:26
Alignment explanation
Indices: 6608655--6608705 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
6608645 TTTAAAATAA
*
6608655 TTATAATTTAATAAA-AATTGTGATAG
1 TTATAATTTAA-AAATAATTATGATAG
6608681 TTATACATTTAAAAATAATTATGAT
1 TTATA-ATTTAAAAATAATTATGAT
6608706 TTAATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (26 bp):
TTATAATTTAAAAATAATTATGATAG
Found at i:6608708 original size:44 final size:42
Alignment explanation
Indices: 6608628--6608710 Score: 121
Period size: 44 Copynumber: 1.9 Consensus size: 42
6608618 TTTAGGAGCC
*
6608628 AATTGTGACATTATAATTTTAAAATAATTATAATTTAATAAA
1 AATTGTGACATTATAATTTAAAAATAATTATAATTTAATAAA
* *
6608670 AATTGTGATAGTTATACATTTAAAAATAATTATGATTTAAT
1 AATTGTGACA-TTATA-ATTTAAAAATAATTATAATTTAAT
6608711 TTATAATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 9 0.25
43 5 0.14
44 22 0.61
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.43
Consensus pattern (42 bp):
AATTGTGACATTATAATTTAAAAATAATTATAATTTAATAAA
Found at i:6609007 original size:17 final size:17
Alignment explanation
Indices: 6608987--6609020 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6608977 TTAGAGTTAT
*
6608987 TTACTGATTAAAATTTA
1 TTACCGATTAAAATTTA
6609004 TTACCGATTAAAATTTA
1 TTACCGATTAAAATTTA
6609021 ACTTTAGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (17 bp):
TTACCGATTAAAATTTA
Found at i:6609776 original size:41 final size:41
Alignment explanation
Indices: 6609689--6609776 Score: 158
Period size: 41 Copynumber: 2.1 Consensus size: 41
6609679 ATGTGCAATA
*
6609689 CATATAAGTAAAAGCATAGTATAGATTTTTGTACTAAGGGT
1 CATATTAGTAAAAGCATAGTATAGATTTTTGTACTAAGGGT
*
6609730 CATATTAGTAAAAGCATAGTATAGGTTTTTGTACTAAGGGT
1 CATATTAGTAAAAGCATAGTATAGATTTTTGTACTAAGGGT
6609771 CATATT
1 CATATT
6609777 GCATTTTGCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (41 bp):
CATATTAGTAAAAGCATAGTATAGATTTTTGTACTAAGGGT
Found at i:6610711 original size:221 final size:221
Alignment explanation
Indices: 6610328--6610766 Score: 844
Period size: 221 Copynumber: 2.0 Consensus size: 221
6610318 GCCGGGTTAC
6610328 ATTTTGACTTCTTTATTAAAAATAGATAAATTAATCTCTCTATTAAATTAAATAATAAATTGGTA
1 ATTTTGACTTCTTTATTAAAAATAGATAAATTAATCTCTCTATTAAATTAAATAATAAATTGGTA
*
6610393 ATTCTATTAAAAGAATATCATTTAATTATATTATTCAAAACTAATTAGCATATATGAACATAAAA
66 ATTCTATTAAAAGAATATCATTTAATTATATTATTCAAAACTAATCAGCATATATGAACATAAAA
6610458 TAAATGAGATACACTAAATATTACTATATTATTATTTTATTAACTATGACAATTTTTTAGATATT
131 TAAATGAGATACACTAAATATTACTATATTATTATTTTATTAACTATGACAATTTTTTAGATATT
6610523 TTTATAAAATTTAAATATTTAATTAG
196 TTTATAAAATTTAAATATTTAATTAG
6610549 ATTTTGAC-TCTTTTATTAAAAATAGATAAATTAATCTCTCTATTAAATTAAATAATAAATTGGT
1 ATTTTGACTTC-TTTATTAAAAATAGATAAATTAATCTCTCTATTAAATTAAATAATAAATTGGT
*
6610613 AATTCTATTAAAAGAATATCATTTAATTATATTATTCAAAACTAATCAGCATATATTAACATAAA
65 AATTCTATTAAAAGAATATCATTTAATTATATTATTCAAAACTAATCAGCATATATGAACATAAA
6610678 ATAAATGAGATACACTAAATATTACTATATTATTATTTTATTAACTATGACAATTTTTTAGATAT
130 ATAAATGAGATACACTAAATATTACTATATTATTATTTTATTAACTATGACAATTTTTTAGATAT
6610743 TTTTATAAAATTTAAATATTTAAT
195 TTTTATAAAATTTAAATATTTAAT
6610767 CAAATTTTTT
Statistics
Matches: 215, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
220 2 0.01
221 213 0.99
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (221 bp):
ATTTTGACTTCTTTATTAAAAATAGATAAATTAATCTCTCTATTAAATTAAATAATAAATTGGTA
ATTCTATTAAAAGAATATCATTTAATTATATTATTCAAAACTAATCAGCATATATGAACATAAAA
TAAATGAGATACACTAAATATTACTATATTATTATTTTATTAACTATGACAATTTTTTAGATATT
TTTATAAAATTTAAATATTTAATTAG
Found at i:6611844 original size:29 final size:31
Alignment explanation
Indices: 6611792--6611855 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 31
6611782 AATATATAGT
6611792 AAAA-TTATATTTAATTCTTATAAAATTATA
1 AAAATTTATATTTAATTCTTATAAAATTATA
*
6611822 AAAATTTA-ATTTAATT-TTTTAAAATTATA
1 AAAATTTATATTTAATTCTTATAAAATTATA
6611851 AAAAT
1 AAAAT
6611856 GTAAACTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 17 0.53
30 12 0.38
31 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (31 bp):
AAAATTTATATTTAATTCTTATAAAATTATA
Found at i:6618297 original size:30 final size:31
Alignment explanation
Indices: 6618261--6618320 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
6618251 AACAACCTAA
*
6618261 TGACTTAATTAAAAAC-TTTGAATAGTTTAC
1 TGACTTAACTAAAAACTTTTGAATAGTTTAC
*
6618291 TGACTTAACTGAAAACTTTTGAATAGTTTA
1 TGACTTAACTAAAAACTTTTGAATAGTTTA
6618321 GTAACTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (31 bp):
TGACTTAACTAAAAACTTTTGAATAGTTTAC
Found at i:6621012 original size:60 final size:61
Alignment explanation
Indices: 6620948--6621064 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 61
6620938 AACCAAAAAA
* * * * *
6620948 CCAAGTTTAGGTACCTAACCGGACCAAAATAAA-CTTTAAATACTAAATTGAACCTTAAAG
1 CCAAGTTCAAGTACCTAACCGGACCAAAACAAATCCTTAAATACCAAATTGAACCTTAAAG
* ** * *
6621008 CCAAGTTCAAGTACTTAATTGGACCAAAACAAATCCTTAAGTACCAATTTGAACCTT
1 CCAAGTTCAAGTACCTAACCGGACCAAAACAAATCCTTAAATACCAAATTGAACCTT
6621065 GATACTAACT
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
60 27 0.59
61 19 0.41
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.26
Consensus pattern (61 bp):
CCAAGTTCAAGTACCTAACCGGACCAAAACAAATCCTTAAATACCAAATTGAACCTTAAAG
Found at i:6622244 original size:20 final size:21
Alignment explanation
Indices: 6622215--6622253 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
6622205 TATGCTAATA
6622215 TTTTTGAATTTTAA-TGAATT
1 TTTTTGAATTTTAACTGAATT
*
6622235 TTTTTTAATTTTAACTGAA
1 TTTTTGAATTTTAACTGAA
6622254 GTGAATTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.59
Consensus pattern (21 bp):
TTTTTGAATTTTAACTGAATT
Found at i:6626480 original size:66 final size:66
Alignment explanation
Indices: 6626374--6626506 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
6626364 CTTATAGGAA
*
6626374 TGGATCATATTTTGTGACTAGCTATTTACTTATTCGGAGAACACCCACGAGGAGGGGATTAAAAA
1 TGGATCATATTTTGCGACTAGCTATTTACTTATTCGGAGAACACCCACGAGGAGGGGATTAAAAA
6626439 C
66 C
6626440 TGGATCATATTTTGCGACTAGCTATTTACTTATTCGGAGAACACCCACGAGGAGGGGATTAAAAA
1 TGGATCATATTTTGCGACTAGCTATTTACTTATTCGGAGAACACCCACGAGGAGGGGATTAAAAA
6626505 C
66 C
6626506 T
1 T
6626507 AACATCAATG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (66 bp):
TGGATCATATTTTGCGACTAGCTATTTACTTATTCGGAGAACACCCACGAGGAGGGGATTAAAAA
C
Found at i:6627409 original size:21 final size:22
Alignment explanation
Indices: 6627363--6627409 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
6627353 AATTGTTGAT
*
6627363 TAAATAACATATTATTAACAAA
1 TAAATAACATATTATTAAAAAA
6627385 -AAATAA-ATA-TATTAAAATAA
1 TAAATAACATATTATTAAAA-AA
6627405 TAAAT
1 TAAAT
6627410 TTAGACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 7 0.32
20 5 0.23
21 10 0.45
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAATAACATATTATTAAAAAA
Found at i:6630365 original size:31 final size:29
Alignment explanation
Indices: 6630330--6630442 Score: 84
Period size: 31 Copynumber: 3.7 Consensus size: 29
6630320 TTTCTTAAAA
6630330 TTTTTGAAAATTTTAATTATACTCCTTAATT
1 TTTTTGAAAATTTTAATTA-ACT-CTTAATT
* * *
6630361 TTTTT-TAAATTCTCATTGAACTCTTAATT
1 TTTTTGAAAATTTTAATT-AACTCTTAATT
** **
6630390 TGTTTTTTAAATTTTAATTAAACATTCTTAAAG
1 T-TTTTGAAAATTTTAATT-AAC--TCTTAATT
*
6630423 TTTTTGAAAATTTTCATTAA
1 TTTTTGAAAATTTTAATTAA
6630443 TCTCAGATAC
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
29 8 0.12
30 16 0.24
31 21 0.32
32 14 0.21
33 7 0.11
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (29 bp):
TTTTTGAAAATTTTAATTAACTCTTAATT
Found at i:6635811 original size:30 final size:32
Alignment explanation
Indices: 6635776--6635847 Score: 87
Period size: 30 Copynumber: 2.3 Consensus size: 32
6635766 ATTTTGCTTA
* *
6635776 AGACTAAAATTTTAA-AATTCAAAAAGTATAG
1 AGACTAAAATTTGAATAATTCAAAAAGAATAG
*
6635807 -GACTAAAA-TTGAATAATTCAATAAGAATAG
1 AGACTAAAATTTGAATAATTCAAAAAGAATAG
*
6635837 AGACTACAATT
1 AGACTAAAATT
6635848 GATCAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
29 4 0.12
30 22 0.65
31 7 0.21
32 1 0.03
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (32 bp):
AGACTAAAATTTGAATAATTCAAAAAGAATAG
Found at i:6638929 original size:10 final size:9
Alignment explanation
Indices: 6638917--6639011 Score: 79
Period size: 10 Copynumber: 10.3 Consensus size: 9
6638907 ACATGTGGAA
6638917 AAAAATTAT
1 AAAAATTAT
6638926 AAAAA--AT
1 AAAAATTAT
*
6638933 AAAAATCAAT
1 AAAAAT-TAT
6638943 AAAAATTAT
1 AAAAATTAT
*
6638952 AACAATTAT
1 AAAAATTAT
*
6638961 -TAAATTAT
1 AAAAATTAT
6638969 AATAAAATTAT
1 -A-AAAATTAT
*
6638980 AAAATTTATT
1 AAAAATTA-T
*
6638990 AAAAATTAGA
1 AAAAATTA-T
6639000 AAAAATTAT
1 AAAAATTAT
6639009 AAA
1 AAA
6639012 TTGCATAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
7 7 0.10
8 6 0.09
9 24 0.35
10 25 0.36
11 7 0.10
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:6638964 original size:19 final size:17
Alignment explanation
Indices: 6638917--6639002 Score: 66
Period size: 19 Copynumber: 4.8 Consensus size: 17
6638907 ACATGTGGAA
*
6638917 AAAAATTATAAAA-AAT
1 AAAAATTATAAAATTAT
*
6638933 AAAAATCAATAAAAATTAT
1 AAAAAT-TAT-AAAATTAT
* *
6638952 AACAATTATTAAATTAT
1 AAAAATTATAAAATTAT
6638969 AATAAAATTATAAAATTTATT
1 -A-AAAATTATAAAA-TTA-T
*
6638990 AAAAATTAGAAAA
1 AAAAATTATAAAA
6639003 AATTATAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
16 6 0.11
17 9 0.16
18 7 0.13
19 28 0.51
20 4 0.07
21 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (17 bp):
AAAAATTATAAAATTAT
Found at i:6638988 original size:28 final size:27
Alignment explanation
Indices: 6638916--6639011 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 27
6638906 GACATGTGGA
* * *
6638916 AAAAAATTATAAAA-AATAAAAATCA-
1 AAAAAATTATAAAATTATTAAAATTAG
*
6638941 ATAAAAATTATAACAATTATT-AAATTAT
1 A-AAAAATTATAA-AATTATTAAAATTAG
6638969 AATAAAATTATAAAATTTATTAAAAATTAG
1 AA-AAAATTATAAAA-TTATT-AAAATTAG
6638999 AAAAAATTATAAA
1 AAAAAATTATAAA
6639012 TTGCATAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
25 1 0.02
26 11 0.19
27 10 0.17
28 18 0.31
29 11 0.19
30 8 0.14
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (27 bp):
AAAAAATTATAAAATTATTAAAATTAG
Found at i:6639022 original size:29 final size:30
Alignment explanation
Indices: 6638962--6639023 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
6638952 AACAATTATT
* * *
6638962 AAATTATAATAAAATTATAAAATTTATTAA
1 AAATTAGAATAAAATTATAAAATTCATAAA
6638992 AAATTAGAA-AAAATTAT-AAATTGCATAAA
1 AAATTAGAATAAAATTATAAAATT-CATAAA
6639021 AAA
1 AAA
6639024 AAGCTCTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.18
29 15 0.54
30 8 0.29
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (30 bp):
AAATTAGAATAAAATTATAAAATTCATAAA
Found at i:6639284 original size:30 final size:29
Alignment explanation
Indices: 6639248--6639311 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
6639238 TCTTTATATT
6639248 TTTTATAAACTTCTTAC-AACTTTATAAAAA
1 TTTTAT-AACTTCTTACGAACTTTAT-AAAA
* * *
6639278 TTTTATAATTTTTTACGATCTTTATAAAA
1 TTTTATAACTTCTTACGAACTTTATAAAA
6639307 TTTTA
1 TTTTA
6639312 GAATTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.52
Consensus pattern (29 bp):
TTTTATAACTTCTTACGAACTTTATAAAA
Found at i:6639338 original size:21 final size:19
Alignment explanation
Indices: 6639278--6639350 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
6639268 TTTATAAAAA
6639278 TTTTATAATTTTTTACGAT
1 TTTTATAATTTTTTACGAT
* **
6639297 CTTTATAAAATTTTA-GAAT
1 TTTTATAATTTTTTACG-AT
6639316 TTTTATAATTTTTTTTACGAT
1 TTTTATAA--TTTTTTACGAT
*
6639337 TTTTGTAATTTTTT
1 TTTTATAATTTTTT
6639351 TCTAATTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 1 0.02
19 27 0.63
21 14 0.33
22 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAT
Found at i:6639379 original size:28 final size:27
Alignment explanation
Indices: 6639342--6639410 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 27
6639332 ACGATTTTTG
* * *
6639342 TAATTTTTTTCTAATTTTAGATAAAATT
1 TAATATTTTTATATTTTTA-ATAAAATT
*
6639370 TAAATATTTTTATATTTTTATTAAAATT
1 T-AATATTTTTATATTTTTAATAAAATT
6639398 TAATATTTTTATA
1 TAATATTTTTATA
6639411 ACATTTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 12 0.33
28 9 0.25
29 15 0.42
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (27 bp):
TAATATTTTTATATTTTTAATAAAATT
Found at i:6639405 original size:19 final size:19
Alignment explanation
Indices: 6639381--6639429 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
6639371 AAATATTTTT
6639381 ATATTTTTATTAAAATTTA
1 ATATTTTTATTAAAATTTA
*
6639400 ATATTTTTA-TAACATTTA
1 ATATTTTTATTAAAATTTA
*
6639418 TTAATTTTTATT
1 AT-ATTTTTATT
6639430 TTTATCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 9 0.35
19 16 0.62
20 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATTTTTATTAAAATTTA
Found at i:6639417 original size:28 final size:28
Alignment explanation
Indices: 6639363--6639421 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
6639353 TAATTTTAGA
**
6639363 TAAAATTTAAATATTTTTATATTTTTAT
1 TAAAATTTAAATATTTTTATACATTTAT
6639391 TAAAATTT-AATATTTTTATAACATTTAT
1 TAAAATTTAAATATTTTTAT-ACATTTAT
6639419 TAA
1 TAA
6639422 TTTTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (28 bp):
TAAAATTTAAATATTTTTATACATTTAT
Found at i:6641238 original size:10 final size:10
Alignment explanation
Indices: 6641223--6641340 Score: 65
Period size: 10 Copynumber: 12.4 Consensus size: 10
6641213 TAATAACATA
6641223 TTTATAATAT
1 TTTATAATAT
*
6641233 TTTATAATAG
1 TTTATAATAT
* *
6641243 TTAATAGT-T
1 TTTATAATAT
6641252 TTTAT-ATAT
1 TTTATAATAT
6641261 TTT-TAA-AT
1 TTTATAATAT
*
6641269 TTTATGATAT
1 TTTATAATAT
*
6641279 TTAATAAT-T
1 TTTATAATAT
6641288 TTTATAGAT-T
1 TTTATA-ATAT
*
6641298 TTCTATCAT-T
1 TT-TATAATAT
* * *
6641308 TTCA-AAAAA
1 TTTATAATAT
6641317 TTTATAATAT
1 TTTATAATAT
6641327 TTTAATAAT-T
1 TTT-ATAATAT
6641337 TTTA
1 TTTA
6641341 GGCTAAAACT
Statistics
Matches: 81, Mismatches: 18, Indels: 19
0.69 0.15 0.16
Matches are distributed among these distances:
8 8 0.10
9 22 0.27
10 43 0.53
11 8 0.10
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (10 bp):
TTTATAATAT
Found at i:6641272 original size:36 final size:37
Alignment explanation
Indices: 6641220--6641299 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 37
6641210 TTTTAATAAC
* *
6641220 ATATTTATAATATTTTATAATAGTTAATAGTTTTTAT
1 ATATTTTTAATATTTTATAATAGTTAATAATTTTTAT
* *
6641257 ATATTTTTAA-ATTTTATGATATTTAATAATTTTTAT
1 ATATTTTTAATATTTTATAATAGTTAATAATTTTTAT
*
6641293 AGATTTT
1 ATATTTT
6641300 CTATCATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
36 29 0.76
37 9 0.24
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (37 bp):
ATATTTTTAATATTTTATAATAGTTAATAATTTTTAT
Found at i:6641292 original size:19 final size:17
Alignment explanation
Indices: 6641220--6641298 Score: 68
Period size: 19 Copynumber: 4.4 Consensus size: 17
6641210 TTTTAATAAC
6641220 ATATTTATAATATTTTAT
1 ATATTTATAAT-TTTTAT
* *
6641238 AATAGTTAATAGTTTTTAT
1 -ATA-TTTATAATTTTTAT
* *
6641257 ATATTTTTAAATTTTAT
1 ATATTTATAATTTTTAT
6641274 GATATTTAATAATTTTTAT
1 -ATATTT-ATAATTTTTAT
*
6641293 AGATTT
1 ATATTT
6641299 TCTATCATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
17 10 0.21
18 14 0.29
19 18 0.38
20 6 0.12
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (17 bp):
ATATTTATAATTTTTAT
Found at i:6641309 original size:46 final size:46
Alignment explanation
Indices: 6641222--6641340 Score: 123
Period size: 46 Copynumber: 2.5 Consensus size: 46
6641212 TTAATAACAT
* * * * *
6641222 ATTTATAATATTTTATAATAGTTAATAGTTTTTATATATTTT-TAAA
1 ATTTATAATATTTAATAAT-TTTTATAGATTTTATATATTTTAAAAA
* * *
6641268 TTTTATGATATTTAATAATTTTTATAGATTTTCTATCATTTTCAAAAA
1 ATTTATAATATTTAATAATTTTTATAGATTTTATAT-ATTTT-AAAAA
6641316 ATTTATAATATTTTAATAATTTTTA
1 ATTTATAATA-TTTAATAATTTTTA
6641341 GGCTAAAACT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
45 13 0.22
46 21 0.36
48 11 0.19
49 14 0.24
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (46 bp):
ATTTATAATATTTAATAATTTTTATAGATTTTATATATTTTAAAAA
Found at i:6642201 original size:12 final size:12
Alignment explanation
Indices: 6642180--6642214 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6642170 AAAATGCTGA
*
6642180 AATCAAAATCAT
1 AATCAGAATCAT
*
6642192 CATCAGAATCAT
1 AATCAGAATCAT
6642204 AATCAGAATCA
1 AATCAGAATCA
6642215 CTTACTTGAT
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:0.51, C:0.20, G:0.06, T:0.23
Consensus pattern (12 bp):
AATCAGAATCAT
Found at i:6650402 original size:38 final size:39
Alignment explanation
Indices: 6650359--6650433 Score: 143
Period size: 38 Copynumber: 1.9 Consensus size: 39
6650349 ACGGTTTATC
6650359 TTTTTTAGTCTCTCTAAA-TTTTTTTCAAAATTTAATTT
1 TTTTTTAGTCTCTCTAAATTTTTTTTCAAAATTTAATTT
6650397 TTTTTTAGTCTCTCTAAATTTTTTTTCAAAATTTAAT
1 TTTTTTAGTCTCTCTAAATTTTTTTTCAAAATTTAAT
6650434 CACTTTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 18 0.50
39 18 0.50
ACGTcount: A:0.27, C:0.11, G:0.03, T:0.60
Consensus pattern (39 bp):
TTTTTTAGTCTCTCTAAATTTTTTTTCAAAATTTAATTT
Found at i:6650544 original size:22 final size:22
Alignment explanation
Indices: 6650517--6650562 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
6650507 TTGATAACTC
*
6650517 TTTATTTTTTTTGAATGCATGT
1 TTTATTTTTTTTGAATGCACGT
6650539 TTTATTTTTTTTGAATGCACGT
1 TTTATTTTTTTTGAATGCACGT
6650561 TT
1 TT
6650563 CCTTTCAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.07, G:0.13, T:0.63
Consensus pattern (22 bp):
TTTATTTTTTTTGAATGCACGT
Found at i:6656097 original size:18 final size:19
Alignment explanation
Indices: 6656076--6656113 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6656066 CTTTGAAATT
6656076 CTTCATCTCT-CAATTCTA
1 CTTCATCTCTGCAATTCTA
*
6656094 CTTCATCTTTGCAATTCTA
1 CTTCATCTCTGCAATTCTA
6656113 C
1 C
6656114 AGAAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.45
Consensus pattern (19 bp):
CTTCATCTCTGCAATTCTA
Found at i:6659103 original size:131 final size:130
Alignment explanation
Indices: 6658770--6659099 Score: 447
Period size: 131 Copynumber: 2.5 Consensus size: 130
6658760 AAATTCAGTC
* *
6658770 TTTAATTGAACTGAAAGAACACAAAAAGCAAATG-CTGTGCAGTTTGCCAATAGCTAAGAACAG-
1 TTTAATTGAACTGAAAGAACAC-AAAAGCAAA-GACTGT--AGTTT-CAAAGAGCTAAGAACAGC
*
6658833 TAAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTACAAAAAAGAGTAAAAACAAACAAA
61 TAAAATCAACAAAAGGAGCAATCAATAAAAATCAAACAGTACAAAAAAGAGTAAAAACAAACAAA
6658898 CCCAT
126 CCCAT
* * *
6658903 TTAAATTTGAACTGAAAGAACACAAAAGCAAAGACTGTAATTTGCAAAGAGCTAAGAACAGC-AG
1 TTTAA-TTGAACTGAAAGAACACAAAAGCAAAGACTGTAGTTT-CAAAGAGCTAAGAACAGCTAA
* * * *
6658967 AATCAACAGAAGGGGCAATCAATAAAAATCAAACAGTACAGAAAA-AGTAAAAACAGACAAACCC
64 AATCAACAAAAGGAGCAATCAATAAAAATCAAACAGTACAAAAAAGAGTAAAAACAAACAAACCC
6659031 AT
129 AT
* *
6659033 TTTAATTGAACTGAAAGAACACGAAAGCAAAGACTGTAGTTT-AAAGAACTAAGAACAGCT-AAA
1 TTTAATTGAACTGAAAGAACACAAAAGCAAAGACTGTAGTTTCAAAGAGCTAAGAACAGCTAAAA
6659096 TCAA
66 TCAA
6659100 TCAATAAGAA
Statistics
Matches: 178, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
127 22 0.12
129 35 0.20
130 24 0.13
131 62 0.35
132 1 0.01
133 17 0.10
134 17 0.10
ACGTcount: A:0.52, C:0.16, G:0.15, T:0.17
Consensus pattern (130 bp):
TTTAATTGAACTGAAAGAACACAAAAGCAAAGACTGTAGTTTCAAAGAGCTAAGAACAGCTAAAA
TCAACAAAAGGAGCAATCAATAAAAATCAAACAGTACAAAAAAGAGTAAAAACAAACAAACCCAT
Found at i:6662672 original size:15 final size:15
Alignment explanation
Indices: 6662652--6662680 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6662642 CACATTTTTC
6662652 ATGTTTTTTTAAAAT
1 ATGTTTTTTTAAAAT
6662667 ATGTTTTTTTAAAA
1 ATGTTTTTTTAAAA
6662681 GGGTAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (15 bp):
ATGTTTTTTTAAAAT
Found at i:6664223 original size:19 final size:20
Alignment explanation
Indices: 6664187--6664226 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
6664177 GGGGGATTTT
6664187 TATTTTATTTAATATTAATA
1 TATTTTATTTAATATTAATA
6664207 TATTTATATTT-AT-TTAATA
1 TATTT-TATTTAATATTAATA
6664226 T
1 T
6664227 TAATATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTATTTAATATTAATA
Found at i:6664223 original size:25 final size:24
Alignment explanation
Indices: 6664185--6664232 Score: 87
Period size: 25 Copynumber: 2.0 Consensus size: 24
6664175 TCGGGGGATT
6664185 TTTATTTTATTTAATATTAATATA
1 TTTATTTTATTTAATATTAATATA
6664209 TTTATATTTATTTAATATTAATAT
1 TTTAT-TTTATTTAATATTAATAT
6664233 TAACATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTATTTTATTTAATATTAATATA
Done.