Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 162 of 208
Found at i:52537801 original size:28 final size:28
Alignment explanation
Indices: 52537742--52537820 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
52537732 TTCACGATAG
* * * *
52537742 GGGTTCGCCATAGGTGAGTTCACGATAG
1 GGGTTCACCATAGGTGAGTTTACCATAA
*
52537770 GGGTTCACCATAGGTGAGTTTGCCATAA
1 GGGTTCACCATAGGTGAGTTTACCATAA
*
52537798 GGGTT-ACTCATATGTGAGTTTAC
1 GGGTTCAC-CATAGGTGAGTTTAC
52537821 TAGACATAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 2 0.05
28 41 0.95
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (28 bp):
GGGTTCACCATAGGTGAGTTTACCATAA
Found at i:52543684 original size:161 final size:160
Alignment explanation
Indices: 52542635--52544060 Score: 968
Period size: 161 Copynumber: 8.8 Consensus size: 160
52542625 CCAATCTGCA
* * * * * *
52542635 TATTAAAATAAATACAAAATAAGTATTTATAATAAAATACG-GGTTTAGGTATAGTAAAAGGTAT
1 TATTAAAACAAAAACAAAATAAG---CTATAATAAAATA-GAGGTTTAGGTATGGTGAAAGGTGT
* * * * *
52542699 ATGATTTCAATAACCAAAG-AAAATAAGCATTTATA-AGACACGAT-GGAGTATAGA-TTT-AGT
62 ATGATTCCGATAACCAAAGCAAAATAAGCATTTATATA-ACA--ATCGAAATATAAACTTTAAGT
* *
52542759 CATCGTTAAAAGATATATAATTTGAAAA-CCATCTTACT
124 -ATCGTTAAAAGATATATAATTCGAAAATCC-TTTTACT
* * * * * ** * *
52542797 TA--ATAATAAAAACAAAATAAGCATTTATAATAAAATACAAGTTTAAGTATAATAAAAGATGTA
1 TATTAAAACAAAAACAAAATAAGC---TATAATAAAATAGAGGTTTAGGTATGGTGAAAGGTGTA
* * * * *
52542860 TGATTCCGATAACGAAAGCGAAATAAGAATTTATAAAACACGAT-GGAATATAAACTTTAAGTAT
63 TGATTCCGATAACCAAAGCAAAATAAGCATTTATATAACA--ATCGAAATATAAACTTTAAGTAT
52542924 CGTTAAAAGATATATAAATT-GAAAA-CCATTTTACT
126 CGTTAAAAGATATAT-AATTCGAAAATCC-TTTTACT
* * * ** *
52542959 TATTAAAACAAAAACAAAATAAGCATTTATAATAAAATATAAGTTTAGGTATAGAAAAAAGTGTA
1 TATTAAAACAAAAACAAAATAAGC---TATAATAAAATAGAGGTTTAGGTATGGTGAAAGGTGTA
* * * * * * *
52543024 CGATTCCGATAACGAAAGCAAAATAAGTATTTATAGAACACAAT-GGAATATAAACTTTAGGCAT
63 TGATTCCGATAACCAAAGCAAAATAAGCATTTATA-TA-ACAATCGAAATATAAACTTTAAGTAT
* * *
52543088 CGTTAAAAGATATATAATTTG-AAA-CCATTTTGCC
126 CGTTAAAAGATATATAATTCGAAAATCC-TTTTACT
** * * * * * **
52543122 TATTAAAACAGGAACAAAATAATCATTTATAATAAAATACAAGTTTAGGTATTGTAAAAGAAGTA
1 TATTAAAACAAAAACAAAATAAGC---TATAATAAAATAGAGGTTTAGGTATGGTGAAAGGTGTA
* * * * ** * ** * ** *
52543187 --A----AATAAGCATTTA-TAACGTACG-ATGAAATATAA-ACTTTAAATAT---CGTTAAAAG
63 TGATTCCGATAACCA--AAGCAAAATAAGCAT-TTATATAACAATCGAAATATAAAC-TT-TAAG
* *** * * *
52543240 ATAT--ATAATTCAT-TATAATTCAAAAATCATTATACT
123 -TATCGTTAAAAGATATATAATTCGAAAATCCTTTTACT
* * * *
52543276 TATTAAAATAAAAACAAAAGTAAGCATCTATAATAAAATAGAGGTTTAGATATAGTGAAAGGTGG
1 TATTAAAACAAAAACAAAA-TAAG---CTATAATAAAATAGAGGTTTAGGTATGGTGAAAGGTGT
*
52543341 ATGATTCCGATAACGAAAGCAAAATTAA-CATTTATAGTACACAAT-GAAATATAAACTTTAATT
62 ATGATTCCGATAACCAAAGCAAAA-TAAGCATTTATA-TA-ACAATCGAAATATAAACTTT-A--
* *
52543404 AGTATAGTTAAAAGATATATAATTCGAAAA-CCGTCTTACT
121 AGTATCGTTAAAAGATATATAATTCGAAAATCC-TTTTACT
* * * * * *
52543444 TATTAAAATAGAAACAAAATAAGCATTTATAATAAAATAAAGGTTTAGGTATAGCGGAAGGTGTA
1 TATTAAAACAAAAACAAAATAAGC---TATAATAAAATAGAGGTTTAGGTATGGTGAAAGGTGTA
* * *
52543509 TGATTCCTATAACCAAAGCAAAATAAGTATTTATATAACACTCGTAAAATATAAACTTTAAGTAT
63 TGATTCCGATAACCAAAGCAAAATAAGCATTTATATAACAATCG--AAATATAAACTTTAAGTAT
* *
52543574 CGTTAAAAGATATCTAATTTGAAAA-CCTATTTACT
126 CGTTAAAAGATATATAATTCGAAAATCCT-TTTACT
*
52543609 TATTGAAACAAAAACAAAATAAGC-ATAATAAAATAGAGGTTTAGGTATGGTGAAAGGTGTATGA
1 TATTAAAACAAAAACAAAATAAGCTATAATAAAATAGAGGTTTAGGTATGGTGAAAGGTGTATGA
* * *
52543673 TTCCGATAACCAAAGAAAAATAAGCATTTATATAAC-ATC--CAT-GAAA---T-A-TATCGTTA
66 TTCCGATAACCAAAGCAAAATAAGCATTTATATAACAATCGAAATATAAACTTTAAGTATCGTTA
*
52543729 AAAGATATATAATTCGAAAATCGTTTTACT
131 AAAGATATATAATTCGAAAATCCTTTTACT
* * * * *
52543759 TATTAAAACAAAAACAAATTACGCATTTATAACAAAATAGAGGTATAGATATGGTGAAAGGTGTA
1 TATTAAAACAAAAACAAAATAAGC---TATAATAAAATAGAGGTTTAGGTATGGTGAAAGGTGTA
* *
52543824 TGATTCCGATAACCAAAGCAAAATAAGCATTTATAATATATAAT-GAAATATAAATTTTAAGTAT
63 TGATTCCGATAACCAAAGCAAAATAAGCATTTAT-ATA-ACAATCGAAATATAAACTTTAAGTAT
* *
52543888 CGTTAAAAGATATATAATTCGAAAATCGTTCTACT
126 CGTTAAAAGATATATAATTCGAAAATCCTTTTACT
* * * *
52543923 TATT--AA-AAAAATAAAGTACGCATTTATAATAAAATAGAGGTATAGGTATGGTGAAAGGTGTA
1 TATTAAAACAAAAACAAAATAAGC---TATAATAAAATAGAGGTTTAGGTATGGTGAAAGGTGTA
* * * *
52543985 TGATTCCGATAACCAAAGCAAAACAAGCATTTATATAACACTCATAAAATATAAACTTTAAGCAT
63 TGATTCCGATAACCAAAGCAAAATAAGCATTTATATAACAATC--GAAATATAAACTTTAAGTAT
* *
52544050 AGTTGAAAGAT
126 CGTTAAAAGAT
52544061 GTAGTTTAGG
Statistics
Matches: 1034, Mismatches: 154, Indels: 152
0.77 0.11 0.11
Matches are distributed among these distances:
150 53 0.05
151 3 0.00
152 1 0.00
153 8 0.01
154 97 0.09
155 44 0.04
156 11 0.01
157 11 0.01
158 11 0.01
159 8 0.01
160 73 0.07
161 195 0.19
162 75 0.07
163 81 0.08
164 167 0.16
165 65 0.06
166 11 0.01
167 72 0.07
168 48 0.05
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.30
Consensus pattern (160 bp):
TATTAAAACAAAAACAAAATAAGCTATAATAAAATAGAGGTTTAGGTATGGTGAAAGGTGTATGA
TTCCGATAACCAAAGCAAAATAAGCATTTATATAACAATCGAAATATAAACTTTAAGTATCGTTA
AAAGATATATAATTCGAAAATCCTTTTACT
Found at i:52543982 original size:315 final size:313
Alignment explanation
Indices: 52543410--52544037 Score: 863
Period size: 315 Copynumber: 2.0 Consensus size: 313
52543400 AATTAGTATA
* *
52543410 GTTAAAAGATATATAATTCGAAAACCGTCTTACTTATTAAAATAGAAACAAAATAAGCATTTATA
1 GTTAAAAGATATATAATTCGAAAACCGTCTTACTTATTAAAACAAAAACAAAATAAGCATTTATA
* * * * * *
52543475 ATAAAATAAAGGTTTAGGTATAGCGGAAGGTGTATGATTCCTATAACCAAAGCAAAATAAGTATT
66 ACAAAATAAAGGTATAGATATAGCGAAAGGTGTATGATTCCGATAACCAAAGCAAAATAAGCATT
* * * *
52543540 TATATAACACTCGTAAAATATAAACTTTAAGTATCGTTAAAAGATATCTAATTTGAAAACCTATT
131 TATATAACAATCG-AAAATATAAACTTTAAGTATCGTTAAAAGATATATAATTCGAAAACCTATC
*
52543605 TACTTATTGAAACAAAAACAAAATAAGCATAATAAAATAGAGGTTTAGGTATGGTGAAAGGTGTA
195 TACTTATT-AAACAAAAACAAAATAAGCATAATAAAATAGAGGTATAGGTATGGTGAAAGGTGTA
* *
52543670 TGATTCCGATAACCAAAGAAAAATAAGCATTTATATAACA-TCCATGAAATATATC
259 TGATTCCGATAACCAAAGAAAAACAAGCATTTATATAACACT-CATAAAATATATC
* * * *
52543725 GTTAAAAGATATATAATTCGAAAATCGTTTTACTTATTAAAACAAAAACAAATTACGCATTTATA
1 GTTAAAAGATATATAATTCGAAAACCGTCTTACTTATTAAAACAAAAACAAAATAAGCATTTATA
* * *
52543790 ACAAAATAGAGGTATAGATATGGTGAAAGGTGTATGATTCCGATAACCAAAGCAAAATAAGCATT
66 ACAAAATAAAGGTATAGATATAGCGAAAGGTGTATGATTCCGATAACCAAAGCAAAATAAGCATT
* * *
52543855 TATAATATATAAT-G-AAATATAAATTTTAAGTATCGTTAAAAGATATATAATTCGAAAATCGT-
131 TAT-ATA-ACAATCGAAAATATAAACTTTAAGTATCGTTAAAAGATATATAATTCGAAAA-CCTA
* * *
52543917 TCTACTTATT-AA-AAAAATAAAGTACGCATTTATAATAAAATAGAGGTATAGGTATGGTGAAAG
193 TCTACTTATTAAACAAAAACAAAATAAGC----ATAATAAAATAGAGGTATAGGTATGGTGAAAG
*
52543980 GTGTATGATTCCGATAACCAAAGCAAAACAAGCATTTATATAACACTCATAAAATATA
254 GTGTATGATTCCGATAACCAAAGAAAAACAAGCATTTATATAACACTCATAAAATATA
52544038 AACTTTAAGC
Statistics
Matches: 276, Mismatches: 29, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
311 12 0.04
312 2 0.01
314 50 0.18
315 204 0.74
316 5 0.02
317 3 0.01
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.30
Consensus pattern (313 bp):
GTTAAAAGATATATAATTCGAAAACCGTCTTACTTATTAAAACAAAAACAAAATAAGCATTTATA
ACAAAATAAAGGTATAGATATAGCGAAAGGTGTATGATTCCGATAACCAAAGCAAAATAAGCATT
TATATAACAATCGAAAATATAAACTTTAAGTATCGTTAAAAGATATATAATTCGAAAACCTATCT
ACTTATTAAACAAAAACAAAATAAGCATAATAAAATAGAGGTATAGGTATGGTGAAAGGTGTATG
ATTCCGATAACCAAAGAAAAACAAGCATTTATATAACACTCATAAAATATATC
Found at i:52544190 original size:65 final size:66
Alignment explanation
Indices: 52544109--52544244 Score: 256
Period size: 66 Copynumber: 2.1 Consensus size: 66
52544099 GCAGATTTAA
52544109 GTATAGTGAAAGGTGTATAATT-CCGATAATCAAAGTAAAATAAGTATTTATGTAACACCCACAA
1 GTATAGTGAAAGGTGTATAATTCCCGATAATCAAAGTAAAATAAGTATTTATGTAACACCCACAA
52544173 C
66 C
52544174 GTATAGTGAAAGGTGTATAATTCCCGATAATCAAAGTAAAATAAGTATTTATGTAACACCCACAA
1 GTATAGTGAAAGGTGTATAATTCCCGATAATCAAAGTAAAATAAGTATTTATGTAACACCCACAA
52544239 C
66 C
*
52544240 ATATA
1 GTATA
52544245 AACTTTAAGC
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 22 0.32
66 47 0.68
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (66 bp):
GTATAGTGAAAGGTGTATAATTCCCGATAATCAAAGTAAAATAAGTATTTATGTAACACCCACAA
C
Found at i:52544367 original size:29 final size:29
Alignment explanation
Indices: 52544325--52544383 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
52544315 CTAACCAGAA
52544325 AGTAAAAGAGGTAGTGAAATTAAATGCTT
1 AGTAAAAGAGGTAGTGAAATTAAATGCTT
52544354 AGTAAAAGAGGTAGTGAAATTAAATGCTT
1 AGTAAAAGAGGTAGTGAAATTAAATGCTT
52544383 A
1 A
52544384 CCAAGAGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (29 bp):
AGTAAAAGAGGTAGTGAAATTAAATGCTT
Found at i:52550977 original size:39 final size:39
Alignment explanation
Indices: 52550921--52551075 Score: 177
Period size: 39 Copynumber: 3.9 Consensus size: 39
52550911 TTTTGTGGAA
* * *
52550921 AAAAACGCTGCTATTGCTTTACCTTTAACGGCGTTTATG
1 AAAAATGCCGCTATTGCTTTACCTTTTACGGCGTTTATG
* *
52550960 AAAAATGCCGCTGTTGCTTTACCTTTTGCGGCGTTTATGAG
1 AAAAATGCCGCTATTGCTTTACCTTTTACGGCGTTTAT--G
* * *
52551001 AAAAATGCCACTATTACTTTACCTTTTACGGCGTTTACG
1 AAAAATGCCGCTATTGCTTTACCTTTTACGGCGTTTATG
* * *
52551040 CAAAAACGCTGCTAATGCTTTACC-TTTACGGCGTTT
1 -AAAAATGCCGCTATTGCTTTACCTTTTACGGCGTTT
52551076 TCTATCCAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 46 0.47
40 18 0.18
41 34 0.35
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (39 bp):
AAAAATGCCGCTATTGCTTTACCTTTTACGGCGTTTATG
Found at i:52551093 original size:80 final size:80
Alignment explanation
Indices: 52550921--52551075 Score: 195
Period size: 80 Copynumber: 1.9 Consensus size: 80
52550911 TTTTGTGGAA
** * * * **
52550921 AAAAACGCTGCTATTGCTTTACCTTTAACGGCGTTTATGAAAAATGCCGCTGTTGCTTTACCTTT
1 AAAAACGCCACTATTACTTTACCTTTAACGGCGTTTACGAAAAACGCCGCTAATGCTTTACCTTT
*
52550986 TGCGGCGTTTATGAG
66 TACGGCGTTTATGAG
* * *
52551001 AAAAATGCCACTATTACTTTACCTTTTACGGCGTTTACGCAAAAACGCTGCTAATGCTTTACC-T
1 AAAAACGCCACTATTACTTTACCTTTAACGGCGTTTACG-AAAAACGCCGCTAATGCTTTACCTT
52551065 TTACGGCGTTT
65 TTACGGCGTTT
52551076 TCTATCCAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 44 0.70
81 19 0.30
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (80 bp):
AAAAACGCCACTATTACTTTACCTTTAACGGCGTTTACGAAAAACGCCGCTAATGCTTTACCTTT
TACGGCGTTTATGAG
Found at i:52557357 original size:27 final size:28
Alignment explanation
Indices: 52557319--52557377 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
52557309 GAATTAAGGC
*
52557319 AGTTCACGATA-GGGTTCGCCATAGGTG
1 AGTTCACGATAGGGGTTCACCATAGGTG
52557346 AGTTCACGATAGGGGTTCACCATAGGTG
1 AGTTCACGATAGGGGTTCACCATAGGTG
52557374 AGTT
1 AGTT
52557378 TGCCATAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (28 bp):
AGTTCACGATAGGGGTTCACCATAGGTG
Found at i:52557389 original size:28 final size:28
Alignment explanation
Indices: 52557329--52557408 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 28
52557319 AGTTCACGAT
* * *
52557329 AGGGTTCGCCATAGGTGAGTTCACGATA
1 AGGGTTCACCATAGGTGAGTTTACCATA
* *
52557357 GGGGTTCACCATAGGTGAGTTTGCCATA
1 AGGGTTCACCATAGGTGAGTTTACCATA
*
52557385 AGGGTT-ACTCATATGTGAGTTTAC
1 AGGGTTCAC-CATAGGTGAGTTTAC
52557409 TAGACATAGG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 2 0.05
28 41 0.95
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (28 bp):
AGGGTTCACCATAGGTGAGTTTACCATA
Found at i:52563187 original size:483 final size:474
Alignment explanation
Indices: 52562142--52563595 Score: 1395
Period size: 483 Copynumber: 3.0 Consensus size: 474
52562132 AAGTATTGTA
* * * * * * * * *
52562142 AAAGATACATAATTTGAAAACCAATCTGCATATTAAAATAAATACAAAATAAGTATTTATAATAA
1 AAAGATATATAATTTG-AAACCATTTTACCTATTAAAACAAAAACAAAATAAGCATTAATAAT-A
** * * *
52562207 AATACGGGTTTAGGTATAGTAAAAGGTATATGATTTCAATAACCAAAG-AAAATAAGCATTTATA
64 AATACAAGTTTAGGTATAGTAAAAGGTATAAGA-TTCGATAACCAAAGAAAAATAA-CACTTATA
* * * ** *
52562271 -AGACA-CGATGGAGTATAGATTTAGTCATCGTTAAAAGATATATAATTTGAAAACCATCT-TAC
127 TA-ACATCCAT--A--AAAGA--TA-TCA----TAAAACATATATAATTCAAAAATCAT-TATAC
* * * * * * *
52562333 TTA--ATAATAAAAACAAAATAAGCATTTATAATAAAATACAAGTTTAAGTATAATAAAAGATGT
179 TTATTAAAATAAAAACAAAATAAGCATTTATAATAAAATAGAGGTTTAGGTATAGTGAAAGGTGT
* * * * *
52562396 ATGATTCCGATAACGAAAGCGAAATAAGAATTTATAAACACGATGGAATATAAACTTTA-AGTAT
244 ATGATTCCGATAACGAAAGCAAAATAAGCATTTATATACACAATGAAATATAAACTTTATAGTAT
*
52562460 CGTTAAAAGATATATAAATT-GAAAACCATTTTACTTATTAAAACAAAAACAAAATAAGCATTTA
309 CGTTAAAAGATATAT-AATTCGAAAACC-GTTTACTTATT-AAA-AAAAACAAAATAAGCATTTA
* * * *
52562524 TAATAAAATATAA-GTTTAGGTATAGAAAAAAGTGTACGATTCCGATAACGAAAGCAAAATAAGT
370 TAATAAAATA-AAGGTTTAGGTATAGAGAAAGGTGTATGATTCCGATAACCAAAGCAAAATAAGT
* * ** *
52562588 ATTTATAGAACAC-AATGGAATATAAACTTTAGGCATCGTT
434 ATTTATATAACACTCATAAAATATAAACTTTAAGCATCGTT
* ** * *
52562628 AAAGATATATAATTTGAAACCATTTTGCCTATTAAAACAGGAACAAAATAATCATTTATAATAAA
1 AAAGATATATAATTTGAAACCATTTTACCTATTAAAACAAAAACAAAATAAGCATTAATAATAAA
* * * * *
52562693 TACAAGTTTAGGTATTGTAAAAGAAGTAAAATAAGCATT-TATAACGTACGATGAAATATAA-AC
66 TACAAGTTTAGGTATAGTAAAAG--GT---ATAAG-ATTCGATAAC---CAAAGAAAAATAACAC
* ** **
52562756 TT-TA-AATATCGTTAAAAGATAT-ATAATTCAT-TATAATTCAAAAATCATTATACTTATTAAA
122 TTATATAACATCCATAAAAGATATCATAAAACATATATAATTCAAAAATCATTATACTTATTAAA
* * *
52562817 ATAAAAACAAAAGTAAGCATCTATGATAAAATAGAGGTTTAGGTATAGTGAAAGGTGGATGATTC
187 ATAAAAACAAAA-TAAGCATTTATAATAAAATAGAGGTTTAGGTATAGTGAAAGGTGTATGATTC
52562882 CGATAACGAAAGCAAAATTAA-CATTTATAGTACACAATGAAATATAAACTTTAATTAGTATCGT
251 CGATAACGAAAGCAAAA-TAAGCATTTATA-TACACAATGAAATATAAACTTT-A-TAGTATCGT
52562946 TAAAAGATATATAATTCGAAAACCGTCTTACTTATTAAAATAGAAACAAAATAAGCATTTATAAT
312 TAAAAGATATATAATTCGAAAACCGT-TTACTTATTAAAA-A-AAACAAAATAAGCATTTATAAT
* * *
52563011 AAAATAAAGGTTTAGGTATAGCGGAAGGTGTATGATTCCTATAACCAAAGCAAAATAAGTATTTA
374 AAAATAAAGGTTTAGGTATAGAGAAAGGTGTATGATTCCGATAACCAAAGCAAAATAAGTATTTA
* *
52563076 TATAACACTCGTAAAATATAAACTTTAAGTATCGTT
439 TATAACACTCATAAAATATAAACTTTAAGCATCGTT
* * *
52563112 AAAAGATATCTAATTTGAAAACC-TATTTACTTATTGAAACAAAAACAAAATAAGCA-TAAT-A-
1 -AAAGATATATAATTTG-AAACCAT-TTTACCTATTAAAACAAAAACAAAATAAGCATTAATAAT
* * * * * *
52563173 AAATAGAGGTTTAGGTATAGTGAAAGGTGTATGATTCCGATAACCAAAGAAAAATAAGCATTTAT
63 AAATACAAGTTTAGGTATAGTAAAAGGTATAAGATT-CGATAACCAAAGAAAAATAA-CACTTAT
* * * * * * * *
52563238 ATAACATCCATGAAATATATCGTTAAAAGATATATAATTCGAAAATCGTTTTACTTATTAAAACA
126 ATAACATCCATAAAAGATATC-ATAAAACATATATAATTCAAAAATCATTATACTTATTAAAATA
* * * * * *
52563303 AAAACAAATTACGCATTTATAACAAAATAGAGGTATAGATATGGTGAAAGGTGTATGATTCCGAT
190 AAAACAAAATAAGCATTTATAATAAAATAGAGGTTTAGGTATAGTGAAAGGTGTATGATTCCGAT
* * * *
52563368 AACCAAAGCAAAATAAGCATTTATAATATATAATGAAATATAAATTTTA-AGTATCGTTAAAAGA
255 AACGAAAGCAAAATAAGCATTTAT-ATACACAATGAAATATAAACTTTATAGTATCGTTAAAAGA
* * * * *
52563432 TATATAATTCGAAAATCGTTCTACTTATTAAAAAAAATAAAGTACGCATTTATAATAAAATAGAG
319 TATATAATTCGAAAACCGTT-TACTTATTAAAAAAAACAAAATAAGCATTTATAATAAAATAAAG
* * * * *
52563497 GTATAGGTATGGTGAAAGGTGTATGATTCCGATAACCAAAGCAAAACAAGCATTTATATAACACT
383 GTTTAGGTATAGAGAAAGGTGTATGATTCCGATAACCAAAGCAAAATAAGTATTTATATAACACT
*
52563562 CATAAAATATAAACTTTAAGCATAGTT
448 CATAAAATATAAACTTTAAGCATCGTT
52563589 GAAAGAT
1 -AAAGAT
52563596 GTAGTTTAGG
Statistics
Matches: 808, Mismatches: 119, Indels: 91
0.79 0.12 0.09
Matches are distributed among these distances:
475 1 0.00
476 30 0.04
477 123 0.15
478 22 0.03
479 118 0.15
480 35 0.04
481 9 0.01
482 103 0.13
483 182 0.23
484 45 0.06
485 60 0.07
486 47 0.06
487 1 0.00
488 7 0.01
489 12 0.01
490 4 0.00
491 3 0.00
492 6 0.01
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.30
Consensus pattern (474 bp):
AAAGATATATAATTTGAAACCATTTTACCTATTAAAACAAAAACAAAATAAGCATTAATAATAAA
TACAAGTTTAGGTATAGTAAAAGGTATAAGATTCGATAACCAAAGAAAAATAACACTTATATAAC
ATCCATAAAAGATATCATAAAACATATATAATTCAAAAATCATTATACTTATTAAAATAAAAACA
AAATAAGCATTTATAATAAAATAGAGGTTTAGGTATAGTGAAAGGTGTATGATTCCGATAACGAA
AGCAAAATAAGCATTTATATACACAATGAAATATAAACTTTATAGTATCGTTAAAAGATATATAA
TTCGAAAACCGTTTACTTATTAAAAAAAACAAAATAAGCATTTATAATAAAATAAAGGTTTAGGT
ATAGAGAAAGGTGTATGATTCCGATAACCAAAGCAAAATAAGTATTTATATAACACTCATAAAAT
ATAAACTTTAAGCATCGTT
Found at i:52563526 original size:162 final size:163
Alignment explanation
Indices: 52562787--52563595 Score: 911
Period size: 162 Copynumber: 5.0 Consensus size: 163
52562777 TATAATTCAT
* * * * * *
52562787 TATAATTCAAAAATCATTATACTTATTAAAATAAAAACAAAAGTAAGCATCTATGATAAAATAGA
1 TATAATTCGAAAATCGTTCTACTTATTAAAACAAAAACAAAA-TAAGCATTTATAATAAAATAGA
* * *
52562852 GGTTTAGGTATAGTGAAAGGTGGATGATTCCGATAACGAAAGCAAAATTAA-CATTTATAGTACA
65 GGTTTAGGTATAGTGAAAGGTGTATGATTCCGATAACCAAAGCAAAA-TAAGCATTTATAATA-A
*
52562916 CAATGAAATATAAACTTTAATTAGTATCGTTAAAAGATA
128 CAATGAAATATAAA-TTT--TAAGTATCGTTAAAAGATA
* * * *
52562955 TATAATTCGAAAACCG-TCTTACTTATTAAAATAGAAACAAAATAAGCATTTATAATAAAATAAA
1 TATAATTCGAAAATCGTTC-TACTTATTAAAACAAAAACAAAATAAGCATTTATAATAAAATAGA
* * * *
52563019 GGTTTAGGTATAGCGGAAGGTGTATGATTCCTATAACCAAAGCAAAATAAGTATTTAT-ATAACA
65 GGTTTAGGTATAGTGAAAGGTGTATGATTCCGATAACCAAAGCAAAATAAGCATTTATAATAACA
* *
52563083 CTCGTAAAATATAAACTTTAAGTATCGTTAAAAGATA
130 AT-G--AAATATAAATTTTAAGTATCGTTAAAAGATA
* * * * *
52563120 TCTAATTTGAAAA-CCTATTTACTTATTGAAACAAAAACAAAATAAGC----ATAATAAAATAGA
1 TATAATTCGAAAATCGT-TCTACTTATTAAAACAAAAACAAAATAAGCATTTATAATAAAATAGA
*
52563180 GGTTTAGGTATAGTGAAAGGTGTATGATTCCGATAACCAAAGAAAAATAAGCATTTAT-ATAAC-
65 GGTTTAGGTATAGTGAAAGGTGTATGATTCCGATAACCAAAGCAAAATAAGCATTTATAATAACA
** *
52563243 AT-CCAT-GAAA---T-A-TATCGTTAAAAGATA
130 ATGAAATATAAATTTTAAGTATCGTTAAAAGATA
* * * *
52563270 TATAATTCGAAAATCGTTTTACTTATTAAAACAAAAACAAATTACGCATTTATAACAAAATAGAG
1 TATAATTCGAAAATCGTTCTACTTATTAAAACAAAAACAAAATAAGCATTTATAATAAAATAGAG
* * * *
52563335 GTATAGATATGGTGAAAGGTGTATGATTCCGATAACCAAAGCAAAATAAGCATTTATAATATATA
66 GTTTAGGTATAGTGAAAGGTGTATGATTCCGATAACCAAAGCAAAATAAGCATTTATAATA-ACA
52563400 ATGAAATATAAATTTTAAGTATCGTTAAAAGATA
130 ATGAAATATAAATTTTAAGTATCGTTAAAAGATA
* * *
52563434 TATAATTCGAAAATCGTTCTACTTATT-AAA-AAAAATAAAGTACGCATTTATAATAAAATAGAG
1 TATAATTCGAAAATCGTTCTACTTATTAAAACAAAAACAAAATAAGCATTTATAATAAAATAGAG
* * *
52563497 GTATAGGTATGGTGAAAGGTGTATGATTCCGATAACCAAAGCAAAACAAGCATTTAT-ATAACAC
66 GTTTAGGTATAGTGAAAGGTGTATGATTCCGATAACCAAAGCAAAATAAGCATTTATAATAACA-
* * * * *
52563561 TCATAAAATATAAACTTTAAGCATAGTTGAAAGAT
130 --ATGAAATATAAATTTTAAGTATCGTTAAAAGAT
52563596 GTAGTTTAGG
Statistics
Matches: 554, Mismatches: 62, Indels: 55
0.83 0.09 0.08
Matches are distributed among these distances:
150 53 0.10
151 3 0.01
152 1 0.00
154 66 0.12
155 6 0.01
156 3 0.01
157 2 0.00
158 2 0.00
159 3 0.01
160 3 0.01
161 73 0.13
162 86 0.16
163 32 0.06
164 42 0.08
165 58 0.10
166 7 0.01
167 70 0.13
168 44 0.08
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (163 bp):
TATAATTCGAAAATCGTTCTACTTATTAAAACAAAAACAAAATAAGCATTTATAATAAAATAGAG
GTTTAGGTATAGTGAAAGGTGTATGATTCCGATAACCAAAGCAAAATAAGCATTTATAATAACAA
TGAAATATAAATTTTAAGTATCGTTAAAAGATA
Found at i:52563725 original size:65 final size:66
Alignment explanation
Indices: 52563644--52563779 Score: 256
Period size: 66 Copynumber: 2.1 Consensus size: 66
52563634 GCAGATTTAA
52563644 GTATAGTGAAAGGTGTATAATT-CCGATAATCAAAGTAAAATAAGTATTTATGTAACACCCACAA
1 GTATAGTGAAAGGTGTATAATTCCCGATAATCAAAGTAAAATAAGTATTTATGTAACACCCACAA
52563708 C
66 C
52563709 GTATAGTGAAAGGTGTATAATTCCCGATAATCAAAGTAAAATAAGTATTTATGTAACACCCACAA
1 GTATAGTGAAAGGTGTATAATTCCCGATAATCAAAGTAAAATAAGTATTTATGTAACACCCACAA
52563774 C
66 C
*
52563775 ATATA
1 GTATA
52563780 AACTTTAAGC
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 22 0.32
66 47 0.68
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (66 bp):
GTATAGTGAAAGGTGTATAATTCCCGATAATCAAAGTAAAATAAGTATTTATGTAACACCCACAA
C
Found at i:52563902 original size:29 final size:29
Alignment explanation
Indices: 52563860--52563918 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
52563850 CTAACCAGAA
52563860 AGTAAAAGAGGTAGTGAAATTAAATGCTT
1 AGTAAAAGAGGTAGTGAAATTAAATGCTT
52563889 AGTAAAAGAGGTAGTGAAATTAAATGCTT
1 AGTAAAAGAGGTAGTGAAATTAAATGCTT
52563918 A
1 A
52563919 CCAAGAGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (29 bp):
AGTAAAAGAGGTAGTGAAATTAAATGCTT
Found at i:52570257 original size:38 final size:39
Alignment explanation
Indices: 52570217--52570364 Score: 137
Period size: 38 Copynumber: 3.9 Consensus size: 39
52570207 CTTTTGTGGA
* *
52570217 AAAAAACGCTGCTATTGC-TTACCTTAACGGCG-TTATG
1 AAAAAACGCCGCTATTGCTTTACCTTTACGGCGTTTATG
* *
52570254 AAAAAA-GCCGC-GTTGCTTTACCTTTTGCGGCGTTTATG
1 AAAAAACGCCGCTATTGCTTTACC-TTTACGGCGTTTATG
* * * *
52570292 AGAAAAATGCCACTATTAC-TTACCTTTACGGCGTTTACG
1 A-AAAAACGCCGCTATTGCTTTACCTTTACGGCGTTTATG
* * *
52570331 CAAAAAC-CTGCTAATGCTTTACCTTTACGGCGTT
1 AAAAAACGCCGCTATTGCTTTACCTTTACGGCGTT
52570365 CTATCCAAAC
Statistics
Matches: 89, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
35 4 0.04
36 9 0.10
37 19 0.21
38 27 0.30
39 18 0.20
40 9 0.10
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (39 bp):
AAAAAACGCCGCTATTGCTTTACCTTTACGGCGTTTATG
Found at i:52571685 original size:25 final size:27
Alignment explanation
Indices: 52571635--52571688 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
52571625 ATAAATTTTT
*
52571635 AAATTAAATATATAAAAATCTTTTTAA
1 AAATTAAATATATAAAAATCTATTTAA
52571662 AAATTAAA-AT-TATAAAA-CTATTTAA
1 AAATTAAATATATA-AAAATCTATTTAA
52571687 AA
1 AA
52571689 TATAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 11 0.44
26 6 0.24
27 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (27 bp):
AAATTAAATATATAAAAATCTATTTAA
Found at i:52571696 original size:18 final size:18
Alignment explanation
Indices: 52571665--52571702 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
52571655 TTTTTAAAAA
*
52571665 TTAAAATTATAAAACTAT
1 TTAAAATTATAAAAATAT
52571683 TTAAAA-TATAAAAAATAT
1 TTAAAATTAT-AAAAATAT
52571701 TT
1 TT
52571703 TAATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAAAATTATAAAAATAT
Found at i:52572849 original size:40 final size:40
Alignment explanation
Indices: 52572762--52572865 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
52572752 AGTAATAGTG
* *
52572762 GCATTTTCTCATAAACGCCGCAAAAGGTAAAGCAACAGCG
1 GCATTTTTTCATAAACGCCGCAAAAGGTAAAGCAACAGCA
** *
52572802 GCATTTTTTCATAAACGCCGTTAAAGGTAAAGCAATAGCA
1 GCATTTTTTCATAAACGCCGCAAAAGGTAAAGCAACAGCA
* * * *
52572842 GCGTTTTTCCACAAAAGCCGCAAA
1 GCATTTTTTCATAAACGCCGCAAA
52572866 TATTTTTATT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (40 bp):
GCATTTTTTCATAAACGCCGCAAAAGGTAAAGCAACAGCA
Found at i:52573207 original size:19 final size:19
Alignment explanation
Indices: 52573172--52573208 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52573162 AAACTCTATC
*
52573172 TATTTGGTTTTACATGAAG
1 TATTTGGTTCTACATGAAG
*
52573191 TATTTGGTTCTATATGAA
1 TATTTGGTTCTACATGAA
52573209 TGAATATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.05, G:0.19, T:0.49
Consensus pattern (19 bp):
TATTTGGTTCTACATGAAG
Found at i:52579077 original size:28 final size:28
Alignment explanation
Indices: 52579046--52579099 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
52579036 CATCTCTTGG
52579046 TAAGCATTTAATTTCACTACCTCTTTAC
1 TAAGCATTTAATTTCACTACCTCTTTAC
52579074 TAAGCATTTAATTTCACTACCTCTTT
1 TAAGCATTTAATTTCACTACCTCTTT
52579100 TACTTTCTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.28, C:0.24, G:0.04, T:0.44
Consensus pattern (28 bp):
TAAGCATTTAATTTCACTACCTCTTTAC
Found at i:52579271 original size:65 final size:65
Alignment explanation
Indices: 52579184--52579318 Score: 245
Period size: 65 Copynumber: 2.1 Consensus size: 65
52579174 GCTTAAAGTT
*
52579184 TATATGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATCGGGAATTATACACCTTTCA
1 TATACGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATC-GGAATTATACACCTTTCA
52579249 C
65 C
52579250 TATACGTTGT-GGTGTTACATAAATACTTATTTTACTTTGATTATCGGAATTATACACCTTTCAC
1 TATACGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATCGGAATTATACACCTTTCAC
52579314 TATAC
1 TATAC
52579319 TTAAATCTGC
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
64 24 0.35
65 35 0.51
66 9 0.13
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (65 bp):
TATACGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATCGGAATTATACACCTTTCAC
Found at i:52579594 original size:160 final size:159
Alignment explanation
Indices: 52579366--52580161 Score: 860
Period size: 161 Copynumber: 5.0 Consensus size: 159
52579356 CCTAAACTAC
* * * * * *
52579366 ATCTTTCAACTATGCTTAAAGTTTATATTTTATGAGTGTTATATAAATGCTTGTTTTGCTTTGGT
1 ATCTTTTAACGATACTTAAAATTTATATTTCAT---TGTTATATAAATGCTTATTTTGCTTTGGT
* * * * *
52579431 TATCGGAATCATACACCTTTCACCATACCTATACCTCTATTTTATTATAAATGCGTACTT-TATT
63 TATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTGTTTT
52579495 T-TTTAATAAGTAGAACGATTTTCGAATTATAT
128 TATTTAATAAGTA-AACGATTTTCGAATTATAT
*
52579527 ATCTTTTAACGATACTTAAAATTTATATTTCATTATATATTATAAATGCTTATTTTGCTTTGGTT
1 ATCTTTTAACGATACTTAAAATTTATATTTCATTGT-TA-TATAAATGCTTATTTTGCTTTGGTT
* * * * *
52579592 ATCGGAATCATACACCTTTCACCATATCTATACCTCTATTTTGTTATAAATGCGTAATTTGTTTT
64 ATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGC-TTATTTGTTTT
52579657 GT-TTTAATAAGTAAAACGATTTTCGAATTATAT
128 -TATTTAATAAGT-AAACGATTTTCGAATTATAT
* ** *
52579690 ATCTTTTAACGATA--T---ATTT-CA-TGGA-TGTTATAT-AATGCTTATTTTTCTTTGGTTAT
1 ATCTTTTAACGATACTTAAAATTTATATTTCATTGTTATATAAATGCTTATTTTGCTTTGGTTAT
*
52579746 CGGAATCATACACCTTTCACTATACCTAAACCTCTA-TTTA-T-T--ATGCTTATTTGTTTTTGT
66 CGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTGTTTTTAT
* * * *
52579806 TTCAATAAGTAAATAGGTTTTCAAATTAGAT
131 TT-AATAAGTAAA-CGATTTTCGAATTATAT
* * *
52579837 ATCTTTTAACGATACTTAAAGTTTATATTTACGAGTGTTATATAAATACTTA-TTTGCTTTGGTT
1 ATCTTTTAACGATACTTAAAATTTATATTT-C-ATTGTTATATAAATGCTTATTTTGCTTTGGTT
* * * * *
52579901 ATAGGAATCATACACCTTCCGCTATACCTAAACCTTTATTTTATT-TAAATGCTTATTTTGTTTC
64 ATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTA-TTTGTTTT
*
52579965 TATTTAATAAGTAAGACGGTTTTCGAATTATAT
128 TATTTAATAAGTAA-ACGATTTTCGAATTATAT
*
52579998 ATCTTTTAACGATACTAATTAAAGTTTATATTTCATTGTGTACTATAAATG-TTAATTTTGCTTT
1 ATCTTTTAACGATAC---TTAAAATTTATATTTCATTGT-TA-TATAAATGCTT-ATTTTGCTTT
* * * *
52580062 CGTTATCGGAATCATCCACCTTTCACTATA-CTAAACCTCTATTTTATCATAGATGCTTACTTTG
60 GGTTATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTA-TTTG
* *
52580126 TTTTTATTTAATAAGTATAATGATTTTTGAATTATA
124 TTTTTATTTAATAAGTA-AACGATTTTCGAATTATA
52580162 ATGAATTATA
Statistics
Matches: 543, Mismatches: 57, Indels: 66
0.82 0.09 0.10
Matches are distributed among these distances:
145 1 0.00
146 16 0.03
147 38 0.07
149 2 0.00
150 1 0.00
151 3 0.01
152 58 0.11
153 4 0.01
154 3 0.01
155 2 0.00
156 3 0.01
157 54 0.10
158 17 0.03
159 4 0.01
160 75 0.14
161 77 0.14
162 19 0.03
163 49 0.09
164 40 0.07
165 76 0.14
166 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.46
Consensus pattern (159 bp):
ATCTTTTAACGATACTTAAAATTTATATTTCATTGTTATATAAATGCTTATTTTGCTTTGGTTAT
CGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTGTTTTTAT
TTAATAAGTAAACGATTTTCGAATTATAT
Found at i:52580137 original size:165 final size:159
Alignment explanation
Indices: 52579715--52580810 Score: 626
Period size: 161 Copynumber: 6.9 Consensus size: 159
52579705 ATTTCATGGA
* *
52579715 TGTTATAT-AATGCTTATTTTTCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCT
1 TGTTATATAAATACTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCT
*
52579779 CTA-TTTATT-ATGCTTATTTGTTTTTGTTTCAATAAGTAAATAGGTTTTCAAATTAGATATCTT
66 CTATTTTATTAATGCTTATTTGTTTTTATTT-AATAAGTAAATAGGTTTTCAAATTAGATATCTT
52579842 TTAACGATACTTAAAGTTTATATTTACGAG
130 TTAACGATACTTAAAGTTTATATTTACGAG
* * *
52579872 TGTTATATAAATACTTA-TTTGCTTTGGTTATAGGAATCATACACCTTCCGCTATACCTAAACCT
1 TGTTATATAAATACTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCT
* * * * *
52579936 TTATTTTATTTAAATGCTTATTTTGTTTCTATTTAATAAGTAAGA-CGGTTTTCGAATTATATAT
66 CTATTTTA-TT-AATGCTTA-TTTGTTTTTATTTAATAAGTAA-ATAGGTTTTCAAATTAGATAT
*
52580000 CTTTTAACGATACTAATTAAAGTTTATATTT-C-AT
127 CTTTTAACGATAC---TTAAAGTTTATATTTACGAG
* * *
52580034 TGTGTACTATAAAT-GTTAATTTTGCTTTCGTTATCGGAATCATCCACCTTTCACTATA-CTAAA
1 TGT-TA-TATAAATACTT-ATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAA
* *
52580097 CCTCTATTTTATCATAGATGCTTACTTTGTTTTTATTTAATAAGTATAAT-GATTTTTGAATTAT
63 CCTCTATTTTAT--TA-ATGCTTA-TTTGTTTTTATTTAATAAGTA-AATAG-GTTTTCAA--AT
* * *
52580161 AATGAATTATATATCTTTAACGATATTTAAAGTTTATATTTCATCGTA-
120 --T--A-GATATCT-TTTAACGATACTTAAAGTTTATATTT-A-CG-AG
* * * * * **
52580209 CG-T-TATAAATGCTTATTTTACTTCT--TT-T----A-CA-ATACC--T-A--A-ACTTGTA--
1 TGTTATATAAATACTTATTTTGCTT-TGGTTATCGGAATCATACACCTTTCACTATACCTAAACC
* * * ** * * * *
52580255 T-T-TATTATAAATGATTATTTTGTTCCTGTTTAATAGGCAAA-ATGG-TTTCAAATTATATATC
65 TCTATTTTATTAATGCTTA-TTTGTTTTTATTTAATAAGTAAATA-GGTTTTCAAATTAGATATC
* * *
52580316 TTTTAACGATGCCTAAAGTTTATA-TT-CCATTG
128 TTTTAACGATACTTAAAGTTTATATTTACGA--G
* * * * ** *
52580348 TGTTCTATAAATACTTATTTTGCTTTCGTTATCGGAATCGTACACTTTTTTCTATACCTAAACTT
1 TGTTATATAAATACTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCT
* * * *
52580413 ATATTTTATTATAAATGCTTATTTGTTTTTGTTTTAATAAGTAAA-ATGGTTTTCAATTTATATA
66 CTATTTTA-T-T-AATGCTTATTTGTTTTT-ATTTAATAAGTAAATA-GGTTTTCAAATTAGATA
*
52580477 TCTTTTAACGATACTTAAAGTTTATA-TT-CCATCG
126 TCTTTTAACGATACTTAAAGTTTATATTTACGA--G
* * * * * * *
52580511 TGTT-TATAAATTCTTATTTCGCTTTCGTTATCGGAATCATACATCTTT-ATTATACTTAAACTT
1 TGTTATATAAATACTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCT
* * * *
52580574 GTATTTATTATAAATGCTTATTT-TGTTTTA-TTATTAAGTAAGAT-GGTTTTCAAATTATATAT
66 CTA-TT-TTATTAATGCTTATTTGT-TTTTATTTAATAAGTAA-ATAGGTTTTCAAATTAGATAT
* * *
52580636 CTTTTAACGATGAC-TAAA-TCTATA-CT-CCATCG
127 CTTTTAACGAT-ACTTAAAGTTTATATTTACGA--G
* * * * *
52580668 TGTCT-TATAAATGCTTA-TTT-CTTTGGTTATTGAAATCATATACCTTTTACTATACCTAAACC
1 TGT-TATATAAATACTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACC
* * * * * *
52580730 -CGTATTTTATTATAAATACTTATTTTGTATTTATTTTAATATGCAGATTGGTTTTCAAATTATG
65 TC-TATTTTA-T-T-AATGCTTA-TTTGTTTTTA-TTTAATAAGTAAATAGGTTTTCAAATTA-G
*
52580794 -TATCTTTT-ACAATACTT
123 ATATCTTTTAACGATACTT
52580811 GTAATTTATG
Statistics
Matches: 746, Mismatches: 107, Indels: 169
0.73 0.10 0.17
Matches are distributed among these distances:
136 1 0.00
137 1 0.00
139 1 0.00
140 4 0.01
141 38 0.05
142 8 0.01
143 2 0.00
145 1 0.00
147 3 0.00
148 1 0.00
149 8 0.01
150 2 0.00
151 24 0.03
152 1 0.00
154 6 0.01
155 8 0.01
156 26 0.03
157 85 0.11
158 76 0.10
159 19 0.03
160 25 0.03
161 95 0.13
162 80 0.11
163 60 0.08
164 41 0.05
165 64 0.09
166 6 0.01
168 2 0.00
169 1 0.00
170 3 0.00
171 30 0.04
172 4 0.01
173 7 0.01
174 11 0.01
175 1 0.00
176 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.48
Consensus pattern (159 bp):
TGTTATATAAATACTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCT
CTATTTTATTAATGCTTATTTGTTTTTATTTAATAAGTAAATAGGTTTTCAAATTAGATATCTTT
TAACGATACTTAAAGTTTATATTTACGAG
Found at i:52580521 original size:162 final size:162
Alignment explanation
Indices: 52580240--52580810 Score: 655
Period size: 158 Copynumber: 3.6 Consensus size: 162
52580230 TTCTTTTACA
* ** *
52580240 ATACCTAAACTTGTATTTATTATAAATGATTATTTTGTTCCTG-TTTAATAGGCAAAATGG-TTT
1 ATACCTAAACTTGTATTTATTATAAATGCTTATTTTGTTTTTGTTTTAATAAGCAAAATGGTTTT
* * *
52580303 CAAATTATATATCTTTTAACGATGCCTAAAGTTTATATTCCATTGTGTTCTATAAATACTTATTT
66 CAAATTATATATCTTTTAACGATACTTAAAGTTTATATTCCATCGTGTT-TATAAATACTTATTT
*
52580368 TGCTTTCGTTATCGGAATCGTACACTTTTTTCT
130 TGCTTTCGTTATCGGAATCATACACTTTTTTCT
* *
52580401 ATACCTAAACTTATATTTTATTATAAATGCTTA-TTTGTTTTTGTTTTAATAAGTAAAATGGTTT
1 ATACCTAAACTTGTA-TTTATTATAAATGCTTATTTTGTTTTTGTTTTAATAAGCAAAATGGTTT
* *
52580465 TCAATTTATATATCTTTTAACGATACTTAAAGTTTATATTCCATCGTGTTTATAAATTCTTATTT
65 TCAAATTATATATCTTTTAACGATACTTAAAGTTTATATTCCATCGTGTTTATAAATACTTATTT
* *
52580530 CGCTTTCGTTATCGGAATCATACA-TCTTTAT-T
130 TGCTTTCGTTATCGGAATCATACACT-TTTTTCT
* * * * *
52580562 ATACTTAAACTTGTATTTATTATAAATGCTTATTTTG--TTT-TATTATTAAGTAAGATGGTTTT
1 ATACCTAAACTTGTATTTATTATAAATGCTTATTTTGTTTTTGTTTTAATAAGCAAAATGGTTTT
* * *
52580624 CAAATTATATATCTTTTAACGATGAC-TAAA-TCTATACTCCATCGTGTCTTATAAATGCTTA-T
66 CAAATTATATATCTTTTAACGAT-ACTTAAAGTTTATATTCCATCGTGT-TTATAAATACTTATT
* * * * * *
52580686 TT-CTTTGGTTATTGAAATCATATACCTTTTACT
129 TTGCTTTCGTTATCGGAATCATACACTTTTTTCT
** * * * * * *
52580719 ATACCTAAACCCGTATTTTATTATAAATACTTATTTTGTATTTATTTTAATATGCAGATTGGTTT
1 ATACCTAAACTTGTA-TTTATTATAAATGCTTATTTTGTTTTTGTTTTAATAAGCAAAATGGTTT
* *
52580784 TCAAATTATGTATCTTTT-ACAATACTT
65 TCAAATTATATATCTTTTAACGATACTT
52580811 GTAATTTATG
Statistics
Matches: 352, Mismatches: 44, Indels: 29
0.83 0.10 0.07
Matches are distributed among these distances:
156 21 0.06
157 30 0.09
158 78 0.22
159 7 0.02
160 25 0.07
161 72 0.20
162 71 0.20
163 48 0.14
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.48
Consensus pattern (162 bp):
ATACCTAAACTTGTATTTATTATAAATGCTTATTTTGTTTTTGTTTTAATAAGCAAAATGGTTTT
CAAATTATATATCTTTTAACGATACTTAAAGTTTATATTCCATCGTGTTTATAAATACTTATTTT
GCTTTCGTTATCGGAATCATACACTTTTTTCT
Found at i:52585444 original size:17 final size:17
Alignment explanation
Indices: 52585421--52585488 Score: 64
Period size: 17 Copynumber: 4.0 Consensus size: 17
52585411 AGCTCTAGTA
52585421 CTGGCGAACTCCTATGT
1 CTGGCGAACTCCTATGT
* * *
52585438 TTGGCGAACTCTTATGC
1 CTGGCGAACTCCTATGT
* * *
52585455 CCGGCAAACCCCTATGT
1 CTGGCGAACTCCTATGT
**
52585472 CTAACGAACTCCTATGT
1 CTGGCGAACTCCTATGT
52585489 TTGACAAACA
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (17 bp):
CTGGCGAACTCCTATGT
Found at i:52585602 original size:13 final size:13
Alignment explanation
Indices: 52585580--52585632 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
52585570 GGCAAACTCA
*
52585580 CCTATGGTGAACC
1 CCTATCGTGAACC
52585593 CCTATCGTGAACTC
1 CCTATCGTGAAC-C
* *
52585607 ACCTATGGCGAACC
1 -CCTATCGTGAACC
52585621 CCTATCGTGAAC
1 CCTATCGTGAAC
52585633 TGCCTTAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
13 21 0.64
14 2 0.06
15 10 0.30
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.23
Consensus pattern (13 bp):
CCTATCGTGAACC
Found at i:52585605 original size:28 final size:28
Alignment explanation
Indices: 52585574--52585633 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
52585564 CCTTATGGCA
*
52585574 AACTCACCTATGGTGAACCCCTATCGTG
1 AACTCACCTATGGCGAACCCCTATCGTG
52585602 AACTCACCTATGGCGAACCCCTATCGTG
1 AACTCACCTATGGCGAACCCCTATCGTG
52585630 AACT
1 AACT
52585634 GCCTTAATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (28 bp):
AACTCACCTATGGCGAACCCCTATCGTG
Found at i:52585619 original size:15 final size:15
Alignment explanation
Indices: 52585567--52585619 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
52585557 GAGTAACCCT
*
52585567 TATGGCAAACTCACC
1 TATGGCGAACTCACC
*
52585582 TATGGTGAAC-C-CC
1 TATGGCGAACTCACC
* *
52585595 TATCGTGAACTCACC
1 TATGGCGAACTCACC
52585610 TATGGCGAAC
1 TATGGCGAAC
52585620 CCCTATCGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
13 11 0.35
14 2 0.06
15 18 0.58
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (15 bp):
TATGGCGAACTCACC
Found at i:52590848 original size:27 final size:24
Alignment explanation
Indices: 52590791--52590848 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 24
52590781 GCATCAGCAT
*
52590791 TTAATAATTTTTTTAAATTTAAATA
1 TTAA-AATTTTTTTAAAATTAAATA
52590816 TATAAAATTCTTTTTAAAAATTAAATTA
1 T-TAAAATT-TTTTT-AAAATTAAA-TA
52590844 TTAAA
1 TTAAA
52590849 CTATTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
25 5 0.18
26 8 0.29
27 12 0.43
28 3 0.11
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
TTAAAATTTTTTTAAAATTAAATA
Found at i:52591953 original size:38 final size:38
Alignment explanation
Indices: 52591837--52591987 Score: 167
Period size: 38 Copynumber: 3.9 Consensus size: 38
52591827 GTTTGGATAG
* * * *
52591837 AAACGCCGTAAAAGGTAAGCATTAGCAGCGTTTTTGCGT
1 AAACGCCGT-AAAGGTAAGCAATAGCAGCATTTTTTCAT
* ** *
52591876 AAACGCCGTAAAGGTAAAGTAATAGTGGCATTTTCTCAT
1 AAACGCCGTAAAGGT-AAGCAATAGCAGCATTTTTTCAT
* * *
52591915 AAACGCCGCAAAGGTAAGCAACAGCGGCATTTTTTCAT
1 AAACGCCGTAAAGGTAAGCAATAGCAGCATTTTTTCAT
* *
52591953 AAACGCCGTTAAGGTAAGCAATAGCAGCGTTTTTT
1 AAACGCCGTAAAGGTAAGCAATAGCAGCATTTTTT
52591988 TCCACAAAGC
Statistics
Matches: 93, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
38 55 0.59
39 38 0.41
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (38 bp):
AAACGCCGTAAAGGTAAGCAATAGCAGCATTTTTTCAT
Found at i:52598168 original size:27 final size:29
Alignment explanation
Indices: 52598118--52598174 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
52598108 CATCTCTTGG
52598118 TAAGCATTTAATTTCACTACCTCTTTTAC
1 TAAGCATTTAATTTCACTACCTCTTTTAC
52598147 TAAGCA-TTAATTTCACTA-CTCTTTTAC
1 TAAGCATTTAATTTCACTACCTCTTTTAC
52598174 T
1 T
52598175 TTCTGGTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 10 0.36
28 12 0.43
29 6 0.21
ACGTcount: A:0.28, C:0.23, G:0.04, T:0.46
Consensus pattern (29 bp):
TAAGCATTTAATTTCACTACCTCTTTTAC
Found at i:52598340 original size:65 final size:65
Alignment explanation
Indices: 52598254--52598388 Score: 245
Period size: 65 Copynumber: 2.1 Consensus size: 65
52598244 TGCTTAAAGT
*
52598254 TATATGTTGTGGGTGTTACATAAATACTTA-TTTACTTTGATTATCGGGAATTATACACCTTTCA
1 TATACGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATC-GGAATTATACACCTTTCA
52598318 C
65 C
52598319 TATACGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATCGGAATTATACACCTTTCAC
1 TATACGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATCGGAATTATACACCTTTCAC
52598384 TATAC
1 TATAC
52598389 TTAAATCTGC
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
65 53 0.78
66 15 0.22
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (65 bp):
TATACGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATCGGAATTATACACCTTTCAC
Found at i:52598643 original size:161 final size:160
Alignment explanation
Indices: 52598436--52599858 Score: 1040
Period size: 160 Copynumber: 8.9 Consensus size: 160
52598426 CCTAAACTAC
* * * * *
52598436 ATCTTTCAACTATGCTTAAAGTTTATATTT-ATGAGTGTTATATAAATGCTTGTTTTGCTTTGGT
1 ATCTTTTAACGATACTTAAAGATTATATTTCAT---TGTTATATAAATGCTTATTTTGCTTTGGT
* * * *
52598500 TATCGGAATCATACACCTTTCACCATACCTATACCTCTATTTTATTATAAATGCGTACTTTATTT
63 TATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTACTTTGTTT
52598565 T-TTTTAATAAGTAGAACGATTTTCGAATTATAT
128 TATTTTAATAAGTA-AACGATTTTCGAATTATAT
*
52598598 ATCTTTTAACGATACTTAAA-ATTATATTTCATTATATATTATAAATGCTTATTTTGCTTTGGTT
1 ATCTTTTAACGATACTTAAAGATTATATTTCATTGT-TA-TATAAATGCTTATTTTGCTTTGGTT
* * * * * *
52598662 ATCGGAATCATACACCTTTCACCATATCTATACCTCTATTTTGTTATAAATGCGTAATTTGTTTT
64 ATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTACTTTG-TTT
*
52598727 TGTTTTAATAAGTAAAACGATTTTCGAATTATAT
128 TATTTTAATAAGT-AAACGATTTTCGAATTATAT
** *
52598761 ATCTTTTAACGATA--T----ATT-TCA-TGGA-TGTTATATAAATGCTTATTTTTCTTTGGTTA
1 ATCTTTTAACGATACTTAAAGATTAT-ATTTCATTGTTATATAAATGCTTATTTTGCTTTGGTTA
* *
52598817 TCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTA-T-T--ATGCTTATTTTGTTTTG
65 TCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTACTTTGTTTTA
* * * * *
52598878 TTTCAATAAGTAAATAGGTTTTCAAATTAGAT
130 TTTTAATAAGTAAA-CGATTTTCGAATTATAT
* * *
52598910 ATCTTTTAACGATACTTAAAGTTTATATTTTACGAGTGTTATATAAATACTTATTTTGCTTTGGT
1 ATCTTTTAACGATACTTAAAGATTATA-TTT-C-ATTGTTATATAAATGCTTATTTTGCTTTGGT
* * * * *
52598975 TATAGGAATCATACACCTTCCGCTATACCTAAACCTTTATTTTATTATAAATGCTTATTTTGTTT
63 TATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTACTTTGTTT
*
52599040 CTATTTTAATAAGTAAGACGGTTTTCGAATTATAT
128 -TATTTTAATAAGTAA-ACGATTTTCGAATTATAT
*
52599075 ATCTTTTAACGATACTAATTAAAGTTTATATTTCATTGTGTACTATAAATG-TTAATTTTGCTTT
1 ATCTTTTAACGATAC---TTAAAGATTATATTTCATTGT-TA-TATAAATGCTT-ATTTTGCTTT
* * * *
52599139 CGTTATCGGAATCATCCACCTTTCACTATACCTAAACCTCTATTTTATCATAGATGCTTACTTTT
60 GGTTATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTAC-TTT
* *
52599204 GTTTTTATTTTAATAAGTATAATGATTTTTGAATTATAATGAATTATAT
124 G-TTTTATTTTAATAAGTA-AACGA----T---TT-T--CGAATTATAT
* * * * *
52599253 ATCTTTTAACGATATTTAAAGTTTATATTTCATCG-TACGTTATAAATGCTTATTTTACTTCT-T
1 ATCTTTTAACGATACTTAAAGATTATATTTCATTGTTA---TATAAATGCTTATTTTGCTT-TGG
* * * * * * * *
52599316 TTA-C--AATACCTA-AACTTGT-ATTTTA-TTATAA-AT-GA--TTATT-T---TG-TT-C-CT
62 TTATCGGAAT-CATACACCTT-TCACTATACCTA-AACCTCTATTTTATTATAAATGCTTACTTT
* * * * *
52599364 G-----TTTTAATAGGCAAAATG-GTTTCAAATTATAT
124 GTTTTATTTTAATAAG-TAAACGATTTTCGAATTATAT
* * * * * * *
52599396 ATC-TTTAACGATGCCTAAAGTTTATATTCCATTGTGTTCTATAAATACTTATTTTGCTTTCGTT
1 ATCTTTTAACGATACTTAAAGATTATATTTCA-T-TGTTATATAAATGCTTATTTTGCTTTGGTT
* * ** * * *
52599460 ATCGGAATCGTACACTTTTTTCTATACCTAAACTTATATTTTATTATAAATGCTTATTTTGTTTT
64 ATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTACTTTG-TTT
* * *
52599525 TGTTTTAATAAGTAAAATGGTTTTC-AATTTATAT
128 TATTTTAATAAGT-AAACGATTTTCGAA-TTATAT
* * * * * *
52599559 ATCTTTTAACGATACTTAAAGTTTATATTCCATCGTGTTTTATAAATTCTTATTTCGCTTTCGTT
1 ATCTTTTAACGATACTTAAAGATTATATTTCAT--TGTTATATAAATGCTTATTTTGCTTTGGTT
* * * * * * *
52599624 ATCGGAATCATACATCTTTTATTATACTTAAACTTGTATTTTATTATAAATGCTTATTTTGTTTT
64 ATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTACTTTGTTTT
* * * * *
52599689 -TATTATTAAGTAAGATGGTTTTCAAATTATAT
129 ATTTTAATAAGTAA-ACGATTTTCGAATTATAT
* *
52599721 ATCTTTTAACGATGAC-T-AA-ATCTATACTCCATCGTGTCT-TATAAATGCTTATTTT-CTTTG
1 ATCTTTTAACGAT-ACTTAAAGAT-TATATTTCAT--TGT-TATATAAATGCTTATTTTGCTTTG
* * * * * *
52599781 GTTATTGAAATCATATACCTTTTACTATACCTAAACC-CGTATTTTATTATAAATACTTATTTTG
61 GTTATCGGAATCATACACCTTTCACTATACCTAAACCTC-TATTTTATTATAAATGCTTACTTTG
52599845 TATTTATTTTAATA
125 T-TTTATTTTAATA
52599859 TGCAGATTGG
Statistics
Matches: 1042, Mismatches: 126, Indels: 186
0.77 0.09 0.14
Matches are distributed among these distances:
141 1 0.00
142 45 0.04
143 13 0.01
144 5 0.00
145 13 0.01
146 5 0.00
147 1 0.00
148 3 0.00
149 47 0.05
150 11 0.01
151 1 0.00
152 1 0.00
153 3 0.00
154 78 0.07
155 6 0.01
156 5 0.00
157 4 0.00
158 4 0.00
159 3 0.00
160 131 0.13
161 126 0.12
162 86 0.08
163 68 0.07
164 126 0.12
165 46 0.04
166 6 0.01
167 73 0.07
168 36 0.03
169 4 0.00
170 1 0.00
171 3 0.00
172 14 0.01
173 5 0.00
174 1 0.00
175 40 0.04
176 4 0.00
178 23 0.02
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.48
Consensus pattern (160 bp):
ATCTTTTAACGATACTTAAAGATTATATTTCATTGTTATATAAATGCTTATTTTGCTTTGGTTAT
CGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTACTTTGTTTTAT
TTTAATAAGTAAACGATTTTCGAATTATAT
Found at i:52598851 original size:154 final size:160
Alignment explanation
Indices: 52598454--52599241 Score: 872
Period size: 161 Copynumber: 4.9 Consensus size: 160
52598444 ACTATGCTTA
* *
52598454 AAGTTTATATTTATGAGTGTTATATAAATGCTTGTTTTGCTTTGGTTATCGGAATCATACACCTT
1 AAGTTTATA-TT-CGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTT
* * * * * *
52598519 TCACCATACCTATACCTCTATTTTATTATAAATGCGTACTTT-ATTTT-TTTTAATAAGTAGAAC
64 TCACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTTGTTTTTATTTTAATAAGTAAAAC
52598582 GATTTTCGAATTATATATCTTTTAACGATACTT
129 GATTTTCGAATTATATATCTTTTAACGATA-TT
** * *
52598615 AAAATTATATTTC-ATTATATATTATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCT
1 AAGTTTATA-TTCGAGTGT-TA-TATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCT
* * * * * * *
52598679 TTCACCATATCTATACCTCTATTTTGTTATAAATGCGTAATTTGTTTTTGTTTTAATAAGTAAAA
63 TTCACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTTGTTTTTATTTTAATAAGTAAAA
52598744 CGATTTTCGAATTATATATCTTTTAACGATA-T
128 CGATTTTCGAATTATATATCTTTTAACGATATT
* * *
52598776 -A-TTT-CA-TGGA-TGTTATATAAATGCTTATTTTTCTTTGGTTATCGGAATCATACACCTTTC
1 AAGTTTATATTCGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTC
* *
52598836 ACTATACCTAAACCTCTATTTTA-T-T--ATGCTTATTTTG-TTTTGTTTCAATAAGTAAATA-G
66 ACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTTGTTTTTATTTTAATAAGTAAA-ACG
* * *
52598895 GTTTTCAAATTAGATATCTTTTAACGATACTT
130 ATTTTCGAATTATATATCTTTTAACGATA-TT
* *
52598927 AAAGTTTATATTTTACGAGTGTTATATAAATACTTATTTTGCTTTGGTTATAGGAATCATACACC
1 -AAGTTTATA--TT-CGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACC
* * * * *
52598992 TTCCGCTATACCTAAACCTTTATTTTATTATAAATGCTTATTTTGTTTCTATTTTAATAAGTAAG
62 TTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTTGTTTTTATTTTAATAAGTAAA
*
52599057 ACGGTTTTCGAATTATATATCTTTTAACGATACTAATT
127 ACGATTTTCGAATTATATATCTTTTAACG--A-T-ATT
* * *
52599095 AAAGTTTATATTTC-ATTGTGTACTATAAATG-TTAATTTTGCTTTCGTTATCGGAATCATCCAC
1 -AAGTTTATA-TTCGAGTGT-TA-TATAAATGCTT-ATTTTGCTTTGGTTATCGGAATCATACAC
* *
52599158 CTTTCACTATACCTAAACCTCTATTTTATCATAGATGCTTACTTTTGTTTTTATTTTAATAAGTA
61 CTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTA-TTTTGTTTTTATTTTAATAAGTA
* * *
52599223 TAATGATTTTTGAATTATA
125 AAACGATTTTCGAATTATA
52599242 ATGAATTATA
Statistics
Matches: 540, Mismatches: 56, Indels: 55
0.83 0.09 0.08
Matches are distributed among these distances:
149 45 0.08
150 11 0.02
151 1 0.00
152 1 0.00
153 2 0.00
154 66 0.12
155 3 0.01
156 3 0.01
157 1 0.00
158 2 0.00
159 7 0.01
160 70 0.13
161 93 0.17
162 5 0.01
163 45 0.08
164 13 0.02
165 44 0.08
166 5 0.01
167 73 0.14
168 49 0.09
169 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (160 bp):
AAGTTTATATTCGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTC
ACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTTGTTTTTATTTTAATAAGTAAAACGA
TTTTCGAATTATATATCTTTTAACGATATT
Found at i:52599632 original size:164 final size:163
Alignment explanation
Indices: 52599321--52599898 Score: 704
Period size: 162 Copynumber: 3.6 Consensus size: 163
52599311 TTCTTTTACA
* ** *
52599321 ATACCTAAACTTGTATTTTATTATAAATGATTATTTTGTTCCTGTTTTAATAGGCAAAATGG-TT
1 ATACCTAAACTTGTATTTTATTATAAATGCTTATTTTGTTTTTGTTTTAATAAGCAAAATGGTTT
* * * *
52599385 TCAAATTATATATC-TTTAACGATGCCTAAAGTTTATATTCCATTGTGTTCTATAAATACTTATT
66 TCAAATTATATATCTTTTAACGATACTTAAAGTTTATATTCCATCGTGTTTTATAAATACTTA-T
*
52599449 TTGCTTTCGTTATCGGAATCGTACACTTTTTTCT
130 TTGCTTTCGTTATCGGAATCATACACTTTTTTCT
* *
52599483 ATACCTAAACTTATATTTTATTATAAATGCTTATTTTGTTTTTGTTTTAATAAGTAAAATGGTTT
1 ATACCTAAACTTGTATTTTATTATAAATGCTTATTTTGTTTTTGTTTTAATAAGCAAAATGGTTT
* *
52599548 TCAATTTATATATCTTTTAACGATACTTAAAGTTTATATTCCATCGTGTTTTATAAATTCTTATT
66 TCAAATTATATATCTTTTAACGATACTTAAAGTTTATATTCCATCGTGTTTTATAAATACTTATT
*
52599613 TCGCTTTCGTTATCGGAATCATACATCTTTTAT-T
131 T-GCTTTCGTTATCGGAATCATACA-CTTTTTTCT
* * * * *
52599647 ATACTTAAACTTGTATTTTATTATAAATGCTTATTTTG-TTTT-TATTATTAAGTAAGATGGTTT
1 ATACCTAAACTTGTATTTTATTATAAATGCTTATTTTGTTTTTGTTTTAATAAGCAAAATGGTTT
* * * *
52599710 TCAAATTATATATCTTTTAACGATGAC-TAAA-TCTATACTCCATCGTGTCTTATAAATGCTTAT
66 TCAAATTATATATCTTTTAACGAT-ACTTAAAGTTTATATTCCATCGTGTTTTATAAATACTTAT
* * * * * * *
52599773 TTTCTTTGGTTATTGAAATCATATACCTTTTACT
130 TTGCTTTCGTTATCGGAATCATACACTTTTTTCT
** * * * * * *
52599807 ATACCTAAACCCGTATTTTATTATAAATACTTATTTTGTATTTATTTTAATATGCAGATTGGTTT
1 ATACCTAAACTTGTATTTTATTATAAATGCTTATTTTGTTTTTGTTTTAATAAGCAAAATGGTTT
* *
52599872 TCAAATTATGTATCTTTT-ACAATACTT
66 TCAAATTATATATCTTTTAACGATACTT
52599899 GTAATTTATG
Statistics
Matches: 361, Mismatches: 46, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
159 4 0.01
160 55 0.15
161 38 0.11
162 132 0.37
163 24 0.07
164 102 0.28
165 6 0.02
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (163 bp):
ATACCTAAACTTGTATTTTATTATAAATGCTTATTTTGTTTTTGTTTTAATAAGCAAAATGGTTT
TCAAATTATATATCTTTTAACGATACTTAAAGTTTATATTCCATCGTGTTTTATAAATACTTATT
TGCTTTCGTTATCGGAATCATACACTTTTTTCT
Found at i:52604558 original size:17 final size:17
Alignment explanation
Indices: 52604535--52604602 Score: 64
Period size: 17 Copynumber: 4.0 Consensus size: 17
52604525 AGCTCTAGTA
52604535 CTGGCGAACTCCTATGT
1 CTGGCGAACTCCTATGT
* * *
52604552 TTGGCGAACTCTTATGC
1 CTGGCGAACTCCTATGT
* * *
52604569 CCGGCAAACCCCTATGT
1 CTGGCGAACTCCTATGT
**
52604586 CTAACGAACTCCTATGT
1 CTGGCGAACTCCTATGT
52604603 TTGACAAACA
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (17 bp):
CTGGCGAACTCCTATGT
Found at i:52604733 original size:15 final size:15
Alignment explanation
Indices: 52604681--52604733 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
52604671 GAGTAACCCT
*
52604681 TATGGCAAACTCACC
1 TATGGCGAACTCACC
*
52604696 TATGGTGAAC-C-CC
1 TATGGCGAACTCACC
* *
52604709 TATCGTGAACTCACC
1 TATGGCGAACTCACC
52604724 TATGGCGAAC
1 TATGGCGAAC
52604734 CCTATCGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
13 11 0.35
14 2 0.06
15 18 0.58
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (15 bp):
TATGGCGAACTCACC
Found at i:52604744 original size:27 final size:28
Alignment explanation
Indices: 52604688--52604746 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
52604678 CCTTATGGCA
*
52604688 AACTCACCTATGGTGAACCCCTATCGTG
1 AACTCACCTATGGCGAACCCCTATCGTG
52604716 AACTCACCTATGGCGAA-CCCTATCGTG
1 AACTCACCTATGGCGAACCCCTATCGTG
52604743 AACT
1 AACT
52604747 GCCTTAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 14 0.47
28 16 0.53
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (28 bp):
AACTCACCTATGGCGAACCCCTATCGTG
Found at i:52611141 original size:41 final size:40
Alignment explanation
Indices: 52611045--52611203 Score: 201
Period size: 40 Copynumber: 4.0 Consensus size: 40
52611035 TTTGGATAGA
* * * * *
52611045 AAACGCCGTAAAAGGTAAAGCATTAGCAGCGTTTTTGCGT
1 AAACGCCGTAAAAGGTAAAGCAATAGCGGCATTTTTTCAT
* *
52611085 AAACGCCGTAAAAGGTAAAGTAATAGTGGCATTTTTCTCAT
1 AAACGCCGTAAAAGGTAAAGCAATAGCGGCATTTTT-TCAT
* *
52611126 AAACGCCGCAAAAGGTAAAGCAACAGCGGCATTTTTTCAT
1 AAACGCCGTAAAAGGTAAAGCAATAGCGGCATTTTTTCAT
* * *
52611166 AAACGCCGTTAAAGGTAAAGCAATAGCAGCGTTTTTTC
1 AAACGCCGTAAAAGGTAAAGCAATAGCGGCATTTTTTC
52611204 CACAAAAGCC
Statistics
Matches: 102, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 68 0.67
41 34 0.33
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (40 bp):
AAACGCCGTAAAAGGTAAAGCAATAGCGGCATTTTTTCAT
Found at i:52611201 original size:81 final size:81
Alignment explanation
Indices: 52611045--52611218 Score: 206
Period size: 81 Copynumber: 2.1 Consensus size: 81
52611035 TTTGGATAGA
* ** * * *
52611045 AAACGCCGTAAAAGGTAAAGCATTAGCAGCGTTTTTGCGTAAACGCCGTAAAAGGTAAAGTAATA
1 AAACGCCGCAAAAGGTAAAGCAACAGCAGCATTTTTGCATAAACGCCGTAAAAGGTAAAGCAATA
** *
52611110 GTGGCA-TTTTTCTCAT
66 GCAGCATTTTTTC-CAC
* * *
52611126 AAACGCCGCAAAAGGTAAAGCAACAGCGGCATTTTTTCATAAACGCCGTTAAAGGTAAAGCAATA
1 AAACGCCGCAAAAGGTAAAGCAACAGCAGCATTTTTGCATAAACGCCGTAAAAGGTAAAGCAATA
*
52611191 GCAGCGTTTTTTCCAC
66 GCAGCATTTTTTCCAC
*
52611207 AAAAGCCGCAAA
1 AAACGCCGCAAA
52611219 TATTTTTTTA
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 72 0.92
82 6 0.08
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (81 bp):
AAACGCCGCAAAAGGTAAAGCAACAGCAGCATTTTTGCATAAACGCCGTAAAAGGTAAAGCAATA
GCAGCATTTTTTCCAC
Found at i:52611570 original size:20 final size:20
Alignment explanation
Indices: 52611533--52611571 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52611523 AAACTCTATC
*
52611533 TATTTTGGTTTTACATGAAG
1 TATTTTGGTTCTACATGAAG
*
52611553 TATTTTGGTTCTATATGAA
1 TATTTTGGTTCTACATGAA
52611572 ATGAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (20 bp):
TATTTTGGTTCTACATGAAG
Found at i:52617796 original size:29 final size:29
Alignment explanation
Indices: 52617763--52617821 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
52617753 CATCTCTTGG
52617763 TAAGCATTTAATTTCACTACCTCTTTTAC
1 TAAGCATTTAATTTCACTACCTCTTTTAC
52617792 TAAGCATTTAATTTCACTACCTCTTTTAC
1 TAAGCATTTAATTTCACTACCTCTTTTAC
52617821 T
1 T
52617822 TTCTGGTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.03, T:0.46
Consensus pattern (29 bp):
TAAGCATTTAATTTCACTACCTCTTTTAC
Found at i:52617990 original size:66 final size:65
Alignment explanation
Indices: 52617902--52618037 Score: 254
Period size: 66 Copynumber: 2.1 Consensus size: 65
52617892 GCTTAAAGTT
*
52617902 TATATGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATCGGGAATTATACACCTTTCA
1 TATACGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATC-GGAATTATACACCTTTCA
52617967 C
65 C
52617968 TATACGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATCGGAATTATACACCTTTCAC
1 TATACGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATCGGAATTATACACCTTTCAC
52618033 TATAC
1 TATAC
52618038 TTAAATCTGC
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 24 0.35
66 45 0.65
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (65 bp):
TATACGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATCGGAATTATACACCTTTCAC
Found at i:52618638 original size:161 final size:163
Alignment explanation
Indices: 52618438--52619552 Score: 944
Period size: 164 Copynumber: 6.9 Consensus size: 163
52618428 ATTTCATGGA
* *
52618438 TGTTATATAAATGCTTATTTTTCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCT
1 TGTTATATAAATGCTTATTTTGCTTTCGTTATCGGAATCATACACCTTTCACTATACCTAAACCT
* *
52618503 CTATTTTAT-T-ATGCTTATTTTGTTTTTGTTTCAATAAGT-AAATAGGTTTTCAAATTAGATAT
66 CTATTTTATATAATGCTTATTTTGTTTTTGTTTTAATAAGTAAAAT-GGTTTTCAAATTATATAT
**
52618565 CTTTTAACGATACTTAAAGTTTATATTTTA-CGAG
130 CTTTTAACGATACTTAAAGTTTATATTCCATC-AG
* * * * *
52618599 TGTTATATAAATACTTATTTTGCTTTGGTTATAGGAATCATACACCTTCCGCTATACCTAAACCT
1 TGTTATATAAATGCTTATTTTGCTTTCGTTATCGGAATCATACACCTTTCACTATACCTAAACCT
* * * * * *
52618664 TTATTTTATTATAAATGCTTATTTTGTTTCTATTTTAATAAGTAAGACGGTTTTCGAATTATATA
66 CTATTTTA-TAT-AATGCTTATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCAAATTATATA
* *
52618729 TCTTTTAACGATACTAATTAAAGTTTATATTTCAT-TG
129 TCTTTTAACGATAC---TTAAAGTTTATATTCCATCAG
*
52618766 TG-TACTATAAATG-TTAATTTTGCTTTCGTTATCGGAATCATCCACCTTTCACTATACCTAAAC
1 TGTTA-TATAAATGCTT-ATTTTGCTTTCGTTATCGGAATCATACACCTTTCACTATACCTAAAC
* * *
52618829 CTCTATTTTATCATAGATGCTTACTTTTGTTTTTATTTTAATAAGTATAATGATTTTTGAATTAT
64 CTCTATTTTAT-ATA-ATGCTTA-TTTTGTTTTTGTTTTAATAAGTA-AA--A----TG-GTTTT
* * *
52618894 AATGAATTATATATCTTTTAACGATATTTAAAGTTTATATTTCATC-G
118 CA--AATTATATATCTTTTAACGATACTTAAAGTTTATATTCCATCAG
* * * * **
52618941 TACG-T-TATAAATGCTTATTTTAC-TTC-TT-T---TA-CA-ATACC--T-A--A-ACTTGTA-
1 T--GTTATATAAATGCTTATTTTGCTTTCGTTATCGGAATCATACACCTTTCACTATACCTAAAC
* ** * *
52618989 -T-T-TTATTATA-AATGATTATTTTGTTCCTGTTTTAATAGGCAAAATGG-TTTCAAATTATAT
64 CTCTATT-TTATATAATGCTTATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCAAATTATAT
* * *
52619049 ATCTTTTAACGATGCCTAAAGTTTATATTCCAT-TG
128 ATCTTTTAACGATACTTAAAGTTTATATTCCATCAG
* * * * ** *
52619084 TGTTCTATAAATACTTATTTTGCTTTCGTTATCGGAATCGTACACTTTTTTCTATACCTAAACTT
1 TGTTATATAAATGCTTATTTTGCTTTCGTTATCGGAATCATACACCTTTCACTATACCTAAACCT
* *
52619149 ATATTTTATTATAAATGCTTATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCAATTTATATA
66 CTATTTTA-TAT-AATGCTTATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCAAATTATATA
52619214 TCTTTTAACGATACTTAAAGTTTATATTCCATC-G
129 TCTTTTAACGATACTTAAAGTTTATATTCCATCAG
* * * * * * * *
52619248 TGTTTTATAAATTCTTATTTCGCTTTCGTTATCGGAATCATACATCTTTTATTATACTTAAACTT
1 TGTTATATAAATGCTTATTTTGCTTTCGTTATCGGAATCATACACCTTTCACTATACCTAAACCT
* * * *
52619313 GTATTTTATTATAAATGCTTATTTTG-TTTT-TATTATTAAGTAAGATGGTTTTCAAATTATATA
66 CTATTTTA-TAT-AATGCTTATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCAAATTATATA
* *
52619376 TCTTTTAACGATGAC-TAAA-TCTATACTCCATC-G
129 TCTTTTAACGAT-ACTTAAAGTTTATATTCCATCAG
* * * * *
52619409 TGTCT-TATAAATGCTTATTTT-CTTTGGTTATTGAAATCATATACCTTTTACTATACCTAAACC
1 TGT-TATATAAATGCTTATTTTGCTTTCGTTATCGGAATCATACACCTTTCACTATACCTAAACC
* * * * * * * *
52619472 -CGTATTTTATTATAAATACTTATTTTGTATTTATTTTAATATGCAGATTGGTTTTCAAATTATG
65 TC-TATTTTA-TAT-AATGCTTATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCAAATTATA
*
52619536 TATCTTTT-ACAATACTT
127 TATCTTTTAACGATACTT
52619553 GTAATTTATG
Statistics
Matches: 787, Mismatches: 106, Indels: 122
0.78 0.10 0.12
Matches are distributed among these distances:
141 1 0.00
142 1 0.00
143 55 0.07
144 3 0.00
145 5 0.01
146 1 0.00
147 2 0.00
149 1 0.00
150 1 0.00
151 4 0.01
153 3 0.00
154 18 0.02
155 6 0.01
156 2 0.00
157 7 0.01
158 5 0.01
159 2 0.00
160 64 0.08
161 112 0.14
162 79 0.10
163 39 0.05
164 126 0.16
165 56 0.07
166 8 0.01
167 73 0.09
168 40 0.05
169 2 0.00
171 1 0.00
172 1 0.00
173 2 0.00
174 3 0.00
175 35 0.04
176 5 0.01
177 2 0.00
178 22 0.03
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.48
Consensus pattern (163 bp):
TGTTATATAAATGCTTATTTTGCTTTCGTTATCGGAATCATACACCTTTCACTATACCTAAACCT
CTATTTTATATAATGCTTATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCAAATTATATATC
TTTTAACGATACTTAAAGTTTATATTCCATCAG
Found at i:52624225 original size:17 final size:17
Alignment explanation
Indices: 52624202--52624269 Score: 64
Period size: 17 Copynumber: 4.0 Consensus size: 17
52624192 AGCTCTAGTA
52624202 CTGGCGAACTCCTATGT
1 CTGGCGAACTCCTATGT
* * *
52624219 TTGGCGAACTCTTATGC
1 CTGGCGAACTCCTATGT
* * *
52624236 CCGGCAAACCCCTATGT
1 CTGGCGAACTCCTATGT
**
52624253 CTAACGAACTCCTATGT
1 CTGGCGAACTCCTATGT
52624270 TTGACAAAAC
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (17 bp):
CTGGCGAACTCCTATGT
Found at i:52624382 original size:13 final size:13
Alignment explanation
Indices: 52624360--52624412 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
52624350 GGCAAACTCA
*
52624360 CCTATGGTGAACC
1 CCTATCGTGAACC
52624373 CCTATCGTGAACTC
1 CCTATCGTGAAC-C
* *
52624387 ACCTATGGCGAACC
1 -CCTATCGTGAACC
52624401 CCTATCGTGAAC
1 CCTATCGTGAAC
52624413 TGCCTTAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
13 21 0.64
14 2 0.06
15 10 0.30
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.23
Consensus pattern (13 bp):
CCTATCGTGAACC
Found at i:52624385 original size:28 final size:28
Alignment explanation
Indices: 52624354--52624413 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
52624344 CCTTATGGCA
*
52624354 AACTCACCTATGGTGAACCCCTATCGTG
1 AACTCACCTATGGCGAACCCCTATCGTG
52624382 AACTCACCTATGGCGAACCCCTATCGTG
1 AACTCACCTATGGCGAACCCCTATCGTG
52624410 AACT
1 AACT
52624414 GCCTTAATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (28 bp):
AACTCACCTATGGCGAACCCCTATCGTG
Found at i:52624399 original size:15 final size:15
Alignment explanation
Indices: 52624347--52624399 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
52624337 GAGTAACCCT
*
52624347 TATGGCAAACTCACC
1 TATGGCGAACTCACC
*
52624362 TATGGTGAAC-C-CC
1 TATGGCGAACTCACC
* *
52624375 TATCGTGAACTCACC
1 TATGGCGAACTCACC
52624390 TATGGCGAAC
1 TATGGCGAAC
52624400 CCCTATCGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
13 11 0.35
14 2 0.06
15 18 0.58
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (15 bp):
TATGGCGAACTCACC
Found at i:52630847 original size:40 final size:40
Alignment explanation
Indices: 52630713--52630869 Score: 192
Period size: 40 Copynumber: 3.9 Consensus size: 40
52630703 TTTGGATAGA
* * *
52630713 AAACGCCGTAAAAGGTAAAGCATTAGCAGG--TTTTTGCGT
1 AAACGCCGTAAAAGGTAAAGCAATAGC-GGCATTTTTTCAT
* *
52630752 AAACGCCGTAAAAGGTAAAGTAATAGTGGCATTTTTCTCAT
1 AAACGCCGTAAAAGGTAAAGCAATAGCGGCATTTTT-TCAT
* *
52630793 AAACGCCGCAAAAGGTAAAGCAACAGCGGCATTTTTTCAT
1 AAACGCCGTAAAAGGTAAAGCAATAGCGGCATTTTTTCAT
* * *
52630833 AAACGCCGTTAAAGGTAAAGCAATAGCAGCGTTTTTT
1 AAACGCCGTAAAAGGTAAAGCAATAGCGGCATTTTTT
52630870 TCCACAAAAG
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
38 2 0.02
39 24 0.24
40 41 0.41
41 34 0.34
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (40 bp):
AAACGCCGTAAAAGGTAAAGCAATAGCGGCATTTTTTCAT
Found at i:52630868 original size:81 final size:81
Alignment explanation
Indices: 52630713--52630886 Score: 199
Period size: 81 Copynumber: 2.1 Consensus size: 81
52630703 TTTGGATAGA
* ** * *
52630713 AAACGCCGTAAAAGGTAAAGCATTAGCAGGTTTTTGCGTAAACGCCGTAAAAGGTAAAGTAATAG
1 AAACGCCGCAAAAGGTAAAGCAACAGCAGGTTTTTGCATAAACGCCGTAAAAGGTAAAGCAATAG
** *
52630778 TGGCATTTTTCT-CAT
66 CAGCATTTTTCTCCAC
* *
52630793 AAACGCCGCAAAAGGTAAAGCAACAGC-GGCATTTTTTCATAAACGCCGTTAAAGGTAAAGCAAT
1 AAACGCCGCAAAAGGTAAAGCAACAGCAGG--TTTTTGCATAAACGCCGTAAAAGGTAAAGCAAT
* *
52630857 AGCAGCGTTTTTTTCCAC
64 AGCAGCATTTTTCTCCAC
*
52630875 AAAAGCCGCAAA
1 AAACGCCGCAAA
52630887 TATTTTTTTA
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
79 2 0.03
80 24 0.31
81 39 0.50
82 13 0.17
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (81 bp):
AAACGCCGCAAAAGGTAAAGCAACAGCAGGTTTTTGCATAAACGCCGTAAAAGGTAAAGCAATAG
CAGCATTTTTCTCCAC
Found at i:52631238 original size:20 final size:20
Alignment explanation
Indices: 52631201--52631239 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52631191 AAACTCTATC
*
52631201 TATTTTGGTTTTACATGAAG
1 TATTTTGGTTCTACATGAAG
*
52631221 TATTTTGGTTCTATATGAA
1 TATTTTGGTTCTACATGAA
52631240 ATGAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (20 bp):
TATTTTGGTTCTACATGAAG
Found at i:52637452 original size:29 final size:29
Alignment explanation
Indices: 52637419--52637477 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
52637409 CATCTCTTGG
52637419 TAAGCATTTAATTTCACTACCTCTTTTAC
1 TAAGCATTTAATTTCACTACCTCTTTTAC
52637448 TAAGCATTTAATTTCACTACCTCTTTTAC
1 TAAGCATTTAATTTCACTACCTCTTTTAC
52637477 T
1 T
52637478 TTCTGGTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.03, T:0.46
Consensus pattern (29 bp):
TAAGCATTTAATTTCACTACCTCTTTTAC
Found at i:52637646 original size:66 final size:65
Alignment explanation
Indices: 52637558--52637693 Score: 254
Period size: 66 Copynumber: 2.1 Consensus size: 65
52637548 GCTTAAAGTT
*
52637558 TATATGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATCGGGAATTATACACCTTTCA
1 TATACGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATC-GGAATTATACACCTTTCA
52637623 C
65 C
52637624 TATACGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATCGGAATTATACACCTTTCAC
1 TATACGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATCGGAATTATACACCTTTCAC
52637689 TATAC
1 TATAC
52637694 TTAAATCTGC
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 24 0.35
66 45 0.65
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (65 bp):
TATACGTTGTGGGTGTTACATAAATACTTATTTTACTTTGATTATCGGAATTATACACCTTTCAC
Found at i:52637962 original size:161 final size:162
Alignment explanation
Indices: 52637742--52639165 Score: 1163
Period size: 161 Copynumber: 8.9 Consensus size: 162
52637732 CCTAAACTAC
* * * * *
52637742 ATCTTTCAACTATGCTTAAAGTTTATATTTTATGAGTGT-TA-TATAAATGCTTGTTTTGCTTTG
1 ATCTTTTAACGATACTTAAAGTTTATATTTCAT---TGTATATTATAAATGCTTATTTTGCTTTG
* * * * *
52637805 GTTATCGGAATCATACACCTTTCACCATACCTATACCTCTATTTTATTATAAATGCGTACTTT-A
63 GTTATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTTGT
52637869 TTT-TTTTAATAAGTAGAACGATTTTCGAATTATAT
128 TTTGTTTTAATAAGTA-AACGATTTTCGAATTATAT
* *
52637904 ATCTTTTAACGATACTTAAAATTTATATTTCATTATATATTATAAATGCTTATTTTGCTTTGGTT
1 ATCTTTTAACGATACTTAAAGTTTATATTTCATTGTATATTATAAATGCTTATTTTGCTTTGGTT
* * * * * *
52637969 ATCGGAATCATACACCTTTCACCATATCTATACCTCTATTTTGTTATAAATGCGTAATTTGCTTT
66 ATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTTG-TTT
52638034 TGTTTTAATAAGTAAAACGATTTTCGAATTATAT
130 TGTTTTAATAAGT-AAACGATTTTCGAATTATAT
* ** *
52638068 ATCTTTTAACGATA--T--A-TTT-CA-TGGA-TGT-TA-TATAAATGCTTATTTTTCTTTGGTT
1 ATCTTTTAACGATACTTAAAGTTTATATTTCATTGTATATTATAAATGCTTATTTTGCTTTGGTT
52638123 ATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTA-T-T--ATGCTTATTTTGTTTT
66 ATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTTG-TTT
* * * * *
52638184 TGTTTCAATAAGTAAATAGGTTTTCAAATTAGAT
130 TGTTTTAATAAGTAAA-CGATTTTCGAATTATAT
* *
52638218 ATCTTTTAACGATACTTAAAGTTTATATTTTACGAGTGT-TA-TATAAATACTTATTTTGCTTTG
1 ATCTTTTAACGATACTTAAAGTTTATA-TTT-C-ATTGTATATTATAAATGCTTATTTTGCTTTG
* * * *
52638281 GTTATAGGAATCATACACCTTCCGCTATACCTAAACCTTTATTTTATTATAAATGCTTATTTTGT
63 GTTATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTTGT
* *
52638346 TTCTATTTTAATAAGTAAGACGGTTTTCGAATTATAT
128 TT-TGTTTTAATAAGTAA-ACGATTTTCGAATTATAT
* *
52638383 ATCTTTTAACGATACTAATTAAAGTTTATATTTCATTGTGTACTATAAATG-TTAATTTTGCTTT
1 ATCTTTTAACGATAC---TTAAAGTTTATATTTCATTGTATATTATAAATGCTT-ATTTTGCTTT
* * * *
52638447 CGTTATCGGAATCATCCACCTTTCACTATACCTAAACCTCTATTTTATCATAGATGCTTACTTTT
62 GGTTATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTA-TTTT
* * *
52638512 GTTTTATTTTAATAAGTATAATGATTTTTGAATTATAATGAATTATAT
126 GTTTTGTTTTAATAAGTA-AACGA----T---TT-T--CGAATTATAT
* * ** * *
52638560 ATCTTTTAACGATATTTAAAGTTTATATTTCATCGTACGTTATAAATGCTTATTTTACTTCT-TT
1 ATCTTTTAACGATACTTAAAGTTTATATTTCATTGTATATTATAAATGCTTATTTTGCTT-TGGT
* * * * * * **
52638624 TA-C--AATACCTA-AAC-TT--GTAT---T-----T-TATTATA-AAT-GATTATT-TT--GTT
65 TATCGGAAT-CATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTTGTT
* * * * * *
52638668 CCTGTTTTAATAGGCAAAATG-GTTTCAAATTATAT
129 -TTGTTTTAATAAG-TAAACGATTTTCGAATTATAT
* * * * *
52638703 ATCTTTTAACGATACCTAAAGTTTATATTCCATTGTGT-TCTATAAATACTTATTTTGCTTTCGT
1 ATCTTTTAACGATACTTAAAGTTTATATTTCATTGTATAT-TATAAATGCTTATTTTGCTTTGGT
* * ** * *
52638767 TATCGGAATCGTACACTTTTTTCTATACCTAAACTTATATTTTATTATAAATGCTTATTTTGTTT
65 TATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTTG-TT
* *
52638832 TTGTTTTAATAAGTAAAATGGTTTTC-AATTTATAT
129 TTGTTTTAATAAGT-AAACGATTTTCGAA-TTATAT
* * * * * * *
52638867 ATCTTTTAACGATACTTAAAGTTTATATTCCATCGTGTTTTATAAATTCTTATTTCGCTTTCGTT
1 ATCTTTTAACGATACTTAAAGTTTATATTTCATTGTATATTATAAATGCTTATTTTGCTTTGGTT
* * * * * *
52638932 ATCGGAATCATACATCTTTTATTATACTTAAACTTGTATTTTATTATAAATGCTTATTTTGTTTT
66 ATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTTGTTTT
* * *
52638997 -TATTATTAAGT-AA-GATGGTTTCAAATTATAT
131 GTTTTAATAAGTAAACGAT--TTTCGAATTATAT
* * * ** *
52639028 ATCTTTTAACGATGAC-TAAA-TCTATACTCCATCATATCTTATAAATGCTTATTTT-CTTTGGT
1 ATCTTTTAACGAT-ACTTAAAGTTTATATTTCATTGTATATTATAAATGCTTATTTTGCTTTGGT
* * * *
52639090 TATTGAAATCATACACCTTTTACTATACCTAAACC-CGTATTTTATTATAAATCCTTATTTTGTA
65 TATCGGAATCATACACCTTTCACTATACCTAAACCTC-TATTTTATTATAAATGCTTATTTTGT-
*
52639154 TTTATTTTAATA
128 TTTGTTTTAATA
52639166 TGCAAATTGG
Statistics
Matches: 1048, Mismatches: 132, Indels: 165
0.78 0.10 0.12
Matches are distributed among these distances:
142 2 0.00
143 61 0.06
144 1 0.00
145 4 0.00
146 6 0.01
147 2 0.00
149 6 0.01
150 52 0.05
152 3 0.00
153 4 0.00
154 78 0.07
155 8 0.01
156 3 0.00
157 8 0.01
158 10 0.01
159 75 0.07
160 42 0.04
161 183 0.17
162 43 0.04
163 27 0.03
164 172 0.16
165 61 0.06
166 6 0.01
167 88 0.08
168 24 0.02
170 2 0.00
171 6 0.01
172 2 0.00
173 1 0.00
174 41 0.04
175 4 0.00
177 23 0.02
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.47
Consensus pattern (162 bp):
ATCTTTTAACGATACTTAAAGTTTATATTTCATTGTATATTATAAATGCTTATTTTGCTTTGGTT
ATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAATGCTTATTTTGTTTT
GTTTTAATAAGTAAACGATTTTCGAATTATAT
Found at i:52638357 original size:315 final size:318
Alignment explanation
Indices: 52637773--52639205 Score: 1239
Period size: 315 Copynumber: 4.5 Consensus size: 318
52637763 TTTATATTTT
* *
52637773 ATGAGTGTTATATAAATGCTTGTTTTGCTTTGGTTATCGGAATCATACACCTTTCACCATACCTA
1 ATGA-TGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTA
* * * * * * *
52637838 TACCTCTATTTTATTATAAATGCGTACTTT-ATTTTTTTAATAAGTAGAA-CGATTTTCGAATTA
65 AACCTCTATTTTATTAT-AATGCTTATTTTGTTTTTTTTAATAAGTA-AATAGGTTTTCAAATTA
* * *
52637901 TATATCTTTTAACGATACTTAAAATTTATATTTCATTA-T-ATATTATAAATGCTTATTTTGCTT
128 TATATCTTTTAACGATACTTAAAGTTTATATTTCATCAGTGTTA-TATAAATGCTTATTTTGCTT
* * * * * * * *
52637964 TGGTTATCGGAATCATACACCTTTCACCATATCTATACCTCTATTTTGTTATAAATGCGTAATTT
192 TGGTTATCGGAATCATACACCTTTCACTATACCTAAACTTGTATTTTATTATAAATGCTTATTTT
* *
52638029 GCTTTTGTTTTAATAAGTAAAACGATTTTCGAATTATATATCTTTTAACG-A-T-A-TATTT-C
257 G-TTTTGTTTTAATAAGTAAAACG-GTTTCAAATTATATATCTTTTAACGAACTAATTATTTCC
*
52638088 ATGGATGTTATATAAATGCTTATTTTTCTTTGGTTATCGGAATCATACACCTTTCACTATACCTA
1 AT-GATGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTA
52638153 AACCTCTATTTTA-T-T-ATGCTTATTTTGTTTTTGTTTCAATAAGTAAATAGGTTTTCAAATTA
65 AACCTCTATTTTATTATAATGCTTATTTTGTTTTT-TTT-AATAAGTAAATAGGTTTTCAAATTA
* * *
52638215 GATATCTTTTAACGATACTTAAAGTTTATATTTTA-CGAGTGTTATATAAATACTTATTTTGCTT
128 TATATCTTTTAACGATACTTAAAGTTTATATTTCATC-AGTGTTATATAAATGCTTATTTTGCTT
* * *
52638279 TGGTTATAGGAATCATACACCTTCCGCTATACCTAAACCTT-TATTTTATTATAAATGCTTATTT
192 TGGTTATCGGAATCATACACCTTTCACTATACCTAAA-CTTGTATTTTATTATAAATGCTTATTT
* * *
52638343 TGTTTCTATTTTAATAAGTAAGACGGTTTTCGAATTATATATCTTTTAACGATACTAATTAAAGT
256 TGTTT-TGTTTTAATAAGTAAAACGG-TTTCAAATTATATATCTTTTAACGA-ACTAATT--A-T
**
52638408 TTAT
315 TTCC
* * *
52638412 ATTTCATTGTGTACTATAAATG-TTAATTTTGCTTTCGTTATCGGAATCATCCACCTTTCACTAT
1 A--TGA-TGT-TA-TATAAATGCTT-ATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTAT
*
52638476 ACCTAAACCTCTATTTTATCATAGATGCTTACTTTTGTTTTATTTTAATAAGTATAATGATTTTT
60 ACCTAAACCTCTATTTTATTATA-ATGCTTA-TTTTGTTTT-TTTTAATAAGTA-AAT-A-----
* * * *
52638541 GAATTATAATGAATTATATATCTTTTAACGATATTTAAAGTTTATATTTCATC-GTACG-T-TAT
115 G-GTTTTCA--AATTATATATCTTTTAACGATACTTAAAGTTTATATTTCATCAGT--GTTATAT
* *
52638603 AAATGCTTA-------TT--TTA-C----T--T----CTTTTACAATACCTAAACTTGTATTTTA
175 AAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACTTGTATTTTA
* * * * *
52638648 TTATAAATGATTATTTTGTTCCTGTTTTAATAGGCAAAATGGTTTCAAATTATATATCTTTTAAC
240 TTATAAATGCTTATTTTGTT-TTGTTTTAATAAGTAAAACGGTTTCAAATTATATATCTTTTAAC
52638713 GATACCTAAAGTTTATATTCC
304 GA-A-CT-AA--TTAT-TTCC
* * * * * **
52638734 ATTG-TGTTCTATAAATACTTATTTTGCTTTCGTTATCGGAATCGTACACTTTTTTCTATACCTA
1 A-TGATGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTA
* * *
52638798 AACTTATATTTTATTATAAATGCTTATTTTGTTTTTGTTTTAATAAGTAAA-ATGGTTTTCAATT
65 AACCTCTATTTTATTAT-AATGCTTATTTTG-TTTT-TTTTAATAAGTAAATA-GGTTTTCAAAT
* * * *
52638862 TATATATCTTTTAACGATACTTAAAGTTTATATTCCATC-GTGTTTTATAAATTCTTATTTCGCT
126 TATATATCTTTTAACGATACTTAAAGTTTATATTTCATCAGTGTTATATAAATGCTTATTTTGCT
* * * * *
52638926 TTCGTTATCGGAATCATACATCTTTTATTATACTTAAACTTGTATTTTATTATAAATGCTTATTT
191 TTGGTTATCGGAATCATACACCTTTCACTATACCTAAACTTGTATTTTATTATAAATGCTTATTT
* * * * *
52638991 TGTTTT-TATTATTAAGTAAGATGGTTTCAAATTATATATCTTTTAACGATGACTAAATCTATAC
256 TGTTTTGTTTTAATAAGTAAAACGGTTTCAAATTATATATCTTTTAACGA--ACT-AAT-TAT-T
52639055 TCC
316 TCC
* * * * *
52639058 ATCATATCT-TATAAATGCTTATTTT-CTTTGGTTATTGAAATCATACACCTTTTACTATACCTA
1 ATGATGT-TATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTA
* * * *
52639121 AACC-CGTATTTTATTATAAATCCTTATTTTGTATTTATTTTAATATGCAAATTGGTTTTCAAAT
65 AACCTC-TATTTTATTAT-AATGCTTATTTTGT-TTT-TTTTAATAAGTAAATAGGTTTTCAAAT
** *
52639185 TAGGTATCTTTT-ACAATACTT
126 TATATATCTTTTAACGATACTT
52639206 GTAATTTATG
Statistics
Matches: 926, Mismatches: 108, Indels: 161
0.77 0.09 0.13
Matches are distributed among these distances:
305 1 0.00
306 1 0.00
307 52 0.06
309 4 0.00
310 2 0.00
311 9 0.01
312 4 0.00
313 6 0.01
314 59 0.06
315 185 0.20
316 16 0.02
317 85 0.09
318 5 0.01
319 4 0.00
320 30 0.03
321 60 0.06
322 16 0.02
323 100 0.11
324 28 0.03
325 46 0.05
326 6 0.01
327 49 0.05
328 62 0.07
330 1 0.00
332 18 0.02
333 15 0.02
334 4 0.00
339 1 0.00
340 4 0.00
341 13 0.01
342 38 0.04
343 2 0.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (318 bp):
ATGATGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAA
ACCTCTATTTTATTATAATGCTTATTTTGTTTTTTTTAATAAGTAAATAGGTTTTCAAATTATAT
ATCTTTTAACGATACTTAAAGTTTATATTTCATCAGTGTTATATAAATGCTTATTTTGCTTTGGT
TATCGGAATCATACACCTTTCACTATACCTAAACTTGTATTTTATTATAAATGCTTATTTTGTTT
TGTTTTAATAAGTAAAACGGTTTCAAATTATATATCTTTTAACGAACTAATTATTTCC
Found at i:52638815 original size:163 final size:163
Alignment explanation
Indices: 52638628--52639197 Score: 706
Period size: 164 Copynumber: 3.5 Consensus size: 163
52638618 TTCTTTTACA
* * *
52638628 ATACCTAAACTTGTATTTTATTATAAATGATTATTTTGTTCCTGTTTTAATAGGCAAAATGG-TT
1 ATACCTAAACTTGTATTTTATTATAAATGCTTATTTTGTT-TTGTTTTAATAAGCAAAATGGTTT
*
52638692 TCAAATTATATATCTTTTAACGATACCTAAAGTTTATATTCCATTGTGTTCTATAAATACTTATT
65 TCAAATTATATATCTTTTAACGATACCTAAAGTTTATATTCCATCGTGTTCTATAAATACTTATT
*
52638757 TTGCTTTCGTTATCGGAATCGTACACTTTTTTCT
130 TTGCTTTCGTTATCGGAATCATACACTTTTTTCT
* *
52638791 ATACCTAAACTTATATTTTATTATAAATGCTTATTTTGTTTTTGTTTTAATAAGTAAAATGGTTT
1 ATACCTAAACTTGTATTTTATTATAAATGCTTATTTTG-TTTTGTTTTAATAAGCAAAATGGTTT
* * * *
52638856 TCAATTTATATATCTTTTAACGATACTTAAAGTTTATATTCCATCGTGTTTTATAAATTCTTATT
65 TCAAATTATATATCTTTTAACGATACCTAAAGTTTATATTCCATCGTGTTCTATAAATACTTATT
* *
52638921 TCGCTTTCGTTATCGGAATCATACATCTTTTAT-T
130 TTGCTTTCGTTATCGGAATCATACA-CTTTTTTCT
* * * * *
52638955 ATACTTAAACTTGTATTTTATTATAAATGCTTATTTTGTTTT-TATTATTAAGTAAGATGG-TTT
1 ATACCTAAACTTGTATTTTATTATAAATGCTTATTTTGTTTTGTTTTAATAAGCAAAATGGTTTT
* * * * *
52639018 CAAATTATATATCTTTTAACGATGA-CTAAA-TCTATACTCCATCAT-ATCTTATAAATGCTTAT
66 CAAATTATATATCTTTTAACGAT-ACCTAAAGTTTATATTCCATCGTGTTC-TATAAATACTTAT
* * * * *
52639080 TTT-CTTTGGTTATTGAAATCATACACCTTTTACT
129 TTTGCTTTCGTTATCGGAATCATACACTTTTTTCT
** * * * *
52639114 ATACCTAAACCCGTATTTTATTATAAATCCTTATTTTGTATTTATTTTAATATGCAAATTGGTTT
1 ATACCTAAACTTGTATTTTATTATAAATGCTTATTTTGT-TTTGTTTTAATAAGCAAAATGGTTT
**
52639179 TCAAATTAGGTATCTTTTA
65 TCAAATTATATATCTTTTA
52639198 CAATACTTGT
Statistics
Matches: 353, Mismatches: 45, Indels: 19
0.85 0.11 0.05
Matches are distributed among these distances:
158 4 0.01
159 56 0.16
160 29 0.08
161 41 0.12
162 35 0.10
163 58 0.16
164 124 0.35
165 6 0.02
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (163 bp):
ATACCTAAACTTGTATTTTATTATAAATGCTTATTTTGTTTTGTTTTAATAAGCAAAATGGTTTT
CAAATTATATATCTTTTAACGATACCTAAAGTTTATATTCCATCGTGTTCTATAAATACTTATTT
TGCTTTCGTTATCGGAATCATACACTTTTTTCT
Found at i:52643907 original size:15 final size:15
Alignment explanation
Indices: 52643887--52643979 Score: 72
Period size: 13 Copynumber: 6.6 Consensus size: 15
52643877 CTCCTATGTC
*
52643887 TGGTGAACTCACATA
1 TGGTGAACTCACCTA
*
52643902 TGGTGAAC-C-CTTA
1 TGGTGAACTCACCTA
**
52643915 TGGCAAACTCACCTA
1 TGGTGAACTCACCTA
*
52643930 TGGTGAAC-C-CTTA
1 TGGTGAACTCACCTA
*
52643943 TCGTGAACTCACCTA
1 TGGTGAACTCACCTA
*
52643958 TGGCGAAC-C-CCTA
1 TGGTGAACTCACCTA
*
52643971 TCGTGAACT
1 TGGTGAACT
52643980 GCCTTAATTC
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
13 29 0.48
14 5 0.08
15 26 0.43
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (15 bp):
TGGTGAACTCACCTA
Found at i:52643974 original size:28 final size:28
Alignment explanation
Indices: 52643889--52643979 Score: 128
Period size: 28 Copynumber: 3.2 Consensus size: 28
52643879 CCTATGTCTG
* *
52643889 GTGAACTCACATATGGTGAACCCTTATG
1 GTGAACTCACCTATGGTGAACCCTTATC
**
52643917 GCAAACTCACCTATGGTGAACCCTTATC
1 GTGAACTCACCTATGGTGAACCCTTATC
* *
52643945 GTGAACTCACCTATGGCGAACCCCTATC
1 GTGAACTCACCTATGGTGAACCCTTATC
52643973 GTGAACT
1 GTGAACT
52643980 GCCTTAATTC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (28 bp):
GTGAACTCACCTATGGTGAACCCTTATC
Found at i:52649394 original size:15 final size:16
Alignment explanation
Indices: 52649376--52649457 Score: 59
Period size: 16 Copynumber: 5.2 Consensus size: 16
52649366 TAATAAATTT
*
52649376 TTTAAATTTA-AAAAA
1 TTTAAATATATAAAAA
52649391 TTTAAATATATAAAAA
1 TTTAAATATATAAAAA
*
52649407 -TT--ATATCTAAAAA
1 TTTAAATATATAAAAA
*
52649420 TTAAAAT-TATTAAAACTA
1 TTTAAATATA-TAAAA--A
52649438 TTTAAA-ATATATAAAA
1 TTTAAATATATA-AAAA
52649454 TTTA
1 TTTA
52649458 TTTTTTTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 17
0.71 0.07 0.23
Matches are distributed among these distances:
13 10 0.19
14 1 0.02
15 12 0.23
16 17 0.32
17 2 0.04
18 11 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTAAATATATAAAAA
Found at i:52649434 original size:28 final size:26
Alignment explanation
Indices: 52649381--52649455 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 26
52649371 AATTTTTTAA
* *
52649381 ATTTAAAAAATTTAAATATATAAAAATT
1 ATTT-AAAAATTAAAAT-TATAAAAACT
*
52649409 ATATCTAAAAATTAAAATTATTAAAACT
1 AT-T-TAAAAATTAAAATTATAAAAACT
52649437 ATTTAAAATATATAAAATT
1 ATTTAAAA-AT-TAAAATT
52649456 TATTTTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
26 5 0.12
27 3 0.08
28 19 0.47
29 12 0.30
30 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (26 bp):
ATTTAAAAATTAAAATTATAAAAACT
Found at i:52649914 original size:18 final size:18
Alignment explanation
Indices: 52649873--52649957 Score: 73
Period size: 18 Copynumber: 4.5 Consensus size: 18
52649863 CTTTTTTAAA
*
52649873 TTTTTTAAATTTTTTAAA-
1 TTTTTTAAA-TTTTAAAAT
52649891 TTTTTTAAATTTTAAAAT
1 TTTTTTAAATTTTAAAAT
**
52649909 TTTTTTAAAATACGTTTTTAAT
1 TTTTTT-AAAT---TTTAAAAT
*
52649931 TTTTTTTAATTTTAAAAT
1 TTTTTTAAATTTTAAAAT
*
52649949 ATTTTTAAA
1 TTTTTTAAA
52649958 ATACTTTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
17 7 0.13
18 28 0.52
19 4 0.07
21 3 0.06
22 12 0.22
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (18 bp):
TTTTTTAAATTTTAAAAT
Found at i:52649927 original size:40 final size:40
Alignment explanation
Indices: 52649883--52649967 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
52649873 TTTTTTAAAT
*
52649883 TTTTTAAATTTTTTAAATTTTAAAATTTTTTTAAAATACG
1 TTTTTAAATTTTTTAAATTTTAAAATATTTTTAAAATACG
* * *
52649923 TTTTTAATTTTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTAAATTTTTTAAATTTTAAAATATTTTTAAAATACG
52649963 TTTTT
1 TTTTT
52649968 TTACTTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (40 bp):
TTTTTAAATTTTTTAAATTTTAAAATATTTTTAAAATACG
Found at i:52649943 original size:9 final size:9
Alignment explanation
Indices: 52649864--52649913 Score: 84
Period size: 9 Copynumber: 5.7 Consensus size: 9
52649854 TTTAAAATAC
52649864 TTTTTTAAA
1 TTTTTTAAA
52649873 TTTTTTAAA
1 TTTTTTAAA
52649882 TTTTTTAAA
1 TTTTTTAAA
52649891 TTTTTTAAA
1 TTTTTTAAA
*
52649900 -TTTTAAAA
1 TTTTTTAAA
52649908 TTTTTT
1 TTTTTT
52649914 TAAAATACGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
8 7 0.18
9 31 0.82
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:52650649 original size:17 final size:18
Alignment explanation
Indices: 52650615--52650649 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
52650605 TTTTCAAAAT
*
52650615 TTTAAAATAATTTTTAAA
1 TTTAAAATAATTTATAAA
52650633 TTTAAAAT-ATTTATAAA
1 TTTAAAATAATTTATAAA
52650650 ATTCTCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTAAAATAATTTATAAA
Found at i:52650651 original size:18 final size:18
Alignment explanation
Indices: 52650603--52650652 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
52650593 ATTTCAACAG
52650603 AATTTTCAAAATTTTAAAAT
1 AATTTT-AAAA-TTTAAAAT
*
52650623 AATTTTTAAATTTAAAAT
1 AATTTTAAAATTTAAAAT
52650641 -ATTTATAAAATT
1 AATTT-TAAAATT
52650653 CTCAAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 4 0.15
18 14 0.52
19 3 0.11
20 6 0.22
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
AATTTTAAAATTTAAAAT
Found at i:52651018 original size:17 final size:17
Alignment explanation
Indices: 52650996--52651032 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
52650986 CCCTCTTAAA
52650996 AATATAAAATTTAATTT
1 AATATAAAATTTAATTT
52651013 AATATAAAATTTAATTT
1 AATATAAAATTTAATTT
52651030 AAT
1 AAT
52651033 CTTTTAAAAA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATATAAAATTTAATTT
Found at i:52653471 original size:18 final size:18
Alignment explanation
Indices: 52653445--52653489 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
52653435 TTCTGGTGCT
*
52653445 CATACTATGTGGGAAACC
1 CATATTATGTGGGAAACC
52653463 CATATTATGTGGGAAACC
1 CATATTATGTGGGAAACC
52653481 CATATTATG
1 CATATTATG
52653490 AGTTCTAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (18 bp):
CATATTATGTGGGAAACC
Found at i:52661669 original size:11 final size:11
Alignment explanation
Indices: 52661647--52661686 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
52661637 AACTAATCCT
52661647 CTCTCAAATTTC
1 CTCTC-AATTTC
52661659 CTCTCAATTTC
1 CTCTCAATTTC
52661670 CTCTCAATTTC
1 CTCTCAATTTC
52661681 CT-TCAA
1 CTCTCAA
52661687 AAATTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.14
11 19 0.68
12 5 0.18
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:52662912 original size:7 final size:7
Alignment explanation
Indices: 52662900--52662924 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
52662890 AGTCGATTGA
52662900 TATTTAG
1 TATTTAG
52662907 TATTTAG
1 TATTTAG
52662914 TATTTAG
1 TATTTAG
52662921 TATT
1 TATT
52662925 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:52663594 original size:18 final size:18
Alignment explanation
Indices: 52663567--52663604 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
52663557 TAGGTGCGTT
*
52663567 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
52663585 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
52663603 TC
1 TC
52663605 ATTTTTCGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.29, G:0.08, T:0.39
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:52664063 original size:25 final size:24
Alignment explanation
Indices: 52664035--52664148 Score: 96
Period size: 25 Copynumber: 4.9 Consensus size: 24
52664025 TATTTTGATA
52664035 TTATTTGATGTAATAAAATAGGAGT
1 TTATTTGATGTAATAAAATAGGA-T
52664060 TTATTTGATGTAATAAAATA-GAT
1 TTATTTGATGTAATAAAATAGGAT
* * * **
52664083 TT-TTT--T-TAGT-TATTTTGAT
1 TTATTTGATGTAATAAAATAGGAT
*
52664102 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGGA-T
*
52664128 CTATTTGATGTAATAAAATAG
1 TTATTTGATGTAATAAAATAG
52664149 AAATTTTTGA
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
18 2 0.03
19 6 0.09
20 3 0.04
21 3 0.04
22 3 0.04
23 4 0.06
24 5 0.07
25 43 0.61
26 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.15, T:0.46
Consensus pattern (24 bp):
TTATTTGATGTAATAAAATAGGAT
Found at i:52664167 original size:9 final size:9
Alignment explanation
Indices: 52664153--52664189 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
52664143 AAATAGAAAT
52664153 TTTTGAATA
1 TTTTGAATA
52664162 TTTTGAATA
1 TTTTGAATA
52664171 TTTTGAATA
1 TTTTGAATA
52664180 TTTTG-ATA
1 TTTTGAATA
52664188 TT
1 TT
52664190 ATTTGAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 5 0.18
9 23 0.82
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (9 bp):
TTTTGAATA
Found at i:52664172 original size:68 final size:67
Alignment explanation
Indices: 52664013--52664172 Score: 239
Period size: 68 Copynumber: 2.3 Consensus size: 67
52664003 TTATTTGTAA
* *
52664013 AAATATTTTGAATATTTTGATATTATTTGATGTAATAAAATAGGAGTTTATTTGATGTAATAAAA
1 AAAT-TTTTGAATATTTTGATATTATTTGATGTAATAAAATAGAAGTCTATTTGATGTAATAAAA
52664078 TAG
65 TAG
** * *
52664081 ATTTTTTTTAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTCTATTTGATGTAATAAAA
1 AAATTTTTGA-ATATTTTGATATTATTTGATGTAATAAAATAGAAGTCTATTTGATGTAATAAAA
52664146 TAG
65 TAG
52664149 AAATTTTTGAATATTTTGAATATT
1 AAATTTTTGAATATTTTG-ATATT
52664173 TTGAATATTT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
67 12 0.15
68 68 0.85
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (67 bp):
AAATTTTTGAATATTTTGATATTATTTGATGTAATAAAATAGAAGTCTATTTGATGTAATAAAAT
AG
Found at i:52664246 original size:23 final size:23
Alignment explanation
Indices: 52664220--52664651 Score: 392
Period size: 23 Copynumber: 19.8 Consensus size: 23
52664210 ATTAATACCC
*
52664220 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* **
52664243 TTAAATTAAAACCCCTAACC-CC
1 TTAAATTAAAAACCCTAACCTAA
* *
52664265 TTAACTTAAAAATCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
52664288 TTAAATTAAAAACCCTAGCC--C
1 TTAAATTAAAAACCCTAACCTAA
*
52664309 TTAAATTAAAAACCCTAACCTAG
1 TTAAATTAAAAACCCTAACCTAA
*
52664332 TTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
52664353 TTAAATTAAAAACCCTAACCTAG
1 TTAAATTAAAAACCCTAACCTAA
*
52664376 TTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
52664397 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
52664420 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
52664443 TTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
52664464 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
**
52664487 TTAAATTAAAAACCCTAAATTAA
1 TTAAATTAAAAACCCTAACCTAA
**** *
52664510 --AAA-CCCTAACCCATAACTTAA
1 TTAAATTAAAAACCC-TAACCTAA
**** *
52664531 --AAA-CCCTAA-CCTAA-TTAA
1 TTAAATTAAAAACCCTAACCTAA
52664549 CTT-AA--A--AACCCTAACCTAA
1 -TTAAATTAAAAACCCTAACCTAA
*
52664568 TTAAATTAAAAACCCTAACCTAT
1 TTAAATTAAAAACCCTAACCTAA
*
52664591 TTAAATT-AAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
52664611 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
52664634 TTTAATTAAAAACCCTAA
1 TTAAATTAAAAACCCTAA
52664652 ACCCTAAACT
Statistics
Matches: 346, Mismatches: 40, Indels: 46
0.80 0.09 0.11
Matches are distributed among these distances:
17 2 0.01
18 11 0.03
19 8 0.02
20 15 0.04
21 109 0.32
22 29 0.08
23 172 0.50
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.26
Consensus pattern (23 bp):
TTAAATTAAAAACCCTAACCTAA
Found at i:52664326 original size:44 final size:44
Alignment explanation
Indices: 52664216--52664696 Score: 571
Period size: 44 Copynumber: 11.1 Consensus size: 44
52664206 AACCATTAAT
* *
52664216 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAACCCCTA
1 ACCCTTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* *
52664260 ACCCCTTAACTTAAAAATCCTAACCTAATTAAATTAAAAACCCTA
1 A-CCCTTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* *
52664305 GCCCTTAAATTAAAAACCCTAACCTAGTTAAATTAAAAACCCTA
1 ACCCTTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
*
52664349 ACCCTTAAATTAAAAACCCTAACCTAGTTAAATTAAAAACCCTA
1 ACCCTTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
*
52664393 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
1 ACCCTTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* * *
52664437 ACCTAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTA
1 ACC--CTTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
*
52664481 ACCTAATTAAATTAAAAA--C---CC----TAAATTAAAAACCCTA
1 ACC--CTTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* * *
52664518 ACCCATAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTA
1 ACCCTTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* *
52664562 ACCTAATTAAATTAAAAACCCTAACCTATTTAAATT-AAAACCCTA
1 ACC--CTTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* *
52664607 ACCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
1 ACCCTTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCT-A
* * *
52664652 ACCC-TAAACTTAAAAACTCTAACC-CATT-ACTT-AAAACCCTA
1 ACCCTTAAA-TTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
52664693 ACCC
1 ACCC
52664697 CCTAACCTAA
Statistics
Matches: 389, Mismatches: 31, Indels: 37
0.85 0.07 0.08
Matches are distributed among these distances:
35 10 0.03
37 19 0.05
39 2 0.01
40 2 0.01
41 5 0.01
42 9 0.02
43 30 0.08
44 195 0.50
45 72 0.19
46 45 0.12
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (44 bp):
ACCCTTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
Found at i:52664349 original size:67 final size:67
Alignment explanation
Indices: 52664220--52664695 Score: 544
Period size: 67 Copynumber: 7.3 Consensus size: 67
52664210 ATTAATACCC
* * * *
52664220 TTAACTTAAAAACCCTAACCTAATTAAATTAAAACCCCTAACCCCTTAACTTAAAAATCCTAACC
1 TTAAATTAAAAACCCTAACC-AATTAAATTAAAAACCCTAACCACTTAACTTAAAAACCCTAACC
52664285 TAA
65 TAA
* * * *
52664288 TTAAATTAAAAACCCTAGCC-CTTAAATTAAAAACCCTAACCTAGTTAAATTAAAAACCCTAACC
1 TTAAATTAAAAACCCTAACCAATTAAATTAAAAACCCTAACC-ACTTAACTTAAAAACCCTAACC
*
52664352 --C
65 TAA
*
52664353 TTAAATTAAAAACCCTAACCTAGTTAAATTAAAAACCCTAACC-CTTAACTTAAAAACCCTAACC
1 TTAAATTAAAAACCCTAACC-AATTAAATTAAAAACCCTAACCACTTAACTTAAAAACCCTAACC
52664417 TAA
65 TAA
52664420 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC-CTTAACTTAAAAACCCTAACC
1 TTAAATTAAAAACCCTAACC-AATTAAATTAAAAACCCTAACCACTTAACTTAAAAACCCTAACC
52664484 TAA
65 TAA
*
52664487 TTAAATTAAAAA--C---CC---TAAATTAAAAACCCTAACC-CATAACTTAAAAACCCTAACCT
1 TTAAATTAAAAACCCTAACCAATTAAATTAAAAACCCTAACCACTTAACTTAAAAACCCTAACCT
52664543 AA
66 AA
* * *
52664545 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTATTTAAATT-AAAACCCTAAC
1 TTAAATTAAAAACCCTAACC-AATTAAATTAAAAACCCTAACC-ACTTAACTTAAAAACCCTAAC
*
52664609 C--C
64 CTAA
* * * *
52664611 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACC-CTAAACTTAAAAACTCTAAC
1 TTAAATTAAAAACCCTAACC-AATTAAATTAAAAACCCT-AACCACTTAACTTAAAAACCCTAAC
*
52664675 C-CA
64 CTAA
*
52664678 TT-ACTT-AAAACCCTAACC
1 TTAAATTAAAAACCCTAACC
52664696 CCCTAACCTA
Statistics
Matches: 362, Mismatches: 27, Indels: 41
0.84 0.06 0.10
Matches are distributed among these distances:
58 53 0.15
60 1 0.00
62 2 0.01
63 2 0.01
65 56 0.15
66 72 0.20
67 141 0.39
68 30 0.08
69 5 0.01
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.25
Consensus pattern (67 bp):
TTAAATTAAAAACCCTAACCAATTAAATTAAAAACCCTAACCACTTAACTTAAAAACCCTAACCT
AA
Found at i:52664507 original size:14 final size:14
Alignment explanation
Indices: 52664488--52664518 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
52664478 CTAACCTAAT
52664488 TAAATTAAAAACCC
1 TAAATTAAAAACCC
52664502 TAAATTAAAAACCC
1 TAAATTAAAAACCC
52664516 TAA
1 TAA
52664519 CCCATAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAATTAAAAACCC
Found at i:52664518 original size:81 final size:80
Alignment explanation
Indices: 52664421--52664651 Score: 277
Period size: 81 Copynumber: 2.8 Consensus size: 80
52664411 CTAACCTAAT
*
52664421 TAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC-CTTAACTTAAAAACCCTAACCT
1 TAAATTAAAAACCCTAACC-AA-TAAATTAAAAACCCTAACCAATTAACTTAAAAACCCTAACCT
52664485 AATTAAATTAAAAACCC
64 AATTAAATTAAAAACCC
* *
52664502 TAAATTAAAAACCCTAACCCATAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTA
1 TAAATTAAAAACCCTAACCAATAAATTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTA
52664567 ATTAAATTAAAAACCC
65 ATTAAATTAAAAACCC
** *
52664583 TAACCTATTTAAATTAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTTAA-TTAAAAAC
1 TAA---A-TT--A--AAAACCCTAACCAATAAATTAAAAACCCTAACC-AA-TTAACTTAAAAAC
52664647 CCTAA
56 CCTAA
52664652 ACCCTAAACT
Statistics
Matches: 135, Mismatches: 4, Indels: 14
0.88 0.03 0.09
Matches are distributed among these distances:
79 18 0.13
80 1 0.01
81 60 0.44
84 1 0.01
85 2 0.01
87 1 0.01
89 48 0.36
90 4 0.03
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (80 bp):
TAAATTAAAAACCCTAACCAATAAATTAAAAACCCTAACCAATTAACTTAAAAACCCTAACCTAA
TTAAATTAAAAACCC
Found at i:52664809 original size:17 final size:17
Alignment explanation
Indices: 52664787--52664856 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
52664777 ACTGGTACTA
52664787 ATAATTAATAATTTTAT
1 ATAATTAATAATTTTAT
*
52664804 ATAATTTGATAATTTTACT
1 ATAA-TTAATAATTTTA-T
* *
52664823 AATCATTAATACAATTTAT
1 -ATAATTAATA-ATTTTAT
*
52664842 -CAATTAATAATTTTA
1 ATAATTAATAATTTTA
52664857 CATTCACATA
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.26
18 11 0.26
19 7 0.17
20 8 0.19
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (17 bp):
ATAATTAATAATTTTAT
Found at i:52664930 original size:115 final size:115
Alignment explanation
Indices: 52664729--52664970 Score: 396
Period size: 114 Copynumber: 2.1 Consensus size: 115
52664719 CCCTAAACGA
* * *
52664729 AATTAATAATTTTACTTTCACATAAGGTTAGATTTGGAAAAAAATTTTACTGGTACTAATAATTA
1 AATTAATAATTTTACATTCACATAAGGTTAGATTTAGAAAAAAATTTTACTGGTACTAACAATTA
*
52664794 ATAATTTTATATAATTTGATAA-TTTTACTAATCATTAATACAATTTATC
66 ATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
* * **
52664843 AATTAATAATTTTACATTCACATAATGTTAGATTTATAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAAGGTTAGATTTAGAAAAAAATTTT-ACTGGTACTAACAATT
52664908 AATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
65 AATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
52664959 AATTAATAATTT
1 AATTAATAATTT
52664971 CACAAACTTA
Statistics
Matches: 118, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
114 42 0.36
115 38 0.32
116 38 0.32
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.44
Consensus pattern (115 bp):
AATTAATAATTTTACATTCACATAAGGTTAGATTTAGAAAAAAATTTTACTGGTACTAACAATTA
ATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
Found at i:52668124 original size:17 final size:18
Alignment explanation
Indices: 52668091--52668124 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52668081 TGTTAACACT
*
52668091 TAAAATAATATTATATAG
1 TAAAATAATAGTATATAG
52668109 TAAAATAAT-GTATATA
1 TAAAATAATAGTATATA
52668125 CAAAAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
TAAAATAATAGTATATAG
Found at i:52671029 original size:125 final size:125
Alignment explanation
Indices: 52670807--52671183 Score: 596
Period size: 125 Copynumber: 3.0 Consensus size: 125
52670797 CCCAAACATG
* * *
52670807 CTACTGTAGCAAAAGCACGTCCACGAGGGTGCGATTTTCACAAATTCTTCTCAAATAGCATCCTC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* * * *
52670872 CTAGAAGTGATTTTATAATATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
66 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCTATGAC
52670932 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* *
52670997 CTAGAAGCGATTCTATACTATTTGCTCAGAAACATC-AAAAAAATTATTTCTTCTATGAC
66 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCTATGAC
*
52671056 CTACTGTAGCAAAAGCGCGTCCACTAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* * ** *
52671120 CTAAAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCAAAATTATTTCTTCTAGGAC
66 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA-AAAAAATTATTTCTTCTATGAC
52671181 CTA
1 CTA
52671184 AAAACCCTAA
Statistics
Matches: 233, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
123 62 0.27
124 56 0.24
125 115 0.49
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCTATGAC
Found at i:52671728 original size:60 final size:59
Alignment explanation
Indices: 52671589--52671704 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 59
52671579 TAACATTTGG
* * * *
52671589 TACCTAAATTTGATATTTTTTCTTAATTTGGTACCTAAAC-TTTTTGTTGCCCAATTCGA
1 TACCTAAAATCGACATTTTTT-TTAATTTGGTACCTAAACTTTTTTGTGGCCCAATTCGA
52671648 TACCTAAAATCGACACTTTTTTTATAATTTGGTACCTAAACTTTTTTG-GGCCCAATT
1 TACCTAAAATCGACA-TTTTTTT-TAATTTGGTACCTAAACTTTTTTGTGGCCCAATT
52671705 TGGTAGTTGA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
59 13 0.26
60 31 0.62
61 6 0.12
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (59 bp):
TACCTAAAATCGACATTTTTTTTAATTTGGTACCTAAACTTTTTTGTGGCCCAATTCGA
Found at i:52672267 original size:31 final size:30
Alignment explanation
Indices: 52672214--52672329 Score: 123
Period size: 31 Copynumber: 3.9 Consensus size: 30
52672204 CCCCAAAAAG
* * *
52672214 TTTAATTACCAACTTAAGAAAAAGTGTCAAA
1 TTTAAATACCAAATT-AGAAAAAATGTCAAA
*
52672245 TTTAAATATCAAATTAGAAAAAAATGTCAAA
1 TTTAAATACCAAATTAG-AAAAAATGTCAAA
* *
52672276 TTTAGATACCAAATTAGACCAAAA--T-AAA
1 TTTAAATACCAAATTAGA-AAAAATGTCAAA
52672304 TTTAAATACCAAATTA-AAAAAATGTC
1 TTTAAATACCAAATTAGAAAAAATGTC
52672330 GGTTTCAAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
26 4 0.06
27 1 0.01
28 19 0.27
29 1 0.01
30 3 0.04
31 43 0.61
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.28
Consensus pattern (30 bp):
TTTAAATACCAAATTAGAAAAAATGTCAAA
Found at i:52680334 original size:21 final size:21
Alignment explanation
Indices: 52680310--52680349 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
52680300 TTCTTTTGAA
*
52680310 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
52680331 CCTCTGCTTCCCTCGCTGC
1 CCTCTGCTTCCCTCGCTGC
52680350 TGCATCTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.03, C:0.47, G:0.17, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:52680413 original size:87 final size:87
Alignment explanation
Indices: 52680245--52680404 Score: 223
Period size: 87 Copynumber: 1.8 Consensus size: 87
52680235 TTCTGCTCTG
* * * * * *
52680245 CTCTGCTTCTCTTGCTGTAGCCTCTGCTTTAAGTTGTAGCTGCAGTTCTTCATATTTCTTTTGAA
1 CTCTGCTTCCCTCGCTGTAGCATCTACTTTAAGTTGTAGCTGAAGTTCTTCATATTTCCTTTGAA
** *
52680310 CCTCTGCTTCTCTCGCTGCAGC
66 CCTCAACTTCGCTCGCTGCAGC
52680332 CTCTGCTTCCCTCGCTGCT-GCATCTACTTTAAGTTGTAGCTGAAGTTCTTCATATTTCCTTTGA
1 CTCTGCTTCCCTCGCTG-TAGCATCTACTTTAAGTTGTAGCTGAAGTTCTTCATATTTCCTTTGA
52680396 ACCTCAACT
65 ACCTCAACT
52680405 GTGGTCGCTT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
87 63 0.98
88 1 0.02
ACGTcount: A:0.14, C:0.29, G:0.16, T:0.41
Consensus pattern (87 bp):
CTCTGCTTCCCTCGCTGTAGCATCTACTTTAAGTTGTAGCTGAAGTTCTTCATATTTCCTTTGAA
CCTCAACTTCGCTCGCTGCAGC
Found at i:52682243 original size:20 final size:20
Alignment explanation
Indices: 52682189--52682248 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
52682179 CATTAAAATG
* * *
52682189 TAAACTCTAAACCTTAATCC
1 TAAACTCTAAGCCCTAAACC
* *
52682209 TCAATCTCCAAGCCCTAAACC
1 T-AAACTCTAAGCCCTAAACC
*
52682230 TAAACTCTAAGCCCAAAAC
1 TAAACTCTAAGCCCTAAAC
52682249 ACAAAAATGT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.40, C:0.35, G:0.03, T:0.22
Consensus pattern (20 bp):
TAAACTCTAAGCCCTAAACC
Found at i:52682923 original size:133 final size:131
Alignment explanation
Indices: 52682612--52682963 Score: 417
Period size: 134 Copynumber: 2.6 Consensus size: 131
52682602 TTTAACATTT
* * *
52682612 CGCCACTAAAG-CATAAAAAGGAAACAACAAAACGGTACCATTTTGCTCAAAATTTTTCCTCAAA
1 CGCCACTAAAGAAAT-AAAATGAAACAATAAAACGGTA-CATTTTGCTC--AATTTTTCCTCAAA
* * *
52682676 TTAGATATCTTTACCGGCGTTTCTCCAATAATGCCACTATATCCCAATATTTGCGGCATTTTTTA
62 TTAGATATCTTTACCGGCGTTTCTCCAATAACGCCACCATATCCCAATATTTCCGGCATTTTTTA
52682741 CAAGG
127 CAAGG
* * *
52682746 CACCACTAAAGAAATAAAATGAAGCAATAAAACGGTAGCGTTTTG-TCCAATTTTTTTCCTCAAA
1 CGCCACTAAAGAAATAAAATGAAACAATAAAACGGTA-CATTTTGCT-CAA--TTTTTCCTCAAA
* * * *
52682810 TTAGATATCTTTACCGGCGTTTCTCTGAA-AACGCCGCCA-AT-TCAATCTTTTCCGGCATTTTT
62 TTAGATATCTTTACCGGCGTTTCTC-CAATAACGCCACCATATCCCAAT-ATTTCCGGCATTTTT
*
52682872 TACAATG
125 TACAAGG
52682879 CGCCACTAAAGAAATAAAATGAAACAATAAAACGGTACTATTTTGCTCAGATTTTTCCTCAAATT
1 CGCCACTAAAGAAATAAAATGAAACAATAAAACGGTAC-ATTTTGCTCA-ATTTTTCCTCAAATT
* *
52682944 CGCTATCTTTACCGGCGTTT
64 AGATATCTTTACCGGCGTTT
52682964 TTGTTGAAGC
Statistics
Matches: 189, Mismatches: 20, Indels: 20
0.83 0.09 0.09
Matches are distributed among these distances:
132 39 0.21
133 64 0.34
134 82 0.43
135 4 0.02
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (131 bp):
CGCCACTAAAGAAATAAAATGAAACAATAAAACGGTACATTTTGCTCAATTTTTCCTCAAATTAG
ATATCTTTACCGGCGTTTCTCCAATAACGCCACCATATCCCAATATTTCCGGCATTTTTTACAAG
G
Found at i:52690828 original size:22 final size:21
Alignment explanation
Indices: 52690795--52690859 Score: 96
Period size: 21 Copynumber: 3.0 Consensus size: 21
52690785 TATTTTTATT
*
52690795 ATTTTTTATTTTTAAAATAAA
1 ATTTTTAATTTTTAAAATAAA
52690816 ATTTTTAATTTTTAAAAT-AA
1 ATTTTTAATTTTTAAAATAAA
52690836 ATATTTTAATTTTTAAAATTAAA
1 AT-TTTTAATTTTTAAAA-TAAA
52690859 A
1 A
52690860 ATAATCAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
20 4 0.10
21 32 0.80
22 1 0.03
23 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTTTAATTTTTAAAATAAA
Found at i:52695095 original size:15 final size:15
Alignment explanation
Indices: 52695077--52695108 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
52695067 ATCCAAAATA
52695077 AATTAACTAAAATTT
1 AATTAACTAAAATTT
52695092 AATTAACTAAAATTT
1 AATTAACTAAAATTT
52695107 AA
1 AA
52695109 GCTTAATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTAACTAAAATTT
Found at i:52705750 original size:17 final size:16
Alignment explanation
Indices: 52705713--52705751 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
52705703 AATAAATAAT
52705713 TAAA-TAAATTGGAAA
1 TAAATTAAATTGGAAA
52705728 TAAAATTAAATTGGGAAA
1 T-AAATTAAATT-GGAAA
52705746 TAAATT
1 TAAATT
52705752 TGGATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 11 0.52
18 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTGGAAA
Found at i:52706917 original size:61 final size:60
Alignment explanation
Indices: 52706847--52706960 Score: 138
Period size: 61 Copynumber: 1.9 Consensus size: 60
52706837 ATTCTAAATC
* ** * *
52706847 TAAAAAATTCAACAAAATTAGCTCTCAATGTTTACAAAAGTTTTCATTTTAGTTCGAATTG
1 TAAAAAATTCAACAAAATTAGCCCTCAACATTTACAAAA-ATTTCAATTTAGTTCGAATTG
* * * *
52706908 TAAATAATTCAATAAATTTATCCCTCAACATTTACAAAAATTTCAATTTAGTT
1 TAAAAAATTCAACAAAATTAGCCCTCAACATTTACAAAAATTTCAATTTAGTT
52706961 GTAATTCTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
60 12 0.27
61 32 0.73
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (60 bp):
TAAAAAATTCAACAAAATTAGCCCTCAACATTTACAAAAATTTCAATTTAGTTCGAATTG
Found at i:52708015 original size:17 final size:17
Alignment explanation
Indices: 52707986--52708019 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
52707976 TAGCTTACCC
52707986 TTTAATTTATAAATTTT
1 TTTAATTTATAAATTTT
52708003 TTTATATTT-TAAATTTT
1 TTTA-ATTTATAAATTTT
52708020 ATAAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTAATTTATAAATTTT
Found at i:52710206 original size:11 final size:11
Alignment explanation
Indices: 52710190--52710282 Score: 67
Period size: 11 Copynumber: 8.9 Consensus size: 11
52710180 TAATTTTTTA
52710190 TTTTAAAATAT
1 TTTTAAAATAT
52710201 TTTTAAAATACTT
1 TTTTAAAATA--T
**
52710214 TTTTTTAAT-T
1 TTTTAAAATAT
*
52710224 TTTT----TAA
1 TTTTAAAATAT
52710231 TTTTAAAATAT
1 TTTTAAAATAT
52710242 TTTTAAAATACT
1 TTTTAAAATA-T
*
52710254 TTTTTAAAT-T
1 TTTTAAAATAT
52710264 TTTT-AAA-AT
1 TTTTAAAATAT
52710273 TTTTAAAATA
1 TTTTAAAATA
52710283 AAAATGGGCC
Statistics
Matches: 66, Mismatches: 5, Indels: 22
0.71 0.05 0.24
Matches are distributed among these distances:
6 1 0.02
7 4 0.06
9 8 0.12
10 13 0.20
11 23 0.35
12 9 0.14
13 8 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:52710240 original size:41 final size:40
Alignment explanation
Indices: 52710143--52710282 Score: 196
Period size: 41 Copynumber: 3.5 Consensus size: 40
52710133 AAATATATTT
* *
52710143 ATTTTTTTAATTTTAAAATATTTTTTACATAC-TTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
52710182 A-TTTTTT-ATTTTAAAATATTTTTAAAATACTTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTTA
*
52710221 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
*
52710261 ATTTTTTAAAATTTTTAAAATA
1 ATTTTTT-TAA-TTTTAAAATA
52710283 AAAATGGGCC
Statistics
Matches: 91, Mismatches: 4, Indels: 9
0.88 0.04 0.09
Matches are distributed among these distances:
37 21 0.23
38 6 0.07
39 9 0.10
40 20 0.22
41 25 0.27
42 10 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:52710257 original size:31 final size:31
Alignment explanation
Indices: 52710222--52710282 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
52710212 TTTTTTTTAA
*
52710222 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTTAAAA-ATTTTTAAAATAC
*
52710253 TTTTTTAAATTTTTTAAAATTTTTAAAATA
1 TTTTTTAAATTTTTAAAAATTTTTAAAATA
52710283 AAAATGGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTTTTAAATTTTTAAAAATTTTTAAAATAC
Found at i:52710528 original size:18 final size:18
Alignment explanation
Indices: 52710493--52710529 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
52710483 ATATTTTTAG
* *
52710493 TATTTTTTATATATATTA
1 TATTTTTTATAAAAATTA
52710511 TATTTTTTATAAAAATTA
1 TATTTTTTATAAAAATTA
52710529 T
1 T
52710530 TACAATTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTTATAAAAATTA
Found at i:52715389 original size:30 final size:29
Alignment explanation
Indices: 52715349--52715438 Score: 105
Period size: 29 Copynumber: 3.1 Consensus size: 29
52715339 ATATAATAAA
52715349 TTTTTT-ATTTTTTTAATTTTAAAATACTT
1 TTTTTTAATTTTTTTAATTTTAAAATA-TT
*
52715378 TTTTTTAATTTTTTAAATTTT-AAAT-TT
1 TTTTTTAATTTTTTTAATTTTAAAATATT
**
52715405 TTTTAAAATACTTTTTTAATTTTAAAATATT
1 TTTTTTAAT--TTTTTTAATTTTAAAATATT
52715436 TTT
1 TTT
52715439 AAAATACTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
27 9 0.17
29 21 0.40
30 17 0.33
31 5 0.10
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTTTTAATTTTTTTAATTTTAAAATATT
Found at i:52715449 original size:29 final size:30
Alignment explanation
Indices: 52715357--52715457 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
52715347 AATTTTTTAT
**
52715357 TTTTTTAATTTTAAAATACTTTTTTTTAAT--
1 TTTTTTAATTTTAAAATA--TTTTTAAAATAC
* *
52715387 TTTTTAAATTTT-AAATTTTTTTAAAATAC
1 TTTTTTAATTTTAAAATATTTTTAAAATAC
52715416 TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTAAAATATTTTTAAAATAC
52715446 TTTTTTAATTTT
1 TTTTTTAATTTT
52715458 TGTTTTAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
27 8 0.13
29 15 0.24
30 39 0.63
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (30 bp):
TTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:52733104 original size:13 final size:13
Alignment explanation
Indices: 52733086--52733110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52733076 AGAATTATCA
52733086 ATTAAAGAATTTG
1 ATTAAAGAATTTG
52733099 ATTAAAGAATTT
1 ATTAAAGAATTT
52733111 TCTTGAAAAA
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:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
ATTAAAGAATTTG
Found at i:52733712 original size:37 final size:34
Alignment explanation
Indices: 52733604--52733714 Score: 98
Period size: 37 Copynumber: 3.0 Consensus size: 34
52733594 TTCTAAAAAA
*
52733604 TAATATTATTTTAATAGGTTAATACTAAATTTAAT-T
1 TAATATTATTTTAATA--TTAA-ATTAAATTTAATAT
* **
52733640 TAATATTTATCTTAATATTATTTTATTAATTTAATAT
1 TAATA-TTATTTTAATATTAAATTA--AATTTAATAT
52733677 TAAAGTGATTATTTTAATATTAAATTAAATTTAATAT
1 T-AA-T-ATTATTTTAATATTAAATTAAATTTAATAT
52733714 T
1 T
52733715 TATCTTGTAG
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
34 2 0.03
35 3 0.05
36 13 0.21
37 23 0.38
38 2 0.03
39 17 0.28
40 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (34 bp):
TAATATTATTTTAATATTAAATTAAATTTAATAT
Found at i:52733907 original size:25 final size:25
Alignment explanation
Indices: 52733865--52733916 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
52733855 AGTTGTAGAA
52733865 AGAAAATTCTCTAAAGATATTATTTT
1 AGAAAATTCTCTAAAGATATT-TTTT
*
52733891 AGAAAATT-TCTAGAGATATTTTTT
1 AGAAAATTCTCTAAAGATATTTTTT
52733915 AG
1 AG
52733917 TTTACAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 6 0.24
25 11 0.44
26 8 0.32
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (25 bp):
AGAAAATTCTCTAAAGATATTTTTT
Found at i:52746163 original size:14 final size:14
Alignment explanation
Indices: 52746125--52746167 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
52746115 CAAAATGTAC
52746125 AATATAATTAAA-T
1 AATATAATTAAATT
52746138 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
52746153 AA-ATAATTTAATT
1 AATATAATTAAATT
52746166 AA
1 AA
52746168 CTATTTAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:52752092 original size:6 final size:6
Alignment explanation
Indices: 52752081--52752114 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
52752071 AAGTGACTTT
52752081 TTATAA TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTAT
52752115 TATGTTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTATAA
Found at i:52752886 original size:38 final size:37
Alignment explanation
Indices: 52752832--52752952 Score: 224
Period size: 37 Copynumber: 3.2 Consensus size: 37
52752822 CTTCTTCAAG
52752832 TGTTTGAAACGATTCAGTCTACTGGTGATTTCTTTTA
1 TGTTTGAAACGATTCAGTCTACTGGTGATTTCTTTTA
52752869 TGTTTGAAACGATTTCAGTCTACTGGTGATTTCTTTTA
1 TGTTTGAAACGA-TTCAGTCTACTGGTGATTTCTTTTA
52752907 TGTTTGAAACGATTCAGTCTACTGGTGATTTCTTTTA
1 TGTTTGAAACGATTCAGTCTACTGGTGATTTCTTTTA
*
52752944 TCTTTGAAA
1 TGTTTGAAA
52752953 TCATCTTAGT
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
37 45 0.55
38 37 0.45
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.46
Consensus pattern (37 bp):
TGTTTGAAACGATTCAGTCTACTGGTGATTTCTTTTA
Found at i:52753732 original size:15 final size:15
Alignment explanation
Indices: 52753693--52753737 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
52753683 ATTATTTATT
* *
52753693 AAAATATGTATCTTC
1 AAAATATGTTTTTTC
*
52753708 AAAAGATGTTTTTTC
1 AAAATATGTTTTTTC
52753723 AAAATATGTTATTTT
1 AAAATATGTT-TTTT
52753738 AGAGATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.47
Consensus pattern (15 bp):
AAAATATGTTTTTTC
Found at i:52755579 original size:20 final size:20
Alignment explanation
Indices: 52755545--52755609 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 20
52755535 AAAATTACAA
52755545 AAAACATTT-AAAATAATTT-T
1 AAAA-ATTTCAAAAT-ATTTAT
*
52755565 CAAAATTTCAAAATATTTAT
1 AAAAATTTCAAAATATTTAT
52755585 AAAAATTTCAAAAT-TTATAT
1 AAAAATTTCAAAATATT-TAT
52755605 AAAAA
1 AAAAA
52755610 AGTTAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATTTCAAAATATTTAT
Found at i:52755591 original size:29 final size:28
Alignment explanation
Indices: 52755545--52755600 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
52755535 AAAATTACAA
52755545 AAAACATTTAAAATAATTTTCAAAATTTC
1 AAAACATTTAAAATAA-TTTCAAAATTTC
*
52755574 AAAATATTTATAAA-AATTTCAAAATTT
1 AAAACATTTA-AAATAATTTCAAAATTT
52755601 ATATAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 11 0.44
29 11 0.44
30 3 0.12
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (28 bp):
AAAACATTTAAAATAATTTCAAAATTTC
Found at i:52761228 original size:17 final size:17
Alignment explanation
Indices: 52761208--52761241 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
52761198 AATATTAAGA
52761208 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
52761225 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
52761242 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:52761462 original size:44 final size:45
Alignment explanation
Indices: 52761399--52761492 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 45
52761389 TATTACAACA
**
52761399 TCATTCCATTCAACCAAACACA-AGAA-TACTATTACAGTTCTATT
1 TCATTCCATTCAACCAAACA-ATAGAATTACTATTACACCTCTATT
* *
52761443 TCATTCCATTTAACCAAACAATTGAATTACTATTACACCTCTATT
1 TCATTCCATTCAACCAAACAATAGAATTACTATTACACCTCTATT
52761488 TCATT
1 TCATT
52761493 ACAGCTCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 21 0.48
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (45 bp):
TCATTCCATTCAACCAAACAATAGAATTACTATTACACCTCTATT
Found at i:52761495 original size:16 final size:15
Alignment explanation
Indices: 52761474--52761510 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
52761464 TTGAATTACT
52761474 ATTACACCTCTATTTC
1 ATTACACCTCTA-TTC
*
52761490 ATTACAGCTCTATTC
1 ATTACACCTCTATTC
52761505 ATTACA
1 ATTACA
52761511 GCGAACAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.41
Consensus pattern (15 bp):
ATTACACCTCTATTC
Found at i:52761507 original size:15 final size:16
Alignment explanation
Indices: 52761474--52761512 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
52761464 TTGAATTACT
*
52761474 ATTACACCTCTATTTC
1 ATTACAGCTCTATTTC
52761490 ATTACAGCTCTA-TTC
1 ATTACAGCTCTATTTC
52761505 ATTACAGC
1 ATTACAGC
52761513 GAACAAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.28, C:0.28, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTTC
Found at i:52762189 original size:27 final size:27
Alignment explanation
Indices: 52762134--52762186 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
52762124 AGGTTTTTAT
* *
52762134 TTTATTTTTTAAGATTATTATATATTG
1 TTTATTTTTTAAAATTATTATAGATTG
52762161 TTTATTTTTTAATAATT-TTATGAGAT
1 TTTATTTTTTAA-AATTATTAT-AGAT
52762187 GTTAAATACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (27 bp):
TTTATTTTTTAAAATTATTATAGATTG
Found at i:52765886 original size:43 final size:43
Alignment explanation
Indices: 52765802--52765922 Score: 113
Period size: 43 Copynumber: 2.8 Consensus size: 43
52765792 TTGTACAATG
* * * * * * *
52765802 CCAACGTCCCAGACGTGATCTTACATGTAATCA-TAGATCGATG
1 CCAACGTCCCAGAAGTGGTCTTACACGAAAACACAAG-TCGATA
52765845 CC-ACTGTCCCAGACAG-GGTCTTACACGAAAACACAAGTCGATA
1 CCAAC-GTCCCAGA-AGTGGTCTTACACGAAAACACAAGTCGATA
* *
52765888 CCAACGTCCCAGATGTGGTCTTACACGAGAACACA
1 CCAACGTCCCAGAAGTGGTCTTACACGAAAACACA
52765923 TATCAGAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
42 3 0.05
43 56 0.88
44 5 0.08
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (43 bp):
CCAACGTCCCAGAAGTGGTCTTACACGAAAACACAAGTCGATA
Found at i:52768605 original size:3 final size:3
Alignment explanation
Indices: 52768597--52768646 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
52768587 TTGTTATTTC
* *
52768597 TAT TAT TAT TA- AAT TAGT T-T TAT TAT TAT TAT TATT TAT TAT CAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TA-T TAT TAT TAT
52768642 TAT TA
1 TAT TA
52768647 GTTTTATTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 3 0.08
3 31 0.79
4 5 0.13
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:52768636 original size:16 final size:16
Alignment explanation
Indices: 52768615--52768646 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52768605 TTAAATTAGT
*
52768615 TTTATTATTATTATTA
1 TTTATTATCATTATTA
52768631 TTTATTATCATTATTA
1 TTTATTATCATTATTA
52768647 GTTTTATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATTATCATTATTA
Found at i:52769328 original size:12 final size:12
Alignment explanation
Indices: 52769307--52769338 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
52769297 TTTTATAGCC
*
52769307 TTATTCATTTCT
1 TTATTTATTTCT
52769319 TTATTTATTTCT
1 TTATTTATTTCT
52769331 TTATTTAT
1 TTATTTAT
52769339 ATTTTCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTATTTCT
Found at i:52771265 original size:19 final size:20
Alignment explanation
Indices: 52771225--52771268 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
52771215 GTCTCTTTAG
* *
52771225 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
52771244 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
52771263 GCATTA
1 GCATTA
52771269 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:52775731 original size:88 final size:88
Alignment explanation
Indices: 52775615--52775921 Score: 411
Period size: 88 Copynumber: 3.5 Consensus size: 88
52775605 CGCCTTCATT
* * * *
52775615 GGTTGCAGTGGAGCTGGTT-AAAGA-AGCAGATCTTGCCTTCCAGCGTTAACAACGAAGTAGATC
1 GGTTGTAGTGGAGCTGGTTGAAA-ACAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATC
52775678 GAAGACACAAACCTTGCCTCTCTC
65 GAAGACACAAACCTTGCCTCTCTC
* * *
52775702 GGGTGTAGTAGAGCTGGTTGAAAACAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATTG
1 GGTTGTAGTGGAGCTGGTTGAAAACAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCG
52775767 AAGACACAAACCTTGCCTCTCTC
66 AAGACACAAACCTTGCCTCTCTC
* * * * ** * *
52775790 GGTTGTGGTGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGTATCGACAGCGAAGCAGGTCG
1 GGTTGTAGTGGAGCTGGTTGAAAACAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCG
52775855 AAGACACAAACCTTGCCTCTCTC
66 AAGACACAAACCTTGCCTCTCTC
* * * **
52775878 GGTTGTAGTGGAGCTAGTTGAAGATAGTGGATCTTGCCTTCCTG
1 GGTTGTAGTGGAGCTGGTTGAAAACAGCAGATCTTGCCTTCCTG
52775922 TACTGACGGT
Statistics
Matches: 194, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
87 17 0.09
88 177 0.91
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (88 bp):
GGTTGTAGTGGAGCTGGTTGAAAACAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCG
AAGACACAAACCTTGCCTCTCTC
Found at i:52775813 original size:43 final size:43
Alignment explanation
Indices: 52775678--52775901 Score: 141
Period size: 44 Copynumber: 5.1 Consensus size: 43
52775668 GAAGTAGATC
* *
52775678 GAAGACACAAACCTTGCCTCTCTCGGGTGTAGTAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTT
* * * * ** ** * * *
52775721 GAAAACAGCAGATCTTGCCT-TC-CTGCATTAACAACGAAGCAGATT
1 GAAGACA-CAAACCTTGCCTCTCTC-G-GTT-GTAGTGGAGCTGGTT
*
52775766 GAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTT
* * * * * * * *
52775809 GAAGACAACAGATCTTGCCT-TC-CTGTATCGACAGCGAAGCAGGTC
1 GAAGAC-ACAAACCTTGCCTCTCTCGGT-T-G-TAGTGGAGCTGGTT
*
52775854 GAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTAGTT
1 GAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTT
52775897 GAAGA
1 GAAGA
52775902 TAGTGGATCT
Statistics
Matches: 126, Mismatches: 43, Indels: 24
0.65 0.22 0.12
Matches are distributed among these distances:
42 4 0.03
43 38 0.30
44 47 0.37
45 33 0.26
46 4 0.03
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTT
Found at i:52777455 original size:3 final size:3
Alignment explanation
Indices: 52777447--52777498 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
52777437 TTGTTATTTC
* *
52777447 TAT TAT TAT TA- AAT TAG T-T TAT TAT TAT TAT TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
*
52777491 CAT TAT TA
1 TAT TAT TA
52777499 GTTTTATTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Done.