Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007822.1 Hibiscus syriacus cultivar Beakdansim tig00110159_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1828853
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 10
Found at i:432202 original size:21 final size:21
Alignment explanation
Indices: 432155--432204 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
432145 AAGATAATTA
*
432155 AAAAATTTAGGTTTTTTAAAT
1 AAAAATTTAAGTTTTTTAAAT
*
432176 -ATAATTTAAGTTTTTTAAAT
1 AAAAATTTAAGTTTTTTAAAT
432196 AAAAATTTA
1 AAAAATTTA
432205 CAAAATTACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (21 bp):
AAAAATTTAAGTTTTTTAAAT
Found at i:432505 original size:19 final size:19
Alignment explanation
Indices: 432460--432505 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
432450 AATTAAAAGT
*
432460 TTTGAAATTTTCTTTAAAA
1 TTTGAAATTTTCTCTAAAA
*
432479 TTTAAAATTTTCTCT-AAA
1 TTTGAAATTTTCTCTAAAA
432497 TATTGAAAT
1 T-TTGAAAT
432506 ATTATATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (19 bp):
TTTGAAATTTTCTCTAAAA
Found at i:435441 original size:162 final size:162
Alignment explanation
Indices: 435256--435577 Score: 536
Period size: 162 Copynumber: 2.0 Consensus size: 162
435246 TTACTACCGG
* * *
435256 TTTTACTTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTA
1 TTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTAGCGCTA
*
435321 TAACTTATTTTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTATCAAAA
66 TAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTATCAAAA
* *
435386 TATCCGGTAGATCTTTACCGGTTTTGTCATAT
131 TATCCGGTAGAGCTTTACCGATTTTGTCATAT
* *
435418 TTTTACCTGTTATATTATTATGGATCTATATATTTTTATAAAGTATCGACACTTTATTAGCGCTA
1 TTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTAGCGCTA
*
435483 TAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTATCAACA
66 TAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTATCAAAA
* * *
435548 TATCTGGTAGCGCTTTACCTATTTTGTCAT
131 TATCCGGTAGAGCTTTACCGATTTTGTCAT
435578 TTATAGACCG
Statistics
Matches: 148, Mismatches: 12, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
162 148 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (162 bp):
TTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTAGCGCTA
TAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTATCAAAA
TATCCGGTAGAGCTTTACCGATTTTGTCATAT
Found at i:435810 original size:112 final size:112
Alignment explanation
Indices: 435525--436096 Score: 882
Period size: 112 Copynumber: 5.1 Consensus size: 112
435515 GATACTTATA
* * * *
435525 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCTATTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
* * *
435590 TTTGTCATTTTTTTACCAGTTTTATTGTTATGGAAT-GATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGG-ATCGATACATTTTT
* * * *
435637 ATAAAGTATCGACAC-ATCAACATATCTGGTAGTGCTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
435701 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
435748 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCG--
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
*
435811 GTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
435858 ATAAAGTATCGACACTTTCAATATATCCAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
* * **
435923 TTTATCATTTTTTTACCTGTTATATTGTTATAGATAAATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * * *
435970 ATAAAGTATCGACACTTTTAATATATCCGGTAACGTTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
* * * *
436035 TTTGTCATTTTTTTACTTGTTATATCGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
436082 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
436097 AAACCGACAA
Statistics
Matches: 429, Mismatches: 27, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
110 110 0.26
111 103 0.24
112 216 0.50
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:435935 original size:222 final size:221
Alignment explanation
Indices: 435525--436097 Score: 878
Period size: 222 Copynumber: 2.6 Consensus size: 221
435515 GATACTTATA
* * * *
435525 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCTATTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCG--
* * *
435590 TTTGTCATTTTTTTACCAGTTTTATTGTTATGGAAT-GATATATTTTTATAAAGTATCGACACAT
64 GTTGTCATTTTTTTACCTGTTATATTGTTATGG-ATCGATATATTTTTATAAAGTATCGACACAT
** * *
435654 CAACATATCTGGTAGTGCTTTACCTGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTACCT
128 CAACATATCCAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTATCATTTTTTTACCT
* **
435719 GTTATATTGTTATGGATCGATACATTTTT
193 GTTATATTGTTATAGATAAATACATTTTT
435748 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
435813 TGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCA
66 TGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACAC-ATCA
*
435878 ATATATCCAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTATCATTTTTTTACCTGT
130 ACATATCCAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTATCATTTTTTTACCTGT
435943 TATATTGTTATAGATAAATACATTTTT
195 TATATTGTTATAGATAAATACATTTTT
* * *
435970 ATAAAGTATCGACACTTTTAATATATCCGGTAACGTTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGG-
* * *
436035 TTTGTCATTTTTTTACTTGTTATATCGTTATGGATCAATATATTTTTATAAAGTATCGACACA
65 -TTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACA
436098 AACCGACAAG
Statistics
Matches: 321, Mismatches: 25, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
220 2 0.01
221 55 0.17
222 148 0.46
223 59 0.18
224 57 0.18
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (221 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACATCAA
CATATCCAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTATCATTTTTTTACCTGTT
ATATTGTTATAGATAAATACATTTTT
Found at i:438294 original size:2 final size:2
Alignment explanation
Indices: 438287--438317 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
438277 TAGCTGCAAT
438287 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
438318 GTTTGTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:442431 original size:21 final size:20
Alignment explanation
Indices: 442406--442449 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
442396 ATAAAAAAAA
* *
442406 TTACCTAAAATATTATTATTT
1 TTACCTAAAACATCATT-TTT
442427 TTACCTAAAACATCATTTTT
1 TTACCTAAAACATCATTTTT
442447 TTA
1 TTA
442450 ATATTTCCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (20 bp):
TTACCTAAAACATCATTTTT
Found at i:455004 original size:2 final size:2
Alignment explanation
Indices: 454999--455065 Score: 63
Period size: 2 Copynumber: 35.0 Consensus size: 2
454989 TTTATTTTAT
* *
454999 TA TA TA TA TA TA TA TA T- TA -A TA TA GTA TA -A TT TT TGA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA T-A TA TA
455039 TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
455066 GTTTTTGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
1 5 0.09
2 49 0.88
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:455050 original size:38 final size:38
Alignment explanation
Indices: 454999--455074 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
454989 TTTATTTTAT
*
454999 TATATATATATATATAT-TAATATAGTATAATTTTTGAA
1 TATATATATATATATATAT-ATATAATATAATTTTTGAA
*
455037 TATATATATATATATATATATATAATATAGTTTTTGAA
1 TATATATATATATATATATATATAATATAATTTTTGAA
455075 AACATTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 34 0.97
39 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (38 bp):
TATATATATATATATATATATATAATATAATTTTTGAA
Found at i:455125 original size:36 final size:36
Alignment explanation
Indices: 455055--455133 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
455045 TATATATATA
*
455055 TATATAATATAGTTTTTGAAAACATTTTAAAAAACT
1 TATATAATATAATTTTTGAAAACATTTTAAAAAACT
* *
455091 TATATAATATATATTTTTGAAATCATTTT-GAAAACT
1 TATATAATATA-ATTTTTGAAAACATTTTAAAAAACT
455127 TAT-TAAT
1 TATATAAT
455134 TGCCCGTCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
35 4 0.10
36 20 0.51
37 15 0.38
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (36 bp):
TATATAATATAATTTTTGAAAACATTTTAAAAAACT
Found at i:455402 original size:38 final size:37
Alignment explanation
Indices: 455324--455473 Score: 193
Period size: 36 Copynumber: 4.1 Consensus size: 37
455314 TAATTTTTTA
*
455324 TTTTGAAAACTTATATAATATATAGTTTTGAAATCA-
1 TTTTGAAAACTTATATAATATATAGTTTTGAAAACAT
*
455360 TTTTGAAAACTTATATAATATATAGTTTTGGAAACATT
1 TTTTGAAAACTTATATAATATATAGTTTTGAAAACA-T
* *
455398 TTTTGAAAA-TATATGTAATATAT-GATTTTTAAAACAT
1 TTTTGAAAACT-TATATAATATATAG-TTTTGAAAACAT
*
455435 TTTT-AAAAC-TATATAATATATAGTTTTGAAAACTT
1 TTTTGAAAACTTATATAATATATAGTTTTGAAAACAT
455470 TTTT
1 TTTT
455474 TAATATATAT
Statistics
Matches: 100, Mismatches: 8, Indels: 13
0.83 0.07 0.11
Matches are distributed among these distances:
35 25 0.25
36 39 0.39
37 7 0.07
38 29 0.29
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.47
Consensus pattern (37 bp):
TTTTGAAAACTTATATAATATATAGTTTTGAAAACAT
Found at i:455443 original size:74 final size:72
Alignment explanation
Indices: 455324--455494 Score: 220
Period size: 74 Copynumber: 2.3 Consensus size: 72
455314 TAATTTTTTA
*
455324 TTTTGAAAACT-TATATAATATATAGTTTTGAAATCATTTTGAAAACTTATATAATATATAGTTT
1 TTTTGAAAA-TATATATAATATATAGTTTTGAAAACATTTTGAAAAC-TATATAATATATAGTTT
*
455388 TGGAAACATT
64 TGAAAAC-TT
* * *
455398 TTTTGAAAATATATGTAATATAT-GATTTTTAAAACATTTTTAAAACTATATAATATATAGTTTT
1 TTTTGAAAATATATATAATATATAG-TTTTGAAAACATTTTGAAAACTATATAATATATAGTTTT
455462 GAAAACTT
65 GAAAACTT
* *
455470 TTTTTAATATATATATATATATATA
1 TTTTGAAAATATATATA-ATATATA
455495 ATCTAATTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
72 16 0.19
73 31 0.36
74 38 0.45
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (72 bp):
TTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTGAAAACTATATAATATATAGTTTTG
AAAACTT
Found at i:455490 original size:36 final size:36
Alignment explanation
Indices: 455323--455492 Score: 163
Period size: 36 Copynumber: 4.7 Consensus size: 36
455313 CTAATTTTTT
*
455323 ATTTTGAAAACT-TATATAATATATAGTTTTGAAATC
1 ATTTTGAAAACTATATAT-ATATATAGTTTTGAAAAC
*
455359 ATTTTGAAAACT-TATATAATATATAGTTTTGGAAAC
1 ATTTTGAAAACTATATAT-ATATATAGTTTTGAAAAC
* *
455395 ATTTTTTGAAAA-TATATGTA-ATATATGATTTTTAAAAC
1 A--TTTTGAAAACTATATATATATATA-G-TTTTGAAAAC
*
455433 ATTTTTAAAACTATATA-ATATATAGTTTTGAAAAC
1 ATTTTGAAAACTATATATATATATAGTTTTGAAAAC
* * *
455468 TTTTTTTAATA-TATATATATATATA
1 -ATTTTGAAAACTATATATATATATA
455493 TAATCTAATT
Statistics
Matches: 115, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
35 15 0.13
36 65 0.57
37 13 0.11
38 22 0.19
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (36 bp):
ATTTTGAAAACTATATATATATATAGTTTTGAAAAC
Found at i:455545 original size:14 final size:14
Alignment explanation
Indices: 455523--455561 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
455513 TTTAAAAATA
455523 TATTATTATTTATTT
1 TATT-TTATTTATTT
*
455538 TATTTTATTAATTT
1 TATTTTATTTATTT
*
455552 TATTCTATTT
1 TATTTTATTT
455562 TATTGCGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTTATTTATTT
Found at i:459744 original size:99 final size:99
Alignment explanation
Indices: 459625--459826 Score: 318
Period size: 99 Copynumber: 2.0 Consensus size: 99
459615 TTATAATATT
459625 ATATATATACAATAAAGCTTGAGCTG-CCGCTCTAGAA-CAATTGGTTAAACACCCCAGCTTTAT
1 ATATATATACAATAAAGCTTGAGCTGTCC-CTCTA-AAGCAATTGGTTAAACACCCCAGCTTTAT
*
459688 GGATAAGATTCAGCTAGCCTGATAAAGGTGATTATA
64 GGATAAAATTCAGCTAGCCTGATAAAGGTGATTATA
* * * * *
459724 ATATCTATACAATACAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCTCGGCTTTATGG
1 ATATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACACCCCAGCTTTATGG
459789 ATAAAATTCAGCTAGCCTGATAAAGGTGATTATA
66 ATAAAATTCAGCTAGCCTGATAAAGGTGATTATA
459823 ATAT
1 ATAT
459827 TGAGTTGTTC
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
98 2 0.02
99 91 0.96
100 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (99 bp):
ATATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACACCCCAGCTTTATGG
ATAAAATTCAGCTAGCCTGATAAAGGTGATTATA
Found at i:461170 original size:85 final size:85
Alignment explanation
Indices: 461012--461517 Score: 648
Period size: 85 Copynumber: 6.0 Consensus size: 85
461002 TAAAGGAACT
* * *
461012 ATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAAAACCTTCGAGTTCGATTACA
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAA-TAAAAACCTTCGAGTTCGATTACA
**
461077 TTTTGCTCAAGGACATATCAA
65 TTCAGCTCAAGGACATATCAA
* * * *
461098 ATTTACAGCATAACACAAGGCTAGAAGGGTTACCTGTCAATAAAAACCTTCGAGTTCGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAATAAAAACCTTCGAGTTCGATTACAT
* *
461163 TTAGCTCAAGGGCATATCAA
66 TCAGCTCAAGGACATATCAA
* *** *
461183 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCCAAACCTTTGAGTTCGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAATAAAAACCTTCGAGTTCGATTACAT
461248 TCAGCTCAAGGACATATCAA
66 TCAGCTCAAGGACATATCAA
* * * *
461268 ATTTACAACATAACTCAAGGTGAGAAGGGTTATCTATCAATAAAAACCTTCGAGTTCGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAATAAAAACCTTCGAGTTCGATTACAT
* *
461333 TCAGCTTAAGGGCATATCAA
66 TCAGCTCAAGGACATATCAA
* * *
461353 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAT--AACCCTTCAAGTTCGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAATAAAAACCTTCGAGTTCGATTACAT
*
461416 TCAACTCAAGGACATATCAA
66 TCAGCTCAAGGACATATCAA
* * * * *
461436 ATTTATAGCATAGCTCAAGGCGAGAAGGGTTATCTGT--A-AAAAA-CTGTCGAGTTTGATTTCA
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAATAAAAACCT-TCGAGTTCGATTACA
*
461497 TTCAGCTCGATGG-CATATCAA
65 TTCAGCTC-AAGGACATATCAA
461518 TAACATGGTA
Statistics
Matches: 367, Mismatches: 49, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
81 3 0.01
82 29 0.08
83 75 0.20
85 226 0.62
86 34 0.09
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (85 bp):
ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAATAAAAACCTTCGAGTTCGATTACAT
TCAGCTCAAGGACATATCAA
Found at i:462234 original size:36 final size:36
Alignment explanation
Indices: 462120--462238 Score: 141
Period size: 36 Copynumber: 3.2 Consensus size: 36
462110 ATAGTATAAT
* *
462120 TTTTGAAAAATATATATAATATATATTTTTTGAAAA-CA
1 TTTTGAAAACT-TATATAATATATA-GTTTT-AAAATCA
* * *
462158 TTTTAAAAACTTATGTAATATATAGTTTTGAAATCA
1 TTTTGAAAACTTATATAATATATAGTTTTAAAATCA
**
462194 TTTTGAAAACTTATATAATATATAGTTTTAAAATGT
1 TTTTGAAAACTTATATAATATATAGTTTTAAAATCA
462230 TTTTGAAAA
1 TTTTGAAAA
462239 ATATATTATT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
35 3 0.04
36 46 0.66
37 12 0.17
38 9 0.13
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (36 bp):
TTTTGAAAACTTATATAATATATAGTTTTAAAATCA
Found at i:462257 original size:10 final size:9
Alignment explanation
Indices: 462242--462290 Score: 53
Period size: 10 Copynumber: 5.0 Consensus size: 9
462232 TTGAAAAATA
462242 TATTATTATT
1 TATT-TTATT
462252 TATTATTATTT
1 TATT-TTA-TT
462263 TATTTTATT
1 TATTTTATT
*
462272 AATTTTATT
1 TATTTTATT
462281 CTATTTTATT
1 -TATTTTATT
462291 ACGGTCCAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 10 0.29
10 19 0.54
11 6 0.17
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (9 bp):
TATTTTATT
Found at i:462285 original size:19 final size:20
Alignment explanation
Indices: 462242--462291 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
462232 TTGAAAAATA
* *
462242 TATTATTATTTATTATTATTT
1 TATT-TTATTAATTATTATTC
462263 TATTTTATTAATT-TTATTC
1 TATTTTATTAATTATTATTC
462282 TATTTTATTA
1 TATTTTATTA
462292 CGGTCCAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 15 0.56
20 8 0.30
21 4 0.15
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
TATTTTATTAATTATTATTC
Found at i:463496 original size:17 final size:18
Alignment explanation
Indices: 463476--463533 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
463466 TCTACTCAAT
463476 TTTA-TTTATCTATT-TTA
1 TTTATTTTAT-TATTATTA
463493 TTTATTTTATTATTATTA
1 TTTATTTTATTATTATTA
* *
463511 -TTATTATATTAATA-TA
1 TTTATTTTATTATTATTA
463527 TTT-TTTT
1 TTTATTTT
463534 TCTTTTGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
16 5 0.14
17 22 0.63
18 8 0.23
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTTATTATTATTA
Found at i:463954 original size:21 final size:19
Alignment explanation
Indices: 463900--463957 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 19
463890 AATAAAATAG
463900 TAATTATGATAATT-AAAT
1 TAATTATGATAATTAAAAT
* *
463918 TAATAAAT-ATACTTAATATAT
1 TAAT-TATGATAATTAA-A-AT
463939 TAATTATGATAATTAAAAT
1 TAATTATGATAATTAAAAT
463958 ACTTTATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
18 9 0.29
19 5 0.16
20 4 0.13
21 13 0.42
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (19 bp):
TAATTATGATAATTAAAAT
Found at i:463974 original size:14 final size:14
Alignment explanation
Indices: 463955--463992 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
463945 TGATAATTAA
463955 AATACTTTATATTT
1 AATACTTTATATTT
463969 AATACTTTATATTT
1 AATACTTTATATTT
463983 AATACTTTAT
1 AATACTTTAT
463993 TACTTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (14 bp):
AATACTTTATATTT
Found at i:464000 original size:8 final size:7
Alignment explanation
Indices: 463956--464001 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
463946 GATAATTAAA
463956 ATACTTT
1 ATACTTT
463963 ATA-TTT
1 ATACTTT
463969 AATACTTT
1 -ATACTTT
463977 ATA-TTT
1 ATACTTT
463983 AATACTTT
1 -ATACTTT
463991 ATTACTTT
1 A-TACTTT
463999 ATA
1 ATA
464002 TTATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
6 6 0.18
7 15 0.44
8 13 0.38
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.57
Consensus pattern (7 bp):
ATACTTT
Found at i:464864 original size:487 final size:493
Alignment explanation
Indices: 464013--464908 Score: 1411
Period size: 487 Copynumber: 1.8 Consensus size: 493
464003 TATATATATA
*
464013 TATATATACATACATATTCATATATACTTATACTTTATACTTTAGATTGTATATATAAAGTACCA
1 TATATATACATACACA-TCATATATACTTATACTTTATACTTTAGATTG-ATATATAAAGTACCA
* **
464078 AATTGAACAAACATGAAATTGGAAATAAAAAATTGCATAAATTAAACAACACGTATTGATGAGGG
64 AATTGAACAAACATGAAATTGGAAATAAAAAATTGAATAAATTAAACAACACACATTGATGAGGG
464143 ATGAAATTGAATTATTATAAAATGTGAAGCTGATATTAATAAAAAAATAGACTAAATTGCATACA
129 ATGAAATTGAATTATTATAAAATGTGAAGCTGATATTAATAAAAAAATAGACTAAATTGCATACA
464208 TTTAAAAAATTGGTGAACATAATTTGAAAAGAAATTGATTATGTGATTTACATTTTATAGGGTTT
194 TTTAAAAAATTGGTGAACATAATTTGAAAAGAAATTGATTATGTGATTTACATTTTATAGGGTTT
* * * * *
464273 TAAGTAAATTACAAAAATATAAATAAGTATGGGTCAATTTCATATACAAATATAATTTGAAGGAC
259 TAAATAAATTAC----A-ATAAATAACTATGGGTCAATTTCAGAAACAAATATAATTTGAAAGAC
* *
464338 TAAATTGAACAAATATGAAATTACAATTTAAAATTTAAATAAAATAAACAACATAAAA-GGATCA
319 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAAATAAACAACATAAAATGG-TCA
* *
464402 AATTAAAAAGTTGTAAAATGTGAGGAAAAATTAAAACAATTATAATATATATATATATATAATGA
383 AATAAAAAAATTGTAAAATGTGAGGAAAAATTAAAACAATTATAATATATATATATATATAATGA
464467 ATGTTATGATAATATGATGCATGTATATATAATTGACATTATACTT
448 ATGTTATGATAATATGATGCATGTATATATAATTGACATTATACTT
* *
464513 TATATATATATACACA-CATATATACTTATACTTTATACTTTATATATG-TATATAAAGTACCAA
1 TATATATACATACACATCATATATACTTATACTTTATACTTTAGAT-TGATATATAAAGTACCAA
* *
464576 TTTGAACAAACATGAAATTGGAAATAAAAAATTGAATAAATTAAACAATACACATTGATGAGGGA
65 ATTGAACAAACATGAAATTGGAAATAAAAAATTGAATAAATTAAACAACACACATTGATGAGGGA
*
464641 TGAAATTGAATTAATTATAAAATGTGAAGCAT-ATATTAATATAAAAAATGGACTAAATTGCATA
130 TGAAATTGAATT-ATTATAAAATGTGAAGC-TGATATTAATA-AAAAAATAGACTAAATTGCATA
*
464705 CATTT-AAAATTTGGTGAACATAATTTGAAAA-AAA-T-ATTATGTGATTTACATTTTAT-GGAG
192 CATTTAAAAAATTGGTGAACATAATTTGAAAAGAAATTGATTATGTGATTTACATTTTATAGG-G
464765 TTTTAAATAAATTAC-A-AAA-AACTATGGGTCAATTTCAGAAACAAATATAATTTGAAAGACTA
256 TTTTAAATAAATTACAATAAATAACTATGGGTCAATTTCAGAAACAAATATAATTTGAAAGACTA
*
464827 AATTGAACAAATATGAAATTACAAATAAAAATTTAAATACAATAAACAACATAAAATGGTCAAAT
321 AATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAAATAAACAACATAAAATGGTCAAAT
464892 AAAAAAATTGTAAAATG
386 AAAAAAATTGTAAAATG
464909 GATTGAATTG
Statistics
Matches: 370, Mismatches: 20, Indels: 25
0.89 0.05 0.06
Matches are distributed among these distances:
487 113 0.31
488 5 0.01
489 1 0.00
494 2 0.01
495 36 0.10
496 1 0.00
497 90 0.24
498 79 0.21
499 29 0.08
500 14 0.04
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (493 bp):
TATATATACATACACATCATATATACTTATACTTTATACTTTAGATTGATATATAAAGTACCAAA
TTGAACAAACATGAAATTGGAAATAAAAAATTGAATAAATTAAACAACACACATTGATGAGGGAT
GAAATTGAATTATTATAAAATGTGAAGCTGATATTAATAAAAAAATAGACTAAATTGCATACATT
TAAAAAATTGGTGAACATAATTTGAAAAGAAATTGATTATGTGATTTACATTTTATAGGGTTTTA
AATAAATTACAATAAATAACTATGGGTCAATTTCAGAAACAAATATAATTTGAAAGACTAAATTG
AACAAATATGAAATTACAAATAAAAATTTAAATAAAATAAACAACATAAAATGGTCAAATAAAAA
AATTGTAAAATGTGAGGAAAAATTAAAACAATTATAATATATATATATATATAATGAATGTTATG
ATAATATGATGCATGTATATATAATTGACATTATACTT
Found at i:465061 original size:2 final size:2
Alignment explanation
Indices: 465054--465393 Score: 125
Period size: 2 Copynumber: 169.0 Consensus size: 2
465044 ACATTATAAG
465054 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
465094 TA TA -A AA GTA TA TA CA TA TA -A GTA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * *
465135 TA -A TA TA -A AA GTA TA TA CA TA TA -A GTA TA TA AA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * * * * * * *
465176 CA CA CA -A T- TA TT TA AA TA TA CA TA TA TA -A AA AA CA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * * *
465216 -A GTA TA TA TA TA AA GTG TA AA CTA TA AA CTA TA AA GTA TA -A GTG
1 TA -TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA -TA TA TA -TA
* * * * *
465260 TA TA TA TA TA TA TA TA TA TG TA TA -A AA GTA TA TA AA CTA AA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA
* * * * * *
465303 GTG TG TA TA TA TA TA TA TA TG TA TA -A AA GTA TA TA AA CTA AA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA
* *
465345 AA GTG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
465388 TA TA TA
1 TA TA TA
465394 AAGTTTTAGT
Statistics
Matches: 259, Mismatches: 47, Indels: 64
0.70 0.13 0.17
Matches are distributed among these distances:
1 15 0.06
2 231 0.89
3 13 0.05
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (2 bp):
TA
Found at i:465113 original size:44 final size:44
Alignment explanation
Indices: 465058--465175 Score: 202
Period size: 44 Copynumber: 2.7 Consensus size: 44
465048 TATAAGTATA
*
465058 TATATATATATATA-TATATATATATATATATATTAATATAAAAG
1 TATATACATATA-AGTATATATATATATATATATTAATATAAAAG
465102 TATATACATATAAGTATATATATATATATATATTAATATAAAAG
1 TATATACATATAAGTATATATATATATATATATTAATATAAAAG
*
465146 TATATACATATAAGTATATAAATATATATA
1 TATATACATATAAGTATATATATATATATA
465176 CACACAATTA
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
43 1 0.01
44 70 0.99
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (44 bp):
TATATACATATAAGTATATATATATATATATATTAATATAAAAG
Found at i:465305 original size:46 final size:46
Alignment explanation
Indices: 465255--465373 Score: 206
Period size: 44 Copynumber: 2.6 Consensus size: 46
465245 TATAAAGTAT
465255 AAGTGTATATATATATATATATATGTATAAAAGTATATAAACTAAA
1 AAGTGTATATATATATATATATATGTATAAAAGTATATAAACTAAA
*
465301 AAGTG--TGTATATATATATATATGTATAAAAGTATATAAACTAAA
1 AAGTGTATATATATATATATATATGTATAAAAGTATATAAACTAAA
*
465345 AAGTGTATATATATATATATATATATATA
1 AAGTGTATATATATATATATATATGTATA
465374 TATATATATA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
44 43 0.63
46 25 0.37
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (46 bp):
AAGTGTATATATATATATATATATGTATAAAAGTATATAAACTAAA
Found at i:466672 original size:21 final size:20
Alignment explanation
Indices: 466648--466755 Score: 92
Period size: 21 Copynumber: 5.2 Consensus size: 20
466638 TTTTCAAAAG
466648 GATCGATCCCTCAAGAGAAAT
1 GATCGATCCCTCAA-AGAAAT
*** *
466669 GATCGATCCACTTTTA-AAAG
1 GATCGATCC-CTCAAAGAAAT
* * *
466689 GATCGAACCCTTAGAGAAAAT
1 GATCGATCCCTCAAAG-AAAT
466710 GATCGATCCCTCGAAAGAAAT
1 GATCGATCCCTC-AAAGAAAT
*
466731 GATCAATCCCTCGAAAGAAAT
1 GATCGATCCCTC-AAAGAAAT
466752 GATC
1 GATC
466756 AATCTCTTCA
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
19 4 0.06
20 11 0.15
21 51 0.72
22 5 0.07
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
GATCGATCCCTCAAAGAAAT
Found at i:466710 original size:41 final size:42
Alignment explanation
Indices: 466638--466718 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 42
466628 AATCAATCCT
*
466638 TTTTCAAAAGGATCGATCCCTCAAGAGAAATGATCGATCCAC
1 TTTTCAAAAGGATCGAACCCTCAAGAGAAATGATCGATCCAC
*
466680 TTTT-AAAAGGATCGAACCCT-TAGAGAAAATGATCGATCC
1 TTTTCAAAAGGATCGAACCCTCAAGAG-AAATGATCGATCC
466719 CTCGAAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 4 0.11
41 28 0.78
42 4 0.11
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (42 bp):
TTTTCAAAAGGATCGAACCCTCAAGAGAAATGATCGATCCAC
Found at i:466756 original size:21 final size:21
Alignment explanation
Indices: 466706--466759 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
466696 CCCTTAGAGA
*
466706 AAATGATCGATCCCTCGAAAG
1 AAATGATCAATCCCTCGAAAG
466727 AAATGATCAATCCCTCGAAAG
1 AAATGATCAATCCCTCGAAAG
466748 AAATGATCAATC
1 AAATGATCAATC
466760 TCTTCACTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.20
Consensus pattern (21 bp):
AAATGATCAATCCCTCGAAAG
Found at i:475723 original size:32 final size:33
Alignment explanation
Indices: 475667--475729 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
475657 AAATTATACG
475667 AATTTTATCAAATAAAAAAAAATATACATGATCA
1 AATTTTATCAAAT-AAAAAAAATATACATGATCA
*
475701 AATTTTATCAAAT-AAAAAAATATGCATGA
1 AATTTTATCAAATAAAAAAAATATACATGA
475730 CGCGTGTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 15 0.54
34 13 0.46
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (33 bp):
AATTTTATCAAATAAAAAAAATATACATGATCA
Found at i:476531 original size:17 final size:17
Alignment explanation
Indices: 476511--476545 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
476501 GTTATCCATT
476511 TTTTTGTAAA-ATATATA
1 TTTTT-TAAATATATATA
476528 TTTTTTAAATATATATA
1 TTTTTTAAATATATATA
476545 T
1 T
476546 ATATATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTTTTAAATATATATA
Found at i:495942 original size:72 final size:73
Alignment explanation
Indices: 495808--495950 Score: 182
Period size: 72 Copynumber: 2.0 Consensus size: 73
495798 TTTTATTCAC
* * * *
495808 TTTTTTTTATTAATTTTAAAAAATATAATATATAGTCACATTCGTTTGTTTAGGAGACTGTGTTA
1 TTTTTTTTATTAATTTTAAAAAACATAATATATAATCACAATCGTTTGCTTAGGAGACTGTGTTA
495873 TATGTCCA
66 TATGTCCA
* * * *
495881 TTTTTTTTATTGATTTT-AAAAACATAATATATAATTACAATCGTTT-CTTCGGAAGAGTGTGTT
1 TTTTTTTTATTAATTTTAAAAAACATAATATATAATCACAATCGTTTGCTTAGG-AGACTGTGTT
*
495944 GTATGTC
65 ATATGTC
495951 GTTCAAGATT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
71 4 0.07
72 40 0.67
73 16 0.27
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (73 bp):
TTTTTTTTATTAATTTTAAAAAACATAATATATAATCACAATCGTTTGCTTAGGAGACTGTGTTA
TATGTCCA
Found at i:498039 original size:37 final size:37
Alignment explanation
Indices: 497989--498067 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
497979 AAAGAATAGG
*
497989 ACATTATTCTAAAGAAATGATCACATACCAGTCCGAT
1 ACATTATTCTAAAGAAATGATCACATACCAATCCGAT
498026 ACATTATTCTAAAGAAATGATCACATACCAATCCGAT
1 ACATTATTCTAAAGAAATGATCACATACCAATCCGAT
498063 ACATT
1 ACATT
498068 GCCCAACCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.28
Consensus pattern (37 bp):
ACATTATTCTAAAGAAATGATCACATACCAATCCGAT
Found at i:500033 original size:18 final size:18
Alignment explanation
Indices: 499992--500035 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
499982 TACAATAATT
499992 AATATTAT-TTATTATAA
1 AATATTATATTATTATAA
* * *
500009 AAAATTATATTATTTTTA
1 AATATTATATTATTATAA
500027 AATATTATA
1 AATATTATA
500036 ATAATATCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AATATTATATTATTATAA
Found at i:505166 original size:24 final size:24
Alignment explanation
Indices: 505139--505193 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
505129 AATCAATTTT
505139 AATGGCTGAACCAATAGTGTTGTC
1 AATGGCTGAACCAATAGTGTTGTC
505163 AATGGCTGAACCAATAGTGTTGTC
1 AATGGCTGAACCAATAGTGTTGTC
505187 AATGGCT
1 AATGGCT
505194 TCAATCATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (24 bp):
AATGGCTGAACCAATAGTGTTGTC
Found at i:513264 original size:23 final size:23
Alignment explanation
Indices: 513227--513271 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
513217 TTAATACAAA
513227 AATCATCAATTTTTTTTAAATAC
1 AATCATCAATTTTTTTTAAATAC
513250 AATCAT-AATTATTTTTTAAATA
1 AATCATCAATT-TTTTTTAAATA
513272 TTAATTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (23 bp):
AATCATCAATTTTTTTTAAATAC
Found at i:518704 original size:66 final size:66
Alignment explanation
Indices: 518538--518841 Score: 434
Period size: 66 Copynumber: 4.6 Consensus size: 66
518528 AAACAAAATT
* * * * *
518538 CATAAACCTTTGAGATTGTTTCCCTTAAAACAAATTTTGTCTCGCTTGAGACAATTTCTCTTAAA
1 CATAAACCTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTAAGACAATTTCTCTT-GA
518603 AA
65 AA
** *
518605 CATAAACAC-GAGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAATTTCTCTTGA
1 CATAAAC-CTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTAAGACAATTTCTCTTGA
518669 AA
65 AA
*
518671 CATAAACCTTT-AGGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTAAGACAGTTTCTCTTGA
1 CATAAACCTTTGA-GATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTAAGACAATTTCTCTTGA
518735 AA
65 AA
* * * *
518737 CAAAAACCTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGATTAAGATAGTTTCTCTTGAA
1 CATAAACCTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTAAGACAATTTCTCTTGAA
518802 A
66 A
*
518803 CATAAACCTTTGAGATTGTTTTTCTTGAAACAA-TTTTGT
1 CATAAACCTTTGAGATTGTTTCTCTTGAAACAAGTTTTGT
518842 TGGGATTTTC
Statistics
Matches: 218, Mismatches: 15, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
65 8 0.04
66 153 0.70
67 56 0.26
68 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (66 bp):
CATAAACCTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTAAGACAATTTCTCTTGAA
A
Found at i:518735 original size:36 final size:36
Alignment explanation
Indices: 518617--518804 Score: 130
Period size: 36 Copynumber: 5.6 Consensus size: 36
518607 TAAACACGAG
* *
518617 AGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTG
1 AGATAGTTTCTCTTGAAACAAGTTTTGTCTCGCTTA
* * *** *
518653 AGACAATTTCTCTTGAAAC-A---TAAAC-C-TTTA
1 AGATAGTTTCTCTTGAAACAAGTTTTGTCTCGCTTA
* *
518683 GGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTA
1 AGATAGTTTCTCTTGAAACAAGTTTTGTCTCGCTTA
* *** * *
518719 AGACAGTTTCTCTTGAAACAA----AAAC-C-TTTG
1 AGATAGTTTCTCTTGAAACAAGTTTTGTCTCGCTTA
* *
518749 AGATTGTTTCTCTTGAAACAAGTTTTGTCTCGATTA
1 AGATAGTTTCTCTTGAAACAAGTTTTGTCTCGCTTA
518785 AGATAGTTTCTCTTGAAACA
1 AGATAGTTTCTCTTGAAACA
518805 TAAACCTTTG
Statistics
Matches: 108, Mismatches: 32, Indels: 24
0.66 0.20 0.15
Matches are distributed among these distances:
30 38 0.35
31 3 0.03
32 3 0.03
34 3 0.03
35 3 0.03
36 58 0.54
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (36 bp):
AGATAGTTTCTCTTGAAACAAGTTTTGTCTCGCTTA
Found at i:518760 original size:30 final size:30
Alignment explanation
Indices: 518724--518835 Score: 98
Period size: 30 Copynumber: 3.5 Consensus size: 30
518714 GCTTAAGACA
518724 GTTTCTCTTGAAACAAAAACCTTTGAGATT
1 GTTTCTCTTGAAACAAAAACCTTTGAGATT
*** * * *
518754 GTTTCTCTTGAAACAAGTTTTGTCTCGATTAAGATA
1 GTTTCTCTTGAAACAA----AAAC-C-TTTGAGATT
*
518790 GTTTCTCTTGAAACATAAACCTTTGAGATT
1 GTTTCTCTTGAAACAAAAACCTTTGAGATT
*
518820 GTTTTTCTTGAAACAA
1 GTTTCTCTTGAAACAA
518836 TTTTGTTGGG
Statistics
Matches: 61, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
30 36 0.59
31 1 0.02
32 1 0.02
34 1 0.02
35 1 0.02
36 21 0.34
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (30 bp):
GTTTCTCTTGAAACAAAAACCTTTGAGATT
Found at i:519839 original size:21 final size:19
Alignment explanation
Indices: 519815--519911 Score: 117
Period size: 21 Copynumber: 5.0 Consensus size: 19
519805 ATGTTTAATG
519815 AAAAAGATACCAATTGTTA
1 AAAAAGATACCAATTGTTA
*
519834 ACAAAAGGATATCAATTGTT-
1 A-AAAA-GATACCAATTGTTA
519854 AAAAAGATACCAATTGTTAA
1 AAAAAGATACCAATTGTT-A
*
519874 CAAAAAGATATCAATTGTT-
1 -AAAAAGATACCAATTGTTA
*
519893 AAAAAGATACCTATTGTTA
1 AAAAAGATACCAATTGTTA
519912 CCAATTGTTG
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
18 28 0.42
19 5 0.07
20 5 0.07
21 29 0.43
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.29
Consensus pattern (19 bp):
AAAAAGATACCAATTGTTA
Found at i:519862 original size:18 final size:18
Alignment explanation
Indices: 519815--519911 Score: 113
Period size: 18 Copynumber: 5.1 Consensus size: 18
519805 ATGTTTAATG
519815 AAAAAGATACCAATTGTT
1 AAAAAGATACCAATTGTT
*
519833 AACAAAAGGATATCAATTGTT
1 -A-AAAA-GATACCAATTGTT
519854 AAAAAGATACCAATTGTT
1 AAAAAGATACCAATTGTT
*
519872 AACAAAAAGATATCAATTGTT
1 ---AAAAAGATACCAATTGTT
*
519893 AAAAAGATACCTATTGTT
1 AAAAAGATACCAATTGTT
519911 A
1 A
519912 CCAATTGTTG
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
18 29 0.43
19 5 0.07
20 5 0.07
21 29 0.43
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.29
Consensus pattern (18 bp):
AAAAAGATACCAATTGTT
Found at i:519869 original size:39 final size:39
Alignment explanation
Indices: 519815--519911 Score: 176
Period size: 39 Copynumber: 2.5 Consensus size: 39
519805 ATGTTTAATG
*
519815 AAAAAGATACCAATTGTTAACAAAAGGATATCAATTGTT
1 AAAAAGATACCAATTGTTAACAAAAAGATATCAATTGTT
519854 AAAAAGATACCAATTGTTAACAAAAAGATATCAATTGTT
1 AAAAAGATACCAATTGTTAACAAAAAGATATCAATTGTT
*
519893 AAAAAGATACCTATTGTTA
1 AAAAAGATACCAATTGTTA
519912 CCAATTGTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.29
Consensus pattern (39 bp):
AAAAAGATACCAATTGTTAACAAAAAGATATCAATTGTT
Found at i:524822 original size:2 final size:2
Alignment explanation
Indices: 524815--524921 Score: 214
Period size: 2 Copynumber: 53.5 Consensus size: 2
524805 AGTGGTAGAG
524815 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
524857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
524899 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
524922 CACCATGCAC
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 105 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:528757 original size:43 final size:42
Alignment explanation
Indices: 528696--528790 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 42
528686 TCAATTTTAG
*
528696 AATGATACCATTTTAAGTGAGAGTATATGCATGAACAAAAAAA
1 AATGATACCATTTTAAGTGAGAGTATATGCACGAAC-AAAAAA
528739 AATGATACCATTTTAAGTGAGAGTATATGCACGAACAAAAAA
1 AATGATACCATTTTAAGTGAGAGTATATGCACGAACAAAAAA
528781 AATGATACCA
1 AATGATACCA
528791 ATTGAAAAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 16 0.31
43 35 0.69
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (42 bp):
AATGATACCATTTTAAGTGAGAGTATATGCACGAACAAAAAA
Found at i:530893 original size:26 final size:26
Alignment explanation
Indices: 530841--530894 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
530831 TATAAACAAT
* **
530841 TAATCAAATCAATTTCTCAAATTAGC
1 TAATCAAATCAATTGCTCAAACCAGC
* *
530867 TAATCAAATCAATTGGTTAAACCAGC
1 TAATCAAATCAATTGCTCAAACCAGC
530893 TA
1 TA
530895 CTGGAATCAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (26 bp):
TAATCAAATCAATTGCTCAAACCAGC
Found at i:534038 original size:2 final size:2
Alignment explanation
Indices: 534031--534084 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
534021 CAGTTTGTTC
534031 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
534073 AT AT AT AT AT AT
1 AT AT AT AT AT AT
534085 CATTTAAGTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:534672 original size:21 final size:21
Alignment explanation
Indices: 534648--534698 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
534638 GCGAATATGT
*
534648 AAATTTGCATTGCGATTTTAC
1 AAATTCGCATTGCGATTTTAC
* *
534669 AAATTCGCGTTGCGATTTTCC
1 AAATTCGCATTGCGATTTTAC
534690 AAATTCGCA
1 AAATTCGCA
534699 ACTCTATTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (21 bp):
AAATTCGCATTGCGATTTTAC
Found at i:534736 original size:20 final size:21
Alignment explanation
Indices: 534705--534781 Score: 72
Period size: 20 Copynumber: 3.8 Consensus size: 21
534695 CGCAACTCTA
*
534705 TTTCTGAATTCGCATCACGAAT
1 TTTC-GAATTCGCAACACGAAT
** *
534727 TTT-GTTTTCGCAACTCG-AT
1 TTTCGAATTCGCAACACGAAT
534746 TTTCGAATTCGCAACACGAAT
1 TTTCGAATTCGCAACACGAAT
534767 TTT--AATTTCGCAACA
1 TTTCGAA-TTCGCAACA
534782 GGTTTTAGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
19 7 0.16
20 30 0.67
21 5 0.11
22 3 0.07
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (21 bp):
TTTCGAATTCGCAACACGAAT
Found at i:534739 original size:40 final size:40
Alignment explanation
Indices: 534693--534780 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
534683 ATTTTCCAAA
* * **
534693 TTCGCAACTCTA-TTTCTGAATTCGCATCACGAATTTTGTT
1 TTCGCAACTCGATTTTC-GAATTCGCAACACGAATTTTAAT
534733 TTCGCAACTCGATTTTCGAATTCGCAACACGAATTTTAAT
1 TTCGCAACTCGATTTTCGAATTCGCAACACGAATTTTAAT
534773 TTCGCAAC
1 TTCGCAAC
534781 AGGTTTTAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 39 0.91
41 4 0.09
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (40 bp):
TTCGCAACTCGATTTTCGAATTCGCAACACGAATTTTAAT
Found at i:534958 original size:16 final size:16
Alignment explanation
Indices: 534937--534976 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
534927 TCCCCATCTC
*
534937 TAATTTTTTTTTTACA
1 TAATTTTTTTTCTACA
* *
534953 TAATTTTATTTCTATA
1 TAATTTTTTTTCTACA
534969 TAATTTTT
1 TAATTTTT
534977 CAATGATTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (16 bp):
TAATTTTTTTTCTACA
Found at i:536001 original size:18 final size:18
Alignment explanation
Indices: 535978--536013 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
535968 AAGCAAAAGG
*
535978 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
535996 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
536014 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:536266 original size:33 final size:29
Alignment explanation
Indices: 536224--536300 Score: 91
Period size: 33 Copynumber: 2.5 Consensus size: 29
536214 AATTCGCAAC
* *
536224 GCGAAAGTCAAATTCACGTTGTGATTTTTTGTT
1 GCGAAAGTCAAATTCACGTTGCGA----CTGTT
*
536257 GCGAAAGTCAAATTCGCGTTGCGACTGTT
1 GCGAAAGTCAAATTCACGTTGCGACTGTT
536286 GCGAAAGTCAAATTC
1 GCGAAAGTCAAATTC
536301 GAAACGCGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
29 19 0.46
33 22 0.54
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (29 bp):
GCGAAAGTCAAATTCACGTTGCGACTGTT
Found at i:536309 original size:29 final size:29
Alignment explanation
Indices: 536253--536309 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
536243 TGTGATTTTT
****
536253 TGTTGCGAAAGTCAAATTCGCGTTGCGAC
1 TGTTGCGAAAGTCAAATTCGAAACGCGAC
536282 TGTTGCGAAAGTCAAATTCGAAACGCGA
1 TGTTGCGAAAGTCAAATTCGAAACGCGA
536310 AATCGCAACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (29 bp):
TGTTGCGAAAGTCAAATTCGAAACGCGAC
Found at i:537876 original size:42 final size:42
Alignment explanation
Indices: 537810--537932 Score: 174
Period size: 42 Copynumber: 2.9 Consensus size: 42
537800 GTGAATCGGA
* * *
537810 CTCTTGAACGGTTGGAGTGACCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTAGGAGAGGCCTCTTGAACGATGACAGGGGC
* * * *
537852 CTCTTGAACGGTGGGAGGGGCCTCTTGAAGGATGATAGGGGC
1 CTCTTGAACGGTAGGAGAGGCCTCTTGAACGATGACAGGGGC
*
537894 CTCTTGAACGATAGGAGAGGCCTCTTGAACGATGACAGG
1 CTCTTGAACGGTAGGAGAGGCCTCTTGAACGATGACAGG
537933 TGAATCATGC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTAGGAGAGGCCTCTTGAACGATGACAGGGGC
Found at i:537925 original size:21 final size:20
Alignment explanation
Indices: 537810--537927 Score: 119
Period size: 21 Copynumber: 5.7 Consensus size: 20
537800 GTGAATCGGA
* * *
537810 CTCTTGAACGGTTGGAGTGAC
1 CTCTTGAAC-GATGGAGGGGC
*
537831 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATG-GAGGGGC
*
537852 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGAT-GGAGGGGC
* *
537873 CTCTTGAAGGATGATAGGGGC
1 CTCTTGAACGATG-GAGGGGC
*
537894 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGAT-GGAGGGGC
537915 CTCTTGAACGATG
1 CTCTTGAACGATG
537928 ACAGGTGAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
20 5 0.06
21 74 0.91
22 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.23
Consensus pattern (20 bp):
CTCTTGAACGATGGAGGGGC
Found at i:538016 original size:28 final size:28
Alignment explanation
Indices: 537983--538038 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
537973 GTGAACGGAG
537983 ACGTAATGGCACGTACACGACGTCTGAT
1 ACGTAATGGCACGTACACGACGTCTGAT
*
538011 ACGTAATGGCACGTGCACGACGTCTGAT
1 ACGTAATGGCACGTACACGACGTCTGAT
538039 GCGTGAACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (28 bp):
ACGTAATGGCACGTACACGACGTCTGAT
Found at i:538340 original size:63 final size:63
Alignment explanation
Indices: 538251--538372 Score: 149
Period size: 63 Copynumber: 1.9 Consensus size: 63
538241 CGTAGAGCGG
* * *
538251 CTACCTCATCACGTAAAGTAGATACCTCACCACGTAAAGCACCATTGTCATCGCGTAAAACAT
1 CTACCTCACCACGTAAAGTAGATACCTCACCACGCAAAGCACCATTGTCATCACGTAAAACAT
* * * *
538314 CTACCTCACCACGTAAAG-ACCG-TACCTCATCACGCCATGCACCATTGTCGTCACGTAAA
1 CTACCTCACCACGTAAAGTA--GATACCTCACCACGCAAAGCACCATTGTCATCACGTAAA
538373 GTACCGACCT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
62 1 0.02
63 48 0.96
64 1 0.02
ACGTcount: A:0.32, C:0.34, G:0.13, T:0.21
Consensus pattern (63 bp):
CTACCTCACCACGTAAAGTAGATACCTCACCACGCAAAGCACCATTGTCATCACGTAAAACAT
Found at i:540158 original size:20 final size:20
Alignment explanation
Indices: 540115--540158 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
540105 CGCAACGCGA
* * * *
540115 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCAAATTTAAG
540135 TTTCGCGTTGCAAATTTAAG
1 TTTCGCGTTGCAAATTTAAG
540155 TTTC
1 TTTC
540159 AAATAGTCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (20 bp):
TTTCGCGTTGCAAATTTAAG
Found at i:540712 original size:20 final size:20
Alignment explanation
Indices: 540687--540735 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
540677 TAAACGTGCT
540687 TTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTATGTG
*
540707 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTATGTG
540727 TTGCGAATT
1 TTGCGAATT
540736 ACATATTCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.45
Consensus pattern (20 bp):
TTGCGAATTTGACTTATGTG
Found at i:543411 original size:71 final size:71
Alignment explanation
Indices: 543324--543539 Score: 333
Period size: 71 Copynumber: 3.0 Consensus size: 71
543314 TGATGAATTT
* *
543324 TTTTATAATTCAAATTTTGTTTAATTTATTTTTCAATGAAATCGAGTTATTTGAATTTATGTTTA
1 TTTT-TAACTCAAATTTTATTTAATTTATTTTTCAATGAAATCGAGTTATTTGAATTTATGTTTA
543389 AATTTAA
65 AATTTAA
543396 TTTTTAACTCAAATTTTATTTAATTTATTTTTCAATGAAATCGAGTTATTTGAATTTATGTTTAA
1 TTTTTAACTCAAATTTTATTTAATTTATTTTTCAATGAAATCGAGTTATTTGAATTTATGTTTAA
*
543461 ATTTAT
66 ATTTAA
* * * * * * *
543467 TTTTTAACTCAAATTTTATTTAATTTATTTTTCAATCAAGTCGAGTTGTTCGAATATATATTTGA
1 TTTTTAACTCAAATTTTATTTAATTTATTTTTCAATGAAATCGAGTTATTTGAATTTATGTTTAA
543532 ATTTAA
66 ATTTAA
543538 TT
1 TT
543540 GTAAATATAA
Statistics
Matches: 133, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
71 129 0.97
72 4 0.03
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.54
Consensus pattern (71 bp):
TTTTTAACTCAAATTTTATTTAATTTATTTTTCAATGAAATCGAGTTATTTGAATTTATGTTTAA
ATTTAA
Found at i:543423 original size:40 final size:41
Alignment explanation
Indices: 543370--543494 Score: 112
Period size: 40 Copynumber: 3.3 Consensus size: 41
543360 TGAAATCGAG
543370 TTATTTGAATTTATGTTTAAATTTAATTTTTAACTCAAATT
1 TTATTTGAATTTATGTTTAAATTTAATTTTTAACTCAAATT
* * * * *
543411 TTATTT-AATTTA--TTT---TTCAA---TGAAATC-GA-G
1 TTATTTGAATTTATGTTTAAATTTAATTTTTAACTCAAATT
*
543441 TTATTTGAATTTATGTTTAAATTTATTTTTTAACTCAAATT
1 TTATTTGAATTTATGTTTAAATTTAATTTTTAACTCAAATT
543482 TTATTT-AATTTAT
1 TTATTTGAATTTAT
543495 TTTTCAATCA
Statistics
Matches: 62, Mismatches: 11, Indels: 23
0.65 0.11 0.24
Matches are distributed among these distances:
30 6 0.10
31 7 0.11
32 5 0.08
33 3 0.05
35 4 0.06
36 3 0.05
38 3 0.05
39 5 0.08
40 14 0.23
41 12 0.19
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.57
Consensus pattern (41 bp):
TTATTTGAATTTATGTTTAAATTTAATTTTTAACTCAAATT
Found at i:553869 original size:36 final size:33
Alignment explanation
Indices: 553828--553922 Score: 93
Period size: 36 Copynumber: 2.7 Consensus size: 33
553818 ATCATTAAAA
553828 ATAATTTAATATTCAAATTATAATATATATTATATT
1 ATAA-TTAATATTCAAATTATAATAT-TATTATA-T
** *
553864 ATAATTAATGATAAAAAATAT-ATATTATTATAT
1 ATAATTAAT-ATTCAAATTATAATATTATTATAT
553897 ATTATAGTTAATATTCAAATTATAAT
1 A-TA-A-TTAATATTCAAATTATAAT
553923 CATAAGATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
33 2 0.04
34 9 0.19
35 18 0.38
36 19 0.40
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (33 bp):
ATAATTAATATTCAAATTATAATATTATTATAT
Found at i:558284 original size:21 final size:21
Alignment explanation
Indices: 558258--558314 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
558248 TTATATTTGG
*
558258 ATTCGGATATCCGATCTGAAA
1 ATTCGGATATCCGATATGAAA
*
558279 ATTCGGATATCCAATATGAAA
1 ATTCGGATATCCGATATGAAA
558300 ATTCGGATATCCGAT
1 ATTCGGATATCCGAT
558315 TTTTTCAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (21 bp):
ATTCGGATATCCGATATGAAA
Found at i:558693 original size:2 final size:2
Alignment explanation
Indices: 558686--558743 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
558676 ATTTTATACG
558686 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
558727 TA TC TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA
558744 GTTTGCGAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
1 2 0.04
2 50 0.96
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:558851 original size:36 final size:35
Alignment explanation
Indices: 558770--558887 Score: 124
Period size: 31 Copynumber: 3.5 Consensus size: 35
558760 TGAAAATACG
558770 TATATAATATATAGTTTTTAAAACATTTTTTTTGAAAAC
1 TATATAATATATAGTTTTTAAAACA----TTTTGAAAAC
*
558809 T-TAT-ATA-ATATTTTTTAAAACATTTTGAAAAC
1 TATATAATATATAGTTTTTAAAACATTTTGAAAAC
* *
558841 TATATAATATATAGTTTTCAAAAC-TTTT-TAAA-
1 TATATAATATATAGTTTTTAAAACATTTTGAAAAC
558873 -ATATAATATATAGTT
1 TATATAATATATAGTT
558888 CAAGAAAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
31 15 0.21
32 11 0.15
33 6 0.08
34 7 0.10
35 12 0.17
36 14 0.19
37 3 0.04
38 3 0.04
39 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.47
Consensus pattern (35 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAAC
Found at i:558876 original size:24 final size:24
Alignment explanation
Indices: 558831--558877 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
558821 TTTTAAAACA
* *
558831 TTTTGAAAACTATATAATATATAG
1 TTTTCAAAACTATATAAAATATAG
* *
558855 TTTTCAAAACTTTTTAAAATATA
1 TTTTCAAAACTATATAAAATATA
558878 ATATATAGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (24 bp):
TTTTCAAAACTATATAAAATATAG
Found at i:558943 original size:18 final size:18
Alignment explanation
Indices: 558908--558965 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
558898 TATTTTCGAA
*
558908 ATATATATTA-TATAATTT
1 ATAT-TATTATTATTATTT
558926 ATATTATTATTATTATTT
1 ATATTATTATTATTATTT
* * *
558944 ATTTTCTTTTTATTATTT
1 ATATTATTATTATTATTT
558962 -TATT
1 ATATT
558966 TTTTATGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
17 8 0.24
18 26 0.76
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
ATATTATTATTATTATTT
Found at i:560274 original size:15 final size:15
Alignment explanation
Indices: 560254--560305 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
560244 CTTTTTTATC
560254 ATTATTTTTATTTTT
1 ATTATTTTTATTTTT
*
560269 ATTATTATTATTTTT
1 ATTATTTTTATTTTT
*
560284 ACTT-TTTTGGATTTTT
1 A-TTATTTT-TATTTTT
560300 -TTATTT
1 ATTATTT
560306 ATTTTCCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 2 0.06
15 21 0.68
16 8 0.26
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (15 bp):
ATTATTTTTATTTTT
Found at i:560278 original size:21 final size:21
Alignment explanation
Indices: 560245--560291 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
560235 TTTTTCTTTC
560245 TTTTTTATCATTATTTTTA-T
1 TTTTTTATCATTATTTTTACT
*
560265 TTTTATTATTATTATTTTTACT
1 TTTT-TTATCATTATTTTTACT
560287 TTTTT
1 TTTTT
560292 GGATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 15 0.62
22 5 0.21
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTTTATCATTATTTTTACT
Found at i:560371 original size:12 final size:12
Alignment explanation
Indices: 560354--560411 Score: 59
Period size: 11 Copynumber: 5.0 Consensus size: 12
560344 TATTATTCTC
560354 ATTTTATTTTTT
1 ATTTTATTTTTT
560366 ATTTTA-TTTTT
1 ATTTTATTTTTT
* *
560377 CTCTTA-TTTTT
1 ATTTTATTTTTT
*
560388 A-TTTATTTTTCC
1 ATTTTATTTTT-T
560400 ATTTTATTTTTT
1 ATTTTATTTTTT
560412 TCCTTATCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 3 0.08
11 18 0.49
12 7 0.19
13 9 0.24
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.78
Consensus pattern (12 bp):
ATTTTATTTTTT
Found at i:560379 original size:26 final size:25
Alignment explanation
Indices: 560344--560411 Score: 83
Period size: 21 Copynumber: 2.9 Consensus size: 25
560334 TATATATATA
*
560344 TATTATTCTCATTTTATTTTTTATTT
1 TATTTTTCTCATTTTATTTTTTA-TT
560370 TATTTTTCTC---TTA-TTTTTATT
1 TATTTTTCTCATTTTATTTTTTATT
560391 TATTTTTC-CATTTTATTTTTT
1 TATTTTTCTCATTTTATTTTTT
560412 TCCTTATCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
20 1 0.03
21 10 0.27
22 6 0.16
23 6 0.16
24 5 0.14
26 9 0.24
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (25 bp):
TATTTTTCTCATTTTATTTTTTATT
Found at i:560384 original size:34 final size:34
Alignment explanation
Indices: 560346--560410 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
560336 TATATATATA
*
560346 TTATTCTCATTTTATTTTT-TATTTTATTTTTCTC
1 TTATTCTCA-TTTATTTTTCCATTTTATTTTTCTC
* *
560380 TTATTTTTATTTATTTTTCCATTTTATTTTT
1 TTATTCTCATTTATTTTTCCATTTTATTTTT
560411 TTCCTTATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.75
Consensus pattern (34 bp):
TTATTCTCATTTATTTTTCCATTTTATTTTTCTC
Found at i:565708 original size:84 final size:84
Alignment explanation
Indices: 565553--565991 Score: 532
Period size: 84 Copynumber: 5.2 Consensus size: 84
565543 TAAAGAAACT
* * * *
565553 ATTTGCAGTATAACTCAA-TGCTAGAAGGGTTATCTGCCAA-CAAATACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTTAAGT-CGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
565616 GCTCAGCTCCAAGGCATATC
65 GCTCAGCTCCAAGGCATATC
* * *
565636 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATTTGCCAACCAAAGACCTTCGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
565701 CTCAGCTCCAAGGCATATC
66 CTCAGCTCCAAGGCATATC
* * * * * * * *
565720 ATTTGCAGTATAGCTTAAGTCGAGAAGGGATATTTG----CCAAAGACCCTCGAGTTTGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * *
565781 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCCAAGGCATATC
* * * * * *
565801 ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTAC
*
565865 ACTCAGCTCCAAGGCATATC
65 GCTCAGCTCCAAGGCATATC
*
565885 ATTTGTAGCAAATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
1 ATTTGCAGC--ATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
* *
565950 CGCTCAGTTCCAAGGCACATC
64 CGCTCAGCTCCAAGGCATATC
565971 ATTTGCAGCATAACTTAAGTC
1 ATTTGCAGCATAACTTAAGTC
565992 TGCCAAAGAC
Statistics
Matches: 307, Mismatches: 39, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
80 28 0.09
81 39 0.13
83 33 0.11
84 106 0.35
85 26 0.08
86 72 0.23
87 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (84 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCATATC
Found at i:565849 original size:165 final size:164
Alignment explanation
Indices: 565553--566680 Score: 854
Period size: 165 Copynumber: 6.9 Consensus size: 164
565543 TAAAGAAACT
* * * * * * *
565553 ATTTGCAGTATAACTCAA-TGCTAGAAGGGTTATCTGCCAACAAATACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGT-CGAGAAGGGTTATTTG-C--CAAAGACCCTCGAGTTCGACTACA
* * * * * * *
565617 CTCAGC-TCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATTTGCCAACCAAA
62 CTCAGCTTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAA
*
565681 GACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATC
126 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
* * * * *
565720 ATTTGCAGTATAGCTTAAGTCGAGAAGGGATATTTGCCAAAGACCCTCGAGTTTGATTACACTCA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTGCCAAAGACCCTCGAGTTCGACTACACTCA
* * * *
565785 GCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACC
66 GCTTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACC-AAAGACC
*
565850 TTCGAGTTCGACTACACTCAGCTCCAAGGCATATC
130 TTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
* * *
565885 ATTTGTAGCAAATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
1 ATTTGCAGC--ATAACTTAAGTCGAGAAGGGTTATTTG----CCAAAGACCCTCGAGTTCGACTA
* *
565950 CGCTCAG-TTCCAAGGCACATCATTTGCAGCATAACT------T--AA--G---TCTG---CCAA
60 CACTCAGCTTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAA
* * * * * *
565998 AGACCCTCGAGTTTGA-TCACACTCAGCTTCGAGGGCACATC
125 AGACCTTCGAGTTCGACT-ACGCTCAGC-TCCAAGGCATATC
* * * * * * * * *
566039 ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGACCTTCAAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT-T-T-GCC-AAAGACCCTCGAGTTCGACTACA
* * * * *
566104 CTCAGC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
62 CTCAGCTTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAA
* *
566168 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATT
126 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
* * * *
566207 ATTTGCAACATAGCTTAAGTCGAGAAGGGCTATTTGCCAAAGAACCTCGAGTTCGA-TCACACTC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTGCCAAAGACCCTCGAGTTCGACT-ACACTC
* * * * *
566271 AGCTTCGAGGGCACATCATTTACAGCATAACTCAATGCTAGAAGGGTTATCTGTCACCAAAAGAT
65 AGCTTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACC-AAAGAC
* *
566336 CTTCGAGTTCGACTACGTTCAGCTTCAAGGCATATC
129 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
* * * *
566372 ATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAATCAAAGACCGTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTG-C---CAAAGACCCTCGAGTTCGACTACA
* * * * * *
566437 CTCAGC-TCCAAGGCACATCATTTGCATCATAGCTTAA-GTTGAGAAGGGCTATCTG---CCAAA
62 CTCAGCTTCCAAGGCACATCATTTACAGCATAACTCAAGGCT-AGAAGGGTTATCTGCCACCAAA
* * * * ** * * *
566497 GACCCTCGAGTTTGATTACACTCAGCTTTGAGGGTACATC
126 GACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATC
* * * * * * * * ** * *
566537 ATTTACAACATAACTCAAGGCTATAAGGGTTATCTGTCACCAAAATACATTCGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT-T-T-GCC-AAAGACCCTCGAGTTCGACTACA
* * * * * * * *
566602 CTCAGC-TCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTTCCAACCGAA
62 CTCAGCTTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAA
566666 GACCTTCGAGTTCGA
126 GACCTTCGAGTTCGA
566681 TTATACTCAG
Statistics
Matches: 778, Mismatches: 130, Indels: 104
0.77 0.13 0.10
Matches are distributed among these distances:
151 2 0.00
152 76 0.10
153 25 0.03
154 19 0.02
157 4 0.01
160 3 0.00
162 3 0.00
163 1 0.00
164 79 0.10
165 310 0.40
166 3 0.00
167 58 0.07
168 74 0.10
169 68 0.09
170 27 0.03
171 26 0.03
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (164 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTGCCAAAGACCCTCGAGTTCGACTACACTCA
GCTTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCT
TCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
Found at i:566136 original size:84 final size:83
Alignment explanation
Indices: 565994--566680 Score: 638
Period size: 84 Copynumber: 8.2 Consensus size: 83
565984 CTTAAGTCTG
* * * * * * * *
565994 CCAAAGACCCTCGAGTTTGA-TCACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAG
1 CCAAAGACCTTCGAGTTCGACT-ACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAG
* *
566058 GCTAGAAGGGTTATCTATCA
64 GCGAGAAGGGTTATCTGTCA
* * *
566078 CCAAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGT
1 CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGG
*
566143 CGAGAAGGGTTATCTGCCAA
65 CGAGAAGGGTTATCTGTC-A
* * * *
566163 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATTATTTGCAACATAGCTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGGC
* *
566228 GAGAAGGGCTAT-T-T-G
66 GAGAAGGGTTATCTGTCA
* * * * *
566243 CCAAAGAACC-TCGAGTTCGA-TCACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAA
1 CCAAAG-ACCTTCGAGTTCGACT-ACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAA
* *
566306 TGCTAGAAGGGTTATCTGTCA
63 GGCGAGAAGGGTTATCTGTCA
* * * * * *
566327 CCAAAAGATCTTCGAGTTCGACTACGTTCAGCTTCAAGGCATATCATTTGCAACATAACTTAAGT
1 CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGG
*
566392 CGAGAAGGGTTATCTGCCAA
65 CGAGAAGGGTTATCTGTC-A
* * * * **
566412 TCAAAGACCGTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCATCATAGCTTAAGTT
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGGC
*
566477 GAGAAGGGCTATCTG---
66 GAGAAGGGTTATCTGTCA
* * * * ** * * * * *
566492 CCAAAGACCCTCGAGTTTGATTACACTCAGCTTTGAGGGTACATCATTTACAACATAACTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGG
* *
566557 CTATAAGGGTTATCTGTCA
65 CGAGAAGGGTTATCTGTCA
* * * * * *
566576 CCAAAATACATTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGT
1 CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGG
566641 CGAGAAGGGTTATCT-TCCAA
65 CGAGAAGGGTTATCTGT-C-A
*
566661 CCGAAGACCTTCGAGTTCGA
1 CCAAAGACCTTCGAGTTCGA
566681 TTATACTCAG
Statistics
Matches: 485, Mismatches: 98, Indels: 40
0.78 0.16 0.06
Matches are distributed among these distances:
79 1 0.00
80 50 0.10
81 74 0.15
82 1 0.00
83 3 0.01
84 278 0.57
85 76 0.16
86 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (83 bp):
CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGGC
GAGAAGGGTTATCTGTCA
Found at i:566313 original size:249 final size:249
Alignment explanation
Indices: 565553--566680 Score: 1717
Period size: 249 Copynumber: 4.6 Consensus size: 249
565543 TAAAGAAACT
* * * * *
565553 ATTTGCAGTATAACTCAATGCTAGAAGGGTTATCTGCCAAC-AAATACCTTCGAGTTCGACTACG
1 ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
* *
565617 CTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATTTGCCAACCAAAG
66 CTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
* * *
565682 ACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTTGCAGTATAGCTTAAGTCGAGAAG
131 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
* *
565747 GGATATTTGCCAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACATC
196 GGCTATTTGCCAAAGACCCTCGAGTTTGATCACACTCAGCTTCGAGGGCACATC
*
565801 ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACA
1 ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
*
565866 CTCAGCTCCAAGGCATATCATTTGTAGCAAATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
66 CTCAGCTCCAAGGCATATCATTTGCAGC--ATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
* *
565931 AGACCTTCGAGTTCGACTACGCTCAGTTCCAAGGCACATCATTTGCAGCATAACTTAAGT-----
129 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
565991 ----C----TGCCAAAGACCCTCGAGTTTGATCACACTCAGCTTCGAGGGCACATC
194 AGGGCTATTTGCCAAAGACCCTCGAGTTTGATCACACTCAGCTTCGAGGGCACATC
* *
566039 ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGACCTTCAAGTTCGACTACG
1 ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
566104 CTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
66 CTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
* *
566169 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATTATTTGCAACATAGCTTAAGTCGAGAAG
131 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
* *
566234 GGCTATTTGCCAAAGAACCTCGAGTTCGATCACACTCAGCTTCGAGGGCACATC
196 GGCTATTTGCCAAAGACCCTCGAGTTTGATCACACTCAGCTTCGAGGGCACATC
* * *
566288 ATTTACAGCATAACTCAATGCTAGAAGGGTTATCTGTCACCAAAAGATCTTCGAGTTCGACTACG
1 ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
* * * *
566353 TTCAGCTTCAAGGCATATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAATCAAAG
66 CTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
* * *
566418 ACCGTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCATCATAGCTTAAGTTGAGAAG
131 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
* * * *
566483 GGCTATCTGCCAAAGACCCTCGAGTTTGATTACACTCAGCTTTGAGGGTACATC
196 GGCTATTTGCCAAAGACCCTCGAGTTTGATCACACTCAGCTTCGAGGGCACATC
** * * * *
566537 ATTTACAACATAACTCAAGGCTATAAGGGTTATCTGTCACCAAAATACATTCGAGTTTGACTACG
1 ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
* * * * *
566602 CTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTTCCAACCGAAG
66 CTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
566667 ACCTTCGAGTTCGA
131 ACCTTCGAGTTCGA
566681 TTATACTCAG
Statistics
Matches: 802, Mismatches: 62, Indels: 31
0.90 0.07 0.03
Matches are distributed among these distances:
236 91 0.11
238 135 0.17
245 1 0.00
248 37 0.05
249 450 0.56
251 88 0.11
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (249 bp):
ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
GGCTATTTGCCAAAGACCCTCGAGTTTGATCACACTCAGCTTCGAGGGCACATC
Found at i:567306 original size:15 final size:15
Alignment explanation
Indices: 567276--567315 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
567266 TATTTTATTT
567276 TATATGTATATATATA
1 TATAT-TATATATATA
*
567292 TATATTATATCTATA
1 TATATTATATATATA
*
567307 TATTTTATA
1 TATATTATA
567316 GTTTGCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATATTATATATATA
Found at i:567394 original size:34 final size:31
Alignment explanation
Indices: 567348--567421 Score: 105
Period size: 34 Copynumber: 2.3 Consensus size: 31
567338 TACGTATATC
567348 ATAT-ATAGTTTTTAAAATATATTTTTGAAAACTT
1 ATATAATA-TTTTTAAAA-ATA-TTTTGAAAAC-T
567382 ATATAATATTTTTAAAAATATTTTGAAAACT
1 ATATAATATTTTTAAAAATATTTTGAAAACT
567413 ATATAATAT
1 ATATAATAT
567422 ATAGTTTTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
31 10 0.26
32 10 0.26
33 3 0.08
34 13 0.33
35 3 0.08
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (31 bp):
ATATAATATTTTTAAAAATATTTTGAAAACT
Found at i:567447 original size:24 final size:23
Alignment explanation
Indices: 567390--567448 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 23
567380 TTATATAATA
567390 TTTTTAAAA-ATATTTTGAAAAC
1 TTTTTAAAATATATTTTGAAAAC
* * *
567412 TATATAATATATAGTTTTGAAAAC
1 TTTTTAAAATATA-TTTTGAAAAC
567436 TTTTTAAAATATA
1 TTTTTAAAATATA
567449 ATATATAGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 6 0.21
23 3 0.10
24 20 0.69
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (23 bp):
TTTTTAAAATATATTTTGAAAAC
Found at i:567522 original size:12 final size:12
Alignment explanation
Indices: 567502--567546 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
567492 ATATTATATA
*
567502 ATTTATATTATT
1 ATTTTTATTATT
567514 ATTTTTATTATT
1 ATTTTTATTATT
567526 A--TTTATT-TT
1 ATTTTTATTATT
*
567535 CTTTTTATTATT
1 ATTTTTATTATT
567547 TTCTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
9 2 0.07
10 6 0.21
11 6 0.21
12 14 0.50
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTTTTATTATT
Found at i:567527 original size:15 final size:15
Alignment explanation
Indices: 567503--567548 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
567493 TATTATATAA
567503 TTTA-TATTATTATT
1 TTTATTATTATTATT
567517 TTTATTATTATTTATT
1 TTTATTATTA-TTATT
567533 TTCT-TT-TTATTATT
1 TT-TATTATTATTATT
567547 TT
1 TT
567549 CTTTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.38
15 8 0.28
16 9 0.31
17 1 0.03
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTATTATTATT
Found at i:567547 original size:18 final size:18
Alignment explanation
Indices: 567521--567560 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
567511 ATTATTTTTA
567521 TTATTATTTAT-TTTCTTT
1 TTATTATTT-TCTTTCTTT
*
567539 TTATTATTTTCTTTTTTT
1 TTATTATTTTCTTTCTTT
567557 TTAT
1 TTAT
567561 GTTTTTTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (18 bp):
TTATTATTTTCTTTCTTT
Found at i:567554 original size:15 final size:15
Alignment explanation
Indices: 567509--567560 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
567499 ATAATTTATA
*
567509 TTATTATTTT-TATTA
1 TTATTATTTTCT-TTT
567524 TTATTTATTTTC-TTT
1 TTA-TTATTTTCTTTT
567539 TTATTATTTTCTTTT
1 TTATTATTTTCTTTT
*
567554 TTTTTAT
1 TTATTAT
567561 GTTTTTTCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 8 0.25
15 17 0.53
16 7 0.22
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (15 bp):
TTATTATTTTCTTTT
Found at i:567566 original size:18 final size:19
Alignment explanation
Indices: 567515--567560 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
567505 TATATTATTA
*
567515 TTTTTATTATTATTTATTTTC
1 TTTTTATTA-T-TTTCTTTTC
567536 TTTTTATTATTTTCTTTT-
1 TTTTTATTATTTTCTTTTC
567554 TTTTTAT
1 TTTTTAT
567561 GTTTTTTCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 7 0.29
19 7 0.29
20 1 0.04
21 9 0.38
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTATTATTTTCTTTTC
Found at i:568890 original size:2 final size:2
Alignment explanation
Indices: 568877--568915 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
568867 TACATTTCAT
*
568877 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
568916 TATTCTCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:568940 original size:11 final size:10
Alignment explanation
Indices: 568925--568965 Score: 64
Period size: 11 Copynumber: 3.9 Consensus size: 10
568915 TTATTCTCAT
568925 TTTATTTTTA
1 TTTATTTTTA
568935 TCTTATTTTTA
1 T-TTATTTTTA
568946 TTTTATTTTTA
1 -TTTATTTTTA
568957 TTTATTTTT
1 TTTATTTTT
568966 CCATTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.34
11 18 0.62
12 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:568948 original size:22 final size:22
Alignment explanation
Indices: 568923--568995 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 22
568913 TATTATTCTC
568923 ATTTTATTTTTATCTTATTTTT
1 ATTTTATTTTTATCTTATTTTT
568945 ATTTTATTTTTAT-TTATTTTT
1 ATTTTATTTTTATCTTATTTTT
*
568966 CCATTTTATTTTTTTCCTTATCTTTT
1 --ATTTTATTTTTAT-CTTAT-TTTT
568992 -TTTT
1 ATTTT
568996 CACTTCTTGT
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
21 8 0.18
22 13 0.29
23 16 0.36
25 4 0.09
26 4 0.09
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (22 bp):
ATTTTATTTTTATCTTATTTTT
Found at i:570416 original size:12 final size:10
Alignment explanation
Indices: 570385--570415 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
570375 TTCATCATAC
570385 CAAATTCTCT
1 CAAATTCTCT
570395 CAAATTCTCT
1 CAAATTCTCT
*
570405 CAAATACTCT
1 CAAATTCTCT
570415 C
1 C
570416 TGTTTAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:570492 original size:17 final size:18
Alignment explanation
Indices: 570455--570495 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
570445 ATATTATGTA
*
570455 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
570473 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
570490 TTTACT
1 TTTACT
570496 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:572196 original size:18 final size:18
Alignment explanation
Indices: 572170--572204 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
572160 CAGCAGCCAC
* *
572170 CGCATCCATTTATGATGT
1 CGCAGCCATATATGATGT
572188 CGCAGCCATATATGATG
1 CGCAGCCATATATGATG
572205 CTGCCATCGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (18 bp):
CGCAGCCATATATGATGT
Found at i:572828 original size:35 final size:33
Alignment explanation
Indices: 572789--572873 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
572779 ATATTTCAGT
572789 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
*
572824 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
572859 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
572874 TAAATACCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 3 0.07
38 12 0.28
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:588769 original size:32 final size:32
Alignment explanation
Indices: 588707--588769 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
588697 ATAGTAATAT
* *
588707 AATATAATTTTTGAAAATGTTTTTTTTAAAAA
1 AATATAATTTTTGAAAATGTGTTTTCTAAAAA
588739 AATATAATTTTTAGAAAATG-GTTTTCTAAAA
1 AATATAATTTTT-GAAAATGTGTTTTCTAAAA
588770 TATATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (32 bp):
AATATAATTTTTGAAAATGTGTTTTCTAAAAA
Found at i:588863 original size:37 final size:36
Alignment explanation
Indices: 588766--589155 Score: 262
Period size: 39 Copynumber: 10.6 Consensus size: 36
588756 ATGGTTTTCT
* * ** ** **
588766 AAAATATATATATTATATAGTTTCGAAAACATTTCA
1 AAAACATATATAATATATAGTTTTTAAAATTTTTTG
* * *
588802 AAAATATATATATTATATAG-TTTTGAAATTTTTTG
1 AAAACATATATAATATATAGTTTTTAAAATTTTTTG
* * * **
588837 AAAACATATATAATGTATTGTTTTTTGAAAATGCTTTCA
1 AAAACATATATAATATATAG-TTTTT-AAAAT-TTTTTG
* * * * *
588876 AAAATATATATAATATATAG-TTTTGAAATCATTCTA
1 AAAACATATATAATATATAGTTTTTAAAAT-TTTTTG
*
588912 AAATATATATATAATATATAGTTTTTAAAATATTTTTTG
1 AAA-ACATATATAATATATAGTTTTT-AAA-ATTTTTTG
*
588951 AAAACTTATATAATATATAGTTTTTAAAATATTTTTG
1 AAAACATATATAATATATAGTTTTTAAAAT-TTTTTG
* * *
588988 AAAAAACTTATATAATATATAGTTTTAAAAACATTTTTG
1 --AAAACATATATAATATATAGTTTTTAAAA-TTTTTTG
* *
589027 AAAAAATTATATAAATATATAGTTTTAAAAACATTTTTTG
1 AAAACA-TATAT-AATATATAGTTTT-TAAA-ATTTTTTG
589067 AAAAC-T-TAT-ATA-ATA-TTTTT-AAATCATTTTTG
1 AAAACATATATAATATATAGTTTTTAAAAT--TTTTTG
*
589099 AAAAC-TATATAATATATAG-TTTAAAAATATTTTTG
1 AAAACATATATAATATATAGTTTTTAAAAT-TTTTTG
* *
589134 -AAATATATATATTATATAGTTT
1 AAAACATATATAATATATAGTTT
589156 ATATTATATT
Statistics
Matches: 290, Mismatches: 39, Indels: 50
0.77 0.10 0.13
Matches are distributed among these distances:
30 2 0.01
31 2 0.01
32 12 0.04
33 7 0.02
34 9 0.03
35 53 0.18
36 38 0.13
37 41 0.14
38 34 0.12
39 75 0.26
40 16 0.06
41 1 0.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
AAAACATATATAATATATAGTTTTTAAAATTTTTTG
Found at i:588885 original size:39 final size:38
Alignment explanation
Indices: 588762--589013 Score: 149
Period size: 37 Copynumber: 6.8 Consensus size: 38
588752 GAAAATGGTT
* * *
588762 TTCT-AAAATATATATATTATATAG--TTTCGAAAACA
1 TTCTAAAAATATATATAATATATAGTTTTTTGAAATCA
* *
588797 TT-TCAAAAATATATATATTATATAG--TTTTGAAAT-T
1 TTCT-AAAAATATATATAATATATAGTTTTTTGAAATCA
* * * * * *
588832 TTTTGAAAACATATATAATGTATTGTTTTTTGAAAATGCT
1 TTCTAAAAATATATATAATATATAGTTTTTTG-AAAT-CA
588872 TTC-AAAAATATATATAATATATAG--TTTTGAAATCA
1 TTCTAAAAATATATATAATATATAGTTTTTTGAAATCA
*
588907 TTCTAAAATATATATATAATATATAG-TTTTTAAAAT-A
1 TTCTAAAA-ATATATATAATATATAGTTTTTTGAAATCA
* * *
588944 TTTTTTGAAAACT-TATATAATATATAG-TTTTTAAAAT-A
1 --TTCT-AAAAATATATATAATATATAGTTTTTTGAAATCA
*
588982 TTTTTGAAAAA-ACTTATATAATATATAGTTTT
1 -TTCT-AAAAATA--TATATAATATATAGTTTT
589014 AAAAACATTT
Statistics
Matches: 181, Mismatches: 18, Indels: 31
0.79 0.08 0.13
Matches are distributed among these distances:
34 1 0.01
35 24 0.13
36 36 0.20
37 38 0.21
38 37 0.20
39 35 0.19
40 10 0.06
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.46
Consensus pattern (38 bp):
TTCTAAAAATATATATAATATATAGTTTTTTGAAATCA
Found at i:588920 original size:74 final size:75
Alignment explanation
Indices: 588797--589052 Score: 234
Period size: 76 Copynumber: 3.4 Consensus size: 75
588787 TTCGAAAACA
* * * * * *
588797 TTTCAAAAATATATATATTATATAGTTTTGAAATTTTTTGAAA-ACATATATAATGTATTGTTTT
1 TTTCAAAAATATATATAATATATAGTTTTGAAATATTCTAAAATACATATATAATATATAG-TTT
*
588861 TTGAAA-ATGC
65 TTAAAATATGC
*
588871 TTTCAAAAATATATATAATATATAGTTTTGAAATCATTCTAAAATATATATATAATATATAGTTT
1 TTTCAAAAATATATATAATATATAGTTTTGAAAT-ATTCTAAAATACATATATAATATATAGTTT
**
588936 TTAAAATATTT
65 TTAAAATATGC
* * * * * *
588947 TTTGAAAACT-TATATAATATATAGTTTTTAAAATATTTTTGAAAAAACTTATATAATATATAGT
1 TTTCAAAAATATATATAATATATAG-TTTTGAAATA-TTCT-AAAATACATATATAATATATAGT
* * *
589011 TTTAAAAACAT-T
63 TTTTAAAATATGC
*
589023 TTTGAAAAA-ATTATATAAATATATAGTTTT
1 TTTCAAAAATA-TATAT-AATATATAGTTTT
589053 AAAAACATTT
Statistics
Matches: 153, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
74 33 0.22
75 29 0.19
76 44 0.29
77 38 0.25
78 9 0.06
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (75 bp):
TTTCAAAAATATATATAATATATAGTTTTGAAATATTCTAAAATACATATATAATATATAGTTTT
TAAAATATGC
Found at i:589024 original size:39 final size:39
Alignment explanation
Indices: 588882--589136 Score: 265
Period size: 39 Copynumber: 6.9 Consensus size: 39
588872 TTCAAAAATA
* * * *
588882 TATATAATATATAGTTTTGAAATCA-TTCT-AAAATA-T
1 TATATAATATATAGTTTTAAAAACATTTTTGAAAAAACT
* *
588918 ATATATAATATATAGTTTTTAAAATATTTTTTG--AAAACT
1 -TATATAATATATAGTTTTAAAAACA-TTTTTGAAAAAACT
* *
588957 TATATAATATATAGTTTTTAAAATATTTTTGAAAAAACT
1 TATATAATATATAGTTTTAAAAACATTTTTGAAAAAACT
588996 TATATAATATATAGTTTTAAAAACATTTTTGAAAAAA-T
1 TATATAATATATAGTTTTAAAAACATTTTTGAAAAAACT
589034 TATATAAATATATAGTTTTAAAAACATTTTTTG--AAAACT
1 TATAT-AATATATAGTTTTAAAAACA-TTTTTGAAAAAACT
*
589073 TATAT-A-ATAT--TTTT-AAATCATTTTTG--AAAAC-
1 TATATAATATATAGTTTTAAAAACATTTTTGAAAAAACT
*
589104 TATATAATATATAG-TTTAAAAATATTTTTGAAA
1 TATATAATATATAGTTTTAAAAACATTTTTGAAA
589137 TATATATATT
Statistics
Matches: 192, Mismatches: 10, Indels: 32
0.82 0.04 0.14
Matches are distributed among these distances:
31 5 0.03
32 12 0.06
33 9 0.05
34 7 0.04
35 10 0.05
36 4 0.02
37 30 0.16
38 38 0.20
39 71 0.37
40 6 0.03
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (39 bp):
TATATAATATATAGTTTTAAAAACATTTTTGAAAAAACT
Found at i:590365 original size:11 final size:11
Alignment explanation
Indices: 590349--590387 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
590339 ATATCTTCAC
590349 TTTTTTATTTG
1 TTTTTTATTTG
* *
590360 TTTTTTATGTA
1 TTTTTTATTTG
*
590371 TTTTTTACTTG
1 TTTTTTATTTG
590382 TTTTTT
1 TTTTTT
590388 TTATTATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.10, C:0.03, G:0.08, T:0.79
Consensus pattern (11 bp):
TTTTTTATTTG
Found at i:590386 original size:23 final size:22
Alignment explanation
Indices: 590349--590397 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
590339 ATATCTTCAC
*
590349 TTTTTTATTTG-TTTTTTATGTA
1 TTTTTTACTTGTTTTTTTAT-TA
590371 TTTTTTACTTGTTTTTTTTATTA
1 TTTTTTACTTG-TTTTTTTATTA
590394 TTTT
1 TTTT
590398 CATATTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 10 0.42
23 6 0.25
24 8 0.33
ACGTcount: A:0.12, C:0.02, G:0.06, T:0.80
Consensus pattern (22 bp):
TTTTTTACTTGTTTTTTTATTA
Found at i:594336 original size:95 final size:96
Alignment explanation
Indices: 594225--594423 Score: 328
Period size: 95 Copynumber: 2.1 Consensus size: 96
594215 AGATTATAAT
* *
594225 ATTATATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAATGCTCTAGCTTTA
1 ATTATATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCTAGCTTTA
594290 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
66 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
* * *
594321 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTGGCTTTA
1 ATTATATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCTAGCTTTA
* *
594385 TGGATAATATTTAGCTAGCCTGATAAAGGTG
66 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
594416 ATTATATA
1 ATTATATA
594424 CAATGATATT
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 88 0.93
96 7 0.07
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (96 bp):
ATTATATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCTAGCTTTA
TGGATAAGATTCAGCTAGCCTGATAAAGGTG
Found at i:594477 original size:91 final size:94
Alignment explanation
Indices: 594225--594478 Score: 327
Period size: 95 Copynumber: 2.7 Consensus size: 94
594215 AGATTATAAT
* * * * *
594225 ATTATATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAATGCTCTAGCTTTA
1 ATTATA-ATATACAATAAA-CTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCTGGCTTTA
594290 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
64 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
* *
594321 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTGGCTTTAT
1 ATTATAATATACAATAAA-CTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCTGGCTTTAT
* *
594386 GGATAATATTTAGCTAGCCTGATAAAGGTG
65 GGATAAGATTCAGCTAGCCTGATAAAGGTG
* * * *
594416 A-T-T-ATATACAATGATA-TTAAGTTGTCCCTCTATAGTAATTGGTTAAACACCCTGGCTTTAT
1 ATTATAATATACAAT-AAACTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCTGGCTTTAT
594477 GG
65 GG
594479 GTTCAGCTAA
Statistics
Matches: 145, Mismatches: 12, Indels: 7
0.88 0.07 0.04
Matches are distributed among these distances:
91 43 0.30
92 9 0.06
93 3 0.02
94 1 0.01
95 83 0.57
96 6 0.04
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (94 bp):
ATTATAATATACAATAAACTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCTGGCTTTATG
GATAAGATTCAGCTAGCCTGATAAAGGTG
Found at i:595913 original size:167 final size:167
Alignment explanation
Indices: 595624--596214 Score: 878
Period size: 167 Copynumber: 3.5 Consensus size: 167
595614 TATTGGCAGT
* * * * *
595624 ATAACTCAAGGCAAGAAGGGTTATCTGTCAACCAATACCTTTGAGTTCGATTACACTCAGCTCAA
1 ATAACTCAAGGCTAGAAGGGTTATCTATCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAA
** * *
595689 AGGCACATCATTTGCAGCATAGCTCGAGGCAAGAAGGGCTATAC-GCCAACAAAAGACCTTCGAG
66 AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT-CTGCCAACAAAAGACCTTCGAG
595753 TTCGATTACACTCAGCTCAAAGGCACATCATTTACAGC
130 TTCGATTACACTCAGCTCAAAGGCACATCATTTACAGC
* *
595791 ATAACTCAAGGCTAGAAGGGTTATCTATCAACCAAGACCTTCGAGTTCGATTACACTCAGCTTAA
1 ATAACTCAAGGCTAGAAGGGTTATCTATCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAA
* * * *
595856 AGGCACACCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTTGAGT
66 AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGT
* *
595921 TCGATTACACTCAGCTCAAGGGCACATCATTTACAAC
131 TCGATTACACTCAGCTCAAAGGCACATCATTTACAGC
* *
595958 ATAACTCAAGACCAGAAGGGTTATCTATCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAA
1 ATAACTCAAGGCTAGAAGGGTTATCTATCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAA
* * * * *
596023 AGGCACATCATTTGCAGCATAGCTTAGGTCGAGAAGGGCTAGCTTCCAACTAAAGACCTTCAAGT
66 AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGT
* *
596088 TCGATTACATTCAGCTCAAAGGCACATCATTTGCAGC
131 TCGATTACACTCAGCTCAAAGGCACATCATTTACAGC
** * *
596125 ATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTGCGAGTTTGATTACACTCAGCTCA
1 ATAACTCAAGGCTAGAAGGGTTATCTATCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCTCA
*
596190 AAGGCACATCATTTACAGCATAGCT
65 AAGGCACATCATTTGCAGCATAGCT
596215 CAAGGCAAAA
Statistics
Matches: 384, Mismatches: 38, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
166 1 0.00
167 329 0.86
168 54 0.14
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (167 bp):
ATAACTCAAGGCTAGAAGGGTTATCTATCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAA
AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGT
TCGATTACACTCAGCTCAAAGGCACATCATTTACAGC
Found at i:596232 original size:84 final size:83
Alignment explanation
Indices: 595619--596235 Score: 770
Period size: 84 Copynumber: 7.4 Consensus size: 83
595609 GAAACTATTG
* * * * * *
595619 GCAGTATAACTCAAGGCAAGAAGGGTTATCTGTCAACCAATACCTTTGAGTTCGATTACACTCAG
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAG
595684 CTCAAAGGCACATCATTT
66 CTCAAAGGCACATCATTT
* *
595702 GCAGCATAGCTCGAGGCAAGAAGGGCTATAC-GCCAACAAAAGACCTTCGAGTTCGATTACACTC
1 GCAGCATAGCTCAAGGCAAGAAGGGTTAT-CTGCCAAC-AAAGACCTTCGAGTTCGATTACACTC
595766 AGCTCAAAGGCACATCATTT
64 AGCTCAAAGGCACATCATTT
* * * ** *
595786 ACAGCATAACTCAAGGCTAGAAGGGTTATCTATCAACCAAGACCTTCGAGTTCGATTACACTCAG
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAG
* *
595851 CTTAAAGGCACACCATTT
66 CTCAAAGGCACATCATTT
* * * * * *
595869 GCAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTTGAGTTCGATTACACTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTACACTCA
*
595934 GCTCAAGGGCACATCATTT
65 GCTCAAAGGCACATCATTT
* * * * * **
595953 ACAACATAACTCAAGACCAGAAGGGTTATCTATCAACAAAGACCTTCGAGTTCGATTACACTCAG
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAG
596018 CTCAAAGGCACATCATTT
66 CTCAAAGGCACATCATTT
* * * * * * *
596036 GCAGCATAGCT-TAGGTCGAGAAGGGCTAGCTTCCAACTAAAGACCTTCAAGTTCGATTACATTC
1 GCAGCATAGCTCAAGG-CAAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACACTC
596100 AGCTCAAAGGCACATCATTT
64 AGCTCAAAGGCACATCATTT
* * * *
596120 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTGCGAGTTTGATTACACTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACACTCA
596185 GCTCAAAGGCACATCATTT
65 GCTCAAAGGCACATCATTT
* * *
596204 ACAGCATAGCTCAAGGCAAAAAGAGTTATCTG
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTG
596236 TCAATAAAAA
Statistics
Matches: 457, Mismatches: 70, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
82 2 0.00
83 170 0.37
84 282 0.62
85 3 0.01
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (83 bp):
GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAG
CTCAAAGGCACATCATTT
Found at i:596234 original size:251 final size:250
Alignment explanation
Indices: 595619--596244 Score: 828
Period size: 251 Copynumber: 2.5 Consensus size: 250
595609 GAAACTATTG
* * * *
595619 GCAGTATAACTCAAGGCAAGAAGGGTTATCTGTCAACCAATACCTTTGAGTTCGATTACACTCAG
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGATTACACTCAG
* * * *
595684 CTCAAAGGCACATCATTTGCAGCATAGCTCGAGGCAAGAAGGGCTATAC-GCCAACAAAAGACCT
66 CTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAGGGTTAT-CTGTCAACAAAAGACCT
* *
595748 TCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTT
130 TCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGCT
* * * *
595813 ATCTATCAACCAAGACCTTCGAGTTCGATTACACTCAGCTTAAAGGCACACCATTT
195 AGCTATCAACAAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACACCATTT
* * * * * *
595869 GCAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTTGAGTTCGATTACACTCA
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAA-CAAAGACCTTTGAGTTCGATTACACTCA
* * * * * *
595934 GCTCAAGGGCACATCATTTACAACATAACTCAAGACCAGAAGGGTTATCTATCAAC-AAAGACCT
65 GCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCAACAAAAGACCT
* * *
595998 TCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCT-TAGGTCGAGAAGGGC
130 TCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG-CGAGAAGGGC
* *
596062 TAGCT-TCCAACTAAAGACCTTCAAGTTCGATTACATTCAGCTCAAAGGCACATCATTT
194 TAGCTAT-CAAC-AAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACACCATTT
* ** *
596120 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTGCGAGTTTGATTACACTCA
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAAC-AAAGACCTTTGAGTTCGATTACACTCA
* * *
596185 GCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAAAAAGAGTTATCTGTCAATAAAA
65 GCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCAACAAAA
596245 ATTGTCGATT
Statistics
Matches: 320, Mismatches: 49, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
249 4 0.01
250 101 0.32
251 212 0.66
252 3 0.01
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (250 bp):
GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGATTACACTCAG
CTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCAACAAAAGACCTT
CGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGCTA
GCTATCAACAAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACACCATTT
Found at i:596909 original size:6 final size:6
Alignment explanation
Indices: 596898--598073 Score: 1703
Period size: 6 Copynumber: 204.3 Consensus size: 6
596888 CATCAAAATA
596898 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
*
596946 ATATAC ATATAC ATATAC AT-TAC ATATAC ATATAC ATATAC AGATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
596993 ATATAC ATATAC ATAT-- ATATAC ATATAC ATATAC -TATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
597038 ATATAC ATATATAC ATTATAC ATATATAC ATATAC ATATAC -TATAC ATATAC
1 ATATAC --ATATAC A-TATAC --ATATAC ATATAC ATATAC ATATAC ATATAC
597090 ATATAC ATATAC ATATAC AATATAAC ATATAC ATATAC --ATA- ATATAC
1 ATATAC ATATAC ATATAC -ATAT-AC ATATAC ATATAC ATATAC ATATAC
597137 ATAT-- ATAT-C ATATAC --ATAC ATATAC ATATAC ATATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATATAC ATATAC
597182 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
597230 --ATAC ATATAC ATATAC -TATAC ATATAC ATATAC ATATAC ATAT--
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
597273 ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
597319 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
597365 ATATAC --ATAC ATATAC ATATAC ATATAC ATATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC --ATATAC ATATAC ATATAC
597413 ATATAC ATATAC --ATAC ATATAC --ATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
597457 ATATAC --ATAC ATATAC -TATAC ATATAC ATATAC --ATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
597500 --ATAC ATATAC -TATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
597545 ATATAC ATATAC ATAT-- ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
597591 ATATATAC ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC ATATAC
1 --ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
597639 ATATAC ATATAC ATATAC --ATA- ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
*
597684 ATATAC ATATA- AT-TAC ATATAC ATATAC ATCTAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
597730 ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC ATACATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC AT--ATAC ATATAC
597778 --ATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
597822 ATATAC ATATA- ATA-AC --ATAC ATATAC --ATAC ATATAC --ATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
597862 ATATAC ATAT-- ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
*
597906 ATATAC CTATA- ATA-A- ATATAC ATATAC ATATAC ATATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATATAC ATATAC
597953 -TATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
598000 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
598048 ATATAC ATATAC ATATAC ATATAC AT
1 ATATAC ATATAC ATATAC ATATAC AT
598074 GTTCTTATAC
Statistics
Matches: 1082, Mismatches: 6, Indels: 164
0.86 0.00 0.13
Matches are distributed among these distances:
3 1 0.00
4 103 0.10
5 55 0.05
6 866 0.80
7 13 0.01
8 43 0.04
9 1 0.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:599677 original size:23 final size:23
Alignment explanation
Indices: 599651--599728 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
599641 CACCATAGCT
599651 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* * *
599674 CATATAATTGTACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
599697 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
599720 TATAATAAT
1 CAT-ATAAT
599729 GTCCATAAGG
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 39 0.91
24 4 0.09
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:599908 original size:103 final size:103
Alignment explanation
Indices: 599735--599952 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
599725 TAATGTCCAT
* *
599735 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
599800 AACTTCATACATGTTCCAAAGAATACATATATGTCCCG
66 AACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
599838 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
599903 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 AACTTCACACATGTTCCAAAGAATACATATATGTCCCG
599941 AAGGACCACATA
1 AAGGACCACATA
599953 GACCCTCGAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
AACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:600824 original size:21 final size:21
Alignment explanation
Indices: 600792--600834 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
600782 TGTTTGTTTA
600792 ATTGAGAGTGCATCGATGCAC
1 ATTGAGAGTGCATCGATGCAC
600813 ATTGA-AGATGCATCGATGCAC
1 ATTGAGAG-TGCATCGATGCAC
600834 A
1 A
600835 CAACCTAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (21 bp):
ATTGAGAGTGCATCGATGCAC
Found at i:605443 original size:23 final size:23
Alignment explanation
Indices: 605417--605494 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
605407 CACCACAACT
605417 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* * *
605440 CATATAATTGCACCGGAGTACCG
1 CATATAATTGCACCGAAGTGCCA
* *
605463 CATAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
605486 TATAATAAT
1 CAT-ATAAT
605495 GTCCATAAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 41 0.91
24 4 0.09
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:605672 original size:103 final size:103
Alignment explanation
Indices: 605505--605718 Score: 374
Period size: 103 Copynumber: 2.1 Consensus size: 103
605495 GTCCATAAGG
* * *
605505 ACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAATATGTGTCTCACCAGACT
605570 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGA
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGA
*
605608 ACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAATATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAATATGTGTCTCACCAGACT
* *
605673 TCACACATGTTCCAAAGAATACATATATGTCCTGAAGG
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGA
605711 ACCACATA
1 ACCACATA
605719 GACCCTCGAC
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (103 bp):
ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAATATGTGTCTCACCAGACT
TCACACATGTTCCAAAGAATACATATATGTCCCGAAGA
Found at i:606591 original size:21 final size:21
Alignment explanation
Indices: 606559--606601 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
606549 TGTTTGTTTA
606559 ATTGAGAGTGCATCGATGCAC
1 ATTGAGAGTGCATCGATGCAC
606580 ATTGA-AGATGCATCGATGCAC
1 ATTGAGAG-TGCATCGATGCAC
606601 A
1 A
606602 CAACCCAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (21 bp):
ATTGAGAGTGCATCGATGCAC
Found at i:608685 original size:40 final size:38
Alignment explanation
Indices: 608641--608847 Score: 110
Period size: 36 Copynumber: 5.6 Consensus size: 38
608631 TATATTTTAA
*
608641 ATATAATTTTTAGAAAACGATTTTCTAAAATATATACACT
1 ATATAATTTTTAGAAAAC-A-TTTCGAAAATATATACACT
* * * *
608681 ATAT-ATAGTTTCGAAAACATTTCGAAAATATATATATT
1 ATATAAT-TTTTAGAAAACATTTCGAAAATATATACACT
* * * * *
608719 ATAT-AGTTTT-GAAAA-ATTTTGAAAACATATATAAT
1 ATATAATTTTTAGAAAACATTTCGAAAATATATACACT
* * * *
608754 GTATAGTTTTT-GAAAATGC-TTTCGAAAATATATATAAT
1 ATATAATTTTTAGAAAA--CATTTCGAAAATATATACACT
* * * * * *
608792 ATAT-AGTTTT-GAAATCATTTTGAATATATATATAAT
1 ATATAATTTTTAGAAAACATTTCGAAAATATATACACT
*
608828 ATATAGTTTTT--AAAACATTT
1 ATATAATTTTTAGAAAACATTT
608848 TTTGAAAACT
Statistics
Matches: 136, Mismatches: 24, Indels: 18
0.76 0.13 0.10
Matches are distributed among these distances:
35 21 0.15
36 43 0.32
37 15 0.11
38 41 0.30
39 3 0.02
40 13 0.10
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (38 bp):
ATATAATTTTTAGAAAACATTTCGAAAATATATACACT
Found at i:608722 original size:36 final size:37
Alignment explanation
Indices: 608640--609086 Score: 407
Period size: 38 Copynumber: 12.3 Consensus size: 37
608630 ATATATTTTA
* *
608640 AATATA-ATTTTTAGAAAACGATTTTCT-AAAATATATAC
1 AATATATAGTTTT-GAAAAC-ATTTT-TGAAAATATATAT
* *
608678 ACTATATATAGTTTCGAAAACA-TTTCGAAAATATATAT
1 A--ATATATAGTTTTGAAAACATTTTTGAAAATATATAT
* *
608716 ATTATATAGTTTTGAAAA-A-TTTTGAAAACATATAT
1 AATATATAGTTTTGAAAACATTTTTGAAAATATATAT
* *** *
608751 AATGTATAGTTTTTGAAAATGCTTTCGAAAATATATAT
1 AATATATAG-TTTTGAAAACATTTTTGAAAATATATAT
* *
608789 AATATATAGTTTTGAAATCA-TTTTGAATATATATAT
1 AATATATAGTTTTGAAAACATTTTTGAAAATATATAT
*
608825 AATATATAGTTTTTAAAACATTTTTTGAAAACT-TATAT
1 AATATATAGTTTTGAAAACA-TTTTTGAAAA-TATATAT
* * *
608863 AATATATAGTTTTTAAAACATTTTTTTAAAAAATTATAT
1 AATATATAGTTTTGAAAACA-TTTTTGAAAATA-TATAT
*
608902 AATATATAGTTTTAAAAACATTTTTGAAAA-ATTATAT
1 AATATATAGTTTTGAAAACATTTTTGAAAATA-TATAT
*
608939 AATATATAGTTTTAAAAACATTTTTTGAAAACT-TATAT
1 AATATATAGTTTTGAAAACA-TTTTTGAAAA-TATATAT
* *
608977 -A-ATAT--TTTT-AAATCATTTTTGAAAA-CTATAT
1 AATATATAGTTTTGAAAACATTTTTGAAAATATATAT
609008 AATATATAGTTTTGAAAAC-TTTTT--AAA-A-ATAT
1 AATATATAGTTTTGAAAACATTTTTGAAAATATATAT
* *
609040 AATATATAG-TTTAAAAATATTTTTG-AAATATATAT
1 AATATATAGTTTTGAAAACATTTTTGAAAATATATAT
*
609075 ATTATATAGTTT
1 AATATATAGTTT
609087 ATATTATATT
Statistics
Matches: 351, Mismatches: 32, Indels: 54
0.80 0.07 0.12
Matches are distributed among these distances:
31 12 0.03
32 29 0.08
33 15 0.04
34 5 0.01
35 43 0.12
36 66 0.19
37 36 0.10
38 104 0.30
39 26 0.07
40 11 0.03
41 4 0.01
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (37 bp):
AATATATAGTTTTGAAAACATTTTTGAAAATATATAT
Found at i:608907 original size:37 final size:38
Alignment explanation
Indices: 608681--609086 Score: 341
Period size: 36 Copynumber: 11.3 Consensus size: 38
608671 TATATACACT
** *
608681 ATATATAGTTTCGAAAACA--TTTCG-AAAATATATATA
1 ATATATAGTTTTTAAAACATTTTTTGAAAAAT-TATATA
* *
608717 TTATATAGTTTTGAAAA-A--TTTTGAAAACA-TATATA
1 ATATATAGTTTTTAAAACATTTTTTGAAAA-ATTATATA
* * * *
608752 ATGTATAGTTTTTGAAA-ATGCTTTCG-AAAATATATATA
1 ATATATAGTTTTTAAAACAT-TTTTTGAAAAAT-TATATA
* * *
608790 ATATATAGTTTTGAAATCA--TTTTG-AATATATATATA
1 ATATATAGTTTTTAAAACATTTTTTGAAAAAT-TATATA
*
608826 ATATATAGTTTTTAAAACATTTTTTGAAAACTTATATA
1 ATATATAGTTTTTAAAACATTTTTTGAAAAATTATATA
*
608864 ATATATAGTTTTTAAAACATTTTTTTAAAAAATTATATA
1 ATATATAGTTTTTAAAACA-TTTTTTGAAAAATTATATA
*
608903 ATATATAGTTTTAAAAACA-TTTTTGAAAAATTATATA
1 ATATATAGTTTTTAAAACATTTTTTGAAAAATTATATA
* *
608940 ATATATAGTTTTAAAAACATTTTTTG-AAAACT-TAT-
1 ATATATAGTTTTTAAAACATTTTTTGAAAAATTATATA
* *
608975 ATA-ATA-TTTTTAAATCA-TTTTTG-AAAACTATATA
1 ATATATAGTTTTTAAAACATTTTTTGAAAAATTATATA
*
609009 ATATATAGTTTTGAAAAC--TTTTT--AAAA--ATATA
1 ATATATAGTTTTTAAAACATTTTTTGAAAAATTATATA
*
609041 ATATATAG--TTTAAAA-ATATTTTTGAAATA-TATATA
1 ATATATAGTTTTTAAAACAT-TTTTTGAAAAATTATATA
*
609076 TTATATAGTTT
1 ATATATAGTTT
609087 ATATTATATT
Statistics
Matches: 315, Mismatches: 30, Indels: 49
0.80 0.08 0.12
Matches are distributed among these distances:
30 6 0.02
32 30 0.10
33 12 0.04
34 13 0.04
35 48 0.15
36 62 0.20
37 46 0.15
38 59 0.19
39 39 0.12
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (38 bp):
ATATATAGTTTTTAAAACATTTTTTGAAAAATTATATA
Found at i:609101 original size:3 final size:3
Alignment explanation
Indices: 609088--609119 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
609078 ATATAGTTTA
609088 TAT TA- TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
609120 CATTTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:609381 original size:16 final size:15
Alignment explanation
Indices: 609360--609389 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
609350 CCTGCCGATA
609360 ATCCCGGGACTGACCC
1 ATCCCGGGAC-GACCC
609376 ATCCCGGGACGACC
1 ATCCCGGGACGACC
609390 GACCTCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.43, G:0.27, T:0.10
Consensus pattern (15 bp):
ATCCCGGGACGACCC
Found at i:614625 original size:31 final size:31
Alignment explanation
Indices: 614589--614648 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
614579 AACTTAAAAA
* *
614589 AGTTTTTCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
614620 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
614649 CATACAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:615165 original size:26 final size:24
Alignment explanation
Indices: 615136--615196 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 24
615126 TAAAATTCTA
*
615136 ATAATATATAAAATAATTTATATGAT
1 ATAATATATAAAATAATCTATA--AT
*
615162 ATAA-A-ATTAAAT-ATCTATAAT
1 ATAATATATAAAATAATCTATAAT
615183 ATAATAT-TAAAATA
1 ATAATATATAAAATA
615197 TTAATATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
21 6 0.21
22 6 0.21
23 6 0.21
24 6 0.21
25 1 0.03
26 4 0.14
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
ATAATATATAAAATAATCTATAAT
Found at i:615234 original size:12 final size:12
Alignment explanation
Indices: 615163--615299 Score: 66
Period size: 14 Copynumber: 10.8 Consensus size: 12
615153 TTATATGATA
615163 TAAAATTAAATAT
1 TAAAATT-AATAT
*
615176 CTATAATATAATAT
1 -TAAAAT-TAATAT
615190 TAAAATATTAATAT
1 T-AAA-ATTAATAT
* *
615204 T-TAATTTAT-T
1 TAAAATTAATAT
*
615214 TAAAAAATTGATAT
1 T--AAAATTAATAT
615228 TAAAATTAATAT
1 TAAAATTAATAT
*
615240 ATATAATATAATAT
1 -TAAAAT-TAATAT
*
615254 TAAAAAATAATAT
1 T-AAAATTAATAT
* *
615267 T-TAATTTAT-T
1 TAAAATTAATAT
615277 TAAAAAATTAATAT
1 T--AAAATTAATAT
615291 TAAAATTAA
1 TAAAATTAA
615300 AATCAAATAT
Statistics
Matches: 94, Mismatches: 15, Indels: 30
0.68 0.11 0.22
Matches are distributed among these distances:
10 4 0.04
11 10 0.11
12 19 0.20
13 26 0.28
14 32 0.34
15 3 0.03
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (12 bp):
TAAAATTAATAT
Found at i:615285 original size:13 final size:14
Alignment explanation
Indices: 615184--615295 Score: 59
Period size: 13 Copynumber: 8.8 Consensus size: 14
615174 ATCTATAATA
*
615184 TAATATTAAAATAT
1 TAATATTAAAAAAT
*
615198 TAATATT---TAAT
1 TAATATTAAAAAAT
*
615209 TTAT-TTAAAAAAT
1 TAATATTAAAAAAT
*
615222 TGATATT--AAAAT
1 TAATATTAAAAAAT
* *
615234 TAATA-TATATAAT
1 TAATATTAAAAAAT
615247 ATAATATTAAAAAA-
1 -TAATATTAAAAAAT
*
615261 TAATATT---TAAT
1 TAATATTAAAAAAT
*
615272 TTAT-TTAAAAAAT
1 TAATATTAAAAAAT
615285 TAATATTAAAA
1 TAATATTAAAA
615296 TTAAAATCAA
Statistics
Matches: 72, Mismatches: 13, Indels: 26
0.65 0.12 0.23
Matches are distributed among these distances:
10 6 0.08
11 9 0.12
12 9 0.12
13 23 0.32
14 20 0.28
15 5 0.07
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (14 bp):
TAATATTAAAAAAT
Done.