Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 192 of 208
Found at i:58580253 original size:21 final size:21
Alignment explanation
Indices: 58580209--58580253 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
58580199 GTACCTTTTT
* *
58580209 TTTCCTTATATTTTTTGTTTA
1 TTTCCTTATATTTTTTATTGA
58580230 TTTCCTT-TATTTGTTTATTGA
1 TTTCCTTATATTT-TTTATTGA
58580251 TTT
1 TTT
58580254 ATGTTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.13, C:0.09, G:0.07, T:0.71
Consensus pattern (21 bp):
TTTCCTTATATTTTTTATTGA
Found at i:58585341 original size:9 final size:9
Alignment explanation
Indices: 58585329--58585374 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
58585319 GAAAAAAAGG
58585329 AAAAGAAAA
1 AAAAGAAAA
58585338 AAAAGAAAA
1 AAAAGAAAA
58585347 AAAAGAAAA
1 AAAAGAAAA
*
58585356 AGAAAGAAGA
1 A-AAAGAAAA
*
58585366 AAAGGAAAA
1 AAAAGAAAA
58585375 GGAGAGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:58585341 original size:18 final size:17
Alignment explanation
Indices: 58585320--58585374 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
58585310 AATGATGATG
*
58585320 AAAAAAAGGAAAAGAAA
1 AAAAAAAAGAAAAGAAA
*
58585337 AAAAAGAAAAAAAAGAAA
1 AAAAA-AAAGAAAAGAAA
*
58585355 AAGAAAGAAGAAAAGGAAA
1 AA-AAAAAAGAAAA-GAAA
58585374 A
1 A
58585375 GGAGAGGCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 5 0.16
18 18 0.58
19 8 0.26
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAGAAA
Found at i:58585361 original size:19 final size:18
Alignment explanation
Indices: 58585329--58585374 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
58585319 GAAAAAAAGG
58585329 AAAAGAAAAAAAAGAAAA
1 AAAAGAAAAAAAAGAAAA
*
58585347 AAAAGAAAAAGAAAGAAGA
1 AAAAGAAAAA-AAAGAAAA
*
58585366 AAAGGAAAA
1 AAAAGAAAA
58585375 GGAGAGGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAAAAGAAAA
Found at i:58588590 original size:23 final size:23
Alignment explanation
Indices: 58588562--58588635 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
58588552 TGTTATTGAT
58588562 CAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
* **
58588585 CGGTGGTAGCTTCGGCTACATTT
1 CAGTGGTAGCTTCGGCTACATAA
*
58588608 CAGTGGTAGCTTCGGCTACATAT
1 CAGTGGTAGCTTCGGCTACATAA
58588631 CAGTG
1 CAGTG
58588636 TTGCACTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (23 bp):
CAGTGGTAGCTTCGGCTACATAA
Found at i:58590226 original size:117 final size:117
Alignment explanation
Indices: 58590020--58590251 Score: 331
Period size: 117 Copynumber: 2.0 Consensus size: 117
58590010 GCGATGTAGC
* *
58590020 GAGCAGATTGAAGCCACGACGTCGAATCTTATCTCCCTAGCATTAAAGCTTGGATTGGCTGAAGT
1 GAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCCTAGCATTAAAGCTTGGATTAGCTGAAGT
* *
58590085 GGAGTGGATTGAAGCTACGGGCAGCGAATCCTATCTCTTTGGCATTACAGTA
66 GGAGCGAATTGAAGCTACGGGCAGCGAATCCTATCTCTTTGGCATTACAGTA
* * ** *
58590137 GAGCAGATTGAAGCCACGACGGCGAATCTTATCTCTCTGGTGTTAAGGC-TGGAATTAGCTGAAG
1 GAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCCTAGCATTAAAGCTTGG-ATTAGCTGAAG
* * * *
58590201 TGGAGCGAATTGTAGCTATGGGCAGCGAATCCTATCTTTTTGGCCTTACAG
65 TGGAGCGAATTGAAGCTACGGGCAGCGAATCCTATCTCTTTGGCATTACAG
58590252 GCAATACAGC
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
116 3 0.03
117 98 0.97
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (117 bp):
GAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCCTAGCATTAAAGCTTGGATTAGCTGAAGT
GGAGCGAATTGAAGCTACGGGCAGCGAATCCTATCTCTTTGGCATTACAGTA
Found at i:58590445 original size:44 final size:43
Alignment explanation
Indices: 58590382--58590718 Score: 133
Period size: 44 Copynumber: 7.7 Consensus size: 43
58590372 GAAGATGGCG
* *
58590382 AATCTTATCTCCCTAAAGTTGCA-ATGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCTTGAAGTTGCAGA-GGAGCAGATTAAAG-CAAT
* ** **
58590426 AATCCTATCTCCTTGAAGTTGCAGAGGAGTGGATTAAAGTGAT
1 AATCTTATCTCCTTGAAGTTGCAGAGGAGCAGATTAAAGCAAT
* * *
58590469 AGATCTTATCTCTTTGAAGTTGCAGTAGAAG-AGA-T--CGC-AT
1 A-ATCTTATCTCCTTGAAGTTGCAG-AGGAGCAGATTAAAGCAAT
** * * * *
58590509 CGGGTCTTATCTTCC-TGAAGTTGCAGTGGAGCAGACTCAAA-TAAGC
1 --AATCTTATC-TCCTTGAAGTTGCAGAGGAGCAGA-TTAAAGCAA-T
* * *
58590555 AAGTCTTATTCTCC-TGAAGTTGCAGTGGGGCAGACTAAAG--AT
1 AA-TCTTA-TCTCCTTGAAGTTGCAGAGGAGCAGATTAAAGCAAT
* * * * * *
58590597 GGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTTAGGCCAAC
1 ----AATCTTATCTCCTTGAAGTTGCAGAGGAGCAGATTAAAG-CAAT
* * * * ** *
58590645 AATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAGTAAT
1 AATCTTATCTCCTTGAAGTTGCAGAGGAGCAGATTAAAGCAAT
58590688 AGATCTTATCT-CTCTGAAGTTGCAGA-GAGCA
1 A-ATCTTATCTCCT-TGAAGTTGCAGAGGAGCA
58590719 TATCACATTT
Statistics
Matches: 220, Mismatches: 47, Indels: 53
0.69 0.15 0.17
Matches are distributed among these distances:
40 5 0.02
41 22 0.10
42 2 0.01
43 12 0.05
44 115 0.52
45 59 0.27
46 4 0.02
48 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCTTGAAGTTGCAGAGGAGCAGATTAAAGCAAT
Found at i:58590570 original size:45 final size:45
Alignment explanation
Indices: 58590512--58590629 Score: 152
Period size: 45 Copynumber: 2.6 Consensus size: 45
58590502 ATCGCATCGG
*
58590512 GTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTCAA-ATAAGC-AA
1 GTCTTATC-TCCTGAAGTTGCAGTGGAGCAGACTAAAGAT-AGCGAA
* *
58590557 GTCTTATTCTCCTGAAGTTGCAGTGGGGCAGACTAAAGATGGCGAA
1 GTCTTA-TCTCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAA
58590603 -TCTTATCTCCCTGAAGTTGCAGTGGAG
1 GTCTTATCT-CCTGAAGTTGCAGTGGAG
58590630 TAGATTTAGG
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
44 3 0.05
45 56 0.86
46 6 0.09
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (45 bp):
GTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAA
Found at i:58590782 original size:173 final size:174
Alignment explanation
Indices: 58590556--58590892 Score: 423
Period size: 173 Copynumber: 1.9 Consensus size: 174
58590546 CAAATAAGCA
* ** * *
58590556 AGTCTTATTCTCCTGAAGTTGCAGTGGGGCAGACTAAAGATGGCGAATCTTATCTCCCTGAAGTT
1 AGTCTTATTCTCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCGAATCTTATCCCCCTGAAATT
* * * *
58590621 GCAGTGGAGTAGATTTAGGCCAAC-AATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTA-AAG
66 GCAGTGGAGCAGATTGA-ACAAACAAATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAGAA-
* *
58590684 TAATAGATCTTATCTCTCTGAAGTTGCAG-AGAGCATATCACATTT
129 TAATAGATCTTATCTCTCTGAAATTACAGTAGAGCATATCACATTT
* *
58590729 AGTCTTA-TCTCCCTGAAGTTGCAGTGGAGTAGACTCAAGAAAGC-AAGTCTTATCCCCCTGAAA
1 AGTCTTATTCT-CCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCGAA-TCTTATCCCCCTGAAA
* * * *
58590792 TTGCAGTGGGGCAGATTGAATAAACAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGCTTAGAA
64 TTGCAGTGGAGCAGATTGAACAAACAAATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAGAA
* * *
58590857 TGATGGATCTTATTTCTCTGAAATTACAGTAGAGCA
129 TAATAGATCTTATCTCTCTGAAATTACAGTAGAGCA
58590893 GATTGCATCA
Statistics
Matches: 139, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
172 8 0.06
173 123 0.88
174 8 0.06
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (174 bp):
AGTCTTATTCTCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCGAATCTTATCCCCCTGAAATT
GCAGTGGAGCAGATTGAACAAACAAATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAGAATA
ATAGATCTTATCTCTCTGAAATTACAGTAGAGCATATCACATTT
Found at i:58597403 original size:2 final size:2
Alignment explanation
Indices: 58597398--58597432 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
58597388 TGTGTGTGTA
*
58597398 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58597433 AATTCTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:58598116 original size:41 final size:41
Alignment explanation
Indices: 58598071--58598192 Score: 181
Period size: 41 Copynumber: 3.0 Consensus size: 41
58598061 AGGCTTAGCA
*
58598071 CCTAGCAGGCTAAGTGCCGGTGAACTAAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAG
* * *
58598112 CCTAGCAGGCTAAGTGCTGGTGATCTGAATCAGGTCATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAG
* **
58598153 CCTAGTAGGCTAAGTATCGGTGAACTGAATCAGGTTATAA
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAA
58598193 ATGAAACACC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAG
Found at i:58598763 original size:30 final size:30
Alignment explanation
Indices: 58598729--58598786 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
58598719 CCTTGACTCT
58598729 AACTTTGACAAAATTACAATTTTGCCCCTA
1 AACTTTGACAAAATTACAATTTTGCCCCTA
* ** *
58598759 AACTTTTACATGATTACACTTTTGCCCC
1 AACTTTGACAAAATTACAATTTTGCCCC
58598787 AAAGCTCGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTGCCCCTA
Found at i:58599805 original size:2 final size:2
Alignment explanation
Indices: 58599798--58599828 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58599788 GAAATTGTTG
58599798 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58599829 GCATTCGGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58599866 original size:34 final size:34
Alignment explanation
Indices: 58599820--58599933 Score: 95
Period size: 34 Copynumber: 3.3 Consensus size: 34
58599810 TATATATATA
* *
58599820 TATATATATGCATTCGGCATATGTGGATT-ATAAG
1 TATATATATGCATTCGGCACATGTAG-TTGATAAG
* *
58599854 TATATATGTGCATTTGGCACATGTAGTTGATAAG
1 TATATATATGCATTCGGCACATGTAGTTGATAAG
* * * * * *
58599888 TATACATATATGCTTTTGGCATATGTATTTGAAAAAT
1 TAT--ATATATGCATTCGGCACATGTAGTTG-ATAAG
58599925 TATATATAT
1 TATATATAT
58599934 AAATGCAATC
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
33 2 0.03
34 30 0.45
35 6 0.09
36 22 0.33
37 6 0.09
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (34 bp):
TATATATATGCATTCGGCACATGTAGTTGATAAG
Found at i:58599914 original size:36 final size:35
Alignment explanation
Indices: 58599818--58599919 Score: 109
Period size: 34 Copynumber: 2.9 Consensus size: 35
58599808 TATATATATA
* *
58599818 TATATATATATGCATTCGGCATATGTGGATT-ATAAG
1 TATA-ATATATGCATTTGGCATATGTAG-TTGATAAG
* *
58599854 TAT-ATATGTGCATTTGGCACATGTAGTTGATAAG
1 TATAATATATGCATTTGGCATATGTAGTTGATAAG
* *
58599888 TATACATATATGCTTTTGGCATATGTATTTGA
1 TATA-ATATATGCATTTGGCATATGTAGTTGA
58599920 AAAATTATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
33 2 0.04
34 27 0.49
36 26 0.47
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (35 bp):
TATAATATATGCATTTGGCATATGTAGTTGATAAG
Found at i:58601766 original size:2 final size:2
Alignment explanation
Indices: 58601759--58601819 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
58601749 TTCAACTCAA
58601759 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
58601801 AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC A
58601820 TACATACAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:58604046 original size:25 final size:25
Alignment explanation
Indices: 58603999--58604105 Score: 71
Period size: 25 Copynumber: 4.3 Consensus size: 25
58603989 GTCCTGATAT
* *
58603999 ATGGCTCTTCGTGAGCTTCCCGATTA
1 ATGGCTCTCCG-GAACTTCCCGATTA
58604025 ATGGCTCTCCGGAACTTCCCGA-T-
1 ATGGCTCTCCGGAACTTCCCGATTA
* * * *
58604048 ATGGCTCGCTTGG-ACTTTCC-AATA
1 ATGGCTCTC-CGGAACTTCCCGATTA
* *
58604072 TATGGCTATCC-GAAGCTTCCTGATTA
1 -ATGGCTCTCCGGAA-CTTCCCGATTA
58604098 ATGGCTCT
1 ATGGCTCT
58604106 TCGAAGCTAC
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
22 1 0.02
23 16 0.26
24 4 0.06
25 28 0.45
26 13 0.21
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (25 bp):
ATGGCTCTCCGGAACTTCCCGATTA
Found at i:58604227 original size:25 final size:25
Alignment explanation
Indices: 58604110--58604227 Score: 87
Period size: 25 Copynumber: 4.8 Consensus size: 25
58604100 GGCTCTTCGA
* *
58604110 AGCTACCCATTAT-TGGCTCACATG
1 AGCTTCCCGTTATATGGCTCACATG
* * **
58604134 AGCTTCTCGAT-TATGGCTCTTATG
1 AGCTTCCCGTTATATGGCTCACATG
* * ** *
58604158 AGCTTCCCGTTATATAGCCCGGATA
1 AGCTTCCCGTTATATGGCTCACATG
* * *
58604183 AGCTTTCCGTTACATAGCTCACATG
1 AGCTTCCCGTTATATGGCTCACATG
*
58604208 AGATTCCCGTTATATGGCTC
1 AGCTTCCCGTTATATGGCTC
58604228 GAGAGAGGGC
Statistics
Matches: 69, Mismatches: 23, Indels: 3
0.73 0.24 0.03
Matches are distributed among these distances:
23 1 0.01
24 25 0.36
25 43 0.62
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTCACATG
Found at i:58606513 original size:13 final size:13
Alignment explanation
Indices: 58606495--58606524 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
58606485 TCCAGCAACT
58606495 ATGAATTTATTTC
1 ATGAATTTATTTC
*
58606508 ATGAATTTATTTG
1 ATGAATTTATTTC
58606521 ATGA
1 ATGA
58606525 TGAATGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:58613226 original size:13 final size:13
Alignment explanation
Indices: 58613208--58613237 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
58613198 TCCAGCAACT
58613208 ATGAATTTATTTC
1 ATGAATTTATTTC
*
58613221 ATGAATTTATTTG
1 ATGAATTTATTTC
58613234 ATGA
1 ATGA
58613238 TGAATGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:58616241 original size:14 final size:15
Alignment explanation
Indices: 58616222--58616251 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58616212 GAAGGGATAC
58616222 TTTGTTT-TTTCTTT
1 TTTGTTTGTTTCTTT
58616236 TTTGTTTGTTTCTTT
1 TTTGTTTGTTTCTTT
58616251 T
1 T
58616252 ATTAGATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (15 bp):
TTTGTTTGTTTCTTT
Found at i:58620352 original size:25 final size:27
Alignment explanation
Indices: 58620311--58620362 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
58620301 AGTTTTAATC
*
58620311 AATAACTCTTTTATTTA-TAAA-ATAA
1 AATAACTATTTTATTTAGTAAATATAA
58620336 AATAACTATTATT-TTTAGTAAATATAA
1 AATAACTATT-TTATTTAGTAAATATAA
58620363 TTTTTATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 13 0.57
26 6 0.26
27 4 0.17
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (27 bp):
AATAACTATTTTATTTAGTAAATATAA
Found at i:58620566 original size:13 final size:13
Alignment explanation
Indices: 58620548--58620572 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58620538 TAAAAGAGTT
58620548 ATTAATTAAAAAG
1 ATTAATTAAAAAG
58620561 ATTAATTAAAAA
1 ATTAATTAAAAA
58620573 TAAAAAAACT
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Found at i:58621073 original size:50 final size:50
Alignment explanation
Indices: 58620998--58621098 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
58620988 ACAGTTAGGG
58620998 AGTAGGGACTAAGACAAAGGGAGACATGCAATGTTCTTGCCCCCCATAAA
1 AGTAGGGACTAAGACAAAGGGAGACATGCAATGTTCTTGCCCCCCATAAA
*
58621048 AGTAGGGACTAAGACAAAGGGAGACATGCAGTGTTCTTGCCCCCCATAAA
1 AGTAGGGACTAAGACAAAGGGAGACATGCAATGTTCTTGCCCCCCATAAA
58621098 A
1 A
58621099 AAATGGTAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.18
Consensus pattern (50 bp):
AGTAGGGACTAAGACAAAGGGAGACATGCAATGTTCTTGCCCCCCATAAA
Found at i:58621646 original size:14 final size:15
Alignment explanation
Indices: 58621607--58621647 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
58621597 GATTTTTATT
* *
58621607 CTTTTAACATTAT-C
1 CTTTAAACATTTTAC
58621621 CTTTAAACATTTTAC
1 CTTTAAACATTTTAC
58621636 CTTTAAA-ATTTT
1 CTTTAAACATTTT
58621648 GAAAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (15 bp):
CTTTAAACATTTTAC
Found at i:58628350 original size:48 final size:48
Alignment explanation
Indices: 58628294--58628391 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
58628284 TGGATTTGTA
*
58628294 TTTGTTGGGGGTAAAGGAGAGGACTGAATAGTAGGAAAAGCTAGAGTG
1 TTTGTTGGGGGTAAAGGAGAGGACTGAACAGTAGGAAAAGCTAGAGTG
* * *
58628342 TTTGTTGGGGGTAAAGGAGATGACTGGACAGTAGGAAAGGCTAGAGTG
1 TTTGTTGGGGGTAAAGGAGAGGACTGAACAGTAGGAAAAGCTAGAGTG
58628390 TT
1 TT
58628392 AGTGGGTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.31, C:0.05, G:0.40, T:0.24
Consensus pattern (48 bp):
TTTGTTGGGGGTAAAGGAGAGGACTGAACAGTAGGAAAAGCTAGAGTG
Found at i:58632597 original size:3 final size:3
Alignment explanation
Indices: 58632589--58632656 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
58632579 TTGCGGTCCT
58632589 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
58632637 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
58632657 TGTTTAATTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:58633443 original size:21 final size:21
Alignment explanation
Indices: 58633417--58633467 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
58633407 GTTGTTATTA
*
58633417 TTATTTTTAATTTT-CACAAT
1 TTATTTTTAATTTTGCAAAAT
*
58633437 TT-TATTTTAATTTTGTAAAAT
1 TTAT-TTTTAATTTTGCAAAAT
58633458 TTATTTTTAA
1 TTATTTTTAA
58633468 AAATATCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 12 0.46
21 12 0.46
22 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTTTTAATTTTGCAAAAT
Found at i:58636263 original size:29 final size:30
Alignment explanation
Indices: 58636204--58636261 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
58636194 TCCGAGCCTT
*
58636204 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
58636234 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
58636262 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:58636491 original size:13 final size:13
Alignment explanation
Indices: 58636473--58636504 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
58636463 TTTCCAGCAA
58636473 TTATGAATTTATT
1 TTATGAATTTATT
58636486 TTATGAATTTATT
1 TTATGAATTTATT
*
58636499 TGATGA
1 TTATGA
58636505 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:58636724 original size:50 final size:50
Alignment explanation
Indices: 58636666--58636841 Score: 244
Period size: 50 Copynumber: 3.5 Consensus size: 50
58636656 GAGGCCCTTC
* *
58636666 TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGATAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAAAGGTCCCA
* * * *
58636716 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCC
1 TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAAAGGTCCCA
* * * **
58636766 TATAAGACCATGTCTGGGACATGGCATGGGCACCAACATGAGAACATCCCA
1 TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGA-AAGGTCCCA
58636817 TGTAAGACCATGTCTGGGACATGGC
1 TGTAAGACCATGTCTGGGACATGGC
58636842 TTTGGTATGT
Statistics
Matches: 110, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 81 0.74
51 29 0.26
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.19
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAAAGGTCCCA
Found at i:58636839 original size:101 final size:103
Alignment explanation
Indices: 58636603--58636846 Score: 316
Period size: 101 Copynumber: 2.3 Consensus size: 103
58636593 GGGTAAAGAG
*
58636603 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGCCCTTCTG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGCCC-TCTA
* * * *
58636668 TAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGATAG
62 TAAGACCATGTCTGGGACATGGCATGGGCACCAACACGAAAC
* * *
58636710 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCC-CTATAA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGG-CCCTCTATAA
*
58636771 GACCATGTCTGGGACATGGCATGGGCACCAACATGAGAAC
65 GACCATGTCTGGGACATGGCATGGGCACCAACACGA-AAC
*
58636811 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
58636847 TATGTTATTA
Statistics
Matches: 124, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
100 38 0.31
101 43 0.35
102 5 0.04
106 2 0.02
107 36 0.29
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.22
Consensus pattern (103 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGCCCTCTATAAG
ACCATGTCTGGGACATGGCATGGGCACCAACACGAAAC
Found at i:58642540 original size:46 final size:46
Alignment explanation
Indices: 58642472--58642712 Score: 286
Period size: 46 Copynumber: 5.7 Consensus size: 46
58642462 TTTGAGTACT
* *
58642472 TCTGATCAAG-GATAAAGTGATAAGTGGTAGCTTTAGCTACATTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
58642517 TTTGATCAAGTGACAAAGTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
58642553 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGTTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
58642599 TCTGATCAA--G----A--GACAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
58642637 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
58642683 TCTGATCAAGTGACAAAGTGATAAGTGGTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTA
58642713 TCAAGTGACA
Statistics
Matches: 166, Mismatches: 11, Indels: 37
0.78 0.05 0.17
Matches are distributed among these distances:
36 29 0.17
37 2 0.01
38 34 0.20
40 4 0.02
42 2 0.01
44 2 0.01
45 11 0.07
46 82 0.49
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:58642548 original size:36 final size:36
Alignment explanation
Indices: 58642507--58642663 Score: 129
Period size: 36 Copynumber: 4.0 Consensus size: 36
58642497 GGTAGCTTTA
* * *
58642507 GCTACATTTATTTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
58642543 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAA---GT
*
58642582 AGCTTTAGTTACACTTATCTGATCAAGAGAC-AAGTGGT-AGCTTT
1 -GC------TACACTTATCTGATCAAGAGACAAAGTGATAAG---T
*
58642626 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
58642663 G
1 G
58642664 TTAGCTTTAG
Statistics
Matches: 100, Mismatches: 6, Indels: 30
0.74 0.04 0.22
Matches are distributed among these distances:
36 32 0.32
37 1 0.01
38 21 0.21
39 8 0.08
40 4 0.04
41 1 0.01
44 5 0.05
45 6 0.06
46 22 0.22
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:58642626 original size:38 final size:38
Alignment explanation
Indices: 58642568--58642698 Score: 163
Period size: 38 Copynumber: 3.2 Consensus size: 38
58642558 TCAAGAGACA
* *
58642568 AAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATC
1 AAGTGACAAGTGGTAGCTTTAGCTACACTTATCTGATC
*
58642606 AAGAGACAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AAGTGACAAGTGGTAGCTTTAGCTACACTTATCTGATC
58642644 AAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATC
1 AAGTGAC-AA--G-T--G-G-TAGCTTTAGCTACACTTATCTGATC
58642690 AAGTGACAA
1 AAGTGACAA
58642699 AGTGATAAGT
Statistics
Matches: 81, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
38 41 0.51
39 2 0.02
41 1 0.01
42 1 0.01
44 1 0.01
45 3 0.04
46 32 0.40
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (38 bp):
AAGTGACAAGTGGTAGCTTTAGCTACACTTATCTGATC
Found at i:58642663 original size:84 final size:80
Alignment explanation
Indices: 58642472--58642780 Score: 363
Period size: 71 Copynumber: 3.9 Consensus size: 80
58642462 TTTGAGTACT
* * *
58642472 TCTGATCAAGGATAAAGTGATAAGTGGTAGCTTTAGCTACATTTATTTGATCAAGTGACAAAGTG
1 TCTGATCAAGGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGTG
58642537 ATAAGTGCTACACTTA
65 ATAAGTGCTACACTTA
* *
58642553 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAAGAGACAAGTG
1 TCTGATCAAG-GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
58642618 GT-AGCTTTAGCTACACTTA
65 ATAAG---T-GCTACACTTA
*
58642637 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAG-GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
58642702 GATAAGTG---------
64 GATAAGTGCTACACTTA
* *
58642710 -GT-ATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAG-GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
58642773 GATAAGTG
64 GATAAGTG
58642781 GTAGCCTTAG
Statistics
Matches: 207, Mismatches: 14, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
71 67 0.32
72 1 0.00
80 2 0.01
81 16 0.08
82 45 0.22
83 2 0.01
84 66 0.32
85 6 0.03
86 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (80 bp):
TCTGATCAAGGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGA
TAAGTGCTACACTTA
Found at i:58642721 original size:25 final size:25
Alignment explanation
Indices: 58642687--58642737 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
58642677 CACTTATCTG
58642687 ATCAAGTGACAAAGTGATAAGTGGT
1 ATCAAGTGACAAAGTGATAAGTGGT
58642712 ATCAAGTGACAAAGTGATAAGTGGT
1 ATCAAGTGACAAAGTGATAAGTGGT
58642737 A
1 A
58642738 GCCTTAGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.24
Consensus pattern (25 bp):
ATCAAGTGACAAAGTGATAAGTGGT
Found at i:58642755 original size:117 final size:115
Alignment explanation
Indices: 58642613--58642824 Score: 370
Period size: 117 Copynumber: 1.8 Consensus size: 115
58642603 ATCAAGAGAC
* * *
58642613 AAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTAC
1 AAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTAC
*
58642678 ACTTATCTGATCAAGTGACAAAGTGATAAGTGGTATCAAGTGACAAAGTGAT
66 ACTTATCTGATC-AGGGAC-AAGTGATAAGTGGTATCAAGTGACAAAGTGAT
58642730 AAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTAC
1 AAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTAC
58642795 ACTTATCTGATCAGGGACAAGTGATAAGTG
66 ACTTATCTGATCAGGGACAAGTGATAAGTG
58642825 ATCATACGTA
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
115 12 0.13
116 5 0.05
117 74 0.81
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (115 bp):
AAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTAC
ACTTATCTGATCAGGGACAAGTGATAAGTGGTATCAAGTGACAAAGTGAT
Found at i:58642779 original size:46 final size:46
Alignment explanation
Indices: 58642712--58642824 Score: 203
Period size: 46 Copynumber: 2.5 Consensus size: 46
58642702 GATAAGTGGT
58642712 ATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTG
1 ATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTG
58642758 ATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTG
1 ATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTG
*
58642804 ATC-AGGGAC-AAGTGATAAGTG
1 ATCAAGTGACAAAGTGATAAGTG
58642825 ATCATACGTA
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
44 12 0.18
45 5 0.08
46 49 0.74
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.27
Consensus pattern (46 bp):
ATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTG
Found at i:58645398 original size:3 final size:3
Alignment explanation
Indices: 58645332--58645380 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
58645322 ACAATAACTA
58645332 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
58645380 A
1 A
58645381 GAACATCCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:58656209 original size:5 final size:5
Alignment explanation
Indices: 58656199--58656232 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
58656189 ATCTTTATTT
58656199 AAATA AAATA AAAT- -AATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA A
58656233 TAAAATTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
5 24 0.89
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:58656218 original size:13 final size:13
Alignment explanation
Indices: 58656200--58656238 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
58656190 TCTTTATTTA
58656200 AATAAAATAAAAT
1 AATAAAATAAAAT
58656213 AATAAAATAAAAT
1 AATAAAATAAAAT
58656226 AA-AATAATAAAAT
1 AATAA-AATAAAAT
58656239 TCATATAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 2 0.08
13 23 0.92
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAAAATAAAAT
Found at i:58656222 original size:18 final size:18
Alignment explanation
Indices: 58656199--58656238 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
58656189 ATCTTTATTT
58656199 AAATAAAATAAAATAATA
1 AAATAAAATAAAATAATA
58656217 AAATAAAATAAAATAATA
1 AAATAAAATAAAATAATA
58656235 AAAT
1 AAAT
58656239 TCATATAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
AAATAAAATAAAATAATA
Found at i:58666188 original size:2 final size:2
Alignment explanation
Indices: 58666181--58666261 Score: 96
Period size: 2 Copynumber: 39.5 Consensus size: 2
58666171 NNNNNNNNNT
58666181 TA TA TA TA TA TA TA T- TA -A T- TA GTA GTA GTA GTA GTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA -TA -TA -TA -TA TA TA TA
58666223 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58666262 TATGAATGAA
Statistics
Matches: 75, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
1 3 0.04
2 58 0.77
3 14 0.19
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (2 bp):
TA
Found at i:58671204 original size:49 final size:49
Alignment explanation
Indices: 58671143--58671335 Score: 323
Period size: 49 Copynumber: 3.9 Consensus size: 49
58671133 ATGTGAACAT
58671143 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
58671193 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
58671242 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
58671291 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
58671336 AGAAAACGAA
Statistics
Matches: 137, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 133 0.97
50 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:58677126 original size:28 final size:29
Alignment explanation
Indices: 58677059--58677127 Score: 88
Period size: 27 Copynumber: 2.4 Consensus size: 29
58677049 CGAATATAAT
*
58677059 AAATATATATTTTTTATTTTTTTATTTGTA
1 AAATAAAT-TTTTTTATTTTTTTATTTGTA
* *
58677089 AAAT-ACTTTTTTTA-TTTTTTATTTTTA
1 AAATAAATTTTTTTATTTTTTTATTTGTA
58677116 AAATAAATTTTT
1 AAATAAATTTTT
58677128 GGTGTTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 16 0.47
28 13 0.38
29 1 0.03
30 4 0.12
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (29 bp):
AAATAAATTTTTTTATTTTTTTATTTGTA
Found at i:58677792 original size:19 final size:19
Alignment explanation
Indices: 58677768--58677804 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
58677758 TTTCAAAAAA
*
58677768 ATTAAAAATAATTTTTTTT
1 ATTAAAAACAATTTTTTTT
*
58677787 ATTAAAAACGATTTTTTT
1 ATTAAAAACAATTTTTTT
58677805 AAATTCTAAT
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:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (19 bp):
ATTAAAAACAATTTTTTTT
Found at i:58679638 original size:37 final size:37
Alignment explanation
Indices: 58679588--58679661 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
58679578 AAATGCTGTG
58679588 TTACCCAAATTCTTCACTACACTAGTTTTTAACACAT
1 TTACCCAAATTCTTCACTACACTAGTTTTTAACACAT
58679625 TTACCCAAATTCTTCACTACACTAGTTTTTAACACAT
1 TTACCCAAATTCTTCACTACACTAGTTTTTAACACAT
58679662 ATTCCATGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.38
Consensus pattern (37 bp):
TTACCCAAATTCTTCACTACACTAGTTTTTAACACAT
Found at i:58690041 original size:19 final size:18
Alignment explanation
Indices: 58690013--58690048 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
58690003 AAATATATAA
*
58690013 TAATATTTTATATTTCTC
1 TAATATTTTATAATTCTC
58690031 TAATGATTTTATAATTCT
1 TAAT-ATTTTATAATTCT
58690049 TGTTATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (18 bp):
TAATATTTTATAATTCTC
Found at i:58699459 original size:27 final size:25
Alignment explanation
Indices: 58699411--58699490 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 25
58699401 CATTTAATTA
* *
58699411 ATTTTTAAAAAATTTAAAATTTTTAT
1 ATTTTT-AAAAATTTTATATTTTTAT
58699437 ATTTTTAAATAATTTTATGA-TTTTA-
1 ATTTTTAAA-AATTTTAT-ATTTTTAT
* *
58699462 ATTTTAAAAAATATT-T-TTTTTAT
1 ATTTTTAAAAATTTTATATTTTTAT
58699485 ATTTTT
1 ATTTTT
58699491 TGAATTTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
22 5 0.11
23 6 0.13
24 5 0.11
25 11 0.24
26 17 0.38
27 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (25 bp):
ATTTTTAAAAATTTTATATTTTTAT
Found at i:58701431 original size:10 final size:10
Alignment explanation
Indices: 58701418--58701448 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
58701408 TTTTACATAC
58701418 TTTTTTAATT
1 TTTTTTAATT
58701428 TTTTTTAA-T
1 TTTTTTAATT
58701437 TTTTTTAATT
1 TTTTTTAATT
58701447 TT
1 TT
58701449 AAAATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTAATT
Found at i:58701432 original size:9 final size:9
Alignment explanation
Indices: 58701418--58701448 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
58701408 TTTTACATAC
58701418 TTTTTTAATT
1 TTTTTTAA-T
58701428 TTTTTTAAT
1 TTTTTTAAT
58701437 TTTTTTAAT
1 TTTTTTAAT
58701446 TTT
1 TTT
58701449 AAAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:58701459 original size:11 final size:11
Alignment explanation
Indices: 58701445--58701486 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
58701435 ATTTTTTTAA
58701445 TTTTAAAATAT
1 TTTTAAAATAT
58701456 TTTTAAAATAT
1 TTTTAAAATAT
58701467 TTTTAAAA-AT
1 TTTTAAAATAT
58701477 TTTTAAAATA
1 TTTTAAAATA
58701487 AAAATGGGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 10 0.33
11 20 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:58701478 original size:21 final size:22
Alignment explanation
Indices: 58701445--58701486 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
58701435 ATTTTTTTAA
58701445 TTTTAAAATATTTTTAAAATAT
1 TTTTAAAATATTTTTAAAATAT
58701467 TTTTAAAA-ATTTTTAAAATA
1 TTTTAAAATATTTTTAAAATA
58701487 AAAATGGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTAAAATATTTTTAAAATAT
Found at i:58702420 original size:15 final size:15
Alignment explanation
Indices: 58702400--58702430 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
58702390 CTATCATCTT
58702400 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
58702415 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
58702430 T
1 T
58702431 TACAACGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
TAACTGCTAACAGAC
Found at i:58702464 original size:20 final size:20
Alignment explanation
Indices: 58702439--58702480 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
58702429 CTTACAACGG
*
58702439 TACAACAGTTTTGACTATAT
1 TACAACAGCTTTGACTATAT
*
58702459 TACAACTGCTTTGACTATAT
1 TACAACAGCTTTGACTATAT
58702479 TA
1 TA
58702481 ACTCTAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
TACAACAGCTTTGACTATAT
Found at i:58705024 original size:15 final size:15
Alignment explanation
Indices: 58705004--58705034 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
58704994 CTATCATCTT
58705004 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
58705019 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
58705034 T
1 T
58705035 TACAACGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
TAACTGCTAACAGAC
Found at i:58705068 original size:20 final size:20
Alignment explanation
Indices: 58705043--58705084 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
58705033 CTTACAACGG
*
58705043 TACAACAGTTTTGACTATAT
1 TACAACAGCTTTGACTATAT
*
58705063 TACAACTGCTTTGACTATAT
1 TACAACAGCTTTGACTATAT
58705083 TA
1 TA
58705085 ACTCTAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
TACAACAGCTTTGACTATAT
Found at i:58707237 original size:53 final size:52
Alignment explanation
Indices: 58707080--58707254 Score: 221
Period size: 52 Copynumber: 3.3 Consensus size: 52
58707070 AATCATACAT
* *
58707080 AAGAGGACTATGACTCATCAAAC-TTTATTAAAAGTAAAGTTCAATAATTTAC
1 AAGAGGACAATGACTCATCAAACTTTTA-TAAAAGTAAAGTACAATAATTTAC
* * *
58707132 AAAAGGACAATGACTCACTCATACTTTAAT-AAAGTAAAGTACAATAATTTAC
1 AAGAGGACAATGACTCA-TCAAACTTTTATAAAAGTAAAGTACAATAATTTAC
* * *
58707184 AAGAGGGCGATGACTCATACAAACTTTTATAAAAGTAAAGGACAATAATTTAC
1 AAGAGGACAATGACTCAT-CAAACTTTTATAAAAGTAAAGTACAATAATTTAC
58707237 AAGCA-GACAATGACTCAT
1 AAG-AGGACAATGACTCAT
58707255 TCAATCAGTG
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
51 1 0.01
52 59 0.56
53 41 0.39
54 4 0.04
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (52 bp):
AAGAGGACAATGACTCATCAAACTTTTATAAAAGTAAAGTACAATAATTTAC
Found at i:58709195 original size:13 final size:13
Alignment explanation
Indices: 58709179--58709221 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
58709169 TGCTGTGAAA
*
58709179 AAATACTTTTGAG
1 AAATGCTTTTGAG
58709192 AAATGCTTTTGAG
1 AAATGCTTTTGAG
* *
58709205 AAGTGCTTTTGAA
1 AAATGCTTTTGAG
58709218 AAAT
1 AAAT
58709222 TTAAGTGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (13 bp):
AAATGCTTTTGAG
Found at i:58720197 original size:30 final size:31
Alignment explanation
Indices: 58720163--58720228 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
58720153 TTAATCCCTA
* *
58720163 AACTTGATAATTGTTCTCA-TTTGGGGCTTG
1 AACTTGATAATTATTCTCACATTGGGGCTTG
*
58720193 AACTTGGTAATTATTCTCACATTGGGGCTTG
1 AACTTGATAATTATTCTCACATTGGGGCTTG
58720224 AACTT
1 AACTT
58720229 TACGGTTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (31 bp):
AACTTGATAATTATTCTCACATTGGGGCTTG
Found at i:58721495 original size:30 final size:30
Alignment explanation
Indices: 58721459--58721518 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
58721449 TTGCAGGGGA
58721459 CACACGGTCAAACCACACGCCCGTGTGTCT
1 CACACGGTCAAACCACACGCCCGTGTGTCT
* ** *
58721489 CACACGGTCCAGTCACATGCCCGTGTGTCT
1 CACACGGTCAAACCACACGCCCGTGTGTCT
58721519 GGCCGTGTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.20, C:0.38, G:0.22, T:0.20
Consensus pattern (30 bp):
CACACGGTCAAACCACACGCCCGTGTGTCT
Found at i:58722160 original size:21 final size:20
Alignment explanation
Indices: 58722136--58722186 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
58722126 ATTCATAACA
*
58722136 TATTCAATTCTCATCACTTGC
1 TATTCAAATCTCAT-ACTTGC
58722157 TATTTCAAATCTCATACTTGC
1 TA-TTCAAATCTCATACTTGC
*
58722178 TATACAAAT
1 TATTCAAAT
58722187 AGCTTTTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 6 0.22
21 10 0.37
22 11 0.41
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (20 bp):
TATTCAAATCTCATACTTGC
Found at i:58722163 original size:22 final size:21
Alignment explanation
Indices: 58722138--58722180 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
58722128 TCATAACATA
*
58722138 TTCAATTCTCATCACTTGCTAT
1 TTCAAATCTCAT-ACTTGCTAT
58722160 TTCAAATCTCATACTTGCTAT
1 TTCAAATCTCATACTTGCTAT
58722181 ACAAATAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.44
Consensus pattern (21 bp):
TTCAAATCTCATACTTGCTAT
Found at i:58722477 original size:41 final size:41
Alignment explanation
Indices: 58722355--58722485 Score: 137
Period size: 41 Copynumber: 3.3 Consensus size: 41
58722345 TACCCAATAC
* *
58722355 CTCATCGGA-TAATTCAAAGTAATAAATTGACACCCAGTGT
1 CTCATCGAATTAATTCGAAGTAATAAATTGACACCCAGTGT
** ** * * *
58722395 CTCATCG-GCTAAACCGAAG---TAAATTGGCACCTAGTGC
1 CTCATCGAATTAATTCGAAGTAATAAATTGACACCCAGTGT
58722432 CTCATCGAATTAATTCGAAGTAATAAATTGACACCCAGTGT
1 CTCATCGAATTAATTCGAAGTAATAAATTGACACCCAGTGT
*
58722473 CTCATCGACTTAA
1 CTCATCGAATTAA
58722486 AGTTGAAGAA
Statistics
Matches: 71, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
37 22 0.31
38 8 0.11
40 14 0.20
41 27 0.38
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (41 bp):
CTCATCGAATTAATTCGAAGTAATAAATTGACACCCAGTGT
Found at i:58723344 original size:4 final size:4
Alignment explanation
Indices: 58723335--58723410 Score: 73
Period size: 4 Copynumber: 18.5 Consensus size: 4
58723325 ACTTTTCTTC
* *
58723335 TTCT TTCT TTCT CTT-T TTCT TTCCT TTCT TTCC TTCT TTTT TTCGT TTCT
1 TTCT TTCT TTCT -TTCT TTCT TT-CT TTCT TTCT TTCT TTCT TTC-T TTCT
* * *
58723385 TTCT CTCT TTCT TTCT CTAT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TT
58723411 TTTTTACTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
3 2 0.03
4 46 0.79
5 10 0.17
ACGTcount: A:0.01, C:0.26, G:0.01, T:0.71
Consensus pattern (4 bp):
TTCT
Found at i:58723397 original size:25 final size:25
Alignment explanation
Indices: 58723335--58723398 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
58723325 ACTTTTCTTC
* *
58723335 TTCTTTCTTTCTCTTTTTCTTTCCT
1 TTCTTTCTTTCTTTTTTTCGTTCCT
* *
58723360 TTCTTTCCTTCTTTTTTTCGTTTCT
1 TTCTTTCTTTCTTTTTTTCGTTCCT
*
58723385 TTCTCTCTTTCTTT
1 TTCTTTCTTTCTTT
58723399 CTCTATTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.72
Consensus pattern (25 bp):
TTCTTTCTTTCTTTTTTTCGTTCCT
Found at i:58723399 original size:21 final size:21
Alignment explanation
Indices: 58723328--58723399 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
58723318 AACCCTAACT
* *
58723328 TTTCTTCTTCTTTCTTTCTCTT
1 TTTCTT-TCCTTTCTTTCTCTC
58723350 TTTCTTTCCTTTCTTTC-CTTC
1 TTTCTTTCCTTTCTTTCTC-TC
* *
58723371 TTTTTTTCGTTTCTTTCTCTC
1 TTTCTTTCCTTTCTTTCTCTC
58723392 TTTCTTTC
1 TTTCTTTC
58723400 TCTATTTCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.02
21 35 0.81
22 7 0.16
ACGTcount: A:0.00, C:0.28, G:0.01, T:0.71
Consensus pattern (21 bp):
TTTCTTTCCTTTCTTTCTCTC
Found at i:58723485 original size:18 final size:19
Alignment explanation
Indices: 58723456--58723491 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
58723446 ATATATATAC
58723456 TTAACATTTAAGTTTTATT
1 TTAACATTTAAGTTTTATT
58723475 TTAAC-TTTAAGTTTTAT
1 TTAACATTTAAGTTTTAT
58723492 AATAAAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (19 bp):
TTAACATTTAAGTTTTATT
Found at i:58724766 original size:30 final size:30
Alignment explanation
Indices: 58724710--58724766 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
58724700 GTAACCTCAA
* *
58724710 TATAATGTCAGCTTGTGTGAGCAACTTTTT
1 TATAATGTCAGCTTATGTGAGAAACTTTTT
* *
58724740 TATAATGTTAGCTTATTTGAGAAACTT
1 TATAATGTCAGCTTATGTGAGAAACTT
58724767 ATTCTCGTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.44
Consensus pattern (30 bp):
TATAATGTCAGCTTATGTGAGAAACTTTTT
Found at i:58726862 original size:17 final size:17
Alignment explanation
Indices: 58726840--58726874 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58726830 ATATTCTATG
58726840 GTTGGAAATAAATTATT
1 GTTGGAAATAAATTATT
* *
58726857 GTTGGAATTATATTATT
1 GTTGGAAATAAATTATT
58726874 G
1 G
58726875 ATTTAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (17 bp):
GTTGGAAATAAATTATT
Found at i:58731508 original size:15 final size:14
Alignment explanation
Indices: 58731490--58731533 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
58731480 TTTTCAAGAA
58731490 TTTAATTTCTTTATT
1 TTTAATTT-TTTATT
* *
58731505 TTTAATTTTTAAAT
1 TTTAATTTTTTATT
*
58731519 TTTAAATTTTTATT
1 TTTAATTTTTTATT
58731533 T
1 T
58731534 CAATTGTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTAATTTTTTATT
Found at i:58733830 original size:22 final size:23
Alignment explanation
Indices: 58733800--58733842 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
58733790 AGTATGATTA
58733800 AAAACTATTACGATTAAAAACAC
1 AAAACTATTACGATTAAAAACAC
*
58733823 AAAA-TATTAGGATTAAAAAC
1 AAAACTATTACGATTAAAAAC
58733843 TAAAGTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.58, C:0.12, G:0.07, T:0.23
Consensus pattern (23 bp):
AAAACTATTACGATTAAAAACAC
Found at i:58734500 original size:13 final size:13
Alignment explanation
Indices: 58734482--58734506 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58734472 AGGTGCAAGG
58734482 GTCACATGGCCAA
1 GTCACATGGCCAA
58734495 GTCACATGGCCA
1 GTCACATGGCCA
58734507 GACTACACGC
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:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (13 bp):
GTCACATGGCCAA
Found at i:58736525 original size:25 final size:24
Alignment explanation
Indices: 58736490--58736542 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
58736480 AATTTCAAGC
*
58736490 GAGCCATATCAGGAAGCTCACAAA
1 GAGCCATATCAAGAAGCTCACAAA
* *
58736514 GAGCCTATATCAAGACGCTCATAAA
1 GAGCC-ATATCAAGAAGCTCACAAA
58736539 GAGC
1 GAGC
58736543 TGCGGTATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (24 bp):
GAGCCATATCAAGAAGCTCACAAA
Found at i:58738263 original size:21 final size:21
Alignment explanation
Indices: 58738238--58738430 Score: 127
Period size: 21 Copynumber: 9.2 Consensus size: 21
58738228 GAAGCCCGAA
*
58738238 AGCTGAACAGAAGCTCATGAG
1 AGCTGAACAGAAGCTCATAAG
* *
58738259 AGCTGAACAGAAACCCATAAG
1 AGCTGAACAGAAGCTCATAAG
* * *
58738280 GGTTGAACAAAAGCTCATAAG
1 AGCTGAACAGAAGCTCATAAG
* * *
58738301 AGCTTAAC-GAAAACCCATAAG
1 AGCTGAACAG-AAGCTCATAAG
* * *
58738322 GGTTAAACAGAAGCTCATAAG
1 AGCTGAACAGAAGCTCATAAG
* * *
58738343 AGCTGAACAAAAACCCATAAG
1 AGCTGAACAGAAGCTCATAAG
* * * * *
58738364 GGTTAAAAAGAAGCTCAAAAG
1 AGCTGAACAGAAGCTCATAAG
* * *
58738385 AGCTGAACGGAAACTCATATG
1 AGCTGAACAGAAGCTCATAAG
* * * *
58738406 AGTTAAACAGAAGCTCGTGAG
1 AGCTGAACAGAAGCTCATAAG
58738427 AGCT
1 AGCT
58738431 AAACGGAAAG
Statistics
Matches: 121, Mismatches: 49, Indels: 4
0.70 0.28 0.02
Matches are distributed among these distances:
21 120 0.99
22 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (21 bp):
AGCTGAACAGAAGCTCATAAG
Found at i:58738303 original size:42 final size:42
Alignment explanation
Indices: 58738243--58738439 Score: 243
Period size: 42 Copynumber: 4.7 Consensus size: 42
58738233 CCGAAAGCTG
* *
58738243 AACAGAAGCTCATGAGAGCTGAACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTA
* *
58738285 AACAAAAGCTCATAAGAGCTTAAC-GAAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTGAACAG-AAACCCATAAGGGTTA
*
58738327 AACAGAAGCTCATAAGAGCTGAACAAAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTA
* * * * * *
58738369 AAAAGAAGCTCAAAAGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTA
* * * *
58738411 AACAGAAGCTCGTGAGAGCTAAACGGAAA
1 AACAGAAGCTCATAAGAGCTGAACAGAAA
58738440 GTAAACATGA
Statistics
Matches: 134, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
41 1 0.01
42 133 0.99
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTA
Found at i:58738386 original size:84 final size:84
Alignment explanation
Indices: 58738243--58738430 Score: 270
Period size: 84 Copynumber: 2.2 Consensus size: 84
58738233 CCGAAAGCTG
* * * *
58738243 AACAGAAGCTCATGAGAGCTGAACAGAAACCCATAAGGGTTGAACAAAAGCTCATAAGAGCTTAA
1 AACAGAAGCTCATGAGAGCTGAACAAAAACCCATAAGGGTTGAAAAAAAGCTCAAAAGAGCTGAA
*
58738308 CGAAAACCCATAAGGGTTA
66 CGAAAACCCATAAGAGTTA
*
58738327 AACAGAAGCTCATAAGAGCTGAACAAAAACCCATAAGGGTT-AAAAAGAAGCTCAAAAGAGCTGA
1 AACAGAAGCTCATGAGAGCTGAACAAAAACCCATAAGGGTTGAAAAA-AAGCTCAAAAGAGCTGA
* * *
58738391 ACGGAAACTCATATGAGTTA
65 ACGAAAACCCATAAGAGTTA
*
58738411 AACAGAAGCTCGTGAGAGCT
1 AACAGAAGCTCATGAGAGCT
58738431 AAACGGAAAG
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
83 4 0.04
84 88 0.96
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (84 bp):
AACAGAAGCTCATGAGAGCTGAACAAAAACCCATAAGGGTTGAAAAAAAGCTCAAAAGAGCTGAA
CGAAAACCCATAAGAGTTA
Found at i:58738664 original size:6 final size:6
Alignment explanation
Indices: 58738656--58738696 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
58738646 CAATTTAATA
*
58738656 TATATA TATATT TATATT TATATT TATATT TATATT TATAT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATAT
58738697 ATTAAAGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:58744151 original size:31 final size:31
Alignment explanation
Indices: 58744116--58744183 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
58744106 CTTATCAATC
* *
58744116 CAGTGGCTTGAATAAAAACTTGTGAATAATT
1 CAGTGACTTAAATAAAAACTTGTGAATAATT
* * * *
58744147 CAGTGACTTAAATGAAAATTTTTGAATAGTT
1 CAGTGACTTAAATAAAAACTTGTGAATAATT
58744178 CAGTGA
1 CAGTGA
58744184 GCAAATTGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (31 bp):
CAGTGACTTAAATAAAAACTTGTGAATAATT
Found at i:58747519 original size:27 final size:27
Alignment explanation
Indices: 58747436--58747526 Score: 92
Period size: 28 Copynumber: 3.3 Consensus size: 27
58747426 ACTGACAAAT
* *
58747436 TTCCACTTTTACGATAGTCCTAACGAAC
1 TTCCACATTTA-GATAGTCCTAACGGAC
* * * *
58747464 TTCCCCATTTAAGACATTCCTGACGGAC
1 TTCCACATTT-AGATAGTCCTAACGGAC
*
58747492 TTCCACATTTAGATGGTCCTAACGGAC
1 TTCCACATTTAGATAGTCCTAACGGAC
*
58747519 TTCTACAT
1 TTCCACAT
58747527 ATCAAATAGT
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
27 20 0.40
28 29 0.58
29 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (27 bp):
TTCCACATTTAGATAGTCCTAACGGAC
Found at i:58747597 original size:22 final size:22
Alignment explanation
Indices: 58747572--58747635 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
58747562 CTTCCATTCG
58747572 TCCCATAAAGGGCTCTCATACA
1 TCCCATAAAGGGCTCTCATACA
** * * * *
58747594 TCCCACGAGGGGCACTCAAACG
1 TCCCATAAAGGGCTCTCATACA
* *
58747616 TTCGATAAAGGGCTCTCATA
1 TCCCATAAAGGGCTCTCATA
58747636 TACTGGTGCG
Statistics
Matches: 29, Mismatches: 13, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (22 bp):
TCCCATAAAGGGCTCTCATACA
Found at i:58752718 original size:29 final size:29
Alignment explanation
Indices: 58752663--58752717 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
58752653 TTCGCGGAAA
58752663 TGGCCCATTCCGGTAAATAATTAAAAATG
1 TGGCCCATTCCGGTAAATAATTAAAAATG
* *
58752692 TGGCCCATTTCGGTAAAT-TTTAAAAA
1 TGGCCCATTCCGGTAAATAATTAAAAA
58752718 AAAAGGCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (29 bp):
TGGCCCATTCCGGTAAATAATTAAAAATG
Found at i:58753603 original size:5 final size:5
Alignment explanation
Indices: 58753593--58753620 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
58753583 TCTTAATTTC
58753593 AAAGA AAAGA AAAGA AAAGA AAAGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAA
58753621 CCCTAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:58760075 original size:9 final size:9
Alignment explanation
Indices: 58760061--58760134 Score: 53
Period size: 9 Copynumber: 8.1 Consensus size: 9
58760051 TAGACTTTTT
58760061 TAAAAATTA
1 TAAAAATTA
*
58760070 TAAAAATAA
1 TAAAAATTA
*
58760079 TAAAAACTATT
1 TAAAAA-T-TA
*
58760090 TAAAAACTA
1 TAAAAATTA
58760099 T-AAAATT-
1 TAAAAATTA
*
58760106 TTAAAATTA
1 TAAAAATTA
* *
58760115 TTAGAAGTTA
1 -TAAAAATTA
58760125 TAAAAATTA
1 TAAAAATTA
58760134 T
1 T
58760135 TTGAAATATT
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
7 1 0.02
8 11 0.22
9 24 0.49
10 7 0.14
11 6 0.12
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (9 bp):
TAAAAATTA
Found at i:58760115 original size:45 final size:44
Alignment explanation
Indices: 58760058--58760167 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 44
58760048 TATTAGACTT
58760058 TTTTAAAAATTA-TAAAAATAATAAAAACTATTTAAAAACTATAAAA
1 TTTT-AAAATTAGTAAAAATAATAAAAACTATTT-AAAA-TATAAAA
* * * * * * *
58760104 TTTTAAAATTATTAGAAGTTATAAAAATTATTTGAAATATTAAA
1 TTTTAAAATTAGTAAAAATAATAAAAACTATTTAAAATATAAAA
*
58760148 TTTTAAAAATAGTAAAAATA
1 TTTTAAAATTAGTAAAAATA
58760168 GTTATATTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
44 21 0.40
45 10 0.19
46 21 0.40
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (44 bp):
TTTTAAAATTAGTAAAAATAATAAAAACTATTTAAAATATAAAA
Found at i:58760810 original size:21 final size:19
Alignment explanation
Indices: 58760772--58760823 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
58760762 AATTTTACAT
* *
58760772 TTTTTATATTTTTAATAAG
1 TTTTTATTTTTTTAATAAA
*
58760791 TTTTGTAATTTTTTTTATAAA
1 TTTT-T-ATTTTTTTAATAAA
58760812 TTTTTATTTTTT
1 TTTTTATTTTTT
58760824 AAAGATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 11 0.39
20 2 0.07
21 15 0.54
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (19 bp):
TTTTTATTTTTTTAATAAA
Found at i:58760822 original size:46 final size:46
Alignment explanation
Indices: 58760716--58760825 Score: 132
Period size: 47 Copynumber: 2.4 Consensus size: 46
58760706 TAAAATATTA
* * * *
58760716 AAATTTCTATTTTTTAATTTTTAGTAAATTTTATCATTTTTTTTGT
1 AAATTTTTATTTTTTAATTTTTAATAAATTTTATAATTTTTTTTAT
* * *
58760762 -AATTTTACATTTTTTATATTTTTAATAAGTTTTGTAATTTTTTTTAT
1 AAATTTT-TATTTTTTA-ATTTTTAATAAATTTTATAATTTTTTTTAT
58760809 AAATTTTTATTTTTTAA
1 AAATTTTTATTTTTTAA
58760826 AGATTTTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
45 5 0.09
46 9 0.17
47 33 0.62
48 6 0.11
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (46 bp):
AAATTTTTATTTTTTAATTTTTAATAAATTTTATAATTTTTTTTAT
Found at i:58760823 original size:17 final size:17
Alignment explanation
Indices: 58760801--58760833 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
58760791 TTTTGTAATT
58760801 TTTTTTATAA-ATTTTTA
1 TTTTTTA-AAGATTTTTA
58760818 TTTTTTAAAGATTTTT
1 TTTTTTAAAGATTTTT
58760834 TTTATGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTTTAAAGATTTTTA
Found at i:58767159 original size:40 final size:40
Alignment explanation
Indices: 58767104--58767206 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
58767094 AGAGCATTCT
* * * * *
58767104 TTTCAATAAATTCAGTAGGTATGGCTTAAGAGT-GCATACG
1 TTTCAGTAGATTCAGTAGGTATGGATCAA-AATCGCATACG
* *
58767144 TTTTAGTAGATTCAGTAGGTATGGATCAAAATCGCATATG
1 TTTCAGTAGATTCAGTAGGTATGGATCAAAATCGCATACG
58767184 TTTCAGTAGATTCAGTAGGTATG
1 TTTCAGTAGATTCAGTAGGTATG
58767207 ACTCATCTGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
39 2 0.04
40 52 0.96
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (40 bp):
TTTCAGTAGATTCAGTAGGTATGGATCAAAATCGCATACG
Found at i:58768894 original size:30 final size:31
Alignment explanation
Indices: 58768853--58768912 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
58768843 GGAGGTGGGA
*
58768853 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
*
58768884 TGGG-AGGGAATAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
58768913 TAAAAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:58769026 original size:30 final size:31
Alignment explanation
Indices: 58768987--58769047 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
58768977 GGGTTGGGAG
* *
58768987 GGGAGAGGAGTAAAAGTTTTAGGGGGAAAGT
1 GGGAGAGGAGTAAAAGTTTTAAGGGAAAAGT
58769018 GGGA-AGGAGTAAAAGTTTTAAGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTAAGGGAAAAGT
58769048 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTAAGGGAAAAGT
Found at i:58769110 original size:9 final size:9
Alignment explanation
Indices: 58769096--58769132 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
58769086 TATAGTTTGA
58769096 TATTCGAAT
1 TATTCGAAT
58769105 TATTCGAAT
1 TATTCGAAT
*
58769114 TATTCGAGT
1 TATTCGAAT
58769123 TATTCGAAT
1 TATTCGAAT
58769132 T
1 T
58769133 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:58771851 original size:27 final size:28
Alignment explanation
Indices: 58771800--58771852 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
58771790 GAACTCTACG
*
58771800 TTTAAAAATGCTGAGGTCTTTTTATTTA
1 TTTAAAAATGCTGAGGACTTTTTATTTA
58771828 TTTATAAAATGCT-A-GACTTTTTATT
1 TTTA-AAAATGCTGAGGACTTTTTATT
58771853 AACACAGAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 5 0.22
29 8 0.35
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (28 bp):
TTTAAAAATGCTGAGGACTTTTTATTTA
Found at i:58776887 original size:18 final size:18
Alignment explanation
Indices: 58776866--58776930 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 18
58776856 TAAATAATGT
58776866 TTTGAAATTGAATAACGA
1 TTTGAAATTGAATAACGA
* *
58776884 TTTGTAAA-TGAATAATGT
1 TTTG-AAATTGAATAACGA
*
58776902 TTTGAAAATG-ATCAACATGA
1 TTTGAAATTGAAT-AAC--GA
58776922 TTTGAAATT
1 TTTGAAATT
58776931 AACATAAGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
17 5 0.14
18 20 0.54
19 3 0.08
20 9 0.24
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (18 bp):
TTTGAAATTGAATAACGA
Found at i:58788258 original size:41 final size:40
Alignment explanation
Indices: 58788200--58788420 Score: 262
Period size: 41 Copynumber: 5.4 Consensus size: 40
58788190 TTTCGCAACA
* * *
58788200 TTTTTAAAAAAGTGCCGCTAATGCTCAGGCTTTTAGCGACG
1 TTTTTGAAAAAGCGCCGCTAATGCTCAGGC-TTTAGCGGCG
*
58788241 TTTTTGAAAAAGCGCCGCTAATGTTCAGAGCTTTAGCGGCG
1 TTTTTGAAAAAGCGCCGCTAATGCTCAG-GCTTTAGCGGCG
* *
58788282 TTTTTGAAAAAGTGCCACTAATGCTCAGGCTTTTAGCGGCG
1 TTTTTGAAAAAGCGCCGCTAATGCTCAGGC-TTTAGCGGCG
* * * * *
58788323 TTTTTAAAAAATCACCGCTAATGCTCAGAGCTTTAGCTGTG
1 TTTTTGAAAAAGCGCCGCTAATGCTCAG-GCTTTAGCGGCG
* * *
58788364 TTTTTGAAAAAGAGCCGTTAATGCTCGGGGCTTTAGCGGCG
1 TTTTTGAAAAAGCGCCGCTAATGCTC-AGGCTTTAGCGGCG
*
58788405 TTTTTGATAAAGCGCC
1 TTTTTGAAAAAGCGCC
58788421 ACAAAAACAT
Statistics
Matches: 152, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
40 2 0.01
41 145 0.95
42 5 0.03
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (40 bp):
TTTTTGAAAAAGCGCCGCTAATGCTCAGGCTTTAGCGGCG
Found at i:58788341 original size:82 final size:82
Alignment explanation
Indices: 58788200--58788409 Score: 296
Period size: 82 Copynumber: 2.6 Consensus size: 82
58788190 TTTCGCAACA
* * * * *
58788200 TTTTTAAAAAAGTGCCGCTAATGCTCAGGCTTTTAGCGACGTTTTTGAAAAAGCGCCGCTAATGT
1 TTTTTGAAAAAGTGCCGCTAATGCTCAGGCTTTTAGCGGCGTTTTTAAAAAAGCACCGCTAATGC
58788265 TCAGAGCTTTAGCGGCG
66 TCAGAGCTTTAGCGGCG
* *
58788282 TTTTTGAAAAAGTGCCACTAATGCTCAGGCTTTTAGCGGCGTTTTTAAAAAATCACCGCTAATGC
1 TTTTTGAAAAAGTGCCGCTAATGCTCAGGCTTTTAGCGGCGTTTTTAAAAAAGCACCGCTAATGC
* *
58788347 TCAGAGCTTTAGCTGTG
66 TCAGAGCTTTAGCGGCG
* * *
58788364 TTTTTGAAAAAGAGCCGTTAATGCTCGGGGC-TTTAGCGGCGTTTTT
1 TTTTTGAAAAAGTGCCGCTAATGCTC-AGGCTTTTAGCGGCGTTTTT
58788410 GATAAAGCGC
Statistics
Matches: 114, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
82 111 0.97
83 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (82 bp):
TTTTTGAAAAAGTGCCGCTAATGCTCAGGCTTTTAGCGGCGTTTTTAAAAAAGCACCGCTAATGC
TCAGAGCTTTAGCGGCG
Found at i:58788422 original size:123 final size:123
Alignment explanation
Indices: 58788200--58788422 Score: 317
Period size: 123 Copynumber: 1.8 Consensus size: 123
58788190 TTTCGCAACA
* * *
58788200 TTTTTAAAAAAGTGCCGCTAATGCTCAGGCTTTTAGCGACGTTTTTGAAAAAGCGCCGCTAATGT
1 TTTTTAAAAAAGTACCGCTAATGCTCAGGCTTTTAGCGACGTTTTTGAAAAAGAGCCGCTAATGC
*
58788265 TCAGAGCTTTAGCGGCGTTTTTGAAAAAGTGCCACTAATGCTCAGGCTTTTAGCGGCG
66 TCAGAGCTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCAGGCTTTTAGCGGCG
* *
58788323 TTTTTAAAAAA-TCACCGCTAATGCTCAGAGC-TTTAGCTG-TGTTTTTGAAAAAGAGCCGTTAA
1 TTTTTAAAAAAGT-ACCGCTAATGCTCAG-GCTTTTAGC-GACGTTTTTGAAAAAGAGCCGCTAA
* * *
58788385 TGCTCGGGGCTTTAGCGGCGTTTTTGATAAAGCGCCAC
63 TGCTCAGAGCTTTAGCGGCGTTTTTGAAAAAGCGCCAC
58788423 AAAAACATTT
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
122 1 0.01
123 84 0.95
124 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (123 bp):
TTTTTAAAAAAGTACCGCTAATGCTCAGGCTTTTAGCGACGTTTTTGAAAAAGAGCCGCTAATGC
TCAGAGCTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCAGGCTTTTAGCGGCG
Found at i:58788838 original size:14 final size:15
Alignment explanation
Indices: 58788810--58788842 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
58788800 AAGGTTTATA
58788810 GATTATGGAATTAGG
1 GATTATGGAATTAGG
58788825 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
58788839 GATT
1 GATT
58788843 TTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:58788878 original size:7 final size:7
Alignment explanation
Indices: 58788862--58788893 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
58788852 GGGTTGTGAT
58788862 TTAGGGG
1 TTAGGGG
*
58788869 TTAGGTG
1 TTAGGGG
58788876 TTAGGGG
1 TTAGGGG
58788883 TTAGGGG
1 TTAGGGG
58788890 TTAG
1 TTAG
58788894 AGATTAAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.50, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:58789236 original size:37 final size:37
Alignment explanation
Indices: 58789195--58789291 Score: 176
Period size: 37 Copynumber: 2.6 Consensus size: 37
58789185 ATAATAAATA
*
58789195 TTTTTATTTTTTAATTTTAAAATATTTTGAAATACTT
1 TTTTTATTTTTTAATTTTAAAATATTTTAAAATACTT
58789232 TTTTTATTTTTTAATTTTAAAATATTTTAAAATACTT
1 TTTTTATTTTTTAATTTTAAAATATTTTAAAATACTT
*
58789269 TTTTAATTTTTTAATTTTAAAAT
1 TTTTTATTTTTTAATTTTAAAAT
58789292 GCTTTTTTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (37 bp):
TTTTTATTTTTTAATTTTAAAATATTTTAAAATACTT
Found at i:58789285 original size:27 final size:28
Alignment explanation
Indices: 58789255--58789318 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
58789245 ATTTTAAAAT
58789255 ATTTTAAAATACTTTTTT-AATTTTTTA
1 ATTTTAAAATACTTTTTTAAATTTTTTA
* *
58789282 ATTTTAAAATGCTTTTTTAAATTTTTTT
1 ATTTTAAAATACTTTTTTAAATTTTTTA
58789310 ATTTTAAAA
1 ATTTTAAAA
58789319 ATAAATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (28 bp):
ATTTTAAAATACTTTTTTAAATTTTTTA
Found at i:58789298 original size:28 final size:27
Alignment explanation
Indices: 58789255--58789318 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 27
58789245 ATTTTAAAAT
*
58789255 ATTTTAAAATACTTTTTTAATTTTTTA
1 ATTTTAAAATACTTTTTAAATTTTTTA
* *
58789282 ATTTTAAAATGCTTTTTTAAATTTTTTT
1 ATTTTAAAATAC-TTTTTAAATTTTTTA
58789310 ATTTTAAAA
1 ATTTTAAAA
58789319 ATAAATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 11 0.33
28 22 0.67
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (27 bp):
ATTTTAAAATACTTTTTAAATTTTTTA
Found at i:58789308 original size:37 final size:35
Alignment explanation
Indices: 58789189--58789314 Score: 157
Period size: 37 Copynumber: 3.5 Consensus size: 35
58789179 CCGAATATAA
58789189 TAAATA-TTTTTATTTTTTAATTTTAAAATATTTT
1 TAAATATTTTTTATTTTTTAATTTTAAAATATTTT
*
58789223 GAAATACTTTTTTTATTTTTTAATTTTAAAATATTTT
1 TAAATA--TTTTTTATTTTTTAATTTTAAAATATTTT
* *
58789260 AAAATACTTTTTTAATTTTTTAATTTTAAAATGCTTTTT
1 TAAATA-TTTTTT-ATTTTTTAATTTTAAAAT--ATTTT
58789299 TAAAT-TTTTTTATTTT
1 TAAATATTTTTTATTTT
58789315 AAAAATAAAT
Statistics
Matches: 81, Mismatches: 5, Indels: 10
0.84 0.05 0.10
Matches are distributed among these distances:
34 5 0.06
36 11 0.14
37 57 0.70
39 8 0.10
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (35 bp):
TAAATATTTTTTATTTTTTAATTTTAAAATATTTT
Found at i:58789465 original size:7 final size:7
Alignment explanation
Indices: 58789450--58789494 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
58789440 AGCATCTCTA
*
58789450 GTTAGGG
1 GTTAAGG
58789457 GTTAAGG
1 GTTAAGG
58789464 GTTAAGG
1 GTTAAGG
*
58789471 GTTAGGG
1 GTTAAGG
*
58789478 GTTAGGG
1 GTTAAGG
*
58789485 GTTTAGG
1 GTTAAGG
58789492 GTT
1 GTT
58789495 TATGTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (7 bp):
GTTAAGG
Found at i:58789472 original size:14 final size:14
Alignment explanation
Indices: 58789450--58789494 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
58789440 AGCATCTCTA
58789450 GTTAGGGGTTAAGG
1 GTTAGGGGTTAAGG
* *
58789464 GTTAAGGGTTAGGG
1 GTTAGGGGTTAAGG
*
58789478 GTTAGGGGTTTAGG
1 GTTAGGGGTTAAGG
58789492 GTT
1 GTT
58789495 TATGTTTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (14 bp):
GTTAGGGGTTAAGG
Found at i:58789476 original size:21 final size:21
Alignment explanation
Indices: 58789450--58789494 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
58789440 AGCATCTCTA
58789450 GTTAGGGGTTAAGGGTTAAGG
1 GTTAGGGGTTAAGGGTTAAGG
* *
58789471 GTTAGGGGTTAGGGGTTTAGG
1 GTTAGGGGTTAAGGGTTAAGG
58789492 GTT
1 GTT
58789495 TATGTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (21 bp):
GTTAGGGGTTAAGGGTTAAGG
Found at i:58789495 original size:7 final size:7
Alignment explanation
Indices: 58789455--58789547 Score: 55
Period size: 7 Copynumber: 13.1 Consensus size: 7
58789445 CTCTAGTTAG
*
58789455 GGGTTAA
1 GGGTTTA
*
58789462 GGGTTAA
1 GGGTTTA
58789469 GGG-TTA
1 GGGTTTA
*
58789475 GGGGTTA
1 GGGTTTA
58789482 GGGGTTTA
1 -GGGTTTA
58789490 GGGTTTA
1 GGGTTTA
* *
58789497 TGTTTTA
1 GGGTTTA
* *
58789504 TGATTTA
1 GGGTTTA
58789511 GGGTTTAA
1 GGGTTT-A
* *
58789519 GAG-ATA
1 GGGTTTA
*
58789525 GGGGTTA
1 GGGTTTA
58789532 GGGGTTTA
1 -GGGTTTA
58789540 GGGTTTA
1 GGGTTTA
58789547 G
1 G
58789548 ATTAATTGGT
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
6 8 0.12
7 46 0.67
8 15 0.22
ACGTcount: A:0.20, C:0.00, G:0.42, T:0.38
Consensus pattern (7 bp):
GGGTTTA
Found at i:58793615 original size:5 final size:5
Alignment explanation
Indices: 58793605--58793631 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
58793595 ATTCTTGTTT
58793605 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
58793632 GGCAAGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:58794914 original size:42 final size:43
Alignment explanation
Indices: 58794829--58795021 Score: 214
Period size: 43 Copynumber: 4.5 Consensus size: 43
58794819 TAATTTTTTT
* * * * *
58794829 TAAAGGTTAT-GTTTTTAGCGGCGTTTTTG-CGAGAAGCGACGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGAC-AAAAGCGCCGC
* * *
58794871 TAAAGGT-TTGAT-TTATAGCGGCGTTTGTGACAAAAGAGCCGC
1 TAAAGGTCATGGTCTT-TAGCGGCGTTTGTGACAAAAGCGCCGC
* *
58794913 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAAAAGTGCCAC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAAAAGCGCCGC
* * * *
58794956 TAAAGATCATGGTCTTTAACGGCGTTTGTGAGAAAAGCGCCGT
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAAAAGCGCCGC
58794999 TAAAGGTCATGGTCTTTAGCGGC
1 TAAAGGTCATGGTCTTTAGCGGC
58795022 ATCGTCTATA
Statistics
Matches: 128, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
41 3 0.02
42 36 0.28
43 87 0.68
44 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAAAAGCGCCGC
Found at i:58797254 original size:21 final size:21
Alignment explanation
Indices: 58797215--58797256 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
58797205 TATTTTAAAA
**
58797215 TATTTTTAAAATACTTTTTTG
1 TATTTTTAAAATAAATTTTTG
58797236 TATTTTTAAAATAAATTTTTG
1 TATTTTTAAAATAAATTTTTG
58797257 GTGTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:58797254 original size:22 final size:21
Alignment explanation
Indices: 58797215--58797269 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
58797205 TATTTTAAAA
* *
58797215 TATTTTTAAAATACTTTTTTG
1 TATTTTTAAAATAATTTTTGG
58797236 TATTTTTAAAATAAATTTTTGG
1 TATTTTTAAAAT-AATTTTTGG
*
58797258 TGTTTATTAAAA
1 TATTT-TTAAAA
58797270 AATGTGCTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 12 0.41
22 11 0.38
23 6 0.21
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (21 bp):
TATTTTTAAAATAATTTTTGG
Found at i:58804389 original size:22 final size:22
Alignment explanation
Indices: 58804342--58804390 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
58804332 TATACCCACA
* *
58804342 TTTTTAATTTGTTTTACTATAG
1 TTTTTAATTTGCTTTACAATAG
*
58804364 TTTTTAATATTGCTTTA-AATAT
1 TTTTTAAT-TTGCTTTACAATAG
58804386 TTTTT
1 TTTTT
58804391 TGGTAACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.65
Consensus pattern (22 bp):
TTTTTAATTTGCTTTACAATAG
Found at i:58804580 original size:56 final size:56
Alignment explanation
Indices: 58804518--58804630 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 56
58804508 AATTCGAGCA
* *
58804518 CCAATAGGAAAACCTTTCATCAAGTCAGCCAAAATATCAGAGGTATAATTCACCTC
1 CCAATAGGAAAACCTTTCATCAAGTCAGCCAAAATATCAGAAGTATAATTCAACTC
*
58804574 CCAATAGGAAAACCTTTCATCAAGTCAGTCAAAATATCAGAAGTATAATTCAACTC
1 CCAATAGGAAAACCTTTCATCAAGTCAGCCAAAATATCAGAAGTATAATTCAACTC
58804630 C
1 C
58804631 TTGGTATTTG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.24
Consensus pattern (56 bp):
CCAATAGGAAAACCTTTCATCAAGTCAGCCAAAATATCAGAAGTATAATTCAACTC
Found at i:58815925 original size:25 final size:24
Alignment explanation
Indices: 58815847--58815936 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 24
58815837 CATTCATATT
*
58815847 CGGGAATGCTCATATGAGCACATAAA
1 CGGGAA-GCTCATATGAGC-CATTAA
* * * *
58815873 TGGGAAGCTCTCTCTCGAGCTATATAA
1 CGGGAAGCTC-ATAT-GAGCCAT-TAA
58815900 CGGGAAGCTCATATGAGCCATGTAA
1 CGGGAAGCTCATATGAGCCAT-TAA
*
58815925 CAGGAAGCTCAT
1 CGGGAAGCTCAT
58815937 CCGGGCTGTA
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
25 24 0.48
26 11 0.22
27 15 0.30
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (24 bp):
CGGGAAGCTCATATGAGCCATTAA
Found at i:58817678 original size:24 final size:24
Alignment explanation
Indices: 58817613--58817678 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
58817603 TTATGAGCAT
*
58817613 CCCGATATATGGCTCTGTGGAGCTA
1 CCCGTTATATGGCTCT-TGGAGCTA
* *
58817638 CCCGTTATATGGTTCTTGCGAGCTT
1 CCCGTTATATGGCTCTTG-GAGCTA
58817663 CCCGTT-TATGGCTCTT
1 CCCGTTATATGGCTCTT
58817679 ATGAGCTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 11 0.31
25 25 0.69
ACGTcount: A:0.14, C:0.26, G:0.24, T:0.36
Consensus pattern (24 bp):
CCCGTTATATGGCTCTTGGAGCTA
Found at i:58817684 original size:24 final size:24
Alignment explanation
Indices: 58817599--58817686 Score: 79
Period size: 25 Copynumber: 3.6 Consensus size: 24
58817589 ATACACCGTA
* *
58817599 GCTCTTATGAGCATCCCGATATATG
1 GCTCTTATGAGCTTCCCG-TTTATG
* *
58817624 GCTCTGT-GGAGCTACCCGTTATATG
1 GCTCT-TATGAGCTTCCCGTT-TATG
* **
58817649 GTTCTTGCGAGCTTCCCGTTTATG
1 GCTCTTATGAGCTTCCCGTTTATG
58817673 GCTCTTATGAGCTT
1 GCTCTTATGAGCTT
58817687 TTCGATAATT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 17 0.34
25 32 0.64
26 1 0.02
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGTTTATG
Found at i:58817750 original size:50 final size:50
Alignment explanation
Indices: 58817671--58817768 Score: 110
Period size: 50 Copynumber: 2.0 Consensus size: 50
58817661 TTCCCGTTTA
* * *
58817671 TGGCTCTTATGAGCTTTTCGATAATTGGCTTTTCAGAGCTTCGCGATAAC
1 TGGCTCTTATGAGCTTTCCGATAATTGGCTCTCCAGAGCTTCGCGATAAC
* * *
58817721 TGGCTCTTGTGAG-TTTCCTGATTAA-TGGCTCTCCGGAGCTTCTCGATA
1 TGGCTCTTATGAGCTTTCC-GA-TAATTGGCTCTCCAGAGCTTCGCGATA
58817769 TTGGCTCGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
49 4 0.10
50 33 0.82
51 3 0.08
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (50 bp):
TGGCTCTTATGAGCTTTCCGATAATTGGCTCTCCAGAGCTTCGCGATAAC
Found at i:58817855 original size:25 final size:25
Alignment explanation
Indices: 58817825--58817896 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 25
58817815 TATACAGCTA
*
58817825 GAATGAGCTTCCCATTTCATGGCTC
1 GAATGAGCTTCCCGTTTCATGGCTC
58817850 -ACATGAGCTTCCCGTTAT-ATGGCTC
1 GA-ATGAGCTTCCCGTT-TCATGGCTC
*
58817875 GAAAGAGCTTCCCGTTTACATG
1 GAATGAGCTTCCCGTTT-CATG
58817897 TGTGCAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
24 2 0.05
25 33 0.82
26 5 0.12
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (25 bp):
GAATGAGCTTCCCGTTTCATGGCTC
Found at i:58819251 original size:2 final size:2
Alignment explanation
Indices: 58819244--58819302 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
58819234 TATGTAAGGG
58819244 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
58819286 TA TA TA TC TA AA TA TA T
1 TA TA TA TA TA TA TA TA T
58819303 TAGTAATTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Done.