Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 75 of 135
Found at i:29381557 original size:129 final size:125
Alignment explanation
Indices: 29381413--29381996 Score: 554
Period size: 129 Copynumber: 4.8 Consensus size: 125
29381403 TTCAGCTTCT
* *
29381413 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGTTTTCCTCCACCTGTACCTCTTCATGTTTCTT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCC-CCTGTACCTCTTCAGGTTTCTT
29381478 CTTTTCAGCCAATTTCAGTTTTGGTACCTTTTCATCTTCAGCTGCGACTTCAGCCTCCTTTTCG
65 CTTTTCAGCCAATTTCAGTTTTGGTACCTTTT--TC-TCAGCTGCGACTTCAGCCTCCTTTTCG
* *
29381542 ACCAACTTCT-GTTTTGGCACCTTTTGCTCAACACTTTCCT-CCTTGGGTACCTCTTCAGGTTTC
1 ACCAACTT-TGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCCCT--GTACCTCTTCAGGTTTC
* * * *
29381605 TTCTTTGCAGCC-ATCATCTGTTTTGGCACC---TTCTCA---G-G--TTCAGCCTCCTTTTCG
63 TTCTTTTCAGCCAAT-TTCAGTTTTGGTACCTTTTTCTCAGCTGCGACTTCAGCCTCCTTTTCG
* * * * ** *
29381659 ACCAACTTTGGTTTGGGCATCTTTTGCTGAATGCTTTCCT-CGGT-TACCTCTTTAGGTTTCTTC
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCCCTGTACCTCTTCAGGTTTCTTC
* * ** * *
29381722 TTTTCGGACAACATCAGTTTTGGTA-C--TTTCTCAGCTTC-AGCTTCAG----C--GTCG
66 TTTTCAGCCAATTTCAGTTTTGGTACCTTTTTCTCAGCTGCGA-CTTCAGCCTCCTTTTCG
* * * *
29381773 ACCAACTTTGGTTTTGGCACCTTTTGCTCAATGTTTTCCTCCATCTGTACCTCTTCATGTTTCTT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCC-CCTGTACCTCTTCAGGTTTCTT
* *
29381838 CTTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTGTGACTTCAGCCTCCTTTTCG
65 CTTTTCAGCCAATTTCAGTTTTGGTACCTT-T-TTC-TCAGCTGCGACTTCAGCCTCCTTTTCG
*** *
29381902 ACCAACTTCT-GTTTTATTACCTTTTGCTCAACGCTTTCCT-CCTTGATTACCTCTTCAGGTTTC
1 ACCAACTT-TGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCCCTG--TACCTCTTCAGGTTTC
*
29381965 TTCTTTTCAGCCAACTTCAGTTTTGGTACCTT
63 TTCTTTTCAGCCAATTTCAGTTTTGGTACCTT
29381997 CTTAGCTTCA
Statistics
Matches: 373, Mismatches: 49, Indels: 66
0.76 0.10 0.14
Matches are distributed among these distances:
113 1 0.00
114 80 0.21
115 2 0.01
116 3 0.01
117 89 0.24
118 1 0.00
119 1 0.00
120 6 0.02
121 1 0.00
122 2 0.01
123 15 0.04
124 3 0.01
126 1 0.00
127 5 0.01
128 4 0.01
129 157 0.42
130 2 0.01
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (125 bp):
ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCCCTGTACCTCTTCAGGTTTCTTC
TTTTCAGCCAATTTCAGTTTTGGTACCTTTTTCTCAGCTGCGACTTCAGCCTCCTTTTCG
Found at i:29381581 original size:240 final size:228
Alignment explanation
Indices: 29380606--29383294 Score: 2230
Period size: 240 Copynumber: 11.4 Consensus size: 228
29380596 CTTCTTCTCA
29380606 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
1 ACCAACTTT-GTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
* * * * * * * *
29380671 CTTTGCAGCCATCATCTGTTTTGGCACCTTCTCAGGTTCAGCCTC--CTTTTCGACCAACTTTGG
65 CTTTTCAGCCAACTTCAGTTTTGGTA-CTTCTC---TTCAGCTTCAGC-CTTCTACCAACTTTGG
* * * * * * * *
29380734 TTTGGGCATCTTTTGCTGAATGCTTTCCT-C-GGTTACCTCTTTAGGTTTCTTCTTTTCGGACAA
125 TTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAA
* * ****
29380797 CATCAGTTTTGGTACTTTCTCAGCTTCAGCTTCAGCGTCG
190 CTTCAGTTTTGGTACCTTCTCAGCTTCAGC-TCCTTTTCG
* *
29380837 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTATCTCTTTAGGTTTCTT
1 ACCAACTTT-GTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
* * ** * *
29380902 CTTTTCTGCCAA-TATCAATTGCGGTACCTTCTCTT---CTTCAG-CTT-TGAGCAACTGTGGTT
65 CTTTTCAGCCAACT-TCAGTTTTGGTA-CTTCTCTTCAGCTTCAGCCTTCT-ACCAACTTTGGTT
* * * ** *
29380961 TTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTATCTCTTCAAGTTTCTTCAGTTCAGCCATC
127 TTGGCACCTTTTGCTCAACGCTTTCCTCCTT-GTTACCTCTTCAGGTTTCTTCTTTTCAGCCAAC
* *
29381026 ATCTGTTTTGGTACCTTCTCAGCTTCAGCCTCCTTTTCG
191 TTCAGTTTTGGTACCTTCTCAGCTTCAG-CTCCTTTTCG
* ** *
29381065 ACCAACTTTGGTTTGGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
1 ACCAACTTT-GTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
* * * *
29381130 CTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAG-CATCGACCAGCTTTGGT
65 CTTTTCAGCCAACTTCAGTTTTGGTA-CTTCT---CTTCAGCTTCAGCCTTCTACCAACTTTGGT
* * * * * *
29381194 TTTGGCCCCTTTTGCTTAATGGTTTCCTCC-TG-TACCTCTTCAGGTTTTTTCTTTTCTG----C
126 TTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAAC
*
29381253 -T-AGTTTTGGTACCTTCTCATCTTCTGCTTCAACTTCAGCCTCCTTTTCA
191 TTCAGTTTTGGTACCTTCTCA------G------CTTCAG-CTCCTTTTCG
*
29381302 ACCAACTTTTGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
1 ACCAAC-TTTGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
*
29381367 CTTTTCAGCCAACGTCAGTTTTGGTACTT-TC-TCAGCTTCAG-CTTCTACCAACTTTGGTTTTG
65 CTTTTCAGCCAACTTCAGTTTTGGTACTTCTCTTCAGCTTCAGCCTTCTACCAACTTTGGTTTTG
* * * *
29381429 GCACCTTTTGCTCAACGTTTTCCTCCACCTG-TACCTCTTCATGTTTCTTCTTTTCAGCCAATTT
130 GCACCTTTTGCTCAACGCTTTCCT-C-CTTGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTT
29381493 CAGTTTTGGTACCTTTTCATCTTCAGCTGCGACTTCAGCCTCCTTTTCG
193 CAGTTTTGGTACC---T--TC-TCA-----G-CTTCAG-CTCCTTTTCG
29381542 ACCAACTTCTGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
1 ACCAACTT-TGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
* * * * * * * *
29381607 CTTTGCAGCCATCATCTGTTTTGGCACCTTCTCAGGTTCAGCCTC--CTTTTCGACCAACTTTGG
65 CTTTTCAGCCAACTTCAGTTTTGGTA-CTTCTC---TTCAGCTTCAGC-CTTCTACCAACTTTGG
* * * * * * * *
29381670 TTTGGGCATCTTTTGCTGAATGCTTTCCT-C-GGTTACCTCTTTAGGTTTCTTCTTTTCGGACAA
125 TTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAA
* * ****
29381733 CATCAGTTTTGGTACTTTCTCAGCTTCAGCTTCAGCGTCG
190 CTTCAGTTTTGGTACCTTCTCAGCTTCAGC-TCCTTTTCG
*** * ** *
29381773 ACCAACTTTGGTTTTGGCACCTTTTGCTCAATGTTTTCCTCCATCTGTACCTCTTCATGTTTCTT
1 ACCAACTTT-GTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
* *
29381838 CTTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTGTGACTTCAGCCTCCTTTTCGA
65 CTTTTCAGCCAACTTCAGTTTTGGTA-C-T-TC-TCTTCA-----G-CTTCAG---CC--TTCTA
***
29381903 CCAACTTCT-GTTTTATTACCTTTTGCTCAACGCTTTCCTCCTTGATTACCTCTTCAGGTTTCTT
115 CCAACTT-TGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTG-TTACCTCTTCAGGTTTCTT
*
29381967 CTTTTCAGCCAACTTCAGTTTTGGTACCTTCTTAGCTTCA--T-C--TTCG
178 CTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTCCTTTTCG
* * *
29382013 ACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTTCTT
1 ACCAAC-TTTGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
* ** *
29382078 CTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTACGACTAACT
65 CTTTTCAGCCAACTTCAGTTTTGGTA-CTTCT---CTTCAGCTTCAGCCT--TCTAC--C-AACT
* *
29382143 TTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTTTTCA
121 TTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTT-GTTACCTCTTCAGGTTTCTTCTTTTCA
* *
29382208 GCCAACGTCAGTTTTGTTACCTTCTCAGCTTCAGTCTCCTTTT-G
185 GCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAG-CTCCTTTTCG
* * * * *
29382252 AACCATCCTTGGTTCTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCT
1 -ACCA-ACTTTGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* * * * *
29382317 TCTTTTCAGCAAACTTCAGTTTTGGTAAATTCTCAGGTTCAGCTTCATCCTCCTTTTGGACCAGC
64 TCTTTTCAGCCAACTTCAGTTTTGGT-ACTTCTC---TTCAGCTTCA---GCCTTCT--ACCAAC
* * * * *
29382382 TTTGGTTTTTGCACCTTTTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTT
120 TTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTT-GTTACCTCTTCAGGTTTCTTCTTTTC
* * *
29382447 AGCCAACATCAGTTTTGGTACTTTCTCAGCTTCA--T-CTTCT-G
184 AGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTCCTTTTCG
*** * ** *
29382488 -CCAACTTTGGTTTTGGCACCTTTTGCTCAATGTTTTCCTCCATCTGTACCTCTTCATGTTTCTT
1 ACCAACTTT-GTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
* * *
29382552 CCTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTGTGACTTCAGCCTCCTTTTCGA
65 CTTTTCAGCCAACTTCAGTTTTGGTA-C-T-TC-TCTTCA-----G-CTTCAG---CC--TTCTA
***
29382617 CCAACTTCT-GTTTTATTACCTTTTGCTCAACGCTTTCCTCCTTGATTACCTCTTCAGGTTTCTT
115 CCAACTT-TGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTG-TTACCTCTTCAGGTTTCTT
*
29382681 CTTTTCAGCCAACTTCAGTTTTGGTACCTTCTTAGCTTCA--T-C--TTCG
178 CTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTCCTTTTCG
* * *
29382727 ACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTTCTT
1 ACCAAC-TTTGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
* ** *
29382792 CTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTACGACTAACT
65 CTTTTCAGCCAACTTCAGTTTTGGTA-CTTCT---CTTCAGCTTCAGCCT--TCTAC--C-AACT
* *
29382857 TTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTTTTCA
121 TTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTT-GTTACCTCTTCAGGTTTCTTCTTTTCA
* *
29382922 GCCAACGTCAGTTTTGTTACCTTCTCAGCTTCAGTCTCCTTTT-G
185 GCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAG-CTCCTTTTCG
* * * * *
29382966 AACCATCCTTGGTTCTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCT
1 -ACCA-ACTTTGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* * * * *
29383031 TCTTTTCAGCAAACTTCAGTTTTGGTAAATTCTCAGGTTCAGCTTCATCCTCCTTTTGGACCAGC
64 TCTTTTCAGCCAACTTCAGTTTTGGT-ACTTCTC---TTCAGCTTCA---GCCTTCT--ACCAAC
* * * *
29383096 TTTGGTTTTTGCACCTTTTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTC
120 TTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTT-GTTACCTCTTCAGGTTTCTTCTTTTC
** *
29383161 AGCCAACTTCAGTTTCAGTACCTTCTCAGCTTCAGTCTCCTTTTCA
184 AGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAG-CTCCTTTTCG
*** * ** * *
29383207 ACTGGCATTGGTTTTGGCACCACTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCGGGTTTCTT
1 ACCAAC-TTTGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
*
29383272 CTCTTCAGCCAACTTCAGTTTTG
65 CTTTTCAGCCAACTTCAGTTTTG
29383295 ATGCCTTTGC
Statistics
Matches: 2027, Mismatches: 277, Indels: 299
0.78 0.11 0.11
Matches are distributed among these distances:
225 55 0.03
226 2 0.00
227 1 0.00
228 143 0.07
229 3 0.00
230 2 0.00
231 261 0.13
232 5 0.00
233 12 0.01
234 335 0.17
235 6 0.00
236 11 0.01
237 115 0.06
238 12 0.01
239 11 0.01
240 830 0.41
241 22 0.01
242 6 0.00
243 87 0.04
244 2 0.00
245 5 0.00
246 101 0.05
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.42
Consensus pattern (228 bp):
ACCAACTTTGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTC
TTTTCAGCCAACTTCAGTTTTGGTACTTCTCTTCAGCTTCAGCCTTCTACCAACTTTGGTTTTGG
CACCTTTTGCTCAACGCTTTCCTCCTTGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAG
TTTTGGTACCTTCTCAGCTTCAGCTCCTTTTCG
Found at i:29382235 original size:123 final size:121
Alignment explanation
Indices: 29382009--29383317 Score: 1369
Period size: 123 Copynumber: 11.0 Consensus size: 121
29381999 TAGCTTCATC
* * * *
29382009 TTCGACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTT
1 TTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
* **
29382074 TCTTCTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCT
66 TCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA-CCTCCT
* ** * *
29382131 TTACGACTAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGT
1 TT-CGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGT
* *
29382196 TTCTTCTTTTCAGCCAACGTCAGTTTTGTTACCTTCTCAGCTTCAG--T---CTCCT
65 TTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCACCTCCT
* * * * * *
29382248 TTTGAACCATCCTTGGTTCTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGT
1 TTCG-ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGT
* ** *
29382313 TTCTTCTTTTCAGCAAACTTCAGTTTTGGTAAATTCTCAGGTTCAGCTTCATCCTCCTT
65 TTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA-CCTCC-T
* * * *
29382372 TTGGACCAGCTTTGGTTTTTGCACCTTTTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
1 TTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
* *
29382437 TCTTCTTTTTAGCCAACATCAGTTTTGGTA-CTT-T---C-TCAGCTTCA--T-C-
66 TCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCACCTCCT
*** * ** *
29382483 TTCTG-CCAACTTTGGTTTTGGCACCTTTTGCTCAATGTTTTCCTCCATCTGTACCTCTTCATGT
1 TTC-GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGT
* * *
29382547 TTCTTCCTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTGTGACTTCAGCCTCCTT
65 TTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCA-----G-CTTCA-CCTCC-T
*** * **
29382612 TTCGACCAACTTCT-GTTTTATTACCTTTTGCTCAACGCTTTCCTCCTTGATTACCTCTTCAGGT
1 TTCGACCAACTT-TGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGT
29382676 TTCTTCTTTTCAGCCAACTTCAGTTTTGGTACC-T-T---CTT-AGCTTCA--T-C-
65 TTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCACCTCCT
* * * *
29382723 TTCGACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTT
1 TTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
* **
29382788 TCTTCTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCT
66 TCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA-CCTCCT
* ** * *
29382845 TTACGACTAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGT
1 TT-CGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGT
* *
29382910 TTCTTCTTTTCAGCCAACGTCAGTTTTGTTACCTTCTCAGCTTCAG--T---CTCCT
65 TTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCACCTCCT
* * * * * *
29382962 TTTGAACCATCCTTGGTTCTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGT
1 TTCG-ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGT
* ** *
29383027 TTCTTCTTTTCAGCAAACTTCAGTTTTGGTAAATTCTCAGGTTCAGCTTCATCCTCCTT
65 TTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA-CCTCC-T
* * * *
29383086 TTGGACCAGCTTTGGTTTTTGCACCTTTTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
1 TTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
** *
29383151 TCTTCTTTTCAGCCAACTTCAGTTTCAGTACCTTCTCAGCTTCAG--TCTCCT--T
66 TCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCACCTCCT
* *** * ** * *
29383203 TTCAACTGGCATTGGTTTTGGCACCACTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCGGGTT
1 TTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
* * *
29383268 TCTTCTCTTCAGCCAACTTCAGTTTTGATGCCTT-TGCAGCTTCAGCTTCA
66 TCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCT-CAGCTTCAGCTTCA
29383318 GCTGCAGTTT
Statistics
Matches: 989, Mismatches: 144, Indels: 111
0.80 0.12 0.09
Matches are distributed among these distances:
110 1 0.00
111 161 0.16
112 5 0.01
113 4 0.00
114 2 0.00
116 7 0.01
117 311 0.31
118 1 0.00
119 4 0.00
120 4 0.00
121 6 0.01
122 7 0.01
123 378 0.38
124 11 0.01
126 1 0.00
127 2 0.00
128 2 0.00
129 81 0.08
130 1 0.00
ACGTcount: A:0.15, C:0.28, G:0.14, T:0.42
Consensus pattern (121 bp):
TTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
TCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCACCTCCT
Found at i:29382658 original size:714 final size:713
Alignment explanation
Indices: 29380606--29383194 Score: 3112
Period size: 714 Copynumber: 3.7 Consensus size: 713
29380596 CTTCTTCTCA
* * * *
29380606 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
1 ACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTTCTT
* ** * * * *
29380671 CTTTGCAGCCATCATCTGTTTTGGCACCTTCTCAG----G-TTCAGCCTCCTTTTCGACCAACTT
66 CTTTTCAGCCAAAATCAGTTTTGGTACCTTCTCAGCTCAGCTTCAGCCTCCTTTACGACTAACTT
* * * * * *
29380731 TGGTTTGGGCATCTTTTGCTGAATGCTTTCCT-C--GGTTACCTCTTTAGGTTTCTTCTTTTCGG
131 TGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTTTTCAG
* * * * * * * *
29380793 ACAACATCAGTTTTGGTACTTTCTCAGCTTCAG-CTTCAGC-GTCGACCAACTTTGGTTTTGGCA
196 CCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTC-TC--CTTTTGACCATCCTTGGTTCTGGCA
* * * * * *
29380856 CCTTTTGCTCAACACTTTCCTCCTTGGGTATCTCTTTAGGTTTCTTCTTTTCTGCCAA-TATCAA
258 CCATTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCAAACT-TCAG
** ** * * *
29380920 TTGCGGTACCTTCTC---TT---CTTCA---GC-TTT-GAGCAACTGTGGTTTTGGCACCTTTTG
322 TTTTGGTAAATTCTCAGGTTCAGCTTCACCTCCTTTTGGACCAACTTTGGTTTTGGCACCTTTTG
* * * * ** * *
29380974 CTCAACACTTTCCTCCTTGGTTATCTCTTCAAGTTTCTTCAGTTCAGCCATCATCTGTTTTGGTA
387 CTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACATCAGTTTTGGTA
* * *
29381039 CCTTCTCAGCTTCAGCCTCCTTTTCGACCAACTTTGGTTTGGGCACCTTTTGCTCAATGCTTTCC
452 CCTTCTCAGCTTCA---T-CTTCTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAATGTTTTCC
* ** *
29381104 TCC-T-TGGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCT
513 TCCATCT-G-TACCTCTTCATGTTTCTTCTTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCT
* * **** * * *
29381167 TCA-----G-CTTCAG----C--ATCGACCAGCTT-TGGTTTTGGCCCCTTTTGCTTAATGGTTT
576 TCAGCTGTGACTTCAGCCTCCTTTTCGACCAACTTCT-GTTTTATTACCTTTTGCTCAACGCTTT
* * * ** ** * * *
29381219 CCTCC-TG--TACCTCTTCAGGTTTTTTCTTTTCTGCTAGTTTTGGTACCTT-CTCATCTTCTGC
640 CCTCCTTGATTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGT--TTTGGT-A-C--CTTC
* *
29381280 TTCAACTTCAGCCTCCTTTTCA
699 TT-AGCTTCA---T-C--TTCG
* ** *
29381302 ACCAACTTTTGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
1 ACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTTCTT
** *
29381367 CTTTTCAGCCAACGTCAGTTTTGGTA-CTT-T---CTCAGCTTCAG-CT--TCTAC--C-AACTT
66 CTTTTCAGCCAAAATCAGTTTTGGTACCTTCTCAGCTCAGCTTCAGCCTCCTTTACGACTAACTT
* * * * *
29381421 TGGTTTTGGCACCTTTTGCTCAACGTTTTCCTCCACCT-G-TACCTCTTCATGTTTCTTCTTTTC
131 TGGTTTTGGCACCTTTTGCTCAATGCTTTCCT-C-CTTGGTTACATCTTCAGGTTTCTTCTTTTC
** * *
29381484 AGCCAATTTCAGTTTTGGTACCTTTTCATCTTCAGCTGCGACTTCAGCCTCCTTTTCGACCA-AC
194 AGCCAACGTCAGTTTTGGTACC---T--TC-TCA-----G-CTTCAGTCTCCTTTT-GACCATCC
* * * *
29381548 TTCTGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTGC
246 TT-GGTTCTGGCACCATTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTC
* * * * * ** *
29381613 AGCCATCATCTGTTTTGGCACCTTCTCAGGTTCAG-----CCTCCTTTTCGACCAACTTTGGTTT
310 AGCAAACTTCAGTTTTGGTAAATTCTCAGGTTCAGCTTCACCTCCTTTTGGACCAACTTTGGTTT
* * * ** * * * *
29381673 GGGCATCTTTTGCTGAATGCTTTCCT-C--GGTTACCTCTTTAGGTTTCTTCTTTTCGGACAACA
375 TGGCACCTTTTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACA
* *
29381735 TCAGTTTTGGTACTTTCTCAGCTTCAGCTTCAGCGTCGACCAACTTTGGTTTTGGCACCTTTTGC
440 TCAGTTTTGGTACCTTCTCAGCTTCATCTT---C-TCGACCAACTTTGGTTTTGGCACCTTTTGC
29381800 TCAATGTTTTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTTCAGTTTTGGTAC
501 TCAATGTTTTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTTCAGTTTTGGTAC
29381865 CTTCTCATCTTCAGCTGTGACTTCAGCCTCCTTTTCGACCAACTTCTGTTTTATTACCTTTTGCT
566 CTTCTCATCTTCAGCTGTGACTTCAGCCTCCTTTTCGACCAACTTCTGTTTTATTACCTTTTGCT
29381930 CAACGCTTTCCTCCTTGATTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTACC
631 CAACGCTTTCCTCCTTGATTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTACC
29381995 TTCTTAGCTTCATCTTCG
696 TTCTTAGCTTCATCTTCG
29382013 ACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTTCTT
1 ACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTTCTT
*
29382078 CTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTACGACTAACT
66 CTTTTCAGCCAAAATCAGTTTTGGTACCTTCTCAGC-TCAGCTTCAGCCTCCTTTACGACTAACT
29382143 TTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTTTTCA
130 TTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTTTTCA
*
29382208 GCCAACGTCAGTTTTGTTACCTTCTCAGCTTCAGTCTCCTTTTGAACCATCCTTGGTTCTGGCAC
195 GCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCCTTTTG-ACCATCCTTGGTTCTGGCAC
*
29382273 CATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCAAACTTCAGTT
259 CATTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCAAACTTCAGTT
* *
29382338 TTGGTAAATTCTCAGGTTCAGCTTCATCCTCCTTTTGGACCAGCTTTGGTTTTTGCACCTTTTGC
324 TTGGTAAATTCTCAGGTTCAGCTTCA-CCTCCTTTTGGACCAACTTTGGTTTTGGCACCTTTTGC
*
29382403 TTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTTAGCCAACATCAGTTTTGGTAC
388 TTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACATCAGTTTTGGTAC
*
29382468 TTTCTCAGCTTCATCTTCT-G-CCAACTTTGGTTTTGGCACCTTTTGCTCAATGTTTTCCTCCAT
453 CTTCTCAGCTTCATCTTCTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAATGTTTTCCTCCAT
*
29382531 CTGTACCTCTTCATGTTTCTTCCTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTG
518 CTGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTG
29382596 TGACTTCAGCCTCCTTTTCGACCAACTTCTGTTTTATTACCTTTTGCTCAACGCTTTCCTCCTTG
583 TGACTTCAGCCTCCTTTTCGACCAACTTCTGTTTTATTACCTTTTGCTCAACGCTTTCCTCCTTG
29382661 ATTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTTAGCTTCATCTTC
648 ATTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTTAGCTTCATCTTC
29382726 G
713 G
29382727 ACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTTCTT
1 ACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTTCTT
*
29382792 CTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTACGACTAACT
66 CTTTTCAGCCAAAATCAGTTTTGGTACCTTCTCAGC-TCAGCTTCAGCCTCCTTTACGACTAACT
29382857 TTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTTTTCA
130 TTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTTTTCA
*
29382922 GCCAACGTCAGTTTTGTTACCTTCTCAGCTTCAGTCTCCTTTTGAACCATCCTTGGTTCTGGCAC
195 GCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCCTTTTG-ACCATCCTTGGTTCTGGCAC
*
29382987 CATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCAAACTTCAGTT
259 CATTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCAAACTTCAGTT
* *
29383052 TTGGTAAATTCTCAGGTTCAGCTTCATCCTCCTTTTGGACCAGCTTTGGTTTTTGCACCTTTTGC
324 TTGGTAAATTCTCAGGTTCAGCTTCA-CCTCCTTTTGGACCAACTTTGGTTTTGGCACCTTTTGC
* **
29383117 TTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTCAGTAC
388 TTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACATCAGTTTTGGTAC
29383182 CTTCTCAGCTTCA
453 CTTCTCAGCTTCA
29383195 GTCTCCTTTT
Statistics
Matches: 1673, Mismatches: 134, Indels: 154
0.85 0.07 0.08
Matches are distributed among these distances:
690 32 0.02
691 1 0.00
693 43 0.03
694 2 0.00
695 6 0.00
696 90 0.05
698 2 0.00
699 3 0.00
703 1 0.00
704 7 0.00
705 89 0.05
706 1 0.00
708 150 0.09
709 3 0.00
710 6 0.00
711 224 0.13
712 7 0.00
713 3 0.00
714 708 0.42
715 1 0.00
716 2 0.00
717 63 0.04
718 11 0.01
720 100 0.06
721 8 0.00
722 4 0.00
723 106 0.06
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.42
Consensus pattern (713 bp):
ACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTTCTT
CTTTTCAGCCAAAATCAGTTTTGGTACCTTCTCAGCTCAGCTTCAGCCTCCTTTACGACTAACTT
TGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTTTTCAG
CCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCCTTTTGACCATCCTTGGTTCTGGCACCA
TTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCAAACTTCAGTTTT
GGTAAATTCTCAGGTTCAGCTTCACCTCCTTTTGGACCAACTTTGGTTTTGGCACCTTTTGCTTA
ACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTT
CTCAGCTTCATCTTCTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAATGTTTTCCTCCATCTG
TACCTCTTCATGTTTCTTCTTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTGTGA
CTTCAGCCTCCTTTTCGACCAACTTCTGTTTTATTACCTTTTGCTCAACGCTTTCCTCCTTGATT
ACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTTAGCTTCATCTTCG
Found at i:29384779 original size:30 final size:30
Alignment explanation
Indices: 29384745--29384819 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
29384735 CTCTTATGTG
*
29384745 ATTAAATTTTACTACAAAGCTTTGAATTTT-
1 ATTAAATTTTACCACAAA-CTTTGAATTTTA
* * * *
29384775 ATTAAATTCTGCCACCAACTTTGATTTTTA
1 ATTAAATTTTACCACAAACTTTGAATTTTA
29384805 ATTAAATTTTACCAC
1 ATTAAATTTTACCAC
29384820 TCAATATTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
29 10 0.27
30 27 0.73
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44
Consensus pattern (30 bp):
ATTAAATTTTACCACAAACTTTGAATTTTA
Found at i:29397094 original size:44 final size:44
Alignment explanation
Indices: 29397035--29397122 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
29397025 TATTTTCAGG
* *
29397035 TAACAATTTATTTAAGCATATTAAATTACAGTCCAAAATATTGA
1 TAACAATATAATTAAGCATATTAAATTACAGTCCAAAATATTGA
*
29397079 TAACAATATAATTAAGCATATTAAATTATAGTCCAAAATATTGA
1 TAACAATATAATTAAGCATATTAAATTACAGTCCAAAATATTGA
29397123 ATCATCCTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (44 bp):
TAACAATATAATTAAGCATATTAAATTACAGTCCAAAATATTGA
Found at i:29397525 original size:15 final size:15
Alignment explanation
Indices: 29397468--29397525 Score: 66
Period size: 15 Copynumber: 3.8 Consensus size: 15
29397458 TAAAAATGTA
29397468 TTTAATATTTAT-TTT
1 TTTAAT-TTTATATTT
29397483 TTTAATTTT-TAATTT
1 TTTAATTTTAT-ATTT
*
29397498 TTATAATTATATATTT
1 TT-TAATTTTATATTT
29397514 TTTAATTTTATA
1 TTTAATTTTATA
29397526 AAAAATCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 1 0.03
14 3 0.08
15 20 0.54
16 12 0.32
17 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTAATTTTATATTT
Found at i:29397536 original size:23 final size:24
Alignment explanation
Indices: 29397488--29397538 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
29397478 ATTTTTTTAA
* *
29397488 TTTTTAATTTTTATAATTATATAT
1 TTTTTAATTTTTATAATAAAATAT
29397512 TTTTTAA-TTTTATAA-AAAATCAT
1 TTTTTAATTTTTATAATAAAAT-AT
29397535 TTTT
1 TTTT
29397539 AAACTTGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 3 0.12
23 14 0.58
24 7 0.29
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTTAATTTTTATAATAAAATAT
Found at i:29398237 original size:16 final size:16
Alignment explanation
Indices: 29398202--29398239 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
29398192 TTTGGTTCAC
* *
29398202 TGTAATGGAATAGGGC
1 TGTAATGGAATAGAGA
29398218 TGTAATGGAATAGAGA
1 TGTAATGGAATAGAGA
29398234 TGTAAT
1 TGTAAT
29398240 CAATAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.37, C:0.03, G:0.32, T:0.29
Consensus pattern (16 bp):
TGTAATGGAATAGAGA
Found at i:29402561 original size:11 final size:11
Alignment explanation
Indices: 29402545--29402573 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
29402535 TTCAAAAATT
29402545 CTCTTAAGTTC
1 CTCTTAAGTTC
29402556 CTCTTAAGTTC
1 CTCTTAAGTTC
29402567 CTCTTAA
1 CTCTTAA
29402574 CTCTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.45
Consensus pattern (11 bp):
CTCTTAAGTTC
Found at i:29402619 original size:12 final size:12
Alignment explanation
Indices: 29402580--29402623 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
29402570 TTAACTCTTT
*
29402580 TTTTTTTAAATA
1 TTTTTTAAAATA
* *
29402592 ATTTTAAAAATA
1 TTTTTTAAAATA
29402604 TTTTTTAAAAT-
1 TTTTTTAAAATA
29402615 TTTTTTAAA
1 TTTTTTAAA
29402624 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:29403820 original size:12 final size:12
Alignment explanation
Indices: 29403781--29403824 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
29403771 TTAGCTCTTT
*
29403781 TTTTTTTAAATA
1 TTTTTTAAAATA
* *
29403793 ATTTTAAAAATA
1 TTTTTTAAAATA
29403805 TTTTTTAAAAT-
1 TTTTTTAAAATA
29403816 TTTTTTAAA
1 TTTTTTAAA
29403825 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:29404754 original size:21 final size:21
Alignment explanation
Indices: 29404730--29404778 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
29404720 AGATGCCGTA
* *
29404730 CCGGAAGAACCAGAATCC-CCG
1 CCGGAAGAACAACAA-CCACCG
*
29404751 CCGGAGGAACAACAACCACCG
1 CCGGAAGAACAACAACCACCG
29404772 CCGGAAG
1 CCGGAAG
29404779 CTAGAGAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.35, C:0.37, G:0.27, T:0.02
Consensus pattern (21 bp):
CCGGAAGAACAACAACCACCG
Found at i:29405091 original size:46 final size:44
Alignment explanation
Indices: 29404993--29405171 Score: 143
Period size: 45 Copynumber: 3.9 Consensus size: 44
29404983 ATTAATACCC
* * *
29404993 TTAAATTAAAAACCCTAACCTACTTTAATTAAAAACCCTAAACCCTA
1 TTAACTTAAAAACCCTAACC-ACATTAATTAAAAAACCT-AA-CCTA
* *
29405040 --AACTTAAAAACCCTAACCCCCTTAACTTAAAAAACCTAACCTAA
1 TTAACTTAAAAACCCTAACCACATTAA-TTAAAAAACCTAACCT-A
*
29405084 TTAACTTAAAAACCCTAACCTA-ATTAAATT-AAAAACCATAACCTCCC
1 TTAACTTAAAAACCCTAACC-ACATT-AATTAAAAAACC-TAACCT--A
* *
29405131 TAAACTTAAAAACCCTAACCTA-ATTTAATTAAAAATCCTAA
1 TTAACTTAAAAACCCTAACC-ACA-TTAATTAAAAAACCTAA
29405172 ACTAAATTAA
Statistics
Matches: 112, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
43 3 0.03
44 8 0.07
45 34 0.30
46 28 0.25
47 31 0.28
48 8 0.07
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (44 bp):
TTAACTTAAAAACCCTAACCACATTAATTAAAAAACCTAACCTA
Found at i:29405149 original size:47 final size:46
Alignment explanation
Indices: 29404994--29405171 Score: 193
Period size: 46 Copynumber: 3.9 Consensus size: 46
29404984 TTAATACCCT
* * *
29404994 TAAA-TTAAAAACCCTAACCTACTTTAATTAAAAACCCTAA--ACCC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAA-CCTAACCTCCC
*** * **
29405038 TAAACTTAAAAACCCTAACCCCCTTAACTTAAAAAACCTAACCT-AA
1 TAAACTTAAAAACCCTAACCTAATTAAATT-AAAAACCTAACCTCCC
*
29405084 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCATAACCTCCC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACC-TAACCTCCC
*
29405131 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAATCCTAA
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAA-CCTAA
29405172 ACTAAATTAA
Statistics
Matches: 111, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
44 4 0.04
45 33 0.30
46 36 0.32
47 36 0.32
48 2 0.02
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.25
Consensus pattern (46 bp):
TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCTAACCTCCC
Found at i:29405154 original size:70 final size:68
Alignment explanation
Indices: 29404994--29405181 Score: 222
Period size: 70 Copynumber: 2.7 Consensus size: 68
29404984 TTAATACCCT
* * *
29404994 TAAA-TTAAAAACCCTAACCTACTTTAATTAAAAACCCTAAACCCT-A--AACTTAAAAACCCTA
1 TAAACTTAAAAACCCTAACCTA-ATTAATTAAAAACCCT-AA-CCTAATTAAATTAAAAACCATA
29405055 ACCCCC
63 ACCCCC
* *
29405061 TTAACTTAAAAAACCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCATAAC
1 TAAACTTAAAAACCCTAACCTAATTAA-TTAAAAACCCTAACCTAATTAAATTAAAAACCATAAC
29405126 CTCCC
65 C-CCC
* *
29405131 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAATCCTAAACTAAATTAA
1 TAAACTTAAAAACCCTAACCTAA-TTAATTAAAAACCCTAACCT-AATTAA
29405182 TAATTTTACT
Statistics
Matches: 104, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
66 3 0.03
67 10 0.10
68 27 0.26
69 16 0.15
70 38 0.37
71 10 0.10
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (68 bp):
TAAACTTAAAAACCCTAACCTAATTAATTAAAAACCCTAACCTAATTAAATTAAAAACCATAACC
CCC
Found at i:29405182 original size:23 final size:23
Alignment explanation
Indices: 29404993--29405181 Score: 172
Period size: 23 Copynumber: 8.2 Consensus size: 23
29404983 ATTAATACCC
* *
29404993 TTAAATTAAAAACCCTAACCTACT
1 TTAACTTAAAAACCCTAACCTA-A
29405017 TTAA-TTAAAAACCCTAAACCCT-A
1 TTAACTTAAAAACCCT-AA-CCTAA
***
29405040 --AACTTAAAAACCCTAACCCCC
1 TTAACTTAAAAACCCTAACCTAA
*
29405061 TTAACTTAAAAAACCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
29405084 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* * **
29405107 TTAAATTAAAAACCATAACCTCCC
1 TTAACTTAAAAACCCTAACCT-AA
*
29405131 TAAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
29405154 TTTAA-TTAAAAATCCTAAACTAAA
1 -TTAACTTAAAAACCCTAACCT-AA
29405178 TTAA
1 TTAA
29405182 TAATTTTACT
Statistics
Matches: 136, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.01
21 4 0.03
22 11 0.08
23 87 0.64
24 29 0.21
25 3 0.02
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (23 bp):
TTAACTTAAAAACCCTAACCTAA
Found at i:29405387 original size:115 final size:115
Alignment explanation
Indices: 29405176--29405946 Score: 1497
Period size: 115 Copynumber: 6.7 Consensus size: 115
29405166 TCCTAAACTA
* * **
29405176 AATTAATAATTTTACTTTCACATAATGTTAGATTTAGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGGTACTAACAAT
29405241 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
29405292 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
29405357 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
29405407 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
29405472 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
29405522 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
29405587 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
29405637 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
29405702 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
29405752 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
29405817 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
29405867 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
29405932 AATAATTTTATATAA
66 AATAATTTTATATAA
29405947 AAATATCAGG
Statistics
Matches: 651, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
115 609 0.94
116 42 0.06
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.44
Consensus pattern (115 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
Found at i:29409086 original size:19 final size:19
Alignment explanation
Indices: 29409058--29409097 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
29409048 AACTTAGTTG
*
29409058 GTTATTGTTTATTTATTAA
1 GTTATGGTTTATTTATTAA
29409077 GTTATGGTTTATTTATTAA
1 GTTATGGTTTATTTATTAA
29409096 GT
1 GT
29409098 AAAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (19 bp):
GTTATGGTTTATTTATTAA
Found at i:29409173 original size:11 final size:11
Alignment explanation
Indices: 29409157--29409206 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
29409147 TTTATTTAAA
29409157 ATTATAATAAT
1 ATTATAATAAT
*
29409168 ATTATAACAA-
1 ATTATAATAAT
*
29409178 ATTATTATAAT
1 ATTATAATAAT
29409189 ACTTAT-ATAAT
1 A-TTATAATAAT
29409200 ACTTATA
1 A-TTATA
29409207 CTTTTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
10 8 0.24
11 21 0.64
12 4 0.12
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTATAATAAT
Found at i:29409179 original size:21 final size:22
Alignment explanation
Indices: 29409155--29409195 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
29409145 ATTTTATTTA
29409155 AAATTATAATAATA-TTATAAC
1 AAATTATAATAATACTTATAAC
*
29409176 AAATTATTATAATACTTATA
1 AAATTATAATAATACTTATA
29409196 TAATACTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATTATAATAATACTTATAAC
Found at i:29414393 original size:5 final size:5
Alignment explanation
Indices: 29414383--29414420 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
29414373 ATATCCTTTC
*
29414383 AATAT AATAT AATAT AATAT AATAT AATAT TATAT AAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT
29414421 TGAATTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
AATAT
Found at i:29415138 original size:25 final size:26
Alignment explanation
Indices: 29415085--29415139 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
29415075 AGTGTTTTTT
29415085 ATTTT-CTTCTGTCTATTCTCTACTC
1 ATTTTACTTCTGTCTATTCTCTACTC
* * *
29415110 -TTTTACTTCTTTCTATTGT-TAGTC
1 ATTTTACTTCTGTCTATTCTCTACTC
29415134 ATTTTA
1 ATTTTA
29415140 AAGAATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.15, C:0.20, G:0.05, T:0.60
Consensus pattern (26 bp):
ATTTTACTTCTGTCTATTCTCTACTC
Found at i:29434374 original size:21 final size:21
Alignment explanation
Indices: 29434345--29434462 Score: 96
Period size: 21 Copynumber: 5.7 Consensus size: 21
29434335 GTTTAACTTA
*
29434345 TATGAGTTTCTGTTCAACCCT
1 TATGGGTTTCTGTTCAACCCT
* * * *
29434366 GATGGGTTTCCGTTCAGCTCCA
1 TATGGGTTTCTGTTCAAC-CCT
* * * *
29434388 T-TGAGCTTC-GTTTAACCTT
1 TATGGGTTTCTGTTCAACCCT
* *
29434407 TATGGGTTTCTGTTCAGCTCT
1 TATGGGTTTCTGTTCAACCCT
* *
29434428 TATGAGCTTCTGTTCAACCCT
1 TATGGGTTTCTGTTCAACCCT
29434449 TATGGGTTTCTGTT
1 TATGGGTTTCTGTT
29434463 TAGCACTTAT
Statistics
Matches: 70, Mismatches: 24, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
19 2 0.03
20 11 0.16
21 55 0.79
22 2 0.03
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (21 bp):
TATGGGTTTCTGTTCAACCCT
Found at i:29434471 original size:21 final size:21
Alignment explanation
Indices: 29434406--29434487 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 21
29434396 CGTTTAACCT
*
29434406 TTATGGGTTTCTGTTCAGCTC
1 TTATGGGTTTCTGTTCAGCAC
* * * *
29434427 TTATGAGCTTCTGTTCAACCC
1 TTATGGGTTTCTGTTCAGCAC
*
29434448 TTATGGGTTTCTGTTTAGCAC
1 TTATGGGTTTCTGTTCAGCAC
***
29434469 TTATGTACTTCTGTTCAGC
1 TTATGGGTTTCTGTTCAGC
29434488 CTTCGGGCTT
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.45
Consensus pattern (21 bp):
TTATGGGTTTCTGTTCAGCAC
Found at i:29434472 original size:42 final size:42
Alignment explanation
Indices: 29434345--29434485 Score: 171
Period size: 42 Copynumber: 3.4 Consensus size: 42
29434335 GTTTAACTTA
* * *
29434345 TATGAGTTTCTGTTCAACCCTGATGGGTTTCCGTTCAGCTC-
1 TATGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCT
* * *
29434386 CATTGAGCTTC-GTTTAACCTTTATGGGTTTCTGTTCAGCTCT
1 TA-TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCT
* *
29434428 TATGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTTAGCACT
1 TATGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCT
29434470 TATGTA-CTTCTGTTCA
1 TATG-AGCTTCTGTTCA
29434486 GCCTTCGGGC
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
41 35 0.41
42 49 0.58
43 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (42 bp):
TATGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCT
Found at i:29455938 original size:201 final size:201
Alignment explanation
Indices: 29455271--29456261 Score: 1377
Period size: 201 Copynumber: 5.0 Consensus size: 201
29455261 GCGGTGATCT
* * * * * **
29455271 TAACTGCTCCATTCTACTAATATCTTCCCTAATTGG-CAACTCGGCAGCTGGAGCAGTGAGAATT
1 TAACTGCTCCGTTCTACCAATATCTT-CCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACC
** * * * ** * *
29455335 ACAGTCTTGCGTCTATTCTTCCTCAAGGGGGATTGGTGTTGTGAAGTA-ATGGCAGACTTGGCCC
65 ACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCT-GCATACTTGGCCC
* ** * * * ** *
29455399 TCTCAACCTCACTCCTATCTTGTACAATTGCATCCACTTCTTCAGTTGTGCCTTTTCCTTGAAGC
129 TCTCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACC
29455464 GGTGCCT-
194 GGTGCCTC
* * * * *
29455471 TCAACTGCTCCGTACTACCAATATCTTCCTTATTTGCTAAATCTGCAGCTGGAGCAGTAAGAATC
1 T-AACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACC
*
29455536 ACAGTCTTGCGTCTGTTCCTCCTCGAGGGGGCTTC---TTGT----T-G-TGC---CTTGGCCCT
65 ACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCT
* * * * *
29455589 CTCAACCTCACTACTATCTTCCACAATCGCATCCAGTTCTTCAGTCGTGCCTTTTCCTACAAGCG
130 CTCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCG
29455654 GTGCCTC
195 GTGCCTC
29455661 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
1 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
* * *
29455726 CAGTTTTGCGTCTGCCCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGTCCTC
66 CAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCTC
*
29455791 TCGACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCGG
131 TCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCGG
29455856 TGCCTC
196 TGCCTC
*
29455862 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTTAGAACCA
1 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
*
29455927 CAGTTTTGCGTCTGC-CCTTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCT
66 CAGTCTTGCGTCTGCTCC-TCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCT
* *
29455991 CTCGACCTCACTACTATCTTCAACAATTGCATCCAGTTCTTCAGTCGTGCCTTTCCCTACAACCG
130 CTCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCG
29456056 GTGCCTC
195 GTGCCTC
*
29456063 TAACTGCTCCGTTCTACCAATATCTACCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
1 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
29456128 CAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCTC
66 CAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCTC
* * *
29456193 TCAACCTCACTACTGTCTTCAACAATTGCATCCAATTCTTCAGTCGAGCCCTTT-CCTCCAACCG
131 TCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTG-CCTTTCCCTACAACCG
*
29456257 ATGCC
195 GTGCC
29456262 AAATCGGAAG
Statistics
Matches: 722, Mismatches: 50, Indels: 37
0.89 0.06 0.05
Matches are distributed among these distances:
189 162 0.22
190 1 0.00
192 6 0.01
193 1 0.00
194 1 0.00
196 1 0.00
197 1 0.00
198 7 0.01
200 10 0.01
201 525 0.73
202 7 0.01
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.31
Consensus pattern (201 bp):
TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
CAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCTC
TCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCGG
TGCCTC
Found at i:29456309 original size:162 final size:162
Alignment explanation
Indices: 29456097--29456392 Score: 486
Period size: 162 Copynumber: 1.8 Consensus size: 162
29456087 TACCTTATTG
* *
29456097 GCCAAATCGGCAGCTGGAGCAGTAAGAACCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTC
1 GCCAAATCGGAAGCTAGAGCAGTAAGAACCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTC
* * * *
29456162 TTGTTGTGAAGTAGCTG-CATACTTGGCCCTCTCAACCTCACTACTGTCTTCAACAATTGCATCC
66 TTGTTGTGAAGTAAC-GACACACTTGACCCTCTCAACCTCACTACTCTCTTCAACAATTGCATCC
29456226 AATTCTTCAGTCGAGCCCTTTCCTCCAACCGAT
130 AATTCTTCAGTCGAGCCCTTTCCTCCAACCGAT
* *
29456259 GCCAAATCGGAAGCTAGAGCGGTAAGAGCCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTC
1 GCCAAATCGGAAGCTAGAGCAGTAAGAACCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTC
* *
29456324 TTGTTGTGAAGTAACGACACACTTGACCTTCTCAACCTCACTACTCTCTTCAACAATTGCCTCCA
66 TTGTTGTGAAGTAACGACACACTTGACCCTCTCAACCTCACTACTCTCTTCAACAATTGCATCCA
29456389 ATTC
131 ATTC
29456393 AGCACTCCTG
Statistics
Matches: 123, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
161 1 0.01
162 122 0.99
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (162 bp):
GCCAAATCGGAAGCTAGAGCAGTAAGAACCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTC
TTGTTGTGAAGTAACGACACACTTGACCCTCTCAACCTCACTACTCTCTTCAACAATTGCATCCA
ATTCTTCAGTCGAGCCCTTTCCTCCAACCGAT
Found at i:29459108 original size:27 final size:28
Alignment explanation
Indices: 29459068--29459124 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
29459058 AATATTATAT
*
29459068 TTAATATTTGAATAATT-TAGTTAAAAAA
1 TTAATATTTAAAT-ATTATAGTTAAAAAA
*
29459096 TTAA-ATTTAAATATTATATTTAAAAAA
1 TTAATATTTAAATATTATAGTTAAAAAA
29459123 TT
1 TT
29459125 TTAACCTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 3 0.12
27 19 0.73
28 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
TTAATATTTAAATATTATAGTTAAAAAA
Found at i:29462136 original size:12 final size:12
Alignment explanation
Indices: 29462119--29462143 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29462109 TGTAGATTTC
29462119 TAAAAATGGAAA
1 TAAAAATGGAAA
29462131 TAAAAATGGAAA
1 TAAAAATGGAAA
29462143 T
1 T
29462144 GATCCATTTG
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:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (12 bp):
TAAAAATGGAAA
Found at i:29462319 original size:26 final size:26
Alignment explanation
Indices: 29462290--29462346 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
29462280 ACATATTTTC
29462290 TCAAAAATTTACCA-GAGGCAAAATCG
1 TCAAAAATTTACCATG-GGCAAAATCG
* *
29462316 TCAAAATTTTACCATGGGTAAAATCG
1 TCAAAAATTTACCATGGGCAAAATCG
29462342 TCAAA
1 TCAAA
29462347 TTTTTGGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 27 0.96
27 1 0.04
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.25
Consensus pattern (26 bp):
TCAAAAATTTACCATGGGCAAAATCG
Found at i:29465006 original size:11 final size:11
Alignment explanation
Indices: 29464990--29465014 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
29464980 TAAGCCTTGC
29464990 TTCTTTTTTTT
1 TTCTTTTTTTT
29465001 TTCTTTTTTTT
1 TTCTTTTTTTT
29465012 TTC
1 TTC
29465015 ATATTTTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:29470950 original size:64 final size:64
Alignment explanation
Indices: 29470876--29471020 Score: 186
Period size: 64 Copynumber: 2.2 Consensus size: 64
29470866 AGATGATAAA
* *
29470876 TTTTTAGAATTAAAACTAAATTGAA-AATTTTTGTAAATATTGAGGGCTAAATTTATTATTA-TT
1 TTTTTAGAATTAAAACTAAA--GAATAAATTTTGTAAAGATTGAGGGCTAAATTTATTATTATTT
29470939 T
64 T
* * *
29470940 TTTTTAGAATTTAAATTAAAGAATTAAATTTTGTAAAGATTGAGGGCTACATTTATTATTATTTT
1 TTTTTAGAATTAAAACTAAAGAA-TAAATTTTGTAAAGATTGAGGGCTAAATTTATTATTATTTT
29471005 TATATTTAGAATTAAA
1 T-T-TTTAGAATTAAA
29471021 TTAATAGAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
62 3 0.04
64 51 0.73
65 4 0.06
66 1 0.01
67 11 0.16
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (64 bp):
TTTTTAGAATTAAAACTAAAGAATAAATTTTGTAAAGATTGAGGGCTAAATTTATTATTATTTT
Found at i:29471036 original size:61 final size:61
Alignment explanation
Indices: 29470906--29471062 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 61
29470896 TTGAAAATTT
29470906 TTGTAAATATTGAGGGCTAAATTTATTATTATTTTTTTTAGAATTTAAATTAAAGAATTAAA
1 TTGTAAATATTGAGGGCTAAATTTATTATTATTTTTTTTAGAATTTAAATTAAAGAATT-AA
* *
29470968 TTTTGTAAAGATTGAGGGCTACATTTATTATTATTTTTATATTTAGAA-TTAAATTAATAGAA-T
1 --TTGTAAATATTGAGGGCTAAATTTATTATTA-TTTT-T-TTTAGAATTTAAATTAA-AGAATT
29471031 -A
60 AA
* * *
29471032 -TGTAAATATTAGAGGGTTAAACTTGTTATTA
1 TTGTAAATATT-GAGGGCTAAATTTATTATTA
29471063 AATTTCCATC
Statistics
Matches: 81, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
61 9 0.11
62 16 0.20
64 30 0.37
65 4 0.05
66 11 0.14
67 11 0.14
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (61 bp):
TTGTAAATATTGAGGGCTAAATTTATTATTATTTTTTTTAGAATTTAAATTAAAGAATTAA
Found at i:29482400 original size:22 final size:23
Alignment explanation
Indices: 29482357--29482400 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
29482347 TTATAATTCA
*
29482357 ATATGTATATGAATTGTATGATG
1 ATATGTATATGAATAGTATGATG
29482380 ATATG-ATATGAAATAGT-TGAT
1 ATATGTATATG-AATAGTATGAT
29482401 ATTAATTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (23 bp):
ATATGTATATGAATAGTATGATG
Found at i:29482708 original size:37 final size:37
Alignment explanation
Indices: 29482613--29482766 Score: 139
Period size: 37 Copynumber: 4.2 Consensus size: 37
29482603 CCTGTTTTGA
* * * *
29482613 CGTGTTATCGAGTGAATTAGCTCTTATGAGCATTTGG
1 CGTGTTATCGGGTGGATTAGCTCTTACGAGCAATTGG
* * * ** *
29482650 CATGTTTTTGATTGGACTAGCTCTT-CAGAGCAATTGG
1 CGTGTTATCGGGTGGATTAGCTCTTAC-GAGCAATTGG
* * *
29482687 CGTGTTATCGGGTTGATTAGCTCTTACGAGAAATTGA
1 CGTGTTATCGGGTGGATTAGCTCTTACGAGCAATTGG
* * * *
29482724 CGTGTTATCTGGTGGTTTAGCTCTTATGAGCGATTGG
1 CGTGTTATCGGGTGGATTAGCTCTTACGAGCAATTGG
29482761 CGTGTT
1 CGTGTT
29482767 TCAGTTAGAT
Statistics
Matches: 91, Mismatches: 24, Indels: 4
0.76 0.20 0.03
Matches are distributed among these distances:
37 90 0.99
38 1 0.01
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.38
Consensus pattern (37 bp):
CGTGTTATCGGGTGGATTAGCTCTTACGAGCAATTGG
Found at i:29488832 original size:16 final size:16
Alignment explanation
Indices: 29488808--29488877 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
29488798 TTTGGTTCGC
*
29488808 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
29488824 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
29488840 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
29488856 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
29488872 CGTAAT
1 TGTAAT
29488878 AGCAATTCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:29498561 original size:42 final size:43
Alignment explanation
Indices: 29498460--29498572 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
29498450 AGCTCGTATA
* **
29498460 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATAAAATCAAATATCG
* *
29498503 ATGCCATTGTCCCAGACAGGGTCTTACATAAAATCATATAT-G
1 ATGCCAATGTCCCAGACAGGGTCTTACATAAAATCAAATATCG
* *
29498545 ATGCCAATATCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACAGGGTCTTACA
29498573 CGTAAATCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 26 0.43
43 34 0.56
44 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATAAAATCAAATATCG
Found at i:29502583 original size:15 final size:17
Alignment explanation
Indices: 29502551--29502585 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
29502541 TACGGGTGGC
29502551 CACATGGGCGTGTGCCA
1 CACATGGGCGTGTGCCA
29502568 CACATGGGCG-GT-CCA
1 CACATGGGCGTGTGCCA
29502583 CAC
1 CAC
29502586 TGCCGTGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 2 0.11
17 10 0.56
ACGTcount: A:0.20, C:0.34, G:0.31, T:0.14
Consensus pattern (17 bp):
CACATGGGCGTGTGCCA
Found at i:29507006 original size:20 final size:19
Alignment explanation
Indices: 29506979--29507040 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
29506969 ATTATTTTAT
29506979 TTTTTTGAGTTTCTATTAA
1 TTTTTTGAGTTTCTATTAA
* *
29506998 TTTTATTGA-TTTTTA-AAA
1 TTTT-TTGAGTTTCTATTAA
*
29507016 TTTTTTAAAAGTTTCTATTAA
1 TTTTTT--GAGTTTCTATTAA
29507037 TTTT
1 TTTT
29507041 CATATTATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 2 0.06
18 6 0.18
19 10 0.30
20 9 0.27
21 6 0.18
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.63
Consensus pattern (19 bp):
TTTTTTGAGTTTCTATTAA
Found at i:29509249 original size:29 final size:27
Alignment explanation
Indices: 29509216--29509269 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
29509206 CATGTGGGTC
29509216 AAAAATAAAAATAAAATGATTATTTTTTG
1 AAAAATAAAAATAAAA--ATTATTTTTTG
* *
29509245 AAAAATATAAATATAAATTATTTTT
1 AAAAATAAAAATAAAAATTATTTTT
29509270 AATAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
29 14 0.61
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (27 bp):
AAAAATAAAAATAAAAATTATTTTTTG
Found at i:29513579 original size:14 final size:15
Alignment explanation
Indices: 29513553--29513581 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
29513543 GCTTCATCAT
29513553 CTTCTTCTTCCTCTG
1 CTTCTTCTTCCTCTG
29513568 CTTCTT-TTCCTCTG
1 CTTCTTCTTCCTCTG
29513582 GTTTTTGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.00, C:0.38, G:0.07, T:0.55
Consensus pattern (15 bp):
CTTCTTCTTCCTCTG
Found at i:29517314 original size:20 final size:19
Alignment explanation
Indices: 29517288--29517338 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
29517278 TTGGAGCAGG
* *
29517288 AATATCGATGCCTTAGGAA
1 AATATCGATACCTTAAGAA
29517307 ATATATCGATACCTTAAGAA
1 A-ATATCGATACCTTAAGAA
29517327 AAGTATCGATAC
1 AA-TATCGATAC
29517339 TGGATCGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (19 bp):
AATATCGATACCTTAAGAA
Found at i:29518073 original size:13 final size:13
Alignment explanation
Indices: 29518055--29518091 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
29518045 TTGGATAGTA
29518055 AAAAATATTATTT
1 AAAAATATTATTT
*
29518068 -AAAA-ATTAATT
1 AAAAATATTATTT
29518079 AAAAATATTATTT
1 AAAAATATTATTT
29518092 CAAATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAAAATATTATTT
Found at i:29519915 original size:24 final size:24
Alignment explanation
Indices: 29519873--29519935 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
29519863 CAATTAACGG
29519873 GAAGCTCACGAAGAGTCATAATCGA
1 GAAGCTCAC-AAGAGTCATAATCGA
*
29519898 GAAGCTCACAAGAGTCATAATCGG
1 GAAGCTCACAAGAGTCATAATCGA
*
29519922 GAAGCTCATAAGAG
1 GAAGCTCACAAGAG
29519936 CTGTGGTGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 27 0.75
25 9 0.25
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.16
Consensus pattern (24 bp):
GAAGCTCACAAGAGTCATAATCGA
Found at i:29520401 original size:21 final size:21
Alignment explanation
Indices: 29520377--29520419 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
29520367 TAAATTTAAC
*
29520377 TCAATTTAATACAATTCATAT
1 TCAATTCAATACAATTCATAT
*
29520398 TCAATTCAATCCAATTCATAT
1 TCAATTCAATACAATTCATAT
29520419 T
1 T
29520420 TTAGGCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (21 bp):
TCAATTCAATACAATTCATAT
Found at i:29522198 original size:9 final size:9
Alignment explanation
Indices: 29522151--29522199 Score: 64
Period size: 10 Copynumber: 5.3 Consensus size: 9
29522141 TTCAAATAAT
29522151 TAAAAAA-A
1 TAAAAAATA
29522159 TAAAAAATA
1 TAAAAAATA
29522168 TTAAAAAATA
1 -TAAAAAATA
29522178 TACAAAAATA
1 TA-AAAAATA
*
29522188 TAAAAATTA
1 TAAAAAATA
29522197 TAA
1 TAA
29522200 GAACATAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
8 7 0.19
9 12 0.32
10 18 0.49
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (9 bp):
TAAAAAATA
Found at i:29522198 original size:19 final size:20
Alignment explanation
Indices: 29522144--29522198 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
29522134 GATGGTTTTC
29522144 AAATAATTAAAAAA-ATA-AA
1 AAAT-ATTAAAAAATATACAA
29522163 AAATATTAAAAAATATACAA
1 AAATATTAAAAAATATACAA
*
29522183 AAATA-TAAAAATTATA
1 AAATATTAAAAAATATA
29522199 AGAACATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 9 0.27
19 17 0.52
20 7 0.21
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (20 bp):
AAATATTAAAAAATATACAA
Found at i:29522944 original size:18 final size:18
Alignment explanation
Indices: 29522921--29522957 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
29522911 TCTTTCTCCT
29522921 TATATATAAAACAAAGGA
1 TATATATAAAACAAAGGA
*
29522939 TATATATAAAAGAAAGGA
1 TATATATAAAACAAAGGA
29522957 T
1 T
29522958 GGTATGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.14, T:0.24
Consensus pattern (18 bp):
TATATATAAAACAAAGGA
Found at i:29526353 original size:15 final size:15
Alignment explanation
Indices: 29526333--29526365 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
29526323 TAAAAGTAAA
29526333 ATTATGGAAGTTAAT
1 ATTATGGAAGTTAAT
29526348 ATTATGGAAGTTAAT
1 ATTATGGAAGTTAAT
29526363 ATT
1 ATT
29526366 GTACGGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (15 bp):
ATTATGGAAGTTAAT
Found at i:29533621 original size:13 final size:13
Alignment explanation
Indices: 29533603--29533628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29533593 TTGGATCCAT
29533603 ACCAAAACAATCA
1 ACCAAAACAATCA
29533616 ACCAAAACAATCA
1 ACCAAAACAATCA
29533629 TGATACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:29537728 original size:21 final size:20
Alignment explanation
Indices: 29537690--29537728 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
29537680 GGAAATTTAA
*
29537690 GAAAAGAAAATGACTAAATT
1 GAAAAGAAAATAACTAAATT
*
29537710 GAAAAGAGAAATAATTAAA
1 GAAAAGA-AAATAACTAAA
29537729 GATGATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.64, C:0.03, G:0.15, T:0.18
Consensus pattern (20 bp):
GAAAAGAAAATAACTAAATT
Found at i:29538659 original size:25 final size:24
Alignment explanation
Indices: 29538625--29538743 Score: 80
Period size: 25 Copynumber: 4.8 Consensus size: 24
29538615 CAAATCTTAT
* *
29538625 GAGCGTCCCGATAATAGGCTTTCA
1 GAGCTTCCCGATAATTGGCTTTCA
* * * *
29538649 CGAGCTTCCCGTTATTTGGCTCTCTG
1 -GAGCTTCCCGATAATTGGCTTTC-A
** * *
29538675 GAGCTTCTTGATAATTGACTTTTA
1 GAGCTTCCCGATAATTGGCTTTCA
*
29538699 TGAGCTTCTCGATTAA-TGGCTCTTCA
1 -GAGCTTCCCGA-TAATTGGCT-TTCA
29538725 GAGCTTCCCGAT-ATTGGCT
1 GAGCTTCCCGATAATTGGCT
29538744 CATATGAGCT
Statistics
Matches: 71, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
23 1 0.01
24 6 0.08
25 58 0.82
26 6 0.08
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (24 bp):
GAGCTTCCCGATAATTGGCTTTCA
Found at i:29538752 original size:24 final size:25
Alignment explanation
Indices: 29538697--29538826 Score: 85
Period size: 25 Copynumber: 5.3 Consensus size: 25
29538687 AATTGACTTT
* *
29538697 TATGAGCTTCTCGATTAATGGCTCT
1 TATGAGCTTCCCGATTAATGGCTCA
*
29538722 TCA-GAGCTTCCCGA-TATTGGCTCA
1 T-ATGAGCTTCCCGATTAATGGCTCA
* *
29538746 TATGAGCTTCTCG-TTAACGGCTC-
1 TATGAGCTTCCCGATTAATGGCTCA
*
29538769 TCCA-GAGCTTCCC-ATGTCATGGCTCA
1 T--ATGAGCTTCCCGAT-TAATGGCTCA
* * *
29538795 CATGAGCTTCCC-ATTTATGTGCTCT
1 TATGAGCTTCCCGATTAATG-GCTCA
29538820 TATGAGC
1 TATGAGC
29538827 ATTCTCGAAT
Statistics
Matches: 82, Mismatches: 13, Indels: 20
0.71 0.11 0.17
Matches are distributed among these distances:
23 2 0.02
24 39 0.48
25 40 0.49
26 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (25 bp):
TATGAGCTTCCCGATTAATGGCTCA
Found at i:29538792 original size:49 final size:49
Alignment explanation
Indices: 29538697--29538804 Score: 148
Period size: 49 Copynumber: 2.2 Consensus size: 49
29538687 AATTGACTTT
* *
29538697 TATGAGCTTCTCGATTAATGGCTCTTCAGAGCTTCCCGATATTGGCTCA
1 TATGAGCTTCTCGATTAACGGCTCTCCAGAGCTTCCCGATATTGGCTCA
*
29538746 TATGAGCTTCTCG-TTAACGGCTCTCCAGAGCTTCCC-ATGTCATGGCTCA
1 TATGAGCTTCTCGATTAACGGCTCTCCAGAGCTTCCCGATAT--TGGCTCA
*
29538795 CATGAGCTTC
1 TATGAGCTTC
29538805 CCATTTATGT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
47 3 0.06
48 21 0.40
49 29 0.55
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.32
Consensus pattern (49 bp):
TATGAGCTTCTCGATTAACGGCTCTCCAGAGCTTCCCGATATTGGCTCA
Found at i:29546420 original size:29 final size:29
Alignment explanation
Indices: 29546377--29546436 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
29546367 GGTGGGCCAG
29546377 ACAGGCGTGTGCTTGGCCGTGTAGATCAC
1 ACAGGCGTGTGCTTGGCCGTGTAGATCAC
* *
29546406 ACAGGCGTGTTCTTGGCCGTGTGGATCAC
1 ACAGGCGTGTGCTTGGCCGTGTAGATCAC
29546435 AC
1 AC
29546437 GGGCTAGCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (29 bp):
ACAGGCGTGTGCTTGGCCGTGTAGATCAC
Found at i:29547400 original size:16 final size:16
Alignment explanation
Indices: 29547348--29547400 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 16
29547338 ATAGAAAGTC
29547348 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
29547364 GAAAGATATGGGTATCGA
1 -AAAGATATGGGTATC-A
29547382 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
29547398 AAA
1 AAA
29547401 TCTGAGATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
16 4 0.11
17 30 0.86
18 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.26, T:0.23
Consensus pattern (16 bp):
AAAGATATGGGTATCA
Found at i:29551426 original size:17 final size:17
Alignment explanation
Indices: 29551404--29551453 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
29551394 ATAGAAAGTC
*
29551404 AAAGATATGGGTATTAG
1 AAAGATATGGGTATCAG
*
29551421 AAAGATATGAGTATCAG
1 AAAGATATGGGTATCAG
*
29551438 ATAGATATGGGTATCA
1 AAAGATATGGGTATCA
29551454 AAATCTGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.42, C:0.04, G:0.26, T:0.28
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:29566734 original size:641 final size:641
Alignment explanation
Indices: 29565579--29566768 Score: 1497
Period size: 641 Copynumber: 1.9 Consensus size: 641
29565569 CATTAAGAAA
* * ** *
29565579 TTTTACTGATTACATGTTTAATTTGATGAAATGGAACAAATTGCATAAAGTGTAAAAGTTAAATT
1 TTTTACCGATTACATGTTTAAGTTGATGAAAAAGAACAAATTGCATAAAGTGCAAAAGTTAAATT
* * * *
29565644 CTAGTAGCTAAAGGTACCAATTAGCTATGGAATTCAAAATTGAAGGACCTGATATGGGAAACAGA
66 CTAATAGCTAAAGGGACCAAATAGCTATGGAATTCAAAATTGAAGGACCTGATATGGCAAACAGA
* * * * * *
29565709 CCATTTAGAGGAGTTAGTATATAATGATGATTATTCATCATCGGAAATTTAAGAAAAGTAAAGGG
131 CCATTAAGAGGAGTTAGTAGATAATGATGATGATTCATCATCGAAAATTTAAGAAAAGAAAAGGA
* * * ** * * *
29565774 TTAATTTGAAAAGATGATAAATAATGATGATAAAAGAAATAAATAATTAAATTAAAGTCATTTTC
196 TGAAATTGAAAAGATGATAAATAAAGATGATAAAAGAAATAAATAAACAAAATAAAGTAATATTC
* *** ** *
29565839 ATCATTTTTCCTAAAACAAAATACATAGAAACCCTAGTTTTGATGCTTGAAGATAGACAAGCTTA
261 ATCATCTTTCCTAAAACAAAATACATAGAAACCCTAGCCATGAAACCTGAAGATAGACAAGCTTA
* * * * * * * *
29565904 TTTTGATTAATTAAGTGAGTATTATTATCCTGTTTTTTACTGATTTTTATGTTTCCAAGATAGTT
326 TTTGGATAAATTAAGTAAGTATCATTATCCTGTTTTTTAATGATATCTATGTTTCCAAGATAGTA
* * *
29565969 TTAGCTTAATTTAGCTATCTCGGGGATTAATTTGCAAAACTATTAAAGTGTTAGGATTTTTCCAT
391 ATAGCTTAATCTAGCTATCTCGAGGATTAATTTGCAAAACTATTAAAGTGTTAGGATTTTTCCAT
*
29566034 GGATGAATATAGTTGAATTATGAAGTTTCATGGTAGAAAATGAAAGGTTGGTGATAGATAAACAA
456 GGATGAATATAGATGAATTATGAAGTTTCATGGTAGAAAATGAAAGGTTGGTGATAGATAAACAA
*
29566099 CCTTTGTAAAGAGAATTTTGATGAAATTACCACAAATTTGAGTCTAGATGGAAACTTATTTTAAT
521 CCTTTGTAAAGAGAATTTTGATAAAATTACCACAAATTTGAGTCTAGATGGAAACTTATTTTAAT
29566164 ATTATTTCATGGTCTGCATTATGATTGAAATGTCGTATGAAAATTTCGTAAAATTT
586 ATTATTTCATGGTCTGCATTATGATTGAAATGTCGTATGAAAATTTCGTAAAATTT
* **
29566220 TTTTACCGATTACATGTTTAAGTTGATGAAAAAGACCAAATTGCATAAAGTGCAAAAGTTGGATT
1 TTTTACCGATTACATGTTTAAGTTGATGAAAAAGAACAAATTGCATAAAGTGCAAAAGTTAAATT
* * * * *
29566285 CTAATAGCTAAAGGGATCAAATAGCTATGGAATTCAAAATTGGAGGTCCTTATATGGCAAATAGA
66 CTAATAGCTAAAGGGACCAAATAGCTATGGAATTCAAAATTGAAGGACCTGATATGGCAAACAGA
*
29566350 CCATTAAGAGGAGTTAGTAGATAA-GTATGATGATTCATCATTCGAAAATTTAA-TAAAGAAAAG
131 CCATTAAGAGGAGTTAGTAGATAATG-ATGATGATTCATCA-TCGAAAATTTAAGAAAAGAAAAG
* *
29566413 GATGAAATTGAAAAGATGAAATAAATAAAGATGAT-AAA-TAATAAAATAAAACAAAATACCA-T
194 GATGAAATTGAAAAGATG--ATAAATAAAGATGATAAAAGAAAT-AAAT-AAACAAAATA-AAGT
** * * * *
29566475 AATATT-ATCATCTTTCCTAAATTAGAA-AGATGGAAACCCTAGCCATGAAAACCT-AAGTTCA-
254 AATATTCATCATCTTTCCTAAAACAAAATACATAGAAACCCTAGCCATG-AAACCTGAAGAT-AG
* ** *
29566536 AGCAAGCTTATTTGGCTAAATTGGGTAAGTATCATTGT-CTCG-TTTTTAATGATATCTATGTTT
317 A-CAAGCTTATTTGGATAAATTAAGTAAGTATCATTATCCT-GTTTTTTAATGATATCTATGTTT
* * * **
29566599 TCGAGATCGTAATAGCTTAATCTAGCTATCTCGAGGATTAATTTGCAAAGTTATTAAAGTGTTAA
380 CCAAGATAGTAATAGCTTAATCTAGCTATCTCGAGGATTAATTTGCAAAACTATTAAAGTGTT-A
* * * *
29566664 GG-TTTTTCTATGGATGAGTAT-GCATGAATTATGAAGTTTTATGGTAGAAAATGAAAGGTTGTT
444 GGATTTTTCCATGGATGAATATAG-ATGAATTATGAAGTTTCATGGTAGAAAATGAAAGGTTGGT
* *
29566727 GATAGATAAACAACTTTTGTAAAGGGAATTTTGATAAAATTA
508 GATAGATAAACAACCTTTGTAAAGAGAATTTTGATAAAATTA
29566769 TGATTTAGGG
Statistics
Matches: 461, Mismatches: 75, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
640 2 0.00
641 361 0.78
642 71 0.15
643 26 0.06
644 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (641 bp):
TTTTACCGATTACATGTTTAAGTTGATGAAAAAGAACAAATTGCATAAAGTGCAAAAGTTAAATT
CTAATAGCTAAAGGGACCAAATAGCTATGGAATTCAAAATTGAAGGACCTGATATGGCAAACAGA
CCATTAAGAGGAGTTAGTAGATAATGATGATGATTCATCATCGAAAATTTAAGAAAAGAAAAGGA
TGAAATTGAAAAGATGATAAATAAAGATGATAAAAGAAATAAATAAACAAAATAAAGTAATATTC
ATCATCTTTCCTAAAACAAAATACATAGAAACCCTAGCCATGAAACCTGAAGATAGACAAGCTTA
TTTGGATAAATTAAGTAAGTATCATTATCCTGTTTTTTAATGATATCTATGTTTCCAAGATAGTA
ATAGCTTAATCTAGCTATCTCGAGGATTAATTTGCAAAACTATTAAAGTGTTAGGATTTTTCCAT
GGATGAATATAGATGAATTATGAAGTTTCATGGTAGAAAATGAAAGGTTGGTGATAGATAAACAA
CCTTTGTAAAGAGAATTTTGATAAAATTACCACAAATTTGAGTCTAGATGGAAACTTATTTTAAT
ATTATTTCATGGTCTGCATTATGATTGAAATGTCGTATGAAAATTTCGTAAAATTT
Found at i:29571269 original size:24 final size:24
Alignment explanation
Indices: 29571200--29571277 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
29571190 ATGAGTTTTT
29571200 CGATAATTGGCTCTCATGAGCTTCC
1 CGAT-ATTGGCTCTCATGAGCTTCC
* **
29571225 C-ATTTAATGGCTCTCCGGAGCTTCC
1 CGA--TATTGGCTCTCATGAGCTTCC
*
29571250 CGATATTGGCTCGCATGAGCTTCC
1 CGATATTGGCTCTCATGAGCTTCC
29571274 CGAT
1 CGAT
29571278 TACGGGTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
24 22 0.51
25 19 0.44
26 2 0.05
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.31
Consensus pattern (24 bp):
CGATATTGGCTCTCATGAGCTTCC
Found at i:29574274 original size:14 final size:14
Alignment explanation
Indices: 29574255--29574298 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
29574245 GAATTAAAAG
29574255 AAGGCATTACGGAA
1 AAGGCATTACGGAA
*
29574269 AAGGCATTACGGAG
1 AAGGCATTACGGAA
*
29574283 AAGGCAATTAAGGAA
1 AAGGC-ATTACGGAA
29574298 A
1 A
29574299 GCAATAAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.45, C:0.11, G:0.30, T:0.14
Consensus pattern (14 bp):
AAGGCATTACGGAA
Found at i:29589297 original size:20 final size:20
Alignment explanation
Indices: 29589272--29589310 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
29589262 TACTTTCTTC
29589272 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
29589292 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
29589311 AAAGAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:29595798 original size:26 final size:27
Alignment explanation
Indices: 29595749--29595860 Score: 190
Period size: 27 Copynumber: 4.2 Consensus size: 27
29595739 AATAGTTATC
*
29595749 TTACCCTATGAGGGTATTTTGGTCATT
1 TTACCCTATGAGGGTATTTCGGTCATT
29595776 TTACCCTATG-GGGTATTTCGGTCATT
1 TTACCCTATGAGGGTATTTCGGTCATT
*
29595802 TTACCCTATGAGGGTATTTCGATCATT
1 TTACCCTATGAGGGTATTTCGGTCATT
*
29595829 TTACCCTATGGGGGTATTTCGGTCATT
1 TTACCCTATGAGGGTATTTCGGTCATT
29595856 TTACC
1 TTACC
29595861 TATTTTGGGG
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 25 0.31
27 55 0.69
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (27 bp):
TTACCCTATGAGGGTATTTCGGTCATT
Found at i:29595806 original size:53 final size:54
Alignment explanation
Indices: 29595749--29595860 Score: 199
Period size: 53 Copynumber: 2.1 Consensus size: 54
29595739 AATAGTTATC
* *
29595749 TTACCCTATGAGGGTATTTTGGTCATTTTACCCTAT-GGGGTATTTCGGTCATT
1 TTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATT
29595802 TTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATT
1 TTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATT
29595856 TTACC
1 TTACC
29595861 TATTTTGGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
53 34 0.61
54 22 0.39
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (54 bp):
TTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATT
Found at i:29611309 original size:29 final size:29
Alignment explanation
Indices: 29611203--29611675 Score: 96
Period size: 31 Copynumber: 15.6 Consensus size: 29
29611193 ACGAGGATGT
*
29611203 CGAATTGGATTTGTATATGATTATACATTGC
1 CGAATT-GATTCGTATATGA-TATACATTGC
* *
29611234 CGAACTTGATTCTTGTATGGATATACATTGC
1 CGAA-TTGATTCGTATAT-GATATACATTGC
* * *
29611265 CAAATTG-TTTGTTATATGATATA-AGTTGT
1 CGAATTGATTCG-TATATGATATACA-TTGC
* * *
29611294 CGAATTGATTCGTATATGGTTGTACCTTGC
1 CGAATTGATTCGTATAT-GATATACATTGC
* * * * * * *
29611324 TGAAATTAATTTGTACATGGTTATATATTGT
1 CG-AATTGATTCGTATAT-GATATACATTGC
**
29611355 CGATATTGAATT-GCT-TATGAATATTGGA-TGC
1 CGA-ATTG-ATTCG-TATATG-ATA-TACATTGC
* * *
29611386 TGAATTGGATTTC-TATTTGATTATACATTTC
1 CGAATT-GA-TTCGTATATGA-TATACATTGC
* * *
29611417 CGAACTTGATTCGTGTATGGTTATACATTGT
1 CGAA-TTGATTCGTATAT-GATATACATTGC
*
29611448 CGAATTG-TTTGTTATATGGATATA-AGTTGC
1 CGAATTGATTCG-TATAT-GATATACA-TTGC
* * * *
29611478 TGAATTGATTAGTATATGATTGTACCTTGC
1 CGAATTGATTCGTATATGA-TATACATTGC
* * * * *
29611508 TGAAATTAATTTGTACATGGTTATATATCATT-T
1 CG-AATTGATTCGTATAT-G--ATATA-CATTGC
* *
29611541 TGAATTG--T--T-TATGAATATAGGA-TGC
1 CGAATTGATTCGTATATG-ATATA-CATTGC
* **
29611566 CGAATTGGATTTGTATATGATTATACATTTT
1 CGAATT-GATTCGTATATGA-TATACATTGC
* *
29611597 CGAACTTGATTCGTGTATGGTTATACATTGC
1 CGAA-TTGATTCGTATAT-GATATACATTGC
* * *
29611628 CAAATTGTTTGGTATATGAATATA-AGTTGC
1 CGAATTGATTCGTATATG-ATATACA-TTGC
* *
29611658 TGAATTGATTCATATATG
1 CGAATTGATTCGTATATG
29611676 GTTGTACATT
Statistics
Matches: 318, Mismatches: 79, Indels: 91
0.65 0.16 0.19
Matches are distributed among these distances:
24 1 0.00
25 11 0.03
26 2 0.01
27 2 0.01
28 3 0.01
29 30 0.09
30 102 0.32
31 137 0.43
32 21 0.07
33 5 0.02
34 4 0.01
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (29 bp):
CGAATTGATTCGTATATGATATACATTGC
Found at i:29611473 original size:184 final size:183
Alignment explanation
Indices: 29611139--29611810 Score: 933
Period size: 180 Copynumber: 3.7 Consensus size: 183
29611129 ATATACATTT
* *
29611139 CTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTACGAATACGAGGATGTC
1 CTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATA-TAGGATGT-
* *
29611204 GAATTGGATTTGTATATGATTATACATTGCCGAACTTGATTCTTGTATGGATATACATTGCCAAA
64 GAATTGGATTTGTATATGATTATACATTGCCGAACTTGATTCGTGTATGGTTATACATTGCCAAA
29611269 TTGTTTGTTATAT-GATATAAGTTG-TCGAATTGATTCGTATATGGTTGTACCTTG
129 TTGTTTGTTATATGGATATAAGTTGCT-GAATTGATTCGTATATGGTTGTACCTTG
* * *
29611323 CTGAAATTAATTTGTACATGGTTATATATTGTCGATATTGAATTGCTTATGAATATTGGATGCTG
1 CTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATG-TG
* * * * *
29611388 AATTGGATTTCTATTTGATTATACATTTCCGAACTTGATTCGTGTATGGTTATACATTGTCGAAT
65 AATTGGATTTGTATATGATTATACATTGCCGAACTTGATTCGTGTATGGTTATACATTGCCAAAT
* *
29611453 TGTTTGTTATATGGATATAAGTTGCTGAATTGATTAGTATATGATTGTACCTTG
130 TGTTTGTTATATGGATATAAGTTGCTGAATTGATTCGTATATGGTTGTACCTTG
* * *
29611507 CTGAAATTAATTTGTACATGGTTATATA---TC-ATTTTGAATTGTTTATGAATATAGGATGCCG
1 CTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATG-TG
**
29611568 AATTGGATTTGTATATGATTATACATTTTCGAACTTGATTCGTGTATGGTTATACATTGCCAAAT
65 AATTGGATTTGTATATGATTATACATTGCCGAACTTGATTCGTGTATGGTTATACATTGCCAAAT
* * * *
29611633 TGTTTGGTATATGAATATAAGTTGCTGAATTGATTCATATATGGTTGTACATTG
130 TGTTTGTTATATGGATATAAGTTGCTGAATTGATTCGTATATGGTTGTACCTTG
* *
29611687 CTAAAAGTTAATTCATACATGGTTATATATTGTCGATATTGAATTGTTTATG-A-AT---A----
1 CTGAAA-TTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATGTG
* * *
29611743 AATTGGATTTGTGTATGATTATACATTGCCGAACTTGATTCGTGAATGGTTATACATTGCCGAAT
65 AATTGGATTTGTATATGATTATACATTGCCGAACTTGATTCGTGTATGGTTATACATTGCCAAAT
29611808 TGT
130 TGT
29611811 GGGATATATC
Statistics
Matches: 442, Mismatches: 38, Indels: 25
0.88 0.08 0.05
Matches are distributed among these distances:
175 63 0.14
180 141 0.32
181 22 0.05
183 78 0.18
184 121 0.27
185 17 0.04
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (183 bp):
CTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATGTGA
ATTGGATTTGTATATGATTATACATTGCCGAACTTGATTCGTGTATGGTTATACATTGCCAAATT
GTTTGTTATATGGATATAAGTTGCTGAATTGATTCGTATATGGTTGTACCTTG
Found at i:29626498 original size:86 final size:86
Alignment explanation
Indices: 29626353--29626524 Score: 290
Period size: 86 Copynumber: 2.0 Consensus size: 86
29626343 AATATTTCAT
* *
29626353 AAATCGATTCCCAGCAAGGAGTCGAGGTGCTTGAACCTTTGCGTTAATCAGTTCCTTTTCACAAT
1 AAATCGATTCCCAACAAGGAGTCAAGGTGCTTGAACCTTTGCGTTAATCAGTTCCTTTTCACAAT
*
29626418 TAGCAATTTCGGGACCTATAA
66 TACCAATTTCGGGACCTATAA
* *
29626439 AAATCGATTCCCAACACGGAGTCAAGGTGCTTGAACCTTTGCGTTAATTAGTTCCTTTTCACAAT
1 AAATCGATTCCCAACAAGGAGTCAAGGTGCTTGAACCTTTGCGTTAATCAGTTCCTTTTCACAAT
*
29626504 TACCAATTTCGTGACCTATAA
66 TACCAATTTCGGGACCTATAA
29626525 CAGCTACACC
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 80 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (86 bp):
AAATCGATTCCCAACAAGGAGTCAAGGTGCTTGAACCTTTGCGTTAATCAGTTCCTTTTCACAAT
TACCAATTTCGGGACCTATAA
Found at i:29638932 original size:44 final size:44
Alignment explanation
Indices: 29638884--29638971 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
29638874 ATTATGATAC
29638884 GAAGATATTTTTAATTACAAATTTTGATCTTGTGATTTTTTTTA
1 GAAGATATTTTTAATTACAAATTTTGATCTTGTGATTTTTTTTA
29638928 GAAGATATTTTTAATTACAAATTTTGATCTTGTGATTTTTTTTA
1 GAAGATATTTTTAATTACAAATTTTGATCTTGTGATTTTTTTTA
29638972 ATTTCTTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.55
Consensus pattern (44 bp):
GAAGATATTTTTAATTACAAATTTTGATCTTGTGATTTTTTTTA
Found at i:29639931 original size:58 final size:58
Alignment explanation
Indices: 29639841--29639954 Score: 219
Period size: 58 Copynumber: 2.0 Consensus size: 58
29639831 CCCACACACG
29639841 ACATCCACACTGAAGATCATAAATTAGTCTCCATCTAGTGTACAAGACAATTGGGGCA
1 ACATCCACACTGAAGATCATAAATTAGTCTCCATCTAGTGTACAAGACAATTGGGGCA
*
29639899 ACATCCACACTGAAGATCATAAATTAGTCTCCATCTAGTGTAGAAGACAATTGGGG
1 ACATCCACACTGAAGATCATAAATTAGTCTCCATCTAGTGTACAAGACAATTGGGG
29639955 TAGAATCAGG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (58 bp):
ACATCCACACTGAAGATCATAAATTAGTCTCCATCTAGTGTACAAGACAATTGGGGCA
Found at i:29641868 original size:17 final size:17
Alignment explanation
Indices: 29641846--29641882 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
29641836 AAAAAAAGTA
29641846 TATAACTTTATAATGAT
1 TATAACTTTATAATGAT
29641863 TATAACTTTATAATGAT
1 TATAACTTTATAATGAT
29641880 TAT
1 TAT
29641883 TTAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (17 bp):
TATAACTTTATAATGAT
Found at i:29642810 original size:33 final size:34
Alignment explanation
Indices: 29642736--29642810 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 34
29642726 TATATATTTT
*
29642736 TATTTTTTAATTTTAATTTTAAAATACTTTAAAA
1 TATTTTTTTATTTTAATTTTAAAATACTTTAAAA
* *** *
29642770 -ATATTTTTATTTTAATTTTTTTAT-TTTTAAAA
1 TATTTTTTTATTTTAATTTTAAAATACTTTAAAA
29642802 TATTTTTTT
1 TATTTTTTT
29642811 GTGTTTATTA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
32 7 0.21
33 26 0.79
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (34 bp):
TATTTTTTTATTTTAATTTTAAAATACTTTAAAA
Found at i:29651014 original size:13 final size:14
Alignment explanation
Indices: 29650993--29651030 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
29650983 TTTTTTACTA
*
29650993 AAGGAATTAAA-AG
1 AAGGCATTAAAGAG
29651006 AAGGCATTAAAGAG
1 AAGGCATTAAAGAG
29651020 AAGGCAATTAA
1 AAGGC-ATTAA
29651031 GGAAAGCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 7 0.32
15 5 0.23
ACGTcount: A:0.55, C:0.05, G:0.24, T:0.16
Consensus pattern (14 bp):
AAGGCATTAAAGAG
Found at i:29651766 original size:26 final size:26
Alignment explanation
Indices: 29651730--29651783 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
29651720 TTCTTAATTA
29651730 TTTCATTATATACATCCAATGTTCCT
1 TTTCATTATATACATCCAATGTTCCT
* *
29651756 TTTCATTATATACATTCAATGTTGCT
1 TTTCATTATATACATCCAATGTTCCT
29651782 TT
1 TT
29651784 GGCATTTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.50
Consensus pattern (26 bp):
TTTCATTATATACATCCAATGTTCCT
Found at i:29654542 original size:52 final size:52
Alignment explanation
Indices: 29654485--29654590 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
29654475 AGAATTCAAT
* *
29654485 ATCACATCAATTAACAATTATGTACTTATTATTTTGTCAATTCTTTTAAAAC
1 ATCACATCAATTAACAATTATGTACTTATTATTTTATCAATTCGTTTAAAAC
*
29654537 ATCACATCAATTAACAATTATTTACTTATTATTTTATCAATTCGTTTAAAAC
1 ATCACATCAATTAACAATTATGTACTTATTATTTTATCAATTCGTTTAAAAC
29654589 AT
1 AT
29654591 ACTCACATGT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (52 bp):
ATCACATCAATTAACAATTATGTACTTATTATTTTATCAATTCGTTTAAAAC
Found at i:29655625 original size:29 final size:30
Alignment explanation
Indices: 29655566--29655623 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
29655556 TCCAAGCCTT
*
29655566 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
29655596 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
29655624 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:29656052 original size:56 final size:53
Alignment explanation
Indices: 29655961--29656265 Score: 340
Period size: 56 Copynumber: 5.8 Consensus size: 53
29655951 ATTTGGGTAA
*
29655961 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-TAAGA-CATG
* * *
29656017 AGAGGTCCCATTTAAGACCATGTTTAGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-TAAGA-CATG
* * *
29656073 AGAGGTCCTATGTAAGACCATGCCTGGGACATGGCATTGGCACC-GAGAC--G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAAGACATG
* * *
29656123 AGAGGTCCCATGTAAGACCATGTCTGGGACATGTCGTTGGCA-CT--GAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAAGACATG
* * *
29656173 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACC---GATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAAGACATG
** *
29656223 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
29656266 TGTTACGATC
Statistics
Matches: 219, Mismatches: 25, Indels: 15
0.85 0.10 0.06
Matches are distributed among these distances:
48 2 0.01
49 1 0.00
50 85 0.39
51 36 0.16
52 1 0.00
53 3 0.01
55 2 0.01
56 89 0.41
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (53 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAAGACATG
Found at i:29656130 original size:50 final size:50
Alignment explanation
Indices: 29655961--29656265 Score: 322
Period size: 50 Copynumber: 5.8 Consensus size: 50
29655951 ATTTGGGTAA
* *
29655961 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* * * *
29656017 AGAGGTCCCATTTAAGACCATGTTTAGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* *
29656073 AGAGGTCCTATGTAAGACCATGCCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
29656123 AGAGGTCCCATGTAAGACCATGTCTGGGACATGTCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
29656173 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** *
29656223 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
29656266 TGTTACGATC
Statistics
Matches: 221, Mismatches: 27, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
50 91 0.41
51 35 0.16
52 1 0.00
53 3 0.01
55 2 0.01
56 89 0.40
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:29659417 original size:50 final size:50
Alignment explanation
Indices: 29659308--29659556 Score: 309
Period size: 50 Copynumber: 4.8 Consensus size: 50
29659298 ATTTTGGTAA
* * *
29659308 AGAGATCCCATGTAATACCATGTCTGGGACATGGCATTGGCATCCTTAGGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-GA-GA-C--G
29659364 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* *
29659414 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
29659464 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** * * *
29659514 AGAACATCTCATGCAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
29659557 TGTTACGATC
Statistics
Matches: 176, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
50 97 0.55
51 33 0.19
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 40 0.23
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:29662277 original size:24 final size:24
Alignment explanation
Indices: 29662246--29662411 Score: 91
Period size: 27 Copynumber: 6.6 Consensus size: 24
29662236 CATATAATAA
29662246 GAAGCTCATAAGAGCCATAATCGG
1 GAAGCTCATAAGAGCCATAATCGG
** *
29662270 GAAGCTCATGCGAGCCATTATCGG
1 GAAGCTCATAAGAGCCATAATCGG
* ** * *
29662294 GTAGCTTC-GGAGAGCCATTAATTGA
1 GAAGC-TCATAAGAGCCA-TAATCGG
* **
29662319 GAAGCTCATGAGAGAGCCTTTAATTTG
1 GAAGCTCAT-A-AGAGCC-ATAATCGG
* * *
29662346 AAAGCTCATGAAAGAGCCTTTAATCAG
1 GAAGCTCAT--AAGAGCC-ATAATCGG
* * *
29662373 GAAGCTCAGAAGAGCTATATATTGG
1 GAAGCTCATAAGAGCCATA-ATCGG
29662398 GAAGCTCATAAGAG
1 GAAGCTCATAAGAG
29662412 TTGCTGTGTG
Statistics
Matches: 108, Mismatches: 26, Indels: 15
0.72 0.17 0.10
Matches are distributed among these distances:
24 36 0.33
25 32 0.30
27 39 0.36
28 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (24 bp):
GAAGCTCATAAGAGCCATAATCGG
Found at i:29662341 original size:27 final size:27
Alignment explanation
Indices: 29662303--29662411 Score: 102
Period size: 27 Copynumber: 4.1 Consensus size: 27
29662293 GGTAGCTTCG
*
29662303 GAGAGCCATTAATTGAGAAGCTCATGA
1 GAGAGCCTTTAATTGAGAAGCTCATGA
29662330 GAGAGCCTTTAATTTGA-AAGCTCATGA
1 GAGAGCCTTTAA-TTGAGAAGCTCATGA
* *
29662357 AAGAGCCTTTAA-TCAGGAAGCTCA-GA
1 GAGAGCCTTTAATTGA-GAAGCTCATGA
* * *
29662383 -AGAG-CTATATATTGGGAAGCTCATAA
1 GAGAGCCTTTA-ATTGAGAAGCTCATGA
29662409 GAG
1 GAG
29662412 TTGCTGTGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
24 4 0.06
25 15 0.22
26 4 0.06
27 41 0.60
28 4 0.06
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.24
Consensus pattern (27 bp):
GAGAGCCTTTAATTGAGAAGCTCATGA
Found at i:29662491 original size:24 final size:25
Alignment explanation
Indices: 29662464--29662564 Score: 71
Period size: 25 Copynumber: 4.1 Consensus size: 25
29662454 GATGCTCAAA
* *
29662464 AGAGCTAT-TAACGGGAAGCTCATG
1 AGAGCCATATAACAGGAAGCTCATG
* *
29662488 AGAGCCATATATCAGGAAGCTCGTG
1 AGAGCCATATAACAGGAAGCTCATG
* * * * *
29662513 AGAGTCATATATCATGAAACTCAAG
1 AGAGCCATATAACAGGAAGCTCATG
** * *
29662538 AGATTCA-ATATCAGGATGCTCATG
1 AGAGCCATATAACAGGAAGCTCATG
29662562 AGA
1 AGA
29662565 ACTAATAACG
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 23 0.37
25 39 0.63
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.23
Consensus pattern (25 bp):
AGAGCCATATAACAGGAAGCTCATG
Found at i:29662509 original size:25 final size:25
Alignment explanation
Indices: 29662477--29662564 Score: 106
Period size: 25 Copynumber: 3.6 Consensus size: 25
29662467 GCTATTAACG
*
29662477 GGAAGCTCATGAGAGCCATATATCA
1 GGAAGCTCATGAGAGTCATATATCA
*
29662502 GGAAGCTCGTGAGAGTCATATATCA
1 GGAAGCTCATGAGAGTCATATATCA
* * * *
29662527 TGAAACTCAAGAGATTCA-ATATCA
1 GGAAGCTCATGAGAGTCATATATCA
*
29662551 GGATGCTCATGAGA
1 GGAAGCTCATGAGA
29662565 ACTAATAACG
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 16 0.31
25 36 0.69
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (25 bp):
GGAAGCTCATGAGAGTCATATATCA
Found at i:29675982 original size:36 final size:36
Alignment explanation
Indices: 29675934--29676002 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
29675924 ACTTGATTAA
* *
29675934 TACAATACTAATATTTTTATAATTCAATTAGAACAT
1 TACAATACTAATATTTTAAAAATTCAATTAGAACAT
*
29675970 TACAATATTAATATTTTAAAAATTCAATTAGAA
1 TACAATACTAATATTTTAAAAATTCAATTAGAA
29676003 GTTTAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.41
Consensus pattern (36 bp):
TACAATACTAATATTTTAAAAATTCAATTAGAACAT
Found at i:29691193 original size:16 final size:16
Alignment explanation
Indices: 29691154--29691195 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
29691144 AAAAATATAA
*
29691154 AAATATATTTTAAAAT
1 AAATATATTTAAAAAT
*
29691170 -ATTAATATTTAAAAAT
1 AAAT-ATATTTAAAAAT
29691186 AAATATATTT
1 AAATATATTT
29691196 GCAAAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
15 2 0.10
16 17 0.81
17 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATATATTTAAAAAT
Found at i:29697666 original size:17 final size:17
Alignment explanation
Indices: 29697637--29697669 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
29697627 TTATATTATG
29697637 TTATTAGTTTTGTATTA
1 TTATTAGTTTTGTATTA
29697654 TTATT-GTTATTGTATT
1 TTATTAGTT-TTGTATT
29697670 TCTATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (17 bp):
TTATTAGTTTTGTATTA
Found at i:29697733 original size:13 final size:13
Alignment explanation
Indices: 29697715--29697739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29697705 TTAATCTTGT
29697715 ATTATTATTATTG
1 ATTATTATTATTG
29697728 ATTATTATTATT
1 ATTATTATTATT
29697740 TACTCATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
ATTATTATTATTG
Found at i:29698930 original size:14 final size:14
Alignment explanation
Indices: 29698908--29698943 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
29698898 TTTCATCATG
*
29698908 TTTTATATTTTAAA
1 TTTTTTATTTTAAA
29698922 TTTTTTATTTTAAA
1 TTTTTTATTTTAAA
29698936 TTTTTTAT
1 TTTTTTAT
29698944 GCCTTTCTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTTATTTTAAA
Found at i:29699870 original size:19 final size:18
Alignment explanation
Indices: 29699829--29699871 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
29699819 GTCTCTTTTT
29699829 TGCATTCATTTCATGCATC
1 TGCATTCATTTCATGCA-C
29699848 TGCATTGCATTTCATTGCA-
1 TGCATT-CATTTCA-TGCAC
29699867 TGCAT
1 TGCAT
29699872 CAAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (18 bp):
TGCATTCATTTCATGCAC
Found at i:29701158 original size:17 final size:18
Alignment explanation
Indices: 29701136--29701172 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
29701126 TTATTCTTTT
29701136 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
29701153 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
29701171 AT
1 AT
29701173 ACTGTGCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:29701910 original size:16 final size:17
Alignment explanation
Indices: 29701888--29701940 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
29701878 AGTTCAGACT
29701888 CAAAAAAAACAAAAATA
1 CAAAAAAAACAAAAATA
*
29701905 -AAAAAACACAAAAA-A
1 CAAAAAAAACAAAAATA
*
29701920 CAAAAATAAAAAAAAAT-
1 CAAAAA-AAACAAAAATA
29701937 CAAA
1 CAAA
29701941 GTCAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 1 0.03
16 18 0.60
17 11 0.37
ACGTcount: A:0.83, C:0.11, G:0.00, T:0.06
Consensus pattern (17 bp):
CAAAAAAAACAAAAATA
Found at i:29716750 original size:14 final size:15
Alignment explanation
Indices: 29716721--29716758 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
29716711 ATATATATAA
29716721 AAAAAATGAATGAAAG
1 AAAAAATGAA-GAAAG
29716737 AAAAAATGAA-AAAG
1 AAAAAATGAAGAAAG
*
29716751 TAAAAATG
1 AAAAAATG
29716759 GAGAGGCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.52
16 10 0.48
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (15 bp):
AAAAAATGAAGAAAG
Found at i:29717892 original size:15 final size:15
Alignment explanation
Indices: 29717872--29717901 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
29717862 AAGACACAAA
29717872 CCTTCCCTCTCTCGG
1 CCTTCCCTCTCTCGG
29717887 CCTTCCCTCTCTCGG
1 CCTTCCCTCTCTCGG
29717902 TTGTGATGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.53, G:0.13, T:0.33
Consensus pattern (15 bp):
CCTTCCCTCTCTCGG
Found at i:29718041 original size:88 final size:88
Alignment explanation
Indices: 29717887--29718680 Score: 1219
Period size: 88 Copynumber: 9.0 Consensus size: 88
29717877 CCTCTCTCGG
*
29717887 CCTTCCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACA
1 CCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACA
*
29717952 GCGAAGCAGATCGAAGACACAAA
66 GCGAAGCAGGTCGAAGACACAAA
* *
29717975 CCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTTGAAGACAATAGATCTTGCCTTCCTGCATTGACA
1 CCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACA
29718040 GCGAAGCAGGTCGAAGACACAAA
66 GCGAAGCAGGTCGAAGACACAAA
*
29718063 CCTTACCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACA
1 CCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACA
* *
29718128 GCGAAGCAAGTCGAAGATACAAA
66 GCGAAGCAGGTCGAAGACACAAA
* * * * * * *
29718151 CATTGCCTCTCTCGATTGTGATGGAGTTGGTTGAAGACAAAAGATCTTACCTTTCTGTATTGATA
1 CCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACA
29718216 GCGAAGCAGGTCGAAGACACAAA
66 GCGAAGCAGGTCGAAGACACAAA
* * *
29718239 CCTTGCCTCTCTCAGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCAGTATTGACA
1 CCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACA
*
29718304 ACGAAGCAGGTCGAAGACACAAA
66 GCGAAGCAGGTCGAAGACACAAA
* * * *
29718327 CCTTACCTCTCTCGGTTGTGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTTCTGTATTGACA
1 CCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACA
29718392 GCGAAGCAGGTCGAAGACACAAA
66 GCGAAGCAGGTCGAAGACACAAA
* * * * * **
29718415 TCTTGCCTCTCTCGATTGTGATGGAGCTGGTTGAGGACAAAAGATCTTACCTTTCTATATTGACA
1 CCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACA
29718480 GCGAAGCAGGTCGAAGACACAAA
66 GCGAAGCAGGTCGAAGACACAAA
* * * *
29718503 CCTTGCCTCCCTCGGTTGTGATGGAGTTGGTTGAACACAACAGATCTTGCCTTCCTGCATTGACA
1 CCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACA
* * *
29718568 GCGAAGCAAGTCAAAGACATAAA
66 GCGAAGCAGGTCGAAGACACAAA
* * * * *
29718591 CCTTGCCTTTTTCAGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCATTCCTACATTGACA
1 CCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACA
29718656 GCGAAGCAGGTCGAAGACACAAA
66 GCGAAGCAGGTCGAAGACACAAA
29718679 CC
1 CC
29718681 AGATATTTTA
Statistics
Matches: 639, Mismatches: 67, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 639 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (88 bp):
CCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACA
GCGAAGCAGGTCGAAGACACAAA
Found at i:29724682 original size:11 final size:11
Alignment explanation
Indices: 29724668--29724767 Score: 60
Period size: 11 Copynumber: 8.7 Consensus size: 11
29724658 AAATATCTCT
*
29724668 AAAATAATAGC
1 AAAATAATAAC
*
29724679 AAAATTAATAAT
1 AAAA-TAATAAC
29724691 AAAATAATAA-
1 AAAATAATAAC
* *
29724701 ATATATAATATTC
1 A-AAATAATA-AC
29724714 -AAATAATAAC
1 AAAATAATAAC
*
29724724 AACAATATAATAGC
1 -A-AA-ATAATAAC
*
29724738 AATATAATAAC
1 AAAATAATAAC
* *
29724749 AAAATGATAGC
1 AAAATAATAAC
29724760 AAAATAAT
1 AAAATAAT
29724768 GAAAAAAAAG
Statistics
Matches: 68, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
10 2 0.03
11 46 0.68
12 10 0.15
13 3 0.04
14 7 0.10
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (11 bp):
AAAATAATAAC
Found at i:29724731 original size:25 final size:25
Alignment explanation
Indices: 29724703--29724750 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
29724693 AATAATAAAT
*
29724703 ATATAATATTCAA-ATAATAACAACA
1 ATATAATA-GCAATATAATAACAACA
29724728 ATATAATAGCAATATAATAACAA
1 ATATAATAGCAATATAATAACAA
29724751 AATGATAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.27
Consensus pattern (25 bp):
ATATAATAGCAATATAATAACAACA
Found at i:29724749 original size:22 final size:22
Alignment explanation
Indices: 29724668--29724767 Score: 69
Period size: 22 Copynumber: 4.4 Consensus size: 22
29724658 AAATATCTCT
* **
29724668 AAAATAATAGCAAAATTAATAAT
1 AAAATAATAACAAAA-TAATAGC
* *
29724691 AAAATAATAA-ATATATAATATTC
1 AAAATAATAACA-AAATAATA-GC
29724714 -AAATAATAACAACAATATAATAGC
1 AAAATAATAAC-A-AA-ATAATAGC
* *
29724738 AATATAATAACAAAATGATAGC
1 AAAATAATAACAAAATAATAGC
29724760 AAAATAAT
1 AAAATAAT
29724768 GAAAAAAAAG
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
22 29 0.48
23 13 0.21
24 4 0.07
25 15 0.25
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (22 bp):
AAAATAATAACAAAATAATAGC
Found at i:29724776 original size:24 final size:22
Alignment explanation
Indices: 29724714--29724775 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 22
29724704 TATAATATTC
*
29724714 AAATAATAACAACAATATAATAGCA
1 AAATAATAA-AA-AA-ATGATAGCA
* *
29724739 ATATAATAACAAAATGATAGCA
1 AAATAATAAAAAAATGATAGCA
29724761 AAATAATGAAAAAAA
1 AAATAAT-AAAAAAA
29724776 AGTAATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 14 0.45
23 8 0.26
24 1 0.03
25 8 0.26
ACGTcount: A:0.66, C:0.08, G:0.06, T:0.19
Consensus pattern (22 bp):
AAATAATAAAAAAATGATAGCA
Found at i:29727388 original size:134 final size:134
Alignment explanation
Indices: 29727144--29727391 Score: 444
Period size: 134 Copynumber: 1.9 Consensus size: 134
29727134 TTGTTGTTGC
*
29727144 TAGTCCCTCAAGCTTCACTACATTGGGATGATCCAACTTCTGTAATATCATTATTTTTTTGTGCC
1 TAGTCCCTCAAGCTTCACTACATTGGGATGATCCAACTTCTGTAATATCATTATTTATTTGTGCC
*
29727209 ATAAATTTCACACTCCCAGGATCTGATATGTCAAACCGAAACTTCTTCACTTTTATGCTCCATTA
66 ATAAATTTCACACTCCCAAGATCTGATATGTCAAACCGAAACTTCTTCACTTTTATGCTCCATTA
29727274 CCTG
131 CCTG
29727278 TAGTCCCTCAAGCTTCACTACATTGGGATGATCCAACTTCTGTAATATCATTATTTATTT-TGCC
1 TAGTCCCTCAAGCTTCACTACATTGGGATGATCCAACTTCTGTAATATCATTATTTATTTGTGCC
* *
29727342 ATAAATTTCACACTCCCAAGATCTGATATTTCAAACCGGAACCTTCTTCA
66 ATAAATTTCACACTCCCAAGATCTGATATGTCAAACC-GAAACTTCTTCA
29727392 AGTCAACTAT
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
133 39 0.36
134 70 0.64
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (134 bp):
TAGTCCCTCAAGCTTCACTACATTGGGATGATCCAACTTCTGTAATATCATTATTTATTTGTGCC
ATAAATTTCACACTCCCAAGATCTGATATGTCAAACCGAAACTTCTTCACTTTTATGCTCCATTA
CCTG
Found at i:29732885 original size:95 final size:96
Alignment explanation
Indices: 29732775--29732969 Score: 383
Period size: 95 Copynumber: 2.0 Consensus size: 96
29732765 ATTTCCATGA
29732775 AAAATAACAAATAAAAATTCTAAATAAAGAATAATTATTAGATTAATATTTGATACATCAGCATT
1 AAAATAACAAATAAAAATTCTAAATAAAGAATAATTATTAGATTAATATTTGATACATCAGCATT
29732840 ATATATATTTTTTCATTTTAT-AGTTGTTTT
66 ATATATATTTTTTCATTTTATAAGTTGTTTT
29732870 AAAATAACAAATAAAAATTCTAAATAAAGAATAATTATTAGATTAATATTTGATACATCAGCATT
1 AAAATAACAAATAAAAATTCTAAATAAAGAATAATTATTAGATTAATATTTGATACATCAGCATT
29732935 ATATATATTTTTTCATTTTATAAGTTGTTTT
66 ATATATATTTTTTCATTTTATAAGTTGTTTT
29732966 AAAA
1 AAAA
29732970 AATTATCATG
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 86 0.87
96 13 0.13
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (96 bp):
AAAATAACAAATAAAAATTCTAAATAAAGAATAATTATTAGATTAATATTTGATACATCAGCATT
ATATATATTTTTTCATTTTATAAGTTGTTTT
Found at i:29733017 original size:16 final size:17
Alignment explanation
Indices: 29732986--29733019 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
29732976 CATGTATATA
29732986 TTTTTTAAAATATTTAT
1 TTTTTTAAAATATTTAT
*
29733003 TTTTTTAATAT-TTTAT
1 TTTTTTAAAATATTTAT
29733019 T
1 T
29733020 GAACTCTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAAAATATTTAT
Found at i:29738191 original size:136 final size:137
Alignment explanation
Indices: 29737947--29738219 Score: 530
Period size: 136 Copynumber: 2.0 Consensus size: 137
29737937 TTCGGTTAAT
29737947 ATAATGAAAGAAGAAAGGTTGTTAAATGGTTAATATAATAAAAAAAACTTTACAAACGAAAACCT
1 ATAATGAAAGAAGAAAGGTTGTTAAATGGTTAATATAATAAAAAAAACTTTACAAACGAAAACCT
29738012 CCAAACGGATAAAACTATTGACATACCTGAAAAATAAAGTTAACATTGCAACATTTTAAA-TAAT
66 CCAAACGGATAAAACTATTGACATACCTGAAAAATAAAGTTAACATTGCAACATTTTAAATTAAT
29738076 CTGTAAA
131 CTGTAAA
*
29738083 ATAATGAAAGAAGAAAGGTTGTTAAATGGTTAATATAATAAAAGAAACTTTACAAACGAAAACCT
1 ATAATGAAAGAAGAAAGGTTGTTAAATGGTTAATATAATAAAAAAAACTTTACAAACGAAAACCT
29738148 CCAAACGGATAAAACTATTGACATACCTGAAAAATAAAGTTAACATTGCAACATTTTAAATTAAT
66 CCAAACGGATAAAACTATTGACATACCTGAAAAATAAAGTTAACATTGCAACATTTTAAATTAAT
29738213 CTGTAAA
131 CTGTAAA
29738220 GTGTTTTTTT
Statistics
Matches: 135, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
136 124 0.92
137 11 0.08
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (137 bp):
ATAATGAAAGAAGAAAGGTTGTTAAATGGTTAATATAATAAAAAAAACTTTACAAACGAAAACCT
CCAAACGGATAAAACTATTGACATACCTGAAAAATAAAGTTAACATTGCAACATTTTAAATTAAT
CTGTAAA
Found at i:29744013 original size:21 final size:21
Alignment explanation
Indices: 29743987--29744030 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
29743977 TATAATTATG
29743987 TAATCAG-TTACCATCCATACC
1 TAATCAGATT-CCATCCATACC
29744008 TAATCAGATTCCATCCATACC
1 TAATCAGATTCCATCCATACC
29744029 TA
1 TA
29744031 TTATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TAATCAGATTCCATCCATACC
Found at i:29748446 original size:6 final size:6
Alignment explanation
Indices: 29748435--29748484 Score: 100
Period size: 6 Copynumber: 8.3 Consensus size: 6
29748425 ATATGTGTAA
29748435 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
29748483 AT
1 AT
29748485 CTGGAGATGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:29748785 original size:11 final size:10
Alignment explanation
Indices: 29748768--29748801 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
29748758 TTGTTTAAAC
29748768 TTTTTTTCTT
1 TTTTTTTCTT
29748778 TCTTTTTTCTT
1 T-TTTTTTCTT
29748789 TTTTTTT-TT
1 TTTTTTTCTT
29748798 TTTT
1 TTTT
29748802 GTACTTTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.26
10 7 0.30
11 10 0.43
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:29749417 original size:321 final size:322
Alignment explanation
Indices: 29748826--29749474 Score: 1264
Period size: 321 Copynumber: 2.0 Consensus size: 322
29748816 GTGGTAGAAG
*
29748826 ATTTGAGAGAAAGCTCGCTTCGTTTTTATACATGTTTTTAATGAGATGATGGTTGAAGCAGGAGG
1 ATTTGACAGAAAGCTCGCTTCGTTTTTATACATGTTTTTAATGAGATGATGGTTGAAGCAGGAGG
29748891 CTTGAGAGACACTTCACGGCAATGCATGCGATCGGGTTGGGCCACTCATATAAAGCCCGTTTAGG
66 CTTGAGAGACACTTCACGGCAATGCATGCGATCGGGTTGGGCCACTCATATAAAGCCCGTTTAGG
29748956 CCGCCTCATACATTAGCTTAGCTATACCGCACGAGTGAGATACGTAAGCAATGGTTCTAGGAAAT
131 CCGCCTCATACATTAGCTTAGCTATACCGCACGAGTGAGATACGTAAGCAATGGTTCTAGGAAAT
29749021 TTAGGTCCATTAAAGTGAGATTGATTATTATAATGGTAAGATTAAAATTATTGGTGGGATATGTG
196 TTAGGTCCATTAAAGTGAGATTGATTATTATAATGGTAAGATTAAAATTATTGGTGGGATATGTG
29749086 TTTAGATTTAACTATAACAATATTTTTAAAGTGAAAAGTGAAAAGAATAGAAAATAATTTTT
261 TTTAGATTTAACTATAACAATATTTTTAAAGTGAAAAGTGAAAAGAATAGAAAATAATTTTT
29749148 ATTTGACA-AAAGCTCGCTTCGTTTTTATACATGTTTTTAATGAGATGATGGTTGAAGCAGGAGG
1 ATTTGACAGAAAGCTCGCTTCGTTTTTATACATGTTTTTAATGAGATGATGGTTGAAGCAGGAGG
29749212 CTTGAGAGACACTTCACGGCAATGCATGCGATCGGGTTGGGCCACTCATATAAAGCCCGTTTAGG
66 CTTGAGAGACACTTCACGGCAATGCATGCGATCGGGTTGGGCCACTCATATAAAGCCCGTTTAGG
29749277 CCGCCTCATACATTAGCTTAGCTATACCGCACGAGTGAGATACGTAAGCAATGGTTCTAGGAAAT
131 CCGCCTCATACATTAGCTTAGCTATACCGCACGAGTGAGATACGTAAGCAATGGTTCTAGGAAAT
29749342 TTAGGTCCATTAAAGTGAGATTGATTATTATAATGGTAAGATTAAAATTATTGGTGGGATATGTG
196 TTAGGTCCATTAAAGTGAGATTGATTATTATAATGGTAAGATTAAAATTATTGGTGGGATATGTG
* *
29749407 TTTAGATTTAACTATAACAATATTTTTAAAGTGAAATGTGATAAGAATAGAAAATAATTTTT
261 TTTAGATTTAACTATAACAATATTTTTAAAGTGAAAAGTGAAAAGAATAGAAAATAATTTTT
29749469 ATTTGA
1 ATTTGA
29749475 AAATATAATA
Statistics
Matches: 324, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
321 317 0.98
322 7 0.02
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (322 bp):
ATTTGACAGAAAGCTCGCTTCGTTTTTATACATGTTTTTAATGAGATGATGGTTGAAGCAGGAGG
CTTGAGAGACACTTCACGGCAATGCATGCGATCGGGTTGGGCCACTCATATAAAGCCCGTTTAGG
CCGCCTCATACATTAGCTTAGCTATACCGCACGAGTGAGATACGTAAGCAATGGTTCTAGGAAAT
TTAGGTCCATTAAAGTGAGATTGATTATTATAATGGTAAGATTAAAATTATTGGTGGGATATGTG
TTTAGATTTAACTATAACAATATTTTTAAAGTGAAAAGTGAAAAGAATAGAAAATAATTTTT
Found at i:29750980 original size:88 final size:85
Alignment explanation
Indices: 29750841--29751112 Score: 323
Period size: 88 Copynumber: 3.1 Consensus size: 85
29750831 TTAAGGGTGT
* * * *
29750841 AAAAA-GCCCTCAAAC-TTTTCAAAAAAAGCAATTAAGTTCCTACCTTTTTTTGCACACAATTAG
1 AAAAATGCCCTCAAACTTTTTCAAAAAAAGCAATTAAG-CCCT--TTTTTTTTGCACTCAATTGG
*
29750904 GTACTTGAACTTTCAAGATGCATA
63 GTACTTGAACTTTCAA-ATGCATC
* * *
29750928 AAAAATGCCGTCAAACTTTTTCAAAAATAGTAATTAAGCCCCTTTTTATTTTGCACTCAATTGGG
1 AAAAATGCCCTCAAACTTTTTCAAAAAAAGCAATTAAG-CCCTTTTT-TTTTGCACTCAATTGGG
29750993 TACTTGAACTTTCAAAATGCATC
64 TACTTGAACTTTC-AAATGCATC
* * * *
29751016 AAAAAGGCCCTAAAACTTTTTCAAAAAAAAGCAATTAAGCTCTTTTTTTTGGCACTCAATTGGGT
1 AAAAATGCCCTCAAACTTTTTC-AAAAAAAGCAATTAAGCCCTTTTTTTTTGCACTCAATTGGGT
* **
29751081 ATTTGAACGGTCAAATGCATC
65 ACTTGAACTTTCAAATGCATC
29751102 AAAAATGCCCT
1 AAAAATGCCCT
29751113 TTGACCATTA
Statistics
Matches: 160, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
86 19 0.12
87 34 0.21
88 69 0.43
89 38 0.24
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.32
Consensus pattern (85 bp):
AAAAATGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCTTTTTTTTTGCACTCAATTGGGTA
CTTGAACTTTCAAATGCATC
Found at i:29751280 original size:21 final size:19
Alignment explanation
Indices: 29751233--29751348 Score: 58
Period size: 19 Copynumber: 5.9 Consensus size: 19
29751223 ACAAAAATCA
* *
29751233 ATAAAAGTT-ATAAAAAAT
1 ATAAAATTTAATAAAAATT
*
29751251 -TAAATTTTAATAGAAAATAT
1 ATAAAATTTAATA-AAAAT-T
*
29751271 ATAAAATTTATTAAAAATT
1 ATAAAATTTAATAAAAATT
* * *
29751290 AGAAAATAAATTTATAAAAATC
1 ATAAAAT---TTAATAAAAATT
*
29751312 ATAAAAAATT-ATAAAAAATT
1 AT-AAAATTTAAT-AAAAATT
* *
29751332 GTAAAATTTTATAAAAA
1 ATAAAATTTAATAAAAA
29751349 AATCATTAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
17 6 0.08
18 3 0.04
19 24 0.32
20 17 0.23
21 10 0.14
22 10 0.14
23 4 0.05
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (19 bp):
ATAAAATTTAATAAAAATT
Found at i:29751319 original size:32 final size:32
Alignment explanation
Indices: 29751265--29751327 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
29751255 TTTTAATAGA
* * *
29751265 AAATATATAAAATTTATTAAAAATTAGAAAAT
1 AAATATATAAAAATCATAAAAAATTAGAAAAT
* *
29751297 AAATTTATAAAAATCATAAAAAATTATAAAA
1 AAATATATAAAAATCATAAAAAATTAGAAAA
29751328 AATTGTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (32 bp):
AAATATATAAAAATCATAAAAAATTAGAAAAT
Found at i:29751327 original size:41 final size:41
Alignment explanation
Indices: 29751246--29751369 Score: 105
Period size: 42 Copynumber: 2.9 Consensus size: 41
29751236 AAAGTTATAA
29751246 AAAATTAAATTTTAATAGAAAAT-ATATAAAATTTATTAAAAATTAG-
1 AAAA-TAAA-TTT-ATA-AAAATCATA-AAAATTTA-TAAAAATT-GT
*
29751292 AAAATAAATTTATAAAAATCATAAAAAATTATAAAAAATTGT
1 AAAATAAATTTATAAAAATCATAAAAATTTAT-AAAAATTGT
29751334 AAAAT---TTTATAAAAAAATCATTAAAAATTTATAAAA
1 AAAATAAATTTAT--AAAAATCA-TAAAAATTTATAAAA
29751370 TGCATGAAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 17
0.79 0.02 0.19
Matches are distributed among these distances:
39 5 0.07
41 14 0.20
42 34 0.49
43 6 0.09
44 3 0.04
45 4 0.06
46 4 0.06
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (41 bp):
AAAATAAATTTATAAAAATCATAAAAATTTATAAAAATTGT
Found at i:29751328 original size:20 final size:20
Alignment explanation
Indices: 29751225--29751369 Score: 86
Period size: 21 Copynumber: 7.2 Consensus size: 20
29751215 TATAAAAAAC
*
29751225 AAAAATCA-ATAAAAGTTATA
1 AAAAATCATA-AAAATTTATA
*
29751245 AAAAAT--T-AAATTTTAATA
1 AAAAATCATAAAAATTT-ATA
*
29751263 GAAAAT-ATATAAAATTTATTA
1 AAAAATCATA-AAAATTTA-TA
* * *
29751284 AAAATTAGAAAATAAATTTAT-
1 AAAAAT-CATAA-AAATTTATA
*
29751305 AAAAATCATAAAAAATTATA
1 AAAAATCATAAAAATTTATA
** *
29751325 AAAAATTGTAAAATTTTATAA
1 AAAAATCATAAAAATTTAT-A
29751346 AAAAATCATTAAAAATTTATA
1 AAAAATCA-TAAAAATTTATA
29751367 AAA
1 AAA
29751370 TGCATGAAAA
Statistics
Matches: 95, Mismatches: 18, Indels: 23
0.70 0.13 0.17
Matches are distributed among these distances:
17 5 0.05
18 8 0.08
19 8 0.08
20 25 0.26
21 28 0.29
22 12 0.13
23 9 0.09
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (20 bp):
AAAAATCATAAAAATTTATA
Found at i:29751337 original size:9 final size:10
Alignment explanation
Indices: 29751264--29751369 Score: 63
Period size: 10 Copynumber: 10.2 Consensus size: 10
29751254 ATTTTAATAG
29751264 AAAA-TATATA
1 AAAATTATA-A
* *
29751274 AAATTTATTA
1 AAAATTATAA
*
29751284 AAAATTAGAAA
1 AAAATTA-TAA
29751295 ATAAATT-TATA
1 A-AAATTATA-A
*
29751306 AAAATCATAA
1 AAAATTATAA
29751316 AAAATTATAA
1 AAAATTATAA
*
29751326 AAAATTGTAA
1 AAAATTATAA
**
29751336 AATTTTATAAA
1 AAAATTAT-AA
*
29751347 AAAATCATTAA
1 AAAATTA-TAA
*
29751358 AAATTTATAA
1 AAAATTATAA
29751368 AA
1 AA
29751370 TGCATGAAAA
Statistics
Matches: 72, Mismatches: 17, Indels: 14
0.70 0.17 0.14
Matches are distributed among these distances:
10 44 0.61
11 22 0.31
12 6 0.08
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAATTATAA
Found at i:29751595 original size:17 final size:16
Alignment explanation
Indices: 29751575--29751607 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
29751565 TTTTCTATGA
29751575 TTTTTATATTTCTTTAC
1 TTTTTATATTT-TTTAC
29751592 TTTTTATATTTTTTAC
1 TTTTTATATTTTTTAC
29751608 GACTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTATATTTTTTAC
Found at i:29755259 original size:118 final size:119
Alignment explanation
Indices: 29755080--29755316 Score: 440
Period size: 118 Copynumber: 2.0 Consensus size: 119
29755070 GTAATACCTC
*
29755080 GTATCCTATTCCGGCGACGGAAACGGGAAAGGGGTGTTACACAGAGACAAAACAAAAAACCCAAA
1 GTATCCTATTCCGGCGACAGAAACGGGAAAGGGGTGTTACACAGAGACAAAACAAAAAACCCAAA
29755145 CTATTATCCAGCCCAACACCAAATAAAAAAAGAAGAAAAAA-CCTAGCCCTAGG
66 CTATTATCCAGCCCAACACCAAATAAAAAAAGAAGAAAAAACCCTAGCCCTAGG
* *
29755198 GTATCCTATTCCGGCGACAGATACGGGTAAGGGGTGTTACACAGAGACAAAACAAAAAACCCAAA
1 GTATCCTATTCCGGCGACAGAAACGGGAAAGGGGTGTTACACAGAGACAAAACAAAAAACCCAAA
29755263 CTATTATCCAGCCCAACACCAAATAAAAAAAGAAGAAAAAACCCTAGCCCTAGG
66 CTATTATCCAGCCCAACACCAAATAAAAAAAGAAGAAAAAACCCTAGCCCTAGG
29755317 TCTTCTGCCG
Statistics
Matches: 115, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
118 103 0.90
119 12 0.10
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.14
Consensus pattern (119 bp):
GTATCCTATTCCGGCGACAGAAACGGGAAAGGGGTGTTACACAGAGACAAAACAAAAAACCCAAA
CTATTATCCAGCCCAACACCAAATAAAAAAAGAAGAAAAAACCCTAGCCCTAGG
Found at i:29756197 original size:11 final size:11
Alignment explanation
Indices: 29756183--29756226 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
29756173 CATTTTAGTC
29756183 TTGTTTTTTTA
1 TTGTTTTTTTA
*
29756194 TTGTCTTTTTA
1 TTGTTTTTTTA
*
29756205 TTTTTATTTTTA
1 TTGTT-TTTTTA
29756217 TT-TTTTTTTA
1 TTGTTTTTTTA
29756227 AATTTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
10 6 0.21
11 15 0.52
12 8 0.28
ACGTcount: A:0.11, C:0.02, G:0.05, T:0.82
Consensus pattern (11 bp):
TTGTTTTTTTA
Found at i:29756540 original size:26 final size:26
Alignment explanation
Indices: 29756511--29756567 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
29756501 TTTCCATATC
*
29756511 TATATACTT-TATATCTTAT-TTATTTA
1 TATATACTTGTATA-CATATATT-TTTA
*
29756537 TATATCCTTGTATACATATATTTTTA
1 TATATACTTGTATACATATATTTTTA
29756563 TATAT
1 TATAT
29756568 TTTATAATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.58
Consensus pattern (26 bp):
TATATACTTGTATACATATATTTTTA
Found at i:29761137 original size:44 final size:44
Alignment explanation
Indices: 29760960--29761657 Score: 208
Period size: 44 Copynumber: 16.2 Consensus size: 44
29760950 CTAGTAATCC
* * * *
29760960 TATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAGGATTT
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAAGATCT
** * * ** ** *
29761004 TATCTCTTTGA-AGTGACAGTAGAGTGGA-T--CGTATCAGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGTGGATTAAAATAAAAGATCT
* ** ** ** *
29761045 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA-ATCC
1 TATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATAAAAGATCT
* *
29761089 TATCTCCCTGAGATTACAGTAGAGTGGATTAAAATAAAATATCT
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAAGATCT
* * ** ** * *
29761133 TATCT--CTGA-AGTGACAGTAGAGTGGA-T--CGTATCAGGTTT
1 TATCTCCCTGAGA-TTACAGTGGAGTGGATTAAAATAAAAGATCT
* ** ** ** *
29761172 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA-ATCC
1 TATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATAAAAGATCT
* * *
29761216 TATCTCTCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAAGATCT
* * * * ** ** *
29761260 CATCTCTCTGA-AGTGACAGTAGAGTGGA-T--CGTATTAGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGTGGATTAAAATAAAAGATCT
*** * ** ** ** *
29761301 TATCTTTTTGAGATTACAGCGGAGCAGATTGAAGCTAGTA-ATCC
1 TATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATAAAAGATCT
* *
29761345 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATAT
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAAGATCT
* * * ** ** *
29761389 TATCTCTCTGA-AGTTACAGTAGAGTAGA-T--CGTATCAGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGTGGATTAAAATAAAAGATCT
* * * ** ** ** *
29761430 TATCTCCTTAAGATTACAGCGGAGTAAATTGAAGCTATTA-ATCC
1 TATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATAAAAGATCT
* *
29761474 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAAGATCT
* * * *** *
29761518 TATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGTAT-CAAG-TCT
1 TATCTCCCTGAGA-TTACAGTGGAGTGGATTAAAATAAAAGATCT
* * ** ** *
29761559 TATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTA-ATCC
1 TATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATAAAAGATCT
* *
29761603 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATAT
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAAGATCT
*
29761647 TATCTCTCTGA
1 TATCTCCCTGA
29761658 AGTTATAGTA
Statistics
Matches: 457, Mismatches: 160, Indels: 74
0.66 0.23 0.11
Matches are distributed among these distances:
39 10 0.02
41 116 0.25
42 30 0.07
43 34 0.07
44 253 0.55
45 14 0.03
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAAGATCT
Found at i:29761692 original size:85 final size:85
Alignment explanation
Indices: 29761345--29761721 Score: 221
Period size: 85 Copynumber: 4.4 Consensus size: 85
29761335 CTAGTAATCC
* *
29761345 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATATTATCTCTCTGA-AGTTACAGT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAAGATATTATCTCCCTGAGA-TTACAGT
* *
29761409 AGAGTAGATCGTATCAGGTCT
65 AGAGTAGATCGAATCAAGTCT
* * * * * ** ** **
29761430 TATCTCCTTAAGATTACAGCGGAGTAAATTGAAGCTATTA-ATCCTATCTCCCTGAGATTACAGT
1 TATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAAAGATATTATCTCCCTGAGATTACAGT
* ** ** *
29761494 GGAGCGGATTAAAATAAAGGATCT
65 AGAGTAGA-TCGAATCAA-G-TCT
* * * *** * * *
29761518 TATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGTAT-CAAG-TCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAAAGATATTATCTCCCTGAGATTACAGT
* * * * *
29761579 GGAGTAGATTGAAGCTAGTAATCC
65 AGAGTAGATCGAATC-A--AGTCT
* * *
29761603 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATATTATCTCTCTGA-AGTTATAGT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAAGATATTATCTCCCTGAGA-TTACAGT
*
29761667 AGAGTAGATCGTATCAAGTCT
65 AGAGTAGATCGAATCAAGTCT
* * *
29761688 TATCTCCCTGACG-TTGCAGTGGAGTAGACTAAAA
1 TATCTCCCTGA-GATTACAGTGGAGCAGATTAAAA
29761722 CCACGAATCT
Statistics
Matches: 211, Mismatches: 65, Indels: 32
0.69 0.21 0.10
Matches are distributed among these distances:
84 3 0.01
85 132 0.63
86 16 0.08
87 9 0.04
88 51 0.24
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (85 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAAGATATTATCTCCCTGAGATTACAGTA
GAGTAGATCGAATCAAGTCT
Found at i:29761715 original size:129 final size:129
Alignment explanation
Indices: 29760908--29761698 Score: 1244
Period size: 129 Copynumber: 6.1 Consensus size: 129
29760898 TCAAAGAATC
* * *
29760908 TCAGATCTTATCTCCTTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* * * * *
29760973 TTATAGTGGAGCGGATTAAAATAAAGGATTTTATCTCTTTGAAGTGACAGTAGAGTGGATCGTA
66 TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTGACAGTAGAGTAGATCGTA
29761037 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* * * *
29761102 TTACAGTAGAGTGGATTAAAATAAAATATCTTA--TCTCTGAAGTGACAGTAGAGTGGATCGTA
66 TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTGACAGTAGAGTAGATCGTA
* *
29761164 TCAGGTTTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* * *
29761229 TTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTGACAGTAGAGTGGATCGTA
66 TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTGACAGTAGAGTAGATCGTA
* ***
29761293 TTAGGTCTTATCTTTTTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* *
29761358 TTACAGTGGAGCGGATTAAAATAAAAGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
66 TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTGACAGTAGAGTAGATCGTA
* * * * *
29761422 TCAGGTCTTATCTCCTTAAGATTACAGCGGAGTAAATTGAAGCTATTAATCCTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* *
29761487 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
66 TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTGACAGTAGAGTAGATCGTA
* *
29761551 TCAAGTCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* * *
29761616 TTACAGTGGAGCGGATTAAAATAAAAGATATTATCTCTCTGAAGTTATAGTAGAGTAGATCGTA
66 TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTGACAGTAGAGTAGATCGTA
*
29761680 TCAAGTCTTATCTCCCTGA
1 TCAGGTCTTATCTCCCTGA
29761699 CGTTGCAGTG
Statistics
Matches: 615, Mismatches: 45, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
127 119 0.19
129 496 0.81
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (129 bp):
TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTGACAGTAGAGTAGATCGTA
Found at i:29765397 original size:30 final size:29
Alignment explanation
Indices: 29765331--29765400 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 29
29765321 TTTAATCGCG
* * *
29765331 TATATTTTTATAATTTTAAAAGATTAAAT
1 TATAATTTTATAATTTTAAAAGATCAAAA
* * *
29765360 TAAAATTTTATCAATTTTAAAGGGTCAAAA
1 TATAATTTTAT-AATTTTAAAAGATCAAAA
29765390 TATAATTTTAT
1 TATAATTTTAT
29765401 TTTTATTAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (29 bp):
TATAATTTTATAATTTTAAAAGATCAAAA
Found at i:29766038 original size:29 final size:30
Alignment explanation
Indices: 29765974--29766041 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 30
29765964 AATATTAAAA
29765974 TTATACATGAATTTTGATTCAATGTGTAATG
1 TTATACATGAATTTTGATT-AATGTGTAATG
* * *
29766005 TTATACATGAATTTTGATT-TTGTGTGATT
1 TTATACATGAATTTTGATTAATGTGTAATG
29766034 TTATACAT
1 TTATACAT
29766042 AAAAATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 15 0.44
31 19 0.56
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (30 bp):
TTATACATGAATTTTGATTAATGTGTAATG
Done.