Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 274 of 313
Found at i:83636723 original size:3 final size:3
Alignment explanation
Indices: 83636715--83636776 Score: 58
Period size: 3 Copynumber: 20.3 Consensus size: 3
83636705 ATACATAAGT
*
83636715 ATA ATA ATA ATA TATA ATGCA ATA ATA ATA ATA ATA ACAA ATA AT- ATA
1 ATA ATA ATA ATA -ATA AT--A ATA ATA ATA ATA ATA A-TA ATA ATA ATA
83636763 AT- ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA A
83636777 AAAAGGACTA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
2 6 0.12
3 36 0.72
4 5 0.10
5 3 0.06
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:83637362 original size:15 final size:15
Alignment explanation
Indices: 83637338--83637371 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
83637328 AACAAGATAG
83637338 AAAATGAAAAAGGAAA
1 AAAATGAAAAA-GAAA
83637354 AAAAT-AAAAAGAAA
1 AAAATGAAAAAGAAA
83637368 AAAA
1 AAAA
83637372 AAGGAACAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 5 0.28
16 5 0.28
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (15 bp):
AAAATGAAAAAGAAA
Found at i:83637373 original size:16 final size:16
Alignment explanation
Indices: 83637338--83637372 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
83637328 AACAAGATAG
*
83637338 AAAATGAAAAAGGAAA
1 AAAATGAAAAAGAAAA
83637354 AAAAT-AAAAAGAAAA
1 AAAATGAAAAAGAAAA
83637369 AAAA
1 AAAA
83637373 AGGAACAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (16 bp):
AAAATGAAAAAGAAAA
Found at i:83641735 original size:14 final size:17
Alignment explanation
Indices: 83641710--83641746 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
83641700 AAATAATATG
83641710 ATTACTACTTT-ATT-A
1 ATTACTACTTTAATTCA
83641725 ATTAC-ACTTTAATTCA
1 ATTACTACTTTAATTCA
83641741 ATTACT
1 ATTACT
83641747 CATTTCTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.26
15 8 0.42
16 6 0.32
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTACTACTTTAATTCA
Found at i:83649204 original size:17 final size:17
Alignment explanation
Indices: 83649182--83649217 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
83649172 AAACATATTA
83649182 AAAAAACTGTAAAATAT
1 AAAAAACTGTAAAATAT
* *
83649199 AAAAAACTTTTAAATAT
1 AAAAAACTGTAAAATAT
83649216 AA
1 AA
83649218 TTATATAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAAAACTGTAAAATAT
Found at i:83651430 original size:4 final size:4
Alignment explanation
Indices: 83651421--83651470 Score: 73
Period size: 4 Copynumber: 12.5 Consensus size: 4
83651411 CATGAAAGCT
* * *
83651421 TTTA TTTA TTTA TTTA TTTA TGTA TTTA TTTA TTCA TTTA TTCA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
83651469 TT
1 TT
83651471 CTTTTTGTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:83658379 original size:45 final size:46
Alignment explanation
Indices: 83658310--83658758 Score: 234
Period size: 45 Copynumber: 9.8 Consensus size: 46
83658300 TTAAAGCCAC
* *
83658310 AAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAG-TATAAT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAGCTATAAT
* * * * * *
83658355 GAATCTTATCTCTCTAAAGTTGCAGTAGAGTATATTGAAGC--T-AC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTG-AGCTATAAT
* * ** * * **
83658399 AAATCTTATCTCCCTGAAGTTACAGTGGAATAGATCG-GATATAGC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAGCTATAAT
* * * *
83658444 AAATCTTATCTCTATGAAGTTGCAGTAGAGCAGATTAAAGCTACAAAT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-GAGCTA-TAAT
*
83658492 CACAAATCTTATCTCTCTGAAGCTGCAGTGGAGCAGATTGAAG-T-T-AT
1 ---AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTG-AGCTATAAT
* * * * * *
83658539 AGATCTTATCTCACTGAAGTTACAGTGGAGTAGATCAGAG--ATAAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT-TGAGCTATAAT
* *
83658584 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAT-A-
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-GAGCTATAAT
* * * * *** *
83658629 AACT-TTATCTC-CTTGAAGTTGTAGTGGAGTAGGTT-AAAAATAAAC
1 AAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAGCTAT-AAT
* * * *
83658674 AAATCTTATATAC-CTAAAATTGCAGTGGAGCAGATTGAAGAC-AGGCT-AC
1 AAATCTTATCT-CTCTGAAGTTGCAGTGGAGCAGATTG-AG-CTA---TAAT
83658723 AAATCTTATCTCAT-TGAAGTTGCAGTGGAGCAGATT
1 AAATCTTATCTC-TCTGAAGTTGCAGTGGAGCAGATT
83658759 AAAGCTGCAA
Statistics
Matches: 303, Mismatches: 69, Indels: 60
0.70 0.16 0.14
Matches are distributed among these distances:
42 4 0.01
43 1 0.00
44 90 0.30
45 101 0.33
46 25 0.08
47 9 0.03
48 4 0.01
49 32 0.11
50 1 0.00
51 36 0.12
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (46 bp):
AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAGCTATAAT
Found at i:83658401 original size:89 final size:88
Alignment explanation
Indices: 83658271--83659267 Score: 421
Period size: 89 Copynumber: 10.9 Consensus size: 88
83658261 ATGGCGAATT
* * *
83658271 TTATCTC-CTTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAATTTTATCTCCCTGAAGTTGCAG
1 TTATCTCTC-TGAAGTTGCAGTAGAGTAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAG
83658335 TGGAGCAGATTGAGTATAATGAATC
65 TGGAGCAGATTGAGTATAAT-AATC
* * * *
83658360 TTATCTCTCTAAAGTTGCAGTAGAGTATATTGAAGCTACAAATCTTATCTCCCTGAAGTTACAGT
1 TTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGT
** *
83658425 GGAATAGATCG-GATATAGCA-AATC
66 GGAGCAGATTGAG-TATA--ATAATC
* * *
83658449 TTATCTCTATGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCACAAATCTTATCTCTCTGAAG
1 TTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAG---C---T-ACAAATCTTATCTCCCTGAAG
*
83658514 CTGCAGTGGAGCAGATTGAAGT-T-ATAGATC
59 TTGCAGTGGAGCAGATTG-AGTATAATA-ATC
* * * * * * *
83658544 TTATCTCACTGAAGTTACAGTGGAGTAGATCAGAGATAACAAATCTTATCTCTCTGAAGTTGCAG
1 TTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCT-ACAAATCTTATCTCCCTGAAGTTGCAG
* * *
83658609 TAGAGCAGATTAAAGCTATAA-ACT-
65 TGGAGCAGATT-GAG-TATAATAATC
* * * ** * * * *
83658633 TTATCTC-CTTGAAGTTGTAGTGGAGTAGGTTAAAAATAAACAAATCTTATATACCTAAAATTGC
1 TTATCTCTC-TGAAGTTGCAGTAGAGTAGATTAAAGCT--ACAAATCTTATCTCCCTGAAGTTGC
*
83658697 AGTGGAGCAGATTGAAGACAGGCTACA-AATC
63 AGTGGAGCAGATTG-AG-TA---TA-ATAATC
* * * * * * *
83658728 TTATCTCAT-TGAAGTTGCAGTGGAGCAGATTAAAGCTGCAAACCTTATCTCCCTAAAATTGTAG
1 TTATCTC-TCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAG
* * **
83658792 TGGACCA-AGTTAAAAATAGCA-AATC
65 TGGAGCAGA-TTGAGTATA--ATAATC
* * * * * * * *
83658817 TTATCTTTTTGAAGTTTGCAGTGGAGCAGATTGAAA-CGATAACT-TCTATGC-CTCTGAAGTTG
1 TTATCTCTCTGAAG-TTGCAGTAGAGTAGATT-AAAGCTACAAATCT-TAT-CTCCCTGAAGTTG
* * * * *
83658879 CAGTAGG-TCAGATTAAATCTACTATAGCAAGCC
62 CAGT-GGAGCAGATT-GA-GTA-TA-A-TAA-TC
* * * * *
83658912 TTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAGCTTCAAATCTTATATCCTTGAAG
1 TTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCT---A----CAAATCTTATCTCCCTGAAG
* *
83658977 TTGAAGTGGAGCAAATTGAAG-ATAGCA-AATC
59 TTGCAGTGGAGCAGATTG-AGTATA--ATAATC
** * * * * * *
83659008 TTATCTCTCTGAAGTTATAGTGGATTAGATTGAAGTTACAAATCTCATCTCCCTGAAGTTGCAAT
1 TTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGT
* ** *
83659073 GGAGTAGATTGAAG-ATACGAGTC
66 GGAGCAGATTG-AGTATAATAATC
** * * * * * * * *
83659096 TCGTCACCCTGAAGTTGCAATGGAGCAAATTAAAGATAACAAATCTTATTTCCCTGAAGTTGCAG
1 TTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCT-ACAAATCTTATCTCCCTGAAGTTGCAG
* * * * *
83659161 TGGAACAAATTAAAGCTACAAATTACGAATT
65 TGGAGCAGATT-GAG-TA-TAA-T---AATC
* * * * * *
83659192 TTATCTCCCTGAAGTTGCAGTTGAGCAGATTAAAGCTACAAATCTTATTTCCCTAAAAGTTGTAG
1 TTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAATCTTATCTCCCT-GAAGTTGCAG
*
83659257 TGGAACAGATT
65 TGGAGCAGATT
83659268 AAAGCTACAA
Statistics
Matches: 694, Mismatches: 146, Indels: 129
0.72 0.15 0.13
Matches are distributed among these distances:
88 33 0.05
89 259 0.37
90 77 0.11
91 14 0.02
92 7 0.01
93 39 0.06
94 22 0.03
95 91 0.13
96 116 0.17
97 4 0.01
98 3 0.00
99 2 0.00
100 2 0.00
101 24 0.03
102 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (88 bp):
TTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGT
GGAGCAGATTGAGTATAATAATC
Found at i:83658546 original size:140 final size:140
Alignment explanation
Indices: 83658356--83658626 Score: 416
Period size: 140 Copynumber: 1.9 Consensus size: 140
83658346 GAGTATAATG
* * * *
83658356 AATCTTATCTCTCTAAAGTTGCAGTAGAGTATATTGAAGCTACAAATCTTATCTCCCTGAAGTTA
1 AATCTTATCTCTCTAAAGCTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCACTGAAGTTA
* * *
83658421 CAGTGGAATAGATCGGATATAGCAAATCTTATCTCTATGAAGTTGCAGTAGAGCAGATTAAAGCT
66 CAGTGGAATAGATCAGAGATAACAAATCTTATCTCTATGAAGTTGCAGTAGAGCAGATTAAAGCT
83658486 ACAAATCACA
131 ACAAATCACA
* * * * *
83658496 AATCTTATCTCTCTGAAGCTGCAGTGGAGCAGATTGAAGTTATAGATCTTATCTCACTGAAGTTA
1 AATCTTATCTCTCTAAAGCTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCACTGAAGTTA
* *
83658561 CAGTGGAGTAGATCAGAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCT
66 CAGTGGAATAGATCAGAGATAACAAATCTTATCTCTATGAAGTTGCAGTAGAGCAGATTAAAGCT
83658626 A
131 A
83658627 TAAACTTTAT
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
140 117 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (140 bp):
AATCTTATCTCTCTAAAGCTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCACTGAAGTTA
CAGTGGAATAGATCAGAGATAACAAATCTTATCTCTATGAAGTTGCAGTAGAGCAGATTAAAGCT
ACAAATCACA
Found at i:83659224 original size:51 final size:49
Alignment explanation
Indices: 83659141--83659303 Score: 174
Period size: 51 Copynumber: 3.3 Consensus size: 49
83659131 ATAACAAATC
* *
83659141 TTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAATTACGAATT
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTAC-AA-T
* *
83659192 TTATCTCCCTGAAGTTGCAGTTGAGCAGATTAAAGCTACAAA-T-C---
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTACAAT
* * * *
83659236 TTATTTCCCTAAAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAAT
1 TTATCTCCCT-GAAGTTGCAGTGGAACAGATTAAAGCTACAAATTAC-AAT
83659287 CTTATCTCCCTGAAGTT
1 -TTATCTCCCTGAAGTT
83659304 ACAATGGTGC
Statistics
Matches: 92, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
44 9 0.10
45 27 0.29
46 1 0.01
47 1 0.01
49 1 0.01
50 1 0.01
51 43 0.47
52 9 0.10
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (49 bp):
TTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTACAAT
Found at i:83659316 original size:96 final size:95
Alignment explanation
Indices: 83659102--83659328 Score: 310
Period size: 96 Copynumber: 2.4 Consensus size: 95
83659092 AGTCTCGTCA
* * *
83659102 CCCTGAAGTTGCAATGGAGCAAATTAAAGATAACAAATCTTATTTCCCTGAAGTTGCAGTGGAAC
1 CCCTGAAGTTGCAATGGAGCAGATTAAAGCT-ACAAATCTTATTTCCCTAAAGTTGCAGTGGAAC
* *
83659167 AAATTAAAGCTACAAATTACGAATTTTATCT
65 AAATTAAAGCTACAAATTACAAATCTTATCT
* * *
83659198 CCCTGAAGTTGCAGTTGAGCAGATTAAAGCTACAAATCTTATTTCCCTAAAAGTTGTAGTGGAAC
1 CCCTGAAGTTGCAATGGAGCAGATTAAAGCTACAAATCTTATTTCCCT-AAAGTTGCAGTGGAAC
* *
83659263 AGATTAAAGCTACAAGTTACAAATCTTATCT
65 AAATTAAAGCTACAAATTACAAATCTTATCT
* * * *
83659294 CCCTGAAGTTACAATGGTGCAGATTGAAGCAACAA
1 CCCTGAAGTTGCAATGGAGCAGATTAAAGCTACAA
83659329 GTCCTATACC
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
95 17 0.15
96 97 0.85
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (95 bp):
CCCTGAAGTTGCAATGGAGCAGATTAAAGCTACAAATCTTATTTCCCTAAAGTTGCAGTGGAACA
AATTAAAGCTACAAATTACAAATCTTATCT
Found at i:83661085 original size:3 final size:3
Alignment explanation
Indices: 83661077--83661138 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
83661067 CATTTTGTTC
* * * *
83661077 TTA TTA TTA TTA TTC TCA TTA TTA TTG TTA TTA TTTA TTT TTCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A TTA
*
83661124 TTA TTTA TTT TTA TT
1 TTA -TTA TTA TTA TT
83661139 TTTAAAATTT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
3 38 0.83
4 8 0.17
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:83662228 original size:17 final size:17
Alignment explanation
Indices: 83662189--83662230 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
83662179 CAGCAAATGA
* *
83662189 ATTTAAACTTAAAAAAT
1 ATTTAAAATTAAAAAAC
*
83662206 AATTAAAATTAAAAAAC
1 ATTTAAAATTAAAAAAC
83662223 ATTTAAAA
1 ATTTAAAA
83662231 CCCCTAACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (17 bp):
ATTTAAAATTAAAAAAC
Found at i:83662902 original size:120 final size:121
Alignment explanation
Indices: 83662678--83662902 Score: 321
Period size: 120 Copynumber: 1.9 Consensus size: 121
83662668 TAGTCACAGT
* * *
83662678 ATATTTAGCCAATTTGTTTTAAGGTTCATAAGAAATTGTGTAATTTTTTTTATTTTTTTATTTTT
1 ATATTTAGCCAATTTATTTTAAGGTTCATAAGAAATTGTGTAATTTTTTTAATTTTTTGATTTTT
* * * *
83662743 TAATTGGATATTGATGAAACATTTCTTTTCTATGTGTGAAATGTATTCGGGTAAGC
66 TAATTGGATATTGATGAAACATTTCTTTCCCAAGCGTGAAATGTATTCGGGTAAGC
* * *
83662799 ATATTTAGCCGATTTATTTTACGGTTCATAAGAAATTAG-G-GA-TTTTTTAATTTCTTTGATTT
1 ATATTTAGCCAATTTATTTTAAGGTTCATAAGAAATT-GTGTAATTTTTTTAATTT-TTTGATTT
83662861 TTTAATTGGATATTGATGAAACATTTCTTTCCCAAGCGTGAA
64 TTTAATTGGATATTGATGAAACATTTCTTTCCCAAGCGTGAA
83662903 TATTAGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
119 10 0.11
120 46 0.50
121 35 0.38
122 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (121 bp):
ATATTTAGCCAATTTATTTTAAGGTTCATAAGAAATTGTGTAATTTTTTTAATTTTTTGATTTTT
TAATTGGATATTGATGAAACATTTCTTTCCCAAGCGTGAAATGTATTCGGGTAAGC
Found at i:83664361 original size:82 final size:81
Alignment explanation
Indices: 83664251--83664452 Score: 323
Period size: 82 Copynumber: 2.5 Consensus size: 81
83664241 GGTATACATC
* * *
83664251 TTTCAACAGATCATTTAAAAAACAAACAAAATATGTTATACTAACAAAATGATCTTATAGCAGTA
1 TTTCAACAAATCATTTAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAATA
*
83664316 AGATGTTAACTAACCA
66 AGATGTTAACCAACCA
* * *
83664332 TTTTAACAAATCATTTAAAAAAACAAACAAAATATGTTATGCTAACAAAATTATCCTATAGCAAT
1 TTTCAACAAATCATTT-AAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAAT
83664397 AAGATGTTAACCAACCA
65 AAGATGTTAACCAACCA
83664414 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTA
1 TTTCAACAAATCATTT-AAAAAACAAACAAAATATGTTA
83664453 ACCATCTCAA
Statistics
Matches: 111, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
81 14 0.13
82 97 0.87
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.28
Consensus pattern (81 bp):
TTTCAACAAATCATTTAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAATA
AGATGTTAACCAACCA
Found at i:83664707 original size:152 final size:153
Alignment explanation
Indices: 83664535--83664823 Score: 368
Period size: 153 Copynumber: 1.9 Consensus size: 153
83664525 ATCCTTTTTT
* *
83664535 GGCTTCTAGTTCTCATACTCGTACCAAAATGAGAAC-A-AAAATCAGGACTCCAAATTAGATTTA
1 GGCTTCTAGTTCTCATACTCGTACCAAAATAAGAACAATAAAATCAGAAC-CCAAATTAGATTTA
* * **
83664598 AATAATTTGGAGTTGACATTAAAAAAGTGTTTACGATATACCTATGAT-CCAGTTGTATTAGGTT
65 AATAATTTAGAATTGACAACAAAAAAGTGTTTACGATATACCTATG-TCCCAGTTGTATTAGGTT
83664662 GAATGCATGGTGTTGTTCTTTTATG
129 GAATGCATGGTGTTGTTCTTTTATG
*** * *
83664687 GGCTTCTAGTTCTCATACTCGTACCAGGCTAAGACCAATAAAATCAGAACCCAAATTAGATTTTA
1 GGCTTCTAGTTCTCATACTCGTACCAAAATAAGAACAATAAAATCAGAACCCAAATTAGATTTAA
* * * * * * * *
83664752 ATATTTTAGAATTGACAACGAAAAAGTGTTTATGATATATCTGTGTCCCTGTTTTGTTAGGTTGA
66 ATAATTTAGAATTGACAACAAAAAAGTGTTTACGATATACCTATGTCCCAGTTGTATTAGGTTGA
83664817 ATGCATG
131 ATGCATG
83664824 ATTTTTTGTT
Statistics
Matches: 115, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
152 32 0.28
153 73 0.63
154 10 0.09
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (153 bp):
GGCTTCTAGTTCTCATACTCGTACCAAAATAAGAACAATAAAATCAGAACCCAAATTAGATTTAA
ATAATTTAGAATTGACAACAAAAAAGTGTTTACGATATACCTATGTCCCAGTTGTATTAGGTTGA
ATGCATGGTGTTGTTCTTTTATG
Found at i:83671958 original size:30 final size:31
Alignment explanation
Indices: 83671900--83671958 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
83671890 TAGTATTTGG
* *
83671900 TGACACTTTTTCTTAATTTAGTATTTAAATT
1 TGACACTTTTTCTTAAATTAGTACTTAAATT
*
83671931 TGACATTTTTTCTTAAATTA-TACTTAAA
1 TGACACTTTTTCTTAAATTAGTACTTAAA
83671959 CCGTCTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.53
Consensus pattern (31 bp):
TGACACTTTTTCTTAAATTAGTACTTAAATT
Found at i:83673102 original size:3 final size:3
Alignment explanation
Indices: 83673096--83673146 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
83673086 AATTATGTTA
83673096 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
83673144 TAT
1 TAT
83673147 ACTTACATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:83679989 original size:12 final size:13
Alignment explanation
Indices: 83679960--83679989 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
83679950 CACAAATGCA
83679960 TTATATATTTTGT
1 TTATATATTTTGT
83679973 TTATATATTTT-T
1 TTATATATTTTGT
83679985 TTATA
1 TTATA
83679990 ATCTAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (13 bp):
TTATATATTTTGT
Found at i:83698472 original size:12 final size:11
Alignment explanation
Indices: 83698444--83698477 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
83698434 ATTCTTTATA
83698444 TTTTTT-TTTG
1 TTTTTTATTTG
83698454 TTTTTTATTTG
1 TTTTTTATTTG
83698465 TTTATTTATTTG
1 TTT-TTTATTTG
83698477 T
1 T
83698478 GTTCTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 6 0.27
11 7 0.32
12 9 0.41
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (11 bp):
TTTTTTATTTG
Found at i:83698591 original size:76 final size:74
Alignment explanation
Indices: 83698509--83698657 Score: 271
Period size: 74 Copynumber: 2.0 Consensus size: 74
83698499 TATCTTGCTT
83698509 GTTTATTTGATACTTCGCATGTCATTGACTTTATTTTTTATATATATATATTCATTTCGTTTATT
1 GTTTATTTGATACTTCGCATGTCATTGACTTTA-TTTTT-TATATATATATTCATTTCGTTTATT
83698574 TATTTTATATC
64 TATTTTATATC
*
83698585 GTTTATTTGATACTTTGCATGTCATTGACTTTATTTTTTATATATATATTCATTTCGTTTATTTA
1 GTTTATTTGATACTTCGCATGTCATTGACTTTATTTTTTATATATATATTCATTTCGTTTATTTA
83698650 TTTTATAT
66 TTTTATAT
83698658 TATTTATATG
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
74 35 0.49
75 5 0.07
76 32 0.44
ACGTcount: A:0.23, C:0.09, G:0.08, T:0.59
Consensus pattern (74 bp):
GTTTATTTGATACTTCGCATGTCATTGACTTTATTTTTTATATATATATTCATTTCGTTTATTTA
TTTTATATC
Found at i:83701066 original size:37 final size:37
Alignment explanation
Indices: 83701016--83701095 Score: 133
Period size: 37 Copynumber: 2.2 Consensus size: 37
83701006 ATATTTGTGA
*
83701016 AAATTTTATAAAATTTTATATTTCCGAAATGCACTCT
1 AAATTTTATAAAATTTTATATTTCCGAAACGCACTCT
*
83701053 AAATTTTTTAAAATTTTATATTTCCGAAACGCACTCT
1 AAATTTTATAAAATTTTATATTTCCGAAACGCACTCT
*
83701090 GAATTT
1 AAATTT
83701096 AATTGAAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (37 bp):
AAATTTTATAAAATTTTATATTTCCGAAACGCACTCT
Found at i:83702374 original size:14 final size:15
Alignment explanation
Indices: 83702357--83702389 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
83702347 TAATAGATTT
*
83702357 TAAATAATAACAT-A
1 TAAAGAATAACATAA
83702371 TAAAGAATAACATAA
1 TAAAGAATAACATAA
83702386 TAAA
1 TAAA
83702390 ACTTAGACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (15 bp):
TAAAGAATAACATAA
Found at i:83704021 original size:25 final size:25
Alignment explanation
Indices: 83703993--83704044 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
83703983 ATTTTAGTAA
83703993 ATAAATA-TATTAAATTTAAAATAAT
1 ATAAATATTATT-AATTTAAAATAAT
* *
83704018 ATAAATATTATTATTTTTAAATAAT
1 ATAAATATTATTAATTTAAAATAAT
83704043 AT
1 AT
83704045 GGGTATGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATAAATATTATTAATTTAAAATAAT
Found at i:83704806 original size:22 final size:21
Alignment explanation
Indices: 83704750--83704809 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 21
83704740 GTTATAGCAT
83704750 AAACAAACTAAGAACTAGAAC
1 AAACAAACTAAGAACTAGAAC
* * **
83704771 AAA-AAAATTA-AACTATTAC
1 AAACAAACTAAGAACTAGAAC
83704790 AACACAAACTAAGAACTAGA
1 AA-ACAAACTAAGAACTAGA
83704810 TCAATCCAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 5
0.68 0.20 0.12
Matches are distributed among these distances:
19 9 0.32
20 6 0.21
21 8 0.29
22 5 0.18
ACGTcount: A:0.62, C:0.17, G:0.07, T:0.15
Consensus pattern (21 bp):
AAACAAACTAAGAACTAGAAC
Found at i:83707836 original size:69 final size:69
Alignment explanation
Indices: 83707620--83707980 Score: 386
Period size: 69 Copynumber: 5.2 Consensus size: 69
83707610 ATAAAACTCG
* * * * * *
83707620 CAGGTGAATAACCACAGCCTCCAACACAAG-TAGCGAGAGCAAAGCTCCCAACTGTCATATTAAA
1 CAGGTGAAGAGCCGCAGCCTCCAACAC-AGTTAGCGAGAGCAAAGCTCTCAGCTGTCATATTAAG
83707684 GCTCGA
65 GCTC-A
* * * *
83707690 -AGGTAAAGAGCCACAGCCTCCAACGCAGTTAGCGAGAGTTACAAGCTCTCAGCTGTCATATTAA
1 CAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAG-CA-AAGCTCTCAGCTGTCATATTAA
*
83707754 GGTTCA
64 GGCTCA
* * *
83707760 CAGGTGAAGAGTCGCAGCCTCCAACACAGTTAGCGAGAGTAAAGCTCTCAGCAGTCATATTAAGG
1 CAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCTCAGCTGTCATATTAAGG
83707825 CTCA
66 CTCA
* * * * * *
83707829 TAGGTGAAGAGTCGTAGCCTCCAACATAGTTAGCGAGAACAAAGCTCTCATCTGTCATATTAAGG
1 CAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCTCAGCTGTCATATTAAGG
*
83707894 CTCG
66 CTCA
* * * * * * *
83707898 CAGGTGAAGAGCCGCAGCCTCCAACATAGTTAGGGAAAGCAGAA-CTCCCAGCTATTATATTATG
1 CAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCA-AAGCTCTCAGCTGTCATATTAAG
*
83707962 GCTCG
65 GCTCA
*
83707967 TAGGTGAAGAGCCG
1 CAGGTGAAGAGCCG
83707981 GAACCTGTGA
Statistics
Matches: 251, Mismatches: 35, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
68 2 0.01
69 186 0.74
70 6 0.02
71 57 0.23
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (69 bp):
CAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCTCAGCTGTCATATTAAGG
CTCA
Found at i:83708048 original size:83 final size:83
Alignment explanation
Indices: 83707906--83708060 Score: 215
Period size: 83 Copynumber: 1.9 Consensus size: 83
83707896 CGCAGGTGAA
* * * * *
83707906 GAGCCGCAGCCTCCAACATAGTTAGGGAAAGCAGAACTCCCAGCTATTATATTATGGCTCGTAGG
1 GAGCCGCAGCCTCCAACACAATTAGGCAAAGCAGAACTCCCAGCTATCATATTAAGGCTCGTAGG
83707971 TGAAGAGCCGGAACCTGT
66 TGAAGAGCCGGAACCTGT
**
83707989 GAGCCGCAGCCTCCAACACAATTA-GCAAGAGCA-AAGCTCTTAGCTATCATATTAAGGCTCGTA
1 GAGCCGCAGCCTCCAACACAATTAGGCAA-AGCAGAA-CTCCCAGCTATCATATTAAGGCTCGTA
83708052 GGTGAAGAG
64 GGTGAAGAG
83708061 TCGCAGCCTC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
82 5 0.08
83 58 0.92
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (83 bp):
GAGCCGCAGCCTCCAACACAATTAGGCAAAGCAGAACTCCCAGCTATCATATTAAGGCTCGTAGG
TGAAGAGCCGGAACCTGT
Found at i:83708795 original size:7 final size:8
Alignment explanation
Indices: 83708766--83708792 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
83708756 ATTGGTTAGA
83708766 TTTTATTT
1 TTTTATTT
83708774 TTTTATTT
1 TTTTATTT
83708782 TTTTATTT
1 TTTTATTT
83708790 TTT
1 TTT
83708793 ATTCTTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTATTT
Found at i:83709553 original size:3 final size:3
Alignment explanation
Indices: 83709545--83709571 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
83709535 GTTATATTGC
83709545 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
83709572 GTTACGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:83709664 original size:22 final size:23
Alignment explanation
Indices: 83709615--83709664 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
83709605 ACACGCATAG
*
83709615 TTTT-TAATATATATGCATATTT
1 TTTTATAATATATATGCATATTA
*
83709637 TCTTTATAATATATATGTATA-TA
1 T-TTTATAATATATATGCATATTA
83709660 TTTTA
1 TTTTA
83709665 AACTTCTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 5 0.21
23 5 0.21
24 14 0.58
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTTATAATATATATGCATATTA
Found at i:83712275 original size:42 final size:41
Alignment explanation
Indices: 83712223--83712325 Score: 143
Period size: 42 Copynumber: 2.5 Consensus size: 41
83712213 GCTCTCGGTA
*
83712223 TCGCACACTTAGTGCTCGTTATTCTACATCATCATTTTAATT
1 TCGCACACTTAGTGC-CGTTATTCAACATCATCATTTTAATT
* * *
83712265 TCGCACACTTAGTGCCCATTATTCAACATCGTCATTTTAGTT
1 TCGCACACTTAGTG-CCGTTATTCAACATCATCATTTTAATT
*
83712307 TCACACACTTAGTGCCGTT
1 TCGCACACTTAGTGCCGTT
83712326 CATATAGCTG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
41 4 0.07
42 49 0.91
43 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (41 bp):
TCGCACACTTAGTGCCGTTATTCAACATCATCATTTTAATT
Found at i:83714641 original size:12 final size:12
Alignment explanation
Indices: 83714624--83714649 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
83714614 AAAAATCATT
83714624 TTAATTTTTCAC
1 TTAATTTTTCAC
83714636 TTAATTTTTCAC
1 TTAATTTTTCAC
83714648 TT
1 TT
83714650 TTTTAATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAATTTTTCAC
Found at i:83718937 original size:18 final size:19
Alignment explanation
Indices: 83718914--83718956 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
83718904 ATTTTTTTAT
*
83718914 TTTTTTA-TTTTAAAATAC
1 TTTTTTATTTTTAAAATAA
*
83718932 TTTTTTATTTTTTAAATAA
1 TTTTTTATTTTTAAAATAA
83718951 TTTTTT
1 TTTTTT
83718957 GGTGTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTATTTTTAAAATAA
Found at i:83718937 original size:19 final size:20
Alignment explanation
Indices: 83718912--83718956 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
83718902 ATATTTTTTT
83718912 ATTTTTTTA-TTTTAAAAT-
1 ATTTTTTTATTTTTAAAATA
* *
83718930 ACTTTTTTATTTTTTAAATA
1 ATTTTTTTATTTTTAAAATA
83718950 ATTTTTT
1 ATTTTTT
83718957 GGTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 8 0.36
19 8 0.36
20 6 0.27
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTTTTATTTTTAAAATA
Found at i:83722901 original size:66 final size:66
Alignment explanation
Indices: 83722829--83722959 Score: 253
Period size: 66 Copynumber: 2.0 Consensus size: 66
83722819 GATTAGAGAG
*
83722829 AATGTTACATATGAACATGAAATGTATTAAATTAATGATTAAATTTATTTATTTAAATCCAAAAA
1 AATGTTACATATGAACATGAAATGAATTAAATTAATGATTAAATTTATTTATTTAAATCCAAAAA
83722894 T
66 T
83722895 AATGTTACATATGAACATGAAATGAATTAAATTAATGATTAAATTTATTTATTTAAATCCAAAAA
1 AATGTTACATATGAACATGAAATGAATTAAATTAATGATTAAATTTATTTATTTAAATCCAAAAA
83722960 ATTCAAATAC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (66 bp):
AATGTTACATATGAACATGAAATGAATTAAATTAATGATTAAATTTATTTATTTAAATCCAAAAA
T
Found at i:83727255 original size:28 final size:28
Alignment explanation
Indices: 83727224--83727283 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
83727214 ATAGCTCATT
* *
83727224 TTTTTCTCCCG-ATTTCTTAAACCAATTA
1 TTTTTCTCCCGTATTGC-TAAACAAATTA
*
83727252 -TTTTCTCTCGTATTGCTAAACAAATTA
1 TTTTTCTCCCGTATTGCTAAACAAATTA
83727279 TTTTT
1 TTTTT
83727284 AGTTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (28 bp):
TTTTTCTCCCGTATTGCTAAACAAATTA
Found at i:83737424 original size:37 final size:37
Alignment explanation
Indices: 83737383--83737540 Score: 163
Period size: 37 Copynumber: 4.3 Consensus size: 37
83737373 TGGGCATACG
*
83737383 CAAGTTATGACAGTCCACTGGAATCGTCCTCATGTTT
1 CAAGTTATGACAGTCCACTGGACTCGTCCTCATGTTT
* ** **
83737420 CAAGTTATGACAGTTCGTTGGACTCGTCCTCACATTT
1 CAAGTTATGACAGTCCACTGGACTCGTCCTCATGTTT
* * * *
83737457 CAAGTTATGATAGTGCACTGGACTTGTCTTCATGTTT
1 CAAGTTATGACAGTCCACTGGACTCGTCCTCATGTTT
* * * * * *
83737494 CAAGTTAAGATAGTCCGCTAGACTTGTCATCATGTTT
1 CAAGTTATGACAGTCCACTGGACTCGTCCTCATGTTT
*
83737531 CAAGATATGA
1 CAAGTTATGA
83737541 TGATCTATGG
Statistics
Matches: 100, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (37 bp):
CAAGTTATGACAGTCCACTGGACTCGTCCTCATGTTT
Found at i:83737532 original size:74 final size:74
Alignment explanation
Indices: 83737383--83737541 Score: 183
Period size: 74 Copynumber: 2.1 Consensus size: 74
83737373 TGGGCATACG
* * * * *
83737383 CAAGTTATGACAGTCCACTGGAATCGTCCTCATGTTTCAAGTTATGACAGTTCGTTGGACTCGTC
1 CAAGTTATGATAGTCCACTGGAATCGTCCTCATGTTTCAAGTTAAGACAGTCCGCTAGACTCGTC
*
83737448 CTCACATTT
66 ATCACATTT
* * * * * *
83737457 CAAGTTATGATAGTGCACTGGACTTGTCTTCATGTTTCAAGTTAAGATAGTCCGCTAGACTTGTC
1 CAAGTTATGATAGTCCACTGGAATCGTCCTCATGTTTCAAGTTAAGACAGTCCGCTAGACTCGTC
**
83737522 ATCATGTTT
66 ATCACATTT
*
83737531 CAAGATATGAT
1 CAAGTTATGAT
83737542 GATCTATGGA
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (74 bp):
CAAGTTATGATAGTCCACTGGAATCGTCCTCATGTTTCAAGTTAAGACAGTCCGCTAGACTCGTC
ATCACATTT
Found at i:83747995 original size:8 final size:8
Alignment explanation
Indices: 83747982--83748009 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
83747972 AGAGAATGTA
83747982 TAATATTT
1 TAATATTT
83747990 TAATATTT
1 TAATATTT
83747998 TAATATTT
1 TAATATTT
83748006 TAAT
1 TAAT
83748010 TGACACATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TAATATTT
Found at i:83756655 original size:26 final size:25
Alignment explanation
Indices: 83756626--83756697 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
83756616 AATTTTCTTG
83756626 AAATTTTATCGAGGGTAAAATCGTCA
1 AAATTTTATC-AGGGTAAAATCGTCA
*
83756652 AAATTTTATCAGGGGTAAAATTGTCA
1 AAATTTTATCA-GGGTAAAATCGTCA
*
83756678 AAACTTTA-CTAGGGTAAAAT
1 AAATTTTATC-AGGGTAAAAT
83756698 TAGGGCGAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
25 11 0.26
26 31 0.74
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (25 bp):
AAATTTTATCAGGGTAAAATCGTCA
Found at i:83758889 original size:18 final size:17
Alignment explanation
Indices: 83758848--83758896 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
83758838 GATCAGTTCG
*
83758848 TTAAATAATAAAAAATCA
1 TTAAA-AATAAAAAATAA
83758866 -TAAAAATAAAACAATAA
1 TTAAAAATAAAA-AATAA
83758883 TTAAAAATAGAAAA
1 TTAAAAATA-AAAA
83758897 GGTTAGTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 7 0.26
17 8 0.30
18 9 0.33
19 3 0.11
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (17 bp):
TTAAAAATAAAAAATAA
Found at i:83766665 original size:15 final size:15
Alignment explanation
Indices: 83766645--83766679 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
83766635 AGGCAATATA
83766645 AGGGTTCTAGCACCT
1 AGGGTTCTAGCACCT
83766660 AGGGTTCTAGCACCT
1 AGGGTTCTAGCACCT
83766675 AGGGT
1 AGGGT
83766680 GTTCCTTGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (15 bp):
AGGGTTCTAGCACCT
Found at i:83769875 original size:20 final size:18
Alignment explanation
Indices: 83769846--83769889 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
83769836 TGAAAATAAA
*
83769846 TTCTAAAAAATGGATTAATT
1 TTCTAGAAAATGGA-T-ATT
*
83769866 TTCTAGAAAATTGATATT
1 TTCTAGAAAATGGATATT
83769884 TTCTAG
1 TTCTAG
83769890 TGTTTGGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 1 0.05
20 12 0.55
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (18 bp):
TTCTAGAAAATGGATATT
Found at i:83771700 original size:30 final size:30
Alignment explanation
Indices: 83771608--83771702 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 30
83771598 TAATATAATT
* * * *
83771608 ATAATTATGATAATATATCAATAATTTTAAA
1 ATAATTATAATTATAAATTAAT-ATTTTAAA
*** **
83771639 ATAA--ATAATTATAAATTAATAGCATGGA
1 ATAATTATAATTATAAATTAATATTTTAAA
*
83771667 ATAATTATAATTATAAATTATTATTTTAAA
1 ATAATTATAATTATAAATTAATATTTTAAA
83771697 ATAATT
1 ATAATT
83771703 TCCAATGAAG
Statistics
Matches: 47, Mismatches: 15, Indels: 5
0.70 0.22 0.07
Matches are distributed among these distances:
28 7 0.15
29 12 0.26
30 24 0.51
31 4 0.09
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (30 bp):
ATAATTATAATTATAAATTAATATTTTAAA
Found at i:83775030 original size:23 final size:23
Alignment explanation
Indices: 83774984--83775032 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
83774974 TAAATTAGGT
*
83774984 TATATATTATTTTTATAATATTA
1 TATATATGATTTTTATAATATTA
*
83775007 TATATTATGATTTTTTTAAT-TTA
1 TATA-TATGATTTTTATAATATTA
83775030 TAT
1 TAT
83775033 TTTGATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TATATATGATTTTTATAATATTA
Found at i:83775070 original size:39 final size:39
Alignment explanation
Indices: 83774991--83775071 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
83774981 GGTTATATAT
* * * * * *
83774991 TATTTTTATAATATTATATATTATGATTTTTTTAATTTA
1 TATTTTGATAATAATATATATTAAGATGTTATTAAATTA
83775030 TATTTTGATAATAAT-TATATTAAGAATGTTATTAAATTA
1 TATTTTGATAATAATATATATTAAG-ATGTTATTAAATTA
83775069 TAT
1 TAT
83775072 ATTATTTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 8 0.23
39 27 0.77
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (39 bp):
TATTTTGATAATAATATATATTAAGATGTTATTAAATTA
Found at i:83775365 original size:16 final size:16
Alignment explanation
Indices: 83775344--83775382 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
83775334 TGAATTACTG
*
83775344 ATTACAGCTCTATT-T
1 ATTACAGCCCTATTCT
83775359 CATTACAGCCCTATTCT
1 -ATTACAGCCCTATTCT
83775376 ATTACAG
1 ATTACAG
83775383 TGAACCAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.95
17 1 0.05
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (16 bp):
ATTACAGCCCTATTCT
Found at i:83778318 original size:3 final size:3
Alignment explanation
Indices: 83778310--83778344 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
83778300 TGGAGATGGA
* *
83778310 GAT GAT GAT GAT GAT AAT GAT GAT AAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
83778345 CGAAGATGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:83778918 original size:27 final size:27
Alignment explanation
Indices: 83778882--83778949 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 27
83778872 AAATTAAAAA
*
83778882 TTACCAAAATGT-TATAACTTTTTTTAT
1 TTACCAAAATATATATAA-TTTTTTTAT
83778909 TTACCAAAATATATATAATTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTAT
83778936 TTACCAAAATATAT
1 TTACCAAAATATAT
83778950 CAAAAAAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 34 0.87
28 5 0.13
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.49
Consensus pattern (27 bp):
TTACCAAAATATATATAATTTTTTTAT
Found at i:83778971 original size:18 final size:19
Alignment explanation
Indices: 83778950--83778986 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
83778940 CAAAATATAT
*
83778950 CAAAAAAATA-AAAAAAAA
1 CAAAAAAACAGAAAAAAAA
83778968 CAAAAAAACAGAAAAAAAA
1 CAAAAAAACAGAAAAAAAA
83778987 TCTGGACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.03
Consensus pattern (19 bp):
CAAAAAAACAGAAAAAAAA
Found at i:83779056 original size:27 final size:26
Alignment explanation
Indices: 83779016--83779093 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 26
83779006 TCCCTGGGTG
83779016 AAGGGAACACTGTTGGCGGCACCAAAC
1 AAGGGAAC-CTGTTGGCGGCACCAAAC
83779043 AAGGGAACCTTGTTGGCGGCACCAAAC
1 AAGGGAACC-TGTTGGCGGCACCAAAC
**
83779070 AAGGGTTCCCTGTTGGCGGCACCA
1 AAGGG-AACCTGTTGGCGGCACCA
83779094 CTCGTGTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
26 1 0.02
27 44 0.94
28 2 0.04
ACGTcount: A:0.27, C:0.27, G:0.31, T:0.15
Consensus pattern (26 bp):
AAGGGAACCTGTTGGCGGCACCAAAC
Found at i:83779382 original size:3 final size:3
Alignment explanation
Indices: 83779376--83779404 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
83779366 AAAAATTTTA
83779376 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
83779405 AGATGTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:83780159 original size:18 final size:18
Alignment explanation
Indices: 83780131--83780175 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
83780121 TTGATATGGT
* *
83780131 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAGAAGG
*
83780149 TGGTTGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
83780167 TGGTGGCGA
1 TGGTGGCGA
83780176 TCATTGGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.47, T:0.20
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:83802890 original size:47 final size:47
Alignment explanation
Indices: 83802836--83802931 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 47
83802826 CGGGTACGGG
*
83802836 TGGATTAATACCTTCGTATTGTTGTTAGAAACTCCTTATATCTCTTA
1 TGGATTAATACCTTCGTATTGTTATTAGAAACTCCTTATATCTCTTA
* * *
83802883 TGGATTAATACCTTTGTATTGTTATTAGAAAGTCTTTATATCTCTTA
1 TGGATTAATACCTTCGTATTGTTATTAGAAACTCCTTATATCTCTTA
83802930 TG
1 TG
83802932 AATACAATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (47 bp):
TGGATTAATACCTTCGTATTGTTATTAGAAACTCCTTATATCTCTTA
Found at i:83805286 original size:29 final size:30
Alignment explanation
Indices: 83805236--83805292 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
83805226 AATATATAGT
*
83805236 AATATTAACAATGAGAACAAAAT-TTAAGC
1 AATATTAACAATAAGAACAAAATATTAAGC
*
83805265 AATATTATCAATAAGGAA-AAAATATTAA
1 AATATTAACAATAA-GAACAAAATATTAA
83805293 TGATGGGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.26
Consensus pattern (30 bp):
AATATTAACAATAAGAACAAAATATTAAGC
Found at i:83807826 original size:30 final size:29
Alignment explanation
Indices: 83807782--83807840 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
83807772 AAACCTCTCT
* *
83807782 ACTTTCCCTCAAAACTTTTACTCCTTTCC
1 ACTTTCCCCCAAAACTTTTACTCCCTTCC
83807811 ACTTTCTCCCCAAAACTTTTACTCCCTTCC
1 ACTTTC-CCCCAAAACTTTTACTCCCTTCC
83807841 CATCCCACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (29 bp):
ACTTTCCCCCAAAACTTTTACTCCCTTCC
Found at i:83807954 original size:21 final size:22
Alignment explanation
Indices: 83807903--83807968 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 22
83807893 ATTTACTTCT
*
83807903 CCCAAAA-TTTTACTCCCTCAACC
1 CCCAAAACTTTTACT-TCTC-ACC
83807926 CCCAAAACTTTT-CATTCTCACC
1 CCCAAAACTTTTAC-TTCTCACC
83807948 CCC-AAACTTTTACTTCTCACC
1 CCCAAAACTTTTACTTCTCACC
83807969 TTTAACCCCT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
21 16 0.41
22 7 0.18
23 11 0.28
24 5 0.13
ACGTcount: A:0.27, C:0.42, G:0.00, T:0.30
Consensus pattern (22 bp):
CCCAAAACTTTTACTTCTCACC
Found at i:83812811 original size:32 final size:32
Alignment explanation
Indices: 83812775--83812845 Score: 76
Period size: 32 Copynumber: 2.2 Consensus size: 32
83812765 CTATATCTTT
*
83812775 TATT-ATAATCTATAATATAATAATATTT-ATTA
1 TATTAATAAT-TATAAAAT-ATAATATTTCATTA
* *
83812807 TATTAATACTTATAAAATATATTATTTCATTA
1 TATTAATAATTATAAAATATAATATTTCATTA
83812839 TA-TAATA
1 TATTAATA
83812846 CTATATCACA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 13 0.38
32 17 0.50
33 4 0.12
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (32 bp):
TATTAATAATTATAAAATATAATATTTCATTA
Found at i:83813020 original size:19 final size:20
Alignment explanation
Indices: 83812992--83813044 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
83812982 TATATAATGC
83812992 TATATCATATCATATAGTATA
1 TATAT-ATATCATATAGTATA
* *
83813013 TA-ATATATTA-ATAGTTTA
1 TATATATATCATATAGTATA
83813031 TATATATATGCATA
1 TATATATAT-CATA
83813045 AATAGTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 9 0.35
19 11 0.42
20 3 0.12
21 3 0.12
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (20 bp):
TATATATATCATATAGTATA
Found at i:83815891 original size:30 final size:30
Alignment explanation
Indices: 83815857--83815919 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
83815847 ATTTAACAAG
*
83815857 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
83815887 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
83815917 CAA
1 CAA
83815920 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:83818049 original size:23 final size:23
Alignment explanation
Indices: 83818017--83818083 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 23
83818007 AAATTTGACT
83818017 TAAATCTATTTAGAACACTTAAC
1 TAAATCTATTTAGAACACTTAAC
* *
83818040 T-AATCATATTATA-AACA-TGAAT
1 TAAATC-TATT-TAGAACACTTAAC
83818062 TAAATCTATTTAGAACACTTAA
1 TAAATCTATTTAGAACACTTAA
83818084 GTAACTGCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
21 2 0.06
22 16 0.44
23 16 0.44
24 2 0.06
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.36
Consensus pattern (23 bp):
TAAATCTATTTAGAACACTTAAC
Found at i:83820277 original size:29 final size:29
Alignment explanation
Indices: 83820243--83820305 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
83820233 TGTAAACTAT
*
83820243 TATATATATGAATATGTCTTTCAAAT-TTTCA
1 TATATATAT--ATAT-TCTTTAAAATGTTTCA
83820274 TATATATATATATTCTTTAAAATGTTTCA
1 TATATATATATATTCTTTAAAATGTTTCA
83820303 TAT
1 TAT
83820306 CTTATTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 9 0.30
29 12 0.40
31 9 0.30
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.51
Consensus pattern (29 bp):
TATATATATATATTCTTTAAAATGTTTCA
Found at i:83826466 original size:43 final size:43
Alignment explanation
Indices: 83826402--83826485 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
83826392 TCTGTTAATG
* *
83826402 TTAGCGGCGCTTTTACCACAAACACCGCTATAGAACATGATTT
1 TTAGCGGCACTTTTACCACAAACACCGCTAAAGAACATGATTT
* * * *
83826445 TTAGCGGTACTTTTACTACAAACGCCGCTAAATAACATGAT
1 TTAGCGGCACTTTTACCACAAACACCGCTAAAGAACATGAT
83826486 ATATTTTGCG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (43 bp):
TTAGCGGCACTTTTACCACAAACACCGCTAAAGAACATGATTT
Found at i:83835668 original size:24 final size:24
Alignment explanation
Indices: 83835641--83835689 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
83835631 AAATATTGGC
*
83835641 TAAATTAGG-CAAATATGTTATTTT
1 TAAATT-GGTCAAATAGGTTATTTT
*
83835665 TAAATTGGTCAAATAGGTTTTTTT
1 TAAATTGGTCAAATAGGTTATTTT
83835689 T
1 T
83835690 TTCAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (24 bp):
TAAATTGGTCAAATAGGTTATTTT
Found at i:83840880 original size:19 final size:21
Alignment explanation
Indices: 83840832--83840889 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 21
83840822 TCAACAAAAA
83840832 TTATAAAAATATTCAAAATAAT
1 TTATAAAAA-ATTCAAAATAAT
*
83840854 TT-TCAAAAATTCAAAAT-AT
1 TTATAAAAAATTCAAAATAAT
*
83840873 TTAT-AAAAATTTAAAAT
1 TTATAAAAAATTCAAAAT
83840890 TTATATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 16 0.48
20 10 0.30
21 5 0.15
22 2 0.06
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
TTATAAAAAATTCAAAATAAT
Found at i:83841008 original size:3 final size:3
Alignment explanation
Indices: 83841000--83841024 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
83840990 CATGCTAATA
83841000 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
83841025 TTACTTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:83844391 original size:32 final size:32
Alignment explanation
Indices: 83843978--83844392 Score: 445
Period size: 32 Copynumber: 13.0 Consensus size: 32
83843968 ATATGTTTTA
* *
83843978 TATATTGCTGAATTGAATTGTATATATATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* * * *
83844010 TATTTTGTCGAATTGAATTGTATATATATATT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* * *
83844042 TATATTGCCGAATTGAATTGCATAAGTATACA
1 TATATTGCCGAATTGAATTGTATATGTATACT
** * *
83844074 CCTATTACCGAATTGAATTGTATATATATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* *
83844106 TATATTGCCGAATTGAATTGTATAGGTATACA
1 TATATTGCCGAATTGAATTGTATATGTATACT
** * *
83844138 CCTATTGTCGAATTGAATTGTATATATATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* * *
83844170 TATATTGCCGAATGGAATTGTATAGGTATACAC
1 TATATTGCCGAATTGAATTGTATATGTATAC-T
* * * *
83844203 T-TATTACCGAATTGAATTATGTATATATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* * *
83844234 TATATTACCGAATGGAATTGTATAGGTATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
** * *
83844266 CCTATTGCCGAATTGAATTGTATATTTATATT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* * *
83844298 TATATAGCCGAATTGAATTGTATAGGTATACA
1 TATATTGCCGAATTGAATTGTATATGTATACT
** *
83844330 CCTATTGCCGAATTGAATTTTATATGTATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* *
83844362 TATATCGCCGAATTGAATTGTATAGGTATAC
1 TATATTGCCGAATTGAATTGTATATGTATAC
83844393 ACCTATTGTC
Statistics
Matches: 307, Mismatches: 74, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
31 1 0.00
32 305 0.99
33 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (32 bp):
TATATTGCCGAATTGAATTGTATATGTATACT
Found at i:83844422 original size:64 final size:64
Alignment explanation
Indices: 83843978--83844416 Score: 614
Period size: 64 Copynumber: 6.9 Consensus size: 64
83843968 ATATGTTTTA
* * * * *
83843978 TATATTGCTGAATTGAATTGTATA--TATATACTTATTTTGTCGAATTGAATTGTATATATATAT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTA--TTGCCGAATTGAATTGTATATATATAC
83844041 T
64 T
* * *
83844042 TATATTGCCGAATTGAATTGCATAAGTATACACCTATTACCGAATTGAATTGTATATATATACT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATACT
*
83844106 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATATATACT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATACT
* * * * *
83844170 TATATTGCCGAATGGAATTGTATAGGTATACACTTATTACCGAATTGAATTATGTATATATACT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATACT
* * * * *
83844234 TATATTACCGAATGGAATTGTATAGGTATACTCCTATTGCCGAATTGAATTGTATATTTATATT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATACT
* * *
83844298 TATATAGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTTTATATGTATACT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATACT
* *
83844362 TATATCGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATT-AATTTGTAT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAA-TTGTAT
83844417 TTGTATTTAT
Statistics
Matches: 337, Mismatches: 35, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
63 2 0.01
64 327 0.97
66 8 0.02
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (64 bp):
TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATACT
Found at i:83845486 original size:23 final size:23
Alignment explanation
Indices: 83845452--83845501 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
83845442 CTAAGATGAC
83845452 TTGA-TGATTATAGTAAGTTAAA
1 TTGATTGATTATAGTAAGTTAAA
83845474 TTGATTGATTATAGTAAGTTAAA
1 TTGATTGATTATAGTAAGTTAAA
83845497 TTGAT
1 TTGAT
83845502 ATACTTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (23 bp):
TTGATTGATTATAGTAAGTTAAA
Found at i:83867456 original size:18 final size:18
Alignment explanation
Indices: 83867433--83867493 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
83867423 CATAGATTGT
83867433 AAAGATACGAGCTCACCC
1 AAAGATACGAGCTCACCC
* *
83867451 AAAGATGCGAGCTCATCC
1 AAAGATACGAGCTCACCC
* * *
83867469 AAATATACAAGC-CAGCC
1 AAAGATACGAGCTCACCC
83867486 AAAGATAC
1 AAAGATAC
83867494 AAGCCTAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
17 11 0.31
18 25 0.69
ACGTcount: A:0.43, C:0.28, G:0.16, T:0.13
Consensus pattern (18 bp):
AAAGATACGAGCTCACCC
Found at i:83867561 original size:17 final size:17
Alignment explanation
Indices: 83867539--83867584 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
83867529 AGGTTATCAT
83867539 ATGTGCGAGCTCACCAA
1 ATGTGCGAGCTCACCAA
*
83867556 ATGTGCAAGCTCACCAA
1 ATGTGCGAGCTCACCAA
* *
83867573 AGGTGTGAGCTC
1 ATGTGCGAGCTC
83867585 TGTTATACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (17 bp):
ATGTGCGAGCTCACCAA
Found at i:83874459 original size:13 final size:13
Alignment explanation
Indices: 83874441--83874477 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
83874431 AATTTAATAA
83874441 AAGGTGAAAGTTC
1 AAGGTGAAAGTTC
83874454 AAGGTGAAAGTTC
1 AAGGTGAAAGTTC
*
83874467 AAGGTAAAAGT
1 AAGGTGAAAGT
83874478 GTAAATTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.30, T:0.22
Consensus pattern (13 bp):
AAGGTGAAAGTTC
Found at i:83876610 original size:21 final size:21
Alignment explanation
Indices: 83876586--83876640 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
83876576 ACAGTCTGAG
* *
83876586 CACACGGGTGTGTGGAGTAGT
1 CACACGGGCGTGTGGAGTAGC
*
83876607 CACACGGGCGTGTGGGGTAGC
1 CACACGGGCGTGTGGAGTAGC
*
83876628 CACACGGTCGTGT
1 CACACGGGCGTGT
83876641 TTCCAGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.16, C:0.22, G:0.42, T:0.20
Consensus pattern (21 bp):
CACACGGGCGTGTGGAGTAGC
Found at i:83880443 original size:69 final size:68
Alignment explanation
Indices: 83880356--83880579 Score: 198
Period size: 69 Copynumber: 3.2 Consensus size: 68
83880346 AGAGGTCTGT
*
83880356 TAGCTATGTTGGAGGTTGCGATAATAAACTGGTGAGCCTTTAGAGTATCAGCTGGGAACATAGGT
1 TAGCTATTTTGGAGGTTGCGATAATAAACTGGTGAGCCTTTAGA-TATCAGCTGGGAACATAGGT
83880421 CCAC
65 CCAC
* ** * * * ** *
83880425 TAGTTATTTTGGAGGTTGCGATTTTAAACTGGTAAACCTTTATGACATCAATTGGGAGCATAGGT
1 TAGCTATTTTGGAGGTTGCGATAATAAACTGGTGAGCCTTTA-GATATCAGCTGGGAACATAGGT
***
83880490 TTTC
65 CCAC
* * ** ** * * *
83880494 TAGCTATGTTGGAGGCTATGATCCTAAACCGGTGAGCCCTTAGATAATCAGCTGGGAATGA-AGG
1 TAGCTATTTTGGAGGTTGCGATAATAAACTGGTGAGCCTTTAGAT-ATCAGCTGGGAA-CATAGG
83880558 TCCAC
64 TCCAC
*
83880563 TAGCTATTTTAGAGGTT
1 TAGCTATTTTGGAGGTT
83880580 ACAATCTTAA
Statistics
Matches: 117, Mismatches: 35, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
68 2 0.02
69 112 0.96
70 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (68 bp):
TAGCTATTTTGGAGGTTGCGATAATAAACTGGTGAGCCTTTAGATATCAGCTGGGAACATAGGTC
CAC
Found at i:83881316 original size:69 final size:69
Alignment explanation
Indices: 83881243--83881465 Score: 173
Period size: 69 Copynumber: 3.2 Consensus size: 69
83881233 ACTTAAAACA
* *
83881243 TAGGTTCGTTAGCTATTTTGGAGGTTGCGATCTTAAACCGGTAAACCTTTATAACATT-GATTGG
1 TAGGTTCGCTAGCTATTTTGGAGGTTGCGATCTTAAACCGGTAAACCTTTATAACATTAGATGGG
*
83881307 AAGTG
66 AA-CG
* * * * * * * * ** *
83881312 TAGGTTCGCTAGCTATGTTAGAGGCTAG-GATCATAAATCGGTGAGCCTTTAGAGTATTAGCTGG
1 TAGGTTCGCTAGCTATTTTGGAGG-TTGCGATCTTAAACCGGTAAACCTTTATAACATTAGATGG
83881376 GAACG
65 GAACG
* * * * * * *
83881381 TAGG-TCTGCTAACTATTTTGGAGGTTGCGATCTTAAACTGGCAAACCTCTATGACATCAGCTGG
1 TAGGTTC-GCTAGCTATTTTGGAGGTTGCGATCTTAAACCGGTAAACCTTTATAACATTAGATGG
* *
83881445 GACCA
65 GAACG
* *
83881450 TAGGTCCACTAGCTAT
1 TAGGTTCGCTAGCTAT
83881466 GTTAGAGGCT
Statistics
Matches: 114, Mismatches: 35, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
68 4 0.04
69 101 0.89
70 9 0.08
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (69 bp):
TAGGTTCGCTAGCTATTTTGGAGGTTGCGATCTTAAACCGGTAAACCTTTATAACATTAGATGGG
AACG
Found at i:83881983 original size:138 final size:138
Alignment explanation
Indices: 83880015--83881983 Score: 1240
Period size: 138 Copynumber: 14.3 Consensus size: 138
83880005 CCACTAGTTG
* * * * * * *
83880015 TTTTGGAGGTTGCAATCTTAAACCG-CTAAACGTTTATGACATCAGTTAGGAGCGTAGGTCCACT
1 TTTTGGAGGTTGCGATCTTAAATCGAC-AAACCTTTATGACATCAGTTGGGAGCATAGGTTCGCT
* * ** * * * * * *
83880079 AGCTGTGTTGAAGGTTATGATCATAAATTGGTGAGCCTTTAGAGTATTAGTTAGGAACGTAGGCT
65 AGCTGTGTTGGAGGCTGCGATCATAAACTGATGAGCCTTTAGAGTATCAGCTGGGAACGTAGGTT
* *
83880144 CGCTAGTTA
130 CTCTAGCTA
* * * * * * * *
83880153 TTTTGGAGTTTACGATCTTAAATCGAAAAACCTTTATGACATCCGTTGGGAGTATAGGTACACAA
1 TTTTGGAGGTTGCGATCTTAAATCGACAAACCTTTATGACATCAGTTGGGAGCATAGGTTCGCTA
* * * * ** * * *
83880218 GTTGTATTAGAGGTTGTAATCATAAA-TCA-GCAAGCCTTTTGAGTATCAGCTGGGAACGTAGGA
66 GCTGTGTTGGAGGCTGCGATCATAAACTGATG--AGCCTTTAGAGTATCAGCTGGGAACGTAGGT
* * *
83880281 TCGCTAGTTG
129 TCTCTAGCTA
* * * ** * * ** *
83880291 TTTTGGAGGTTACGATCTTAAACTAGA-AAACATTTATGATTTCAGCTAGGAGTGTAGAGGTCTG
1 TTTTGGAGGTTGCGATCTTAAA-TCGACAAACCTTTATGACATCAGTTGGGAGCATAG-GTTC-G
* * * * * *
83880355 TTAGCTATGTTGGAGGTTGCGATAATAAACTGGTGAGCCTTTAGAGTATCAGCTGGGAACATAGG
63 CTAGCTGTGTTGGAGGCTGCGATCATAAACTGATGAGCCTTTAGAGTATCAGCTGGGAACGTAGG
* * *
83880420 TCCACTAGTTA
128 TTCTCTAGCTA
* ** * **
83880431 TTTTGGAGGTTGCGATTTTAAA-CTGGTAAACCTTTATGACATCAATTGGGAGCATAGGTTTTCT
1 TTTTGGAGGTTGCGATCTTAAATC-GACAAACCTTTATGACATCAGTTGGGAGCATAGGTTCGCT
* ** * * * * * *
83880495 AGCTATGTTGGAGGCTATGATCCTAAACCGGTGAGCCCTTAGA-TAATCAGCTGGGAATGAAGGT
65 AGCTGTGTTGGAGGCTGCGATCATAAACTGATGAGCCTTTAGAGT-ATCAGCTGGGAACGTAGGT
* *
83880559 CCACTAGCTA
129 TCTCTAGCTA
* * * * * * * * ** * * *
83880569 TTTTAGAGGTTACAATCTTAAATCAAAAAACTTTTATGATATTAACTAGGAGCGTAGTTTCGCTA
1 TTTTGGAGGTTGCGATCTTAAATCGACAAACCTTTATGACATCAGTTGGGAGCATAGGTTCGCTA
** * * * ** * * *
83880634 GCCATGTTAGATGCTGCGATTATAAA-TCGACAAG-CTTTAAAGTATCAGCTGGGAATGTAAG-T
66 GCTGTGTTGGAGGCTGCGATCATAAACT-GATGAGCCTTTAGAGTATCAGCTGGGAACGTAGGTT
* * *
83880696 CTGGTAGTTG
130 CT-CTAGCTA
* ** * * * *
83880706 TTTCGGAGGTTATGATCTTAAA-CTAACAAACCTTCATGACATTAGTTGGGAGCATAGGTCCGCT
1 TTTTGGAGGTTGCGATCTTAAATC-GACAAACCTTTATGACATCAGTTGGGAGCATAGGTTCGCT
* * * * * ** * *
83880770 AGCTGTGTTGGAGGTTGCGATCATAAACCGACGAGCCTTTAGATTATCAACAAGGAAAGT-GGGT
65 AGCTGTGTTGGAGGCTGCGATCATAAACTGATGAGCCTTTAGAGTATCAGCTGGGAACGTAGGTT
* *
83880834 CTGCTAACTG
130 CT-CTAGCTA
* * * *
83880844 TTTTGAAGGTTGCAATCTTAAA-CTGACAAACCTTTATGACATCATTTGGGAGCGTA-GTTCCGC
1 TTTTGGAGGTTGCGATCTTAAATC-GACAAACCTTTATGACATCAGTTGGGAGCATAGGTT-CGC
* ** * * * * *
83880907 TAGTTGTGTCAGAGGCTCCGATCATAAACTGGTGAGCCTTTAGAGTATCGGCTCGGAACATAGG-
64 TAGCTGTGTTGGAGGCTGCGATCATAAACTGATGAGCCTTTAGAGTATCAGCTGGGAACGTAGGT
*
83880971 ACTGCTAGCTA
129 TCT-CTAGCTA
* * * * * * *
83880982 TTTTGGAGGTTGCGATCTTAAATC-AGCAAAGCTTTATGACGTCTGCTAGGAGCATAGGTTTGTT
1 TTTTGGAGGTTGCGATCTTAAATCGA-CAAACCTTTATGACATCAGTTGGGAGCATAGGTTCGCT
* * * * * * *
83881046 AGTTGTGTTGAAGGTTGTGATCATAAA-TCGGTGAGCCTTTAGCA-TATCAGTTCGGAACGTAGG
65 AGCTGTGTTGGAGGCTGCGATCATAAACT-GATGAGCCTTTAG-AGTATCAGCTGGGAACGTAGG
** * *
83881109 ACCACTAGCTG
128 TTCTCTAGCTA
* * * * * * **
83881120 TTTTGGAGGTTGCGATCTTAAACCGCCAAACTTTTATGACATCAGCTGGGAGCGTAGGTCCATTA
1 TTTTGGAGGTTGCGATCTTAAATCGACAAACCTTTATGACATCAGTTGGGAGCATAGGTTCGCTA
*** * * * * *** *
83881185 GCTGTGCCAGAGGTTGCAATCATAAACT-AGTGAGCCTTTAAAGTATCAACTTAAAACATAGGTT
66 GCTGTGTTGGAGGCTGCGATCATAAACTGA-TGAGCCTTTAGAGTATCAGCTGGGAACGTAGGTT
83881249 CGT-TAGCTA
130 C-TCTAGCTA
* ** * * * **
83881258 TTTTGGAGGTTGCGATCTTAAACCGGTAAACCTTTATAACAT-TGATTGGAAGTGTAGGTTCGCT
1 TTTTGGAGGTTGCGATCTTAAATCGACAAACCTTTATGACATCAG-TTGGGAGCATAGGTTCGCT
* * * *
83881322 AGCTATGTTAGAGGCTAG-GATCATAAA-TCGGTGAGCCTTTAGAGTATTAGCTGGGAACGTAGG
65 AGCTGTGTTGGAGGCT-GCGATCATAAACT-GATGAGCCTTTAGAGTATCAGCTGGGAACGTAGG
*
83881385 -TCTGCTAACTA
128 TTCT-CTAGCTA
* * * * * *
83881396 TTTTGGAGGTTGCGATCTTAAA-CTGGCAAACCTCTATGACATCAGCTGGGACCATAGGTCCACT
1 TTTTGGAGGTTGCGATCTTAAATC-GACAAACCTTTATGACATCAGTTGGGAGCATAGGTTCGCT
* * * * * * ** *
83881460 AGCTATGTTAGAGGCTGTGATTATAAACCGACGAGCCTTTAGAGTATCAATTGGGAATGTAGG-T
65 AGCTGTGTTGGAGGCTGCGATCATAAACTGATGAGCCTTTAGAGTATCAGCTGGGAACGTAGGTT
83881524 CTGCTAGCTA
130 CT-CTAGCTA
*** * * * ** * * *
83881534 TTTCAAAGGTTACAATCTTAAACCGACCTACCTTTTTGACATCAGTTGGAAGCATAGGTTCACTA
1 TTTTGGAGGTTGCGATCTTAAATCGACAAACCTTTATGACATCAGTTGGGAGCATAGGTTCGCTA
* * * * * *
83881599 GCTGTGTTGGAGGCTGCGATCATAAACCGATGAGCCTTTGGAGTATCGGCTGGAAATGTTGGTTC
66 GCTGTGTTGGAGGCTGCGATCATAAACTGATGAGCCTTTAGAGTATCAGCTGGGAACGTAGGTTC
*
83881664 GCTAGCTA
131 TCTAGCTA
* * * * * *
83881672 TTTTGGAGTTTGCTATCTT-AATTGGCAAACCTTTATGACATCAGTTGGGAGCGTAGGTTCACTA
1 TTTTGGAGGTTGCGATCTTAAATCGACAAACCTTTATGACATCAGTTGGGAGCATAGGTTCGCTA
* * * * * * * * * *
83881736 GTTGTGTTGGAGGCTGGGATTATAAATTGACGAGCCTTTACAGTATCAGTTGGAAATGTATGTT-
66 GCTGTGTTGGAGGCTGCGATCATAAACTGATGAGCCTTTAGAGTATCAGCTGGGAACGTAGGTTC
* *
83881800 TGGTAGCTG
131 T-CTAGCTA
** * * * **
83881809 TTCCGGAGGTTGCGATCTCAAATCAGA-AAACTTTTATGATATCAACTGGGAGCATAGGTTCGCT
1 TTTTGGAGGTTGCGATCTTAAATC-GACAAACCTTTATGACATCAGTTGGGAGCATAGGTTCGCT
* * * * * * *
83881873 AGCTATGTCGGAGGTTACGATCATAAACTGATAAGCCTTTAGAGTATCAGCTGAGAATGTAGGTT
65 AGCTGTGTTGGAGGCTGCGATCATAAACTGATGAGCCTTTAGAGTATCAGCTGGGAACGTAGGTT
* *
83881938 CTCTAGTTG
130 CTCTAGCTA
*
83881947 TTTTGGAGGTTGCGATCTTAAATCGACATACCTTTAT
1 TTTTGGAGGTTGCGATCTTAAATCGACAAACCTTTAT
83881984 ATTATACCAA
Statistics
Matches: 1415, Mismatches: 367, Indels: 98
0.75 0.20 0.05
Matches are distributed among these distances:
136 4 0.00
137 223 0.16
138 1064 0.75
139 25 0.02
140 97 0.07
141 1 0.00
142 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (138 bp):
TTTTGGAGGTTGCGATCTTAAATCGACAAACCTTTATGACATCAGTTGGGAGCATAGGTTCGCTA
GCTGTGTTGGAGGCTGCGATCATAAACTGATGAGCCTTTAGAGTATCAGCTGGGAACGTAGGTTC
TCTAGCTA
Found at i:83891720 original size:21 final size:20
Alignment explanation
Indices: 83891696--83891752 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
83891686 ATTTAAAAAT
* *
83891696 AATTGAGGATTGAAAATTCGA
1 AATTGAAGATTGAAAATT-AA
*
83891717 AATTGAAAATTGAAAATTAA
1 AATTGAAGATTGAAAATTAA
83891737 AATTTGAAGATTGAAA
1 AA-TTGAAGATTGAAA
83891753 TAAGATTGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 3 0.10
21 28 0.90
ACGTcount: A:0.51, C:0.02, G:0.18, T:0.30
Consensus pattern (20 bp):
AATTGAAGATTGAAAATTAA
Found at i:83891738 original size:6 final size:7
Alignment explanation
Indices: 83891704--83891752 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
83891694 ATAATTGAGG
83891704 ATTGAAA
1 ATTGAAA
83891711 ATTCG-AA
1 ATT-GAAA
83891718 ATTGAAA
1 ATTGAAA
83891725 ATTGAAA
1 ATTGAAA
83891732 ATT-AAA
1 ATTGAAA
*
83891738 ATTTGAAG
1 A-TTGAAA
83891746 ATTGAAA
1 ATTGAAA
83891753 TAAGATTGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
6 5 0.14
7 27 0.75
8 4 0.11
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.31
Consensus pattern (7 bp):
ATTGAAA
Found at i:83891753 original size:14 final size:14
Alignment explanation
Indices: 83891698--83891753 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
83891688 TTAAAAATAA
*
83891698 TTGAGGATTGAAAAT
1 TTGAAGATTG-AAAT
* *
83891713 TCGAA-ATTGAAAA
1 TTGAAGATTGAAAT
* *
83891726 TTGAAAATTAAAAT
1 TTGAAGATTGAAAT
83891740 TTGAAGATTGAAAT
1 TTGAAGATTGAAAT
83891754 AAGATTGGAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
13 7 0.22
14 22 0.69
15 3 0.09
ACGTcount: A:0.48, C:0.02, G:0.18, T:0.32
Consensus pattern (14 bp):
TTGAAGATTGAAAT
Found at i:83895635 original size:18 final size:18
Alignment explanation
Indices: 83895614--83895652 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
83895604 AAAATTACTA
83895614 AAAGACTTAGTATTATTT
1 AAAGACTTAGTATTATTT
83895632 AAAGACTTAGTATTATTT
1 AAAGACTTAGTATTATTT
83895650 AAA
1 AAA
83895653 AATTTCTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (18 bp):
AAAGACTTAGTATTATTT
Found at i:83899068 original size:31 final size:31
Alignment explanation
Indices: 83899033--83899091 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
83899023 AATCTAATAA
*
83899033 AAAATGGGCAAGTCGATTGAAAGACTAATCG
1 AAAATGAGCAAGTCGATTGAAAGACTAATCG
83899064 AAAATGAGCAAGTCGATTGAAAGACTAA
1 AAAATGAGCAAGTCGATTGAAAGACTAA
83899092 CATTCTGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.24, T:0.19
Consensus pattern (31 bp):
AAAATGAGCAAGTCGATTGAAAGACTAATCG
Found at i:83904821 original size:323 final size:324
Alignment explanation
Indices: 83904230--83904886 Score: 919
Period size: 323 Copynumber: 2.0 Consensus size: 324
83904220 TAGTTTATGA
* * *
83904230 TATTTATAGAAATAAACTTTTCTCAAAAAGTACCTATGCTTTGTGCGAGATGGATCCTAGATATT
1 TATTTATAGAAATAAACTTTTCTCAAAAAGTACCTATGCTTTGTGCAAGATGAATCCTAGACATT
* * * * *
83904295 CTCAGCTTTCGATCGAACAACCTTCTTTGCTATTCTTAAACCACAAATCACTTCGACTATGGGTT
66 CTCAGCTTTCAACCGAACAACCTTCTAT-CTATTCTCAAACCACAAATCACTTCGACTATGGGCT
* * * * *
83904360 CGAACAACACAAATCAAATATAGAACCAGAAACAATTTCTTACTTTCAATAGGAAAGTATTCTTC
130 CAAACAACACAAATCAAACACAGAACCAAAAACAATTTCTTACTTTCAATAGGAAAGGATTCTTC
*
83904425 TTTCAATAGAAACTAGCAACATTATTGTTCCCTAAAAATAGAATTTATACTTAGAAAATAAATTC
195 TTTCAATAGAAACTAGCAACATTATTGTTCCCTAAAAATAGAATTTATACTTAGAAAACAAATTC
* * * **
83904490 TTACTATTTTTGGGAAAAATAAAAATATCTCAAAATTGTGTATTTTTAGCCCTACAAGTGTTATC
260 TCACTATTTTCGGGAAAAATAAAAATAGCTCAAAATTGTGTATTTTTAGCCCTACAAGTGCCATC
* *
83904555 TATTTATAGCAATAAACTTTTCTCAAAAAGTACTTATGCTTTGTGCAAGATGAATCCTAGACATT
1 TATTTATAGAAATAAACTTTTCTCAAAAAGTACCTATGCTTTGTGCAAGATGAATCCTAGACATT
** ** * * *
83904620 CTTGGCTTTCAACCGAATTACC-TCTAT-TATTCTCGAACCACAAATCAC-TCTGAGTGTGGGCT
66 CTCAGCTTTCAACCGAACAACCTTCTATCTATTCTCAAACCACAAATCACTTC-GACTATGGGCT
* *
83904682 CAAATAATCACAAATCAAACACAGAACCAAAAACAATTTCTTACTTTCAGTAGGAAAGGAGTTC-
130 CAAACAA-CACAAATCAAACACAGAACCAAAAACAATTTCTTACTTTCAATAGGAAAGGA-TTCT
* * *
83904746 TCTTTCAATAGAAA-TCAGTAGCATTGTTGTTCCCTAAAAATAGAATTTATACTTAGAAAACAAA
193 TCTTTCAATAGAAACT-AGCAACATTATTGTTCCCTAAAAATAGAATTTATACTTAGAAAACAAA
* *
83904810 TTCTCACTATTTTCGGGCAAAATAACAATAGCTCAAAATTGTGTATTTTTAGCCCTACAAGTGCC
257 TTCTCACTATTTTCGGGAAAAATAAAAATAGCTCAAAATTGTGTATTTTTAGCCCTACAAGTGCC
83904875 ATC
322 ATC
83904878 TATTTATAG
1 TATTTATAG
83904887 GGAGAGAAAG
Statistics
Matches: 293, Mismatches: 35, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
321 2 0.01
322 33 0.11
323 175 0.60
324 7 0.02
325 76 0.26
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (324 bp):
TATTTATAGAAATAAACTTTTCTCAAAAAGTACCTATGCTTTGTGCAAGATGAATCCTAGACATT
CTCAGCTTTCAACCGAACAACCTTCTATCTATTCTCAAACCACAAATCACTTCGACTATGGGCTC
AAACAACACAAATCAAACACAGAACCAAAAACAATTTCTTACTTTCAATAGGAAAGGATTCTTCT
TTCAATAGAAACTAGCAACATTATTGTTCCCTAAAAATAGAATTTATACTTAGAAAACAAATTCT
CACTATTTTCGGGAAAAATAAAAATAGCTCAAAATTGTGTATTTTTAGCCCTACAAGTGCCATC
Found at i:83910755 original size:19 final size:19
Alignment explanation
Indices: 83910731--83910780 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
83910721 TTTAAAATTA
** *
83910731 TAAAAAAATTTAAACTTTTT
1 TAAAAAAA-TTAAAAATTTG
*
83910751 TAAAATAATTAAAAATTTG
1 TAAAAAAATTAAAAATTTG
83910770 TAAAAAAATTA
1 TAAAAAAATTA
83910781 TTAAAAATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
TAAAAAAATTAAAAATTTG
Found at i:83915830 original size:5 final size:5
Alignment explanation
Indices: 83915820--83915866 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
83915810 GAACAAATAT
* *
83915820 ATTCG ATTCG ATTCG ATTCG ATTTCC ATCTC- ATTCG ACTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG A-TTCG AT-TCG ATTCG ATTCG ATTCG A
83915867 GAAAACTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 2 0.06
5 28 0.78
6 6 0.17
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:83922579 original size:26 final size:26
Alignment explanation
Indices: 83922550--83922621 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
83922540 ACTTTATTAA
* * *
83922550 GGCAAAATCATTAAAATTTTACCAGG
1 GGCAAAATCGTCAAAATTTTACAAGG
*
83922576 GGCAAAATCGTCAAAAATTTACAAGG
1 GGCAAAATCGTCAAAATTTTACAAGG
*
83922602 GGTAAAATCGTCAAAATTTT
1 GGCAAAATCGTCAAAATTTT
83922622 GTTAGGGGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (26 bp):
GGCAAAATCGTCAAAATTTTACAAGG
Found at i:83922628 original size:26 final size:26
Alignment explanation
Indices: 83922553--83922635 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 26
83922543 TTATTAAGGC
* * * * *
83922553 AAAATCATTAAAATTTTACCAGGGGC
1 AAAATCGTCAAAAATTTACAAGGGGT
83922579 AAAATCGTCAAAAATTTACAAGGGGT
1 AAAATCGTCAAAAATTTACAAGGGGT
* ***
83922605 AAAATCGTCAAAATTTTGTTAGGGGT
1 AAAATCGTCAAAAATTTACAAGGGGT
83922631 AAAAT
1 AAAAT
83922636 AGGGATTGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.28
Consensus pattern (26 bp):
AAAATCGTCAAAAATTTACAAGGGGT
Found at i:83924300 original size:25 final size:25
Alignment explanation
Indices: 83924272--83924334 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 25
83924262 CACATAAGTG
83924272 CCACACT-AATATGTAGCCGAAGCTA
1 CCACACTGAA-ATGTAGCCGAAGCTA
*
83924297 -C-CACTGAAATGTAGCCGTAGCTA
1 CCACACTGAAATGTAGCCGAAGCTA
83924320 -C-CACTGAAATGTAGC
1 CCACACTGAAATGTAGC
83924335 TGACTCATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
23 33 0.92
24 3 0.08
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (25 bp):
CCACACTGAAATGTAGCCGAAGCTA
Found at i:83924301 original size:23 final size:23
Alignment explanation
Indices: 83924282--83924334 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
83924272 CCACACTAAT
83924282 ATGTAGCCGAAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
*
83924305 ATGTAGCCGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
83924328 ATGTAGC
1 ATGTAGC
83924335 TGACTCATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.21
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:83927008 original size:30 final size:30
Alignment explanation
Indices: 83926973--83927033 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
83926963 TAATACGTTG
83926973 CTCACACAAGCTGACAATATATC-AGGGTTA
1 CTCACACAAGCTGACAATATATCGA-GGTTA
*
83927003 CTCACACAAGCTGACATTATATCGAGGTTA
1 CTCACACAAGCTGACAATATATCGAGGTTA
83927033 C
1 C
83927034 ACGTCTGGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (30 bp):
CTCACACAAGCTGACAATATATCGAGGTTA
Found at i:83928712 original size:22 final size:22
Alignment explanation
Indices: 83928687--83928735 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
83928677 CCATGTATCG
*
83928687 AGACATATAGGCTTTTATCTTA
1 AGACATACAGGCTTTTATCTTA
* *
83928709 AGACATGCAGGCTTTTGTCTTA
1 AGACATACAGGCTTTTATCTTA
83928731 AGACA
1 AGACA
83928736 ACAACCTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (22 bp):
AGACATACAGGCTTTTATCTTA
Found at i:83933499 original size:17 final size:17
Alignment explanation
Indices: 83933479--83933522 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
83933469 CATGGGAGTC
83933479 TGGGCCACACAGGCATG
1 TGGGCCACACAGGCATG
* **
83933496 TGGGCTACATTGGCATG
1 TGGGCCACACAGGCATG
83933513 TGGGCC-CACA
1 TGGGCCACACA
83933523 ATTCTGAAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.20, C:0.27, G:0.34, T:0.18
Consensus pattern (17 bp):
TGGGCCACACAGGCATG
Found at i:83933695 original size:17 final size:17
Alignment explanation
Indices: 83933673--83933707 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
83933663 ATGTCTGATT
83933673 TATTTGATATATGTATA
1 TATTTGATATATGTATA
*
83933690 TATTTGATATCTGTATA
1 TATTTGATATATGTATA
83933707 T
1 T
83933708 GAGCATGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.54
Consensus pattern (17 bp):
TATTTGATATATGTATA
Found at i:83934213 original size:21 final size:18
Alignment explanation
Indices: 83934189--83934237 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 18
83934179 TCGAGAACTA
83934189 TTTTAATTTAGTAATCTATGG
1 TTTT-ATTTA-TAAT-TATGG
*
83934210 TTTTTATTTATAATTCTGG
1 -TTTTATTTATAATTATGG
83934229 TTTTATTTA
1 TTTTATTTA
83934238 AGAGTTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 9 0.35
19 4 0.15
20 4 0.15
21 5 0.19
22 4 0.15
ACGTcount: A:0.24, C:0.04, G:0.10, T:0.61
Consensus pattern (18 bp):
TTTTATTTATAATTATGG
Found at i:83941559 original size:17 final size:17
Alignment explanation
Indices: 83941537--83941570 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
83941527 TATGATTATA
83941537 TTATAATATAATGTAAT
1 TTATAATATAATGTAAT
* *
83941554 TTATAATTTAATTTAAT
1 TTATAATATAATGTAAT
83941571 ATTAGTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTATAATATAATGTAAT
Found at i:83942046 original size:19 final size:18
Alignment explanation
Indices: 83942016--83942051 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
83942006 TAATATTTTT
83942016 ATATTTTATATTATTAAA
1 ATATTTTATATTATTAAA
*
83942034 ATATTTATATATTTTTAA
1 ATATTT-TATATTATTAA
83942052 TATCATTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATTTTATATTATTAAA
Found at i:83947477 original size:37 final size:37
Alignment explanation
Indices: 83947431--83947561 Score: 165
Period size: 37 Copynumber: 3.5 Consensus size: 37
83947421 GTGAAACACA
83947431 CCAAATGCTCATAAGAGCTAATCCAACCAAAAACATG
1 CCAAATGCTCATAAGAGCTAATCCAACCAAAAACATG
* ** *
83947468 CCAAGTGCTCCGAAGAGCTAATCCAA-CAGATAACATG
1 CCAAATGCTCATAAGAGCTAATCCAACCA-AAAACATG
* *
83947505 CCAAATGCTCATAAGAGTTAATCCAACCAAAAACACG
1 CCAAATGCTCATAAGAGCTAATCCAACCAAAAACATG
* * *
83947542 TCAAATGATCATATGAGCTA
1 CCAAATGCTCATAAGAGCTA
83947562 TACATCCGCC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
36 2 0.03
37 74 0.95
38 2 0.03
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.18
Consensus pattern (37 bp):
CCAAATGCTCATAAGAGCTAATCCAACCAAAAACATG
Found at i:83960696 original size:12 final size:12
Alignment explanation
Indices: 83960679--83960703 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
83960669 TTTCTTTGTG
83960679 TTAGTGCTTAAT
1 TTAGTGCTTAAT
83960691 TTAGTGCTTAAT
1 TTAGTGCTTAAT
83960703 T
1 T
83960704 GGAAAACATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (12 bp):
TTAGTGCTTAAT
Found at i:83971256 original size:30 final size:28
Alignment explanation
Indices: 83971222--83971283 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
83971212 AAAAGCCTCT
83971222 TTTTTTAAAAAATTTACCGAAATGGGCCA
1 TTTTTT-AAAAATTTACCGAAATGGGCCA
** *
83971251 CTTTTTTAATTATTTACCGGAATGGGCCA
1 -TTTTTTAAAAATTTACCGAAATGGGCCA
83971280 TTTT
1 TTTT
83971284 CCGCGAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 4 0.14
29 19 0.66
30 6 0.21
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (28 bp):
TTTTTTAAAAATTTACCGAAATGGGCCA
Found at i:83971780 original size:125 final size:125
Alignment explanation
Indices: 83971558--83971833 Score: 405
Period size: 125 Copynumber: 2.2 Consensus size: 125
83971548 CGAGTTGACA
* * **
83971558 TTTCTGATCAAATAGTATAAAATTGCTTCTACCAAGATGCTATCAGAGAAGAAATTGTGAAATCG
1 TTTCTGAGCAAATAGTATAAAATCGCTGATACCAAGATGCTATCAGAGAAGAAATTGTGAAATCG
* * *
83971623 TGCCCTCGTGGACGTGATTTCGGTACAGTTGGTCATGTAAGAAATAATT-TTTTTT-GACG
66 CGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTTTTAG-CG
*
83971682 TTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTAT-ATGAGAAGAAATTGTGAAAT
1 -TTTCTGAGCAAATAGTATAAAATCGCTGATACCAAGATGCTATCA-GAGAAGAAATTGTGAAAT
*
83971746 CGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTTTTAGCG
64 CGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTTTTAGCG
* *
83971808 TTTCTGAGCAAATAGTGTCAAATCGC
1 TTTCTGAGCAAATAGTATAAAATCGC
83971834 GCCCTCGTGG
Statistics
Matches: 137, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
124 1 0.01
125 127 0.93
126 8 0.06
127 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
TTTCTGAGCAAATAGTATAAAATCGCTGATACCAAGATGCTATCAGAGAAGAAATTGTGAAATCG
CGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTTTTAGCG
Found at i:83974516 original size:25 final size:25
Alignment explanation
Indices: 83974485--83974539 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
83974475 TGCCCTAATC
83974485 GCAATAGTTGAATGTAATTTTAGAT
1 GCAATAGTTGAATGTAATTTTAGAT
83974510 GCAATAGTTGAATGTAATTTTAGAT
1 GCAATAGTTGAATGTAATTTTAGAT
83974535 GCAAT
1 GCAAT
83974540 TACATTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.38
Consensus pattern (25 bp):
GCAATAGTTGAATGTAATTTTAGAT
Found at i:83974749 original size:29 final size:29
Alignment explanation
Indices: 83974707--83975322 Score: 732
Period size: 29 Copynumber: 21.6 Consensus size: 29
83974697 TAATTAAAAT
**
83974707 GGGTTTTTAATTAAATTAGTTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
83974736 GGGTTTTTAATT--A--AAA-T-GGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* **
83974759 GGGTTATTAATTAAATTAGGTTAGGGTTTA
1 GGGTTTTTAATTAAATTAAATTAGGG-TTA
*
83974789 GGG-TTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
83974817 GGGTTTTTAATT--A--AAA-T-GGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
83974840 GGGTTTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
83974869 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* ** *
83974898 GGGTTTTTAATCAAATTAGGTTGGGGTTTA
1 GGGTTTTTAATTAAATTAAATTAGGG-TTA
*
83974928 GGG-TTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* ***
83974956 GGGTTTTTAATTAAAATGGGTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
83974985 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* ** *
83975014 GGGTTTTAAATTAAATTAGGTTAAGGTTTA
1 GGGTTTTTAATTAAATTAAATT-AGGGTTA
*
83975044 GGG-TTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
83975072 GGGTTTTTAATTAAATTTAACTTAGGTTAGGGTTA
1 GGGTTTTTAATTAAA-TTAA---A--TTAGGGTTA
83975107 GGG-TTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
**
83975135 GGGTTTTTAATTAAATTAGGTTAGGGTTTA
1 GGGTTTTTAATTAAATTAAATTAGGG-TTA
*
83975165 GGG-TTTTAATTAAATTAAATTAAGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
**
83975193 GGGTTTTTAATTAAATTAGGTTAGGGGTTA
1 GGGTTTTTAATTAAATTAAATTA-GGGTTA
83975223 GGG-TTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
83975251 GGGTTTTTAATTAAATTAAATTA-GGTTT
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
83975279 GGGTTTTTAATTAAATTAAATTA-GGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
83975307 GGGTTTTTAATCAAAT
1 GGGTTTTTAATTAAAT
83975323 AATATCAAAA
Statistics
Matches: 504, Mismatches: 54, Indels: 59
0.82 0.09 0.10
Matches are distributed among these distances:
23 35 0.07
24 2 0.00
25 6 0.01
27 6 0.01
28 96 0.19
29 292 0.58
30 40 0.08
33 5 0.01
34 11 0.02
35 11 0.02
ACGTcount: A:0.32, C:0.01, G:0.23, T:0.44
Consensus pattern (29 bp):
GGGTTTTTAATTAAATTAAATTAGGGTTA
Found at i:83975274 original size:23 final size:23
Alignment explanation
Indices: 83975248--83975303 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 23
83975238 TAAATTAGGG
83975248 TTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTTTTAATTAAATTAAA
83975271 TTAGGTTTGGGTTTTTAATTAAATTAAA
1 TTA-----GGGTTTTTAATTAAATTAAA
83975299 TTAGG
1 TTAGG
83975304 TTAGGGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
23 5 0.18
28 23 0.82
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (23 bp):
TTAGGGTTTTTAATTAAATTAAA
Found at i:83978842 original size:7 final size:7
Alignment explanation
Indices: 83978832--83978870 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
83978822 TTATATACAT
83978832 AATACTA
1 AATACTA
83978839 AATACTA
1 AATACTA
83978846 AATACTA
1 AATACTA
83978853 AATACTA
1 AATACTA
83978860 AATACTA
1 AATACTA
83978867 AATA
1 AATA
83978871 TCAATCCACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:83979844 original size:14 final size:15
Alignment explanation
Indices: 83979827--83979860 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
83979817 AATAATTATC
83979827 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
83979841 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
83979856 TAAAA
1 TAAAA
83979861 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:83980001 original size:29 final size:28
Alignment explanation
Indices: 83979958--83980015 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
83979948 TTGAAAATAT
83979958 TAAAAATTTTAAAATTATT-TTAAAAAAA
1 TAAAAATTTTAAAATT-TTCTTAAAAAAA
*
83979986 TAAAAATATTTGAAATTTTCTTAAAAAAA
1 TAAAAAT-TTTAAAATTTTCTTAAAAAAA
83980015 T
1 T
83980016 GAAATTGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (28 bp):
TAAAAATTTTAAAATTTTCTTAAAAAAA
Found at i:83980077 original size:22 final size:21
Alignment explanation
Indices: 83980049--83980099 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
83980039 AAATATGGAT
*
83980049 TTGAGAGATTTTTTGAAGGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
*
83980071 TTGAGAGGATTTTGGAAGGAAT
1 TTGAGA-GATTTTGGAAGGAAA
83980093 TTGAGAG
1 TTGAGAG
83980100 TTTAAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:83980122 original size:52 final size:52
Alignment explanation
Indices: 83980052--83980151 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
83980042 TATGGATTTG
* * * *
83980052 AGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
83980104 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
83980152 AATATTTGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
Found at i:83980168 original size:24 final size:22
Alignment explanation
Indices: 83980104--83980159 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
83980094 TGAGAGTTTA
83980104 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
83980126 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
83980148 AGAGAATATTTG
1 AGAGAAT-TTTG
83980160 TTTGTGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.29
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:83984144 original size:6 final size:6
Alignment explanation
Indices: 83984133--83984160 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
83984123 ATTGACGAAC
83984133 AAAATG AAAATG AAAATG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAA
83984161 CACAACCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:83989871 original size:18 final size:18
Alignment explanation
Indices: 83989844--83989878 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83989834 GTTAAAATCT
* *
83989844 ACCTCTACCTCTACCTCA
1 ACCTCGACCTCGACCTCA
83989862 ACCTCGACCTCGACCTC
1 ACCTCGACCTCGACCTC
83989879 GGTCTTGGCC
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:0.20, C:0.51, G:0.06, T:0.23
Consensus pattern (18 bp):
ACCTCGACCTCGACCTCA
Found at i:83996357 original size:15 final size:14
Alignment explanation
Indices: 83996324--83996367 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
83996314 ATTATAAAAC
*
83996324 ACAAAATAAACCAA
1 ACAAAATAAACAAA
83996338 ACAAAATAAACAACA
1 ACAAAATAAACAA-A
*
83996353 ACAAAA-AAAAAAA
1 ACAAAATAAACAAA
83996366 AC
1 AC
83996368 CAAGGTCCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 3 0.11
14 17 0.63
15 7 0.26
ACGTcount: A:0.77, C:0.18, G:0.00, T:0.05
Consensus pattern (14 bp):
ACAAAATAAACAAA
Found at i:83998711 original size:32 final size:32
Alignment explanation
Indices: 83998675--83998736 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
83998665 ATATGCGTAT
*
83998675 ATATGCATAAATATAATAATAAAAAATATAAA
1 ATATGCATAAATATAAAAATAAAAAATATAAA
* * *
83998707 ATATGTATATATATAAAAATAAATAATATA
1 ATATGCATAAATATAAAAATAAAAAATATA
83998737 TATATAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (32 bp):
ATATGCATAAATATAAAAATAAAAAATATAAA
Found at i:83998718 original size:42 final size:40
Alignment explanation
Indices: 83998633--83998734 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
83998623 AACATTTAAA
* * * *
83998633 ATATATACATATATATTATAATAAAAAAAAACATATGCGT
1 ATATATACATAAATATAATAATAAAAAAAAAAATATGCAT
* *
83998673 ATATATGCATAAATATAATAATAAAAAATATAAAATATGTAT
1 ATATATACATAAATATAATAATAAAAAA-A-AAAATATGCAT
83998715 ATATATA-A-AAATA-AATAATA
1 ATATATACATAAATATAATAATA
83998735 TATATATAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
39 7 0.13
40 30 0.57
41 2 0.04
42 14 0.26
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (40 bp):
ATATATACATAAATATAATAATAAAAAAAAAAATATGCAT
Found at i:83998735 original size:17 final size:16
Alignment explanation
Indices: 83998681--83998738 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 16
83998671 GTATATATGC
*
83998681 ATAAATATAATAATAA
1 ATAAATATAAAAATAA
**
83998697 A-AAATATAAAATATGT
1 ATAAATATAAAA-ATAA
*
83998713 ATATATATAAAAATAA
1 ATAAATATAAAAATAA
83998729 ATAATATATA
1 ATAA-ATATA
83998739 TATAATTAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
15 9 0.28
16 9 0.28
17 14 0.44
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
ATAAATATAAAAATAA
Found at i:83999812 original size:3 final size:3
Alignment explanation
Indices: 83999797--83999838 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
83999787 AGTTATTATC
*
83999797 TTA TTT TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
83999839 AACCCTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:84007493 original size:31 final size:31
Alignment explanation
Indices: 84007458--84007528 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
84007448 AATAAAGTAT
*
84007458 TTTGGTACTTGAGTTTGACTTCAATATTCAA
1 TTTGGTACTTGAGTTTGACTTCAATACTCAA
* ** *
84007489 TTTGGTATTTGAGTTTGGTTTCAATGCTCAA
1 TTTGGTACTTGAGTTTGACTTCAATACTCAA
*
84007520 TTTGATACT
1 TTTGGTACT
84007529 GAAACCAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.23, C:0.11, G:0.18, T:0.48
Consensus pattern (31 bp):
TTTGGTACTTGAGTTTGACTTCAATACTCAA
Found at i:84009815 original size:36 final size:36
Alignment explanation
Indices: 84009768--84009839 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
84009758 TTACACTGAA
84009768 AATGTGGAATAATGCATGGTAGTCACAACATCACAT
1 AATGTGGAATAATGCATGGTAGTCACAACATCACAT
*
84009804 AATGTGGAATAATGCATGGTAGTCACATCATCACAT
1 AATGTGGAATAATGCATGGTAGTCACAACATCACAT
84009840 GGGGTCTAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (36 bp):
AATGTGGAATAATGCATGGTAGTCACAACATCACAT
Found at i:84010858 original size:15 final size:15
Alignment explanation
Indices: 84010838--84010868 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
84010828 AAAACAATAT
84010838 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
84010853 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
84010868 A
1 A
84010869 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:84015290 original size:13 final size:12
Alignment explanation
Indices: 84015272--84015301 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
84015262 AAAATAACTA
84015272 ATATATTAATACT
1 ATATATTAAT-CT
84015285 ATATATTAATCT
1 ATATATTAATCT
84015297 ATATA
1 ATATA
84015302 AGTAGTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATTAATCT
Found at i:84015328 original size:18 final size:18
Alignment explanation
Indices: 84015301--84015335 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
84015291 TAATCTATAT
*
84015301 AAGTAGTATATATAAAAA
1 AAGTAATATATATAAAAA
84015319 AAGTAATATATATAAAA
1 AAGTAATATATATAAAA
84015336 TGGAGAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (18 bp):
AAGTAATATATATAAAAA
Done.