Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 46 of 50
Found at i:10777442 original size:36 final size:35
Alignment explanation
Indices: 10777395--10777505 Score: 127
Period size: 37 Copynumber: 3.1 Consensus size: 35
10777385 ATAATTTGGA
10777395 AAATTGTCTCAAGAAAGACAACATTTGTTTTTAGAG
1 AAATTGTCTCAAGAAAGACAA-ATTTGTTTTTAGAG
* **
10777431 AAATTGTCTCAAACGAGAA-AAAAAACTGTTTTTAGAG
1 AAATTGTCTC-AA-GA-AAGACAAATTTGTTTTTAGAG
*
10777468 AAATTGTCTCAAGCAAGACAAAGTTTGTTTTT-GAG
1 AAATTGTCTCAAGAAAGACAAA-TTTGTTTTTAGAG
10777503 AAA
1 AAA
10777506 ACGATCTCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
34 2 0.03
35 11 0.17
36 19 0.30
37 24 0.38
38 5 0.08
39 2 0.03
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (35 bp):
AAATTGTCTCAAGAAAGACAAATTTGTTTTTAGAG
Found at i:10778133 original size:4 final size:4
Alignment explanation
Indices: 10778124--10778336 Score: 284
Period size: 4 Copynumber: 52.8 Consensus size: 4
10778114 TTTATGTATC
* *
10778124 ATGT ATGT ATGCGT ATGT ATGT ATAT ATGT ATAT ATGT ATGT ATGT ATGT
1 ATGT ATGT AT--GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
10778174 ATAT ATGT ATAT ATGT ATGT ATGT ATGT ATAT ATAT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
** *
10778222 ATGT ATGT ATGT ATGT ATGT ATGT ATAA ATAT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
10778270 ATGT ATGT ATGT ATAT ATGT ATAT ATGT ATGT ATAT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
10778318 ATGT ATGT AT-T GATGT ATG
1 ATGT ATGT ATGT -ATGT ATG
10778337 CTTTTCTCGA
Statistics
Matches: 185, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
3 1 0.01
4 179 0.97
5 1 0.01
6 4 0.02
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:10779575 original size:17 final size:17
Alignment explanation
Indices: 10779548--10779629 Score: 59
Period size: 17 Copynumber: 4.9 Consensus size: 17
10779538 TTCTTAGATT
10779548 TTTTCTCTTTGCTCTTTA
1 TTTT-TCTTTGCTCTTTA
*
10779566 TTTTTCTTTG----TTG
1 TTTTTCTTTGCTCTTTA
*
10779579 TTTTTCTTT-CT-TTGA
1 TTTTTCTTTGCTCTTTA
*
10779594 TTTTTCTCTTTGCTCTTTG
1 -TTTT-TCTTTGCTCTTTA
10779613 TTTTTCTTTGCTTCTTT
1 TTTTTCTTTGC-TCTTT
10779630 TCTCTTTGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
13 11 0.22
15 1 0.02
16 4 0.08
17 18 0.35
18 15 0.29
19 2 0.04
ACGTcount: A:0.02, C:0.17, G:0.09, T:0.72
Consensus pattern (17 bp):
TTTTTCTTTGCTCTTTA
Found at i:10779598 original size:47 final size:50
Alignment explanation
Indices: 10779537--10779636 Score: 152
Period size: 47 Copynumber: 2.1 Consensus size: 50
10779527 TTCGTTCTTT
*
10779537 TTTCTTAGATTTTTTCTCTTTGCTCTTTATTTTTCTTTG-TTGTTTT-TC
1 TTTCTTAGATTTTTTCTCTTTGCTCTTTATTTTTCTTTGCTTCTTTTCTC
* *
10779585 TTTCTTTGA-TTTTTCTCTTTGCTCTTTGTTTTTCTTTGCTTCTTTTCTC
1 TTTCTTAGATTTTTTCTCTTTGCTCTTTATTTTTCTTTGCTTCTTTTCTC
10779634 TTT
1 TTT
10779637 GGTTTGATCT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
47 28 0.60
48 14 0.30
49 5 0.11
ACGTcount: A:0.04, C:0.17, G:0.08, T:0.71
Consensus pattern (50 bp):
TTTCTTAGATTTTTTCTCTTTGCTCTTTATTTTTCTTTGCTTCTTTTCTC
Found at i:10781670 original size:31 final size:30
Alignment explanation
Indices: 10781632--10781694 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
10781622 TGATGAAAAA
*
10781632 TAACACAAGCAA-ATGAGAAAAAATGAGTTAG
1 TAACACAAACAATA-GAG-AAAAATGAGTTAG
*
10781663 TAACACAAACCATAGAGAAAAATGAGTTAG
1 TAACACAAACAATAGAGAAAAATGAGTTAG
10781693 TA
1 TA
10781695 CAAATAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 15 0.52
31 13 0.45
32 1 0.03
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (30 bp):
TAACACAAACAATAGAGAAAAATGAGTTAG
Found at i:10783762 original size:31 final size:30
Alignment explanation
Indices: 10783669--10783779 Score: 116
Period size: 30 Copynumber: 3.6 Consensus size: 30
10783659 CATAATACTG
* * * *
10783669 AAAATAGAAACTTTAGGGGCTAAAATAGAA
1 AAAACAGAAACTTTAGGGACCAAAATAGAT
*
10783699 AAAACATG-AACTTTAGGGACCAAAATATAT
1 AAAACA-GAAACTTTAGGGACCAAAATAGAT
*
10783729 AAAAGAGAAACTTTAGGGACCAAAAATAGAT
1 AAAACAGAAACTTTAGGGACC-AAAATAGAT
*
10783760 AAAACAAAAAACTTATAGGG
1 AAAAC-AGAAACTT-TAGGG
10783780 TTAAAATAGC
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
29 1 0.01
30 41 0.61
31 13 0.19
32 7 0.10
33 5 0.07
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.19
Consensus pattern (30 bp):
AAAACAGAAACTTTAGGGACCAAAATAGAT
Found at i:10785451 original size:3 final size:3
Alignment explanation
Indices: 10785438--10785482 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
10785428 GTAAAAATGC
* * *
10785438 AAT ATT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10785483 TAAATTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10788953 original size:14 final size:15
Alignment explanation
Indices: 10788926--10788960 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
10788916 ATAAGGAAAT
10788926 ATTAAAAGAAAATTA
1 ATTAAAAGAAAATTA
*
10788941 ATTAAAA-AAAATTC
1 ATTAAAAGAAAATTA
10788955 ATTAAA
1 ATTAAA
10788961 GATCAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (15 bp):
ATTAAAAGAAAATTA
Found at i:10790114 original size:24 final size:23
Alignment explanation
Indices: 10790079--10790157 Score: 106
Period size: 23 Copynumber: 3.4 Consensus size: 23
10790069 CACCACATCT
*
10790079 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
10790102 CGTAGAATTTGCACCGAAGTGCCG
1 CGTAGAA-ATGCACCGAAGTGCCA
10790126 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
*
10790149 TGTA-AAATG
1 CGTAGAAATG
10790158 TCCACAATGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
22 5 0.10
23 23 0.47
24 21 0.43
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:10796174 original size:5 final size:5
Alignment explanation
Indices: 10796164--10796192 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
10796154 AATTAATTAC
10796164 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
10796193 GCTTAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:10802650 original size:23 final size:23
Alignment explanation
Indices: 10802624--10802672 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
10802614 ATAAAGAACC
*
10802624 AAAATAAACT-TAAATATACTATT
1 AAAATAAACTCTAAACAT-CTATT
*
10802647 AAAATAAATTCTAAACATCTATT
1 AAAATAAACTCTAAACATCTATT
10802670 AAA
1 AAA
10802673 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATAAACTCTAAACATCTATT
Found at i:10803609 original size:279 final size:279
Alignment explanation
Indices: 10803109--10803661 Score: 980
Period size: 279 Copynumber: 2.0 Consensus size: 279
10803099 CTCCAGGCAA
** *
10803109 CAGTGGTCCATAGCAGCTCTGGCAGGCGGTTACAGTAATCATTTCATGTGTAGAGCCAGTTGTCC
1 CAGTGGTCCATAGCAGCTCTGGCAGGCGGTTACAAAAATCATTTCACGTGTAGAGCCAGTTGTCC
*
10803174 TCGCACAGCTGTATCTTTTTATCGTTTTCTGTGCCAGAAATGCCAAGGCATTTCAATCTGCATCA
66 TCGCACAGCTGTATCTTTTTATCGTTTTCTGCGCCAGAAATGCCAAGGCATTTCAATCTGCATCA
*
10803239 GCAACGTGTGATACAGCGCCATTACTTCCCAACGAATCCTTTTTGCTTGTTATTCCCTTAACACC
131 GCAACGTGTGATACAGCGCCATTACTTCCCAACGAATCCTTTTTGCTTGTTATTCCCTGAACACC
*
10803304 ACATACAAACTGCACATTTCCTTCAAGCAACATCATTAAGAAATAAAATAGCACTACCACCACAA
196 ACAGACAAACTGCACATTTCCTTCAAGCAACATCATTAAGAAATAAAATAGCACTACCACCACAA
10803369 ATGCAACTATATGCTCTGG
261 ATGCAACTATATGCTCTGG
10803388 CAGTGGTCCATAGCAGCTCTGGCAGGCGGTTACAAAAATCATTTCACGTGTAGAGCCAGTTGTCC
1 CAGTGGTCCATAGCAGCTCTGGCAGGCGGTTACAAAAATCATTTCACGTGTAGAGCCAGTTGTCC
* * * * *
10803453 TCGTACAGCTGTATCTTTTTATCGTTTTCTGCGCCATAAATGCCAATGCATTTTAATCTGCTTCA
66 TCGCACAGCTGTATCTTTTTATCGTTTTCTGCGCCAGAAATGCCAAGGCATTTCAATCTGCATCA
*
10803518 GCAACGTGTGATGCAGCGCCATTACTTCCCAACGAATCCTTTTTGCTTGTTATTCCCTGAACACC
131 GCAACGTGTGATACAGCGCCATTACTTCCCAACGAATCCTTTTTGCTTGTTATTCCCTGAACACC
* *
10803583 ACAGACAAACTGCACCTTTCCTTCAAGCAACATTATTAAGAAATAAAATAGCACTACCACCACAA
196 ACAGACAAACTGCACATTTCCTTCAAGCAACATCATTAAGAAATAAAATAGCACTACCACCACAA
10803648 ATGCAACTATATGC
261 ATGCAACTATATGC
10803662 AACTACATGA
Statistics
Matches: 260, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
279 260 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (279 bp):
CAGTGGTCCATAGCAGCTCTGGCAGGCGGTTACAAAAATCATTTCACGTGTAGAGCCAGTTGTCC
TCGCACAGCTGTATCTTTTTATCGTTTTCTGCGCCAGAAATGCCAAGGCATTTCAATCTGCATCA
GCAACGTGTGATACAGCGCCATTACTTCCCAACGAATCCTTTTTGCTTGTTATTCCCTGAACACC
ACAGACAAACTGCACATTTCCTTCAAGCAACATCATTAAGAAATAAAATAGCACTACCACCACAA
ATGCAACTATATGCTCTGG
Found at i:10809068 original size:24 final size:24
Alignment explanation
Indices: 10809041--10809086 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10809031 CTCGTATAAA
10809041 TGCACCGAAGTACCACGTAGAATT
1 TGCACCGAAGTACCACGTAGAATT
* * *
10809065 TGCACCTAAGTGCCGCGTAGAA
1 TGCACCGAAGTACCACGTAGAA
10809087 ATCCACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (24 bp):
TGCACCGAAGTACCACGTAGAATT
Found at i:10813718 original size:36 final size:36
Alignment explanation
Indices: 10813671--10813747 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
10813661 TCTTAGTTAA
10813671 AAAAACTAAACCAATCATAATTATTATAAATAAAAG
1 AAAAACTAAACCAATCATAATTATTATAAATAAAAG
10813707 AAAAACTAAACCAATCATAATTATTATAAATAAAAG
1 AAAAACTAAACCAATCATAATTATTATAAATAAAAG
10813743 AAAAA
1 AAAAA
10813748 GTTATAAGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (36 bp):
AAAAACTAAACCAATCATAATTATTATAAATAAAAG
Found at i:10817510 original size:21 final size:20
Alignment explanation
Indices: 10817484--10817527 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
10817474 TTGATGTACT
* *
10817484 ATGCTGGAATTTATTATTGGA
1 ATGCT-GAATTTATGATTAGA
*
10817505 ATGCTGAGTTTATGATTAGA
1 ATGCTGAATTTATGATTAGA
10817525 ATG
1 ATG
10817528 TTGATTTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.41
Consensus pattern (20 bp):
ATGCTGAATTTATGATTAGA
Found at i:10818503 original size:61 final size:61
Alignment explanation
Indices: 10818403--10818526 Score: 194
Period size: 61 Copynumber: 2.0 Consensus size: 61
10818393 CATATCCGAT
* *
10818403 TTAGCATTATAGTATATATAAATGACACTTAGTGCATATGGAGGGCACGACCTTATGTTTA
1 TTAGCATTATAGTATATATAAAGGACACTTAGTGCATATGGAGGGCACGACCTTATGTGTA
* * * *
10818464 TTAGCATTATAGTGTATATAAAGGACACTTAGTGTATATGGTGGGCATGACCTTATGTGTA
1 TTAGCATTATAGTATATATAAAGGACACTTAGTGCATATGGAGGGCACGACCTTATGTGTA
10818525 TT
1 TT
10818527 GGTACTTCAG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (61 bp):
TTAGCATTATAGTATATATAAAGGACACTTAGTGCATATGGAGGGCACGACCTTATGTGTA
Found at i:10823283 original size:23 final size:22
Alignment explanation
Indices: 10823253--10823322 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 22
10823243 TAAAATTGTT
10823253 TATTTTTTTTTATATATTTTAAA
1 TATTTTTTTTTATAT-TTTTAAA
10823276 TATTTTTTTTTATATTTTTATTAA
1 TATTTTTTTTTATATTTTTA--AA
* *
10823300 TAATTTATTTTTATTTTTTTAAA
1 T-ATTTTTTTTTATATTTTTAAA
10823323 GTTAGTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.12
23 17 0.40
24 3 0.07
25 17 0.40
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TATTTTTTTTTATATTTTTAAA
Found at i:10823299 original size:25 final size:24
Alignment explanation
Indices: 10823253--10823320 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
10823243 TAAAATTGTT
10823253 TATTTTTTTTTATATATTTTA--AA
1 TATTTTTTTTTATAT-TTTTATTAA
10823276 TATTTTTTTTTATATTTTTATTAA
1 TATTTTTTTTTATATTTTTATTAA
* *
10823300 TAATTTATTTTTATTTTTTTA
1 T-ATTTTTTTTTATATTTTTA
10823321 AAGTTAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.12
23 15 0.38
24 3 0.08
25 17 0.43
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (24 bp):
TATTTTTTTTTATATTTTTATTAA
Found at i:10847238 original size:15 final size:15
Alignment explanation
Indices: 10847215--10847250 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
10847205 TGTCACATTT
10847215 AGAGCTAATTCATAC
1 AGAGCTAATTCATAC
*
10847230 AGAGTTAATTCATAC
1 AGAGCTAATTCATAC
10847245 AGAGCT
1 AGAGCT
10847251 TCTGAATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (15 bp):
AGAGCTAATTCATAC
Found at i:10847291 original size:15 final size:16
Alignment explanation
Indices: 10847253--10847293 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
10847243 ACAGAGCTTC
* *
10847253 TGAATCATTCAGTATT
1 TGAATCATTCAGCACT
10847269 TGAATCATTCAGCACT
1 TGAATCATTCAGCACT
10847285 T-AATCATTC
1 TGAATCATTC
10847294 TGAAGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.39
Consensus pattern (16 bp):
TGAATCATTCAGCACT
Found at i:10849684 original size:23 final size:23
Alignment explanation
Indices: 10849658--10849703 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
10849648 CCCAAAATAC
10849658 ATCATCCAAGCCCCACTTCACCT
1 ATCATCCAAGCCCCACTTCACCT
10849681 ATCATCCAAGCCCCACTTCACCT
1 ATCATCCAAGCCCCACTTCACCT
10849704 CTATAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.48, G:0.04, T:0.22
Consensus pattern (23 bp):
ATCATCCAAGCCCCACTTCACCT
Found at i:10851661 original size:20 final size:20
Alignment explanation
Indices: 10851638--10851720 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
10851628 AATATGTAAA
*
10851638 TCGCAACACAGAAGTTAAAT
1 TCGCAACACAGAAGTCAAAT
* *
10851658 TCGCAACGC-GATAATCAAAT
1 TCGCAACACAGA-AGTCAAAT
*
10851678 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
10851698 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
10851718 TCG
1 TCG
10851721 TAACGTGAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
19 3 0.06
20 48 0.92
21 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:10851661 original size:40 final size:40
Alignment explanation
Indices: 10851617--10851720 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
10851607 AGTTTCCAAT
* * *
10851617 TTCGCAACACGA-ATATGTAAA-TCGCAACACAGAAGTTAAA
1 TTCGCAACACGATA-AT-CAAATTCGCAACACAAAAGTCAAA
*
10851657 TTCGCAACGCGATAATCAAATTCGCAACACAAAAGTCAAA
1 TTCGCAACACGATAATCAAATTCGCAACACAAAAGTCAAA
* *
10851697 TTCGCAACGCGATAGTCAAATTCG
1 TTCGCAACACGATAATCAAATTCG
10851721 TAACGTGAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.05
40 53 0.93
41 1 0.02
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.20
Consensus pattern (40 bp):
TTCGCAACACGATAATCAAATTCGCAACACAAAAGTCAAA
Found at i:10851725 original size:20 final size:20
Alignment explanation
Indices: 10851654--10851786 Score: 117
Period size: 20 Copynumber: 6.6 Consensus size: 20
10851644 CACAGAAGTT
*
10851654 AAATTCGCAACGCGATAATC
1 AAATTCGCAACGCGATAGTC
* * *
10851674 AAATTCGCAACACAAAAGTC
1 AAATTCGCAACGCGATAGTC
10851694 AAATTCGCAACGCGATAGTC
1 AAATTCGCAACGCGATAGTC
* * *
10851714 AAATTCGTAACGTGAATAGTA
1 AAATTCGCAACGCG-ATAGTC
* *
10851735 AAAATCGCAACGTGAATAGT-
1 AAATTCGCAACGCG-ATAGTC
* *
10851755 AAAATCGCAACGTGAATAGT-
1 AAATTCGCAACGCG-ATAGTC
*
10851775 AAAATCGCAACG
1 AAATTCGCAACG
10851787 AATCTATATG
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
20 77 0.77
21 23 0.23
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATTCGCAACGCGATAGTC
Found at i:10851746 original size:21 final size:20
Alignment explanation
Indices: 10851698--10851786 Score: 126
Period size: 20 Copynumber: 4.4 Consensus size: 20
10851688 AAAGTCAAAT
* *
10851698 TCGCAACGCG-ATAGTCAAAT
1 TCGCAACGTGAATAGT-AAAA
*
10851718 TCGTAACGTGAATAGTAAAAA
1 TCGCAACGTGAATAGT-AAAA
10851739 TCGCAACGTGAATAGTAAAA
1 TCGCAACGTGAATAGTAAAA
10851759 TCGCAACGTGAATAGTAAAA
1 TCGCAACGTGAATAGTAAAA
10851779 TCGCAACG
1 TCGCAACG
10851787 AATCTATATG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 40 0.63
21 23 0.37
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAACGTGAATAGTAAAA
Found at i:10851767 original size:41 final size:40
Alignment explanation
Indices: 10851653--10851786 Score: 137
Period size: 40 Copynumber: 3.3 Consensus size: 40
10851643 ACACAGAAGT
* * * ** *
10851653 TAAATTCGCAACGCGATAATCAAATTCGCAAC-ACAAAAG
1 TAAAATCGCAACGCGATAGTCAAAATCGCAACGTGAATAG
* * *
10851692 TCAAATTCGCAACGCGATAGTCAAATTCGTAACGTGAATAG
1 T-AAAATCGCAACGCGATAGTCAAAATCGCAACGTGAATAG
*
10851733 TAAAAATCGCAACGTGAATAGT-AAAATCGCAACGTGAATAG
1 T-AAAATCGCAACGCG-ATAGTCAAAATCGCAACGTGAATAG
10851774 TAAAATCGCAACG
1 TAAAATCGCAACG
10851787 AATCTATATG
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 41 0.50
41 35 0.43
42 5 0.06
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.20
Consensus pattern (40 bp):
TAAAATCGCAACGCGATAGTCAAAATCGCAACGTGAATAG
Found at i:10852172 original size:20 final size:20
Alignment explanation
Indices: 10852129--10852225 Score: 95
Period size: 20 Copynumber: 4.7 Consensus size: 20
10852119 AAATTCGCAA
*
10852129 CGCGTTTGCGATTTTCTAAATT
1 CGCG-TTGCGATTTTC-CAATT
10852151 CGCGTTGCGATTTTCCAATT
1 CGCGTTGCGATTTTCCAATT
**
10852171 CGCGTCACGATTTTCCAAATT
1 CGCGTTGCGATTTTCC-AATT
* * * *
10852192 CACGTTGTGATTTTACTATT
1 CGCGTTGCGATTTTCCAATT
*
10852212 CACGTTGCGATTTT
1 CGCGTTGCGATTTT
10852226 TACTATTCAC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
20 34 0.53
21 26 0.41
22 4 0.06
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.42
Consensus pattern (20 bp):
CGCGTTGCGATTTTCCAATT
Found at i:10852223 original size:41 final size:41
Alignment explanation
Indices: 10852134--10852225 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 41
10852124 CGCAACGCGT
* * * *
10852134 TTGCGATTTTCTAAATTCGCGTTGCGATTTTCCAATTCGCG
1 TTGCGATTTTCCAAATTCACGTTGCGATTTTACAATTCACG
** * *
10852175 TCACGATTTTCCAAATTCACGTTGTGATTTTACTATTCACG
1 TTGCGATTTTCCAAATTCACGTTGCGATTTTACAATTCACG
10852216 TTGCGATTTT
1 TTGCGATTTT
10852226 TACTATTCAC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (41 bp):
TTGCGATTTTCCAAATTCACGTTGCGATTTTACAATTCACG
Found at i:10852228 original size:21 final size:21
Alignment explanation
Indices: 10852189--10852246 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
10852179 GATTTTCCAA
*
10852189 ATTCACGTTGTGA-TTTTACT
1 ATTCACGTTGCGATTTTTACT
10852209 ATTCACGTTGCGATTTTTACT
1 ATTCACGTTGCGATTTTTACT
**
10852230 ATTCACACTGCGATTTT
1 ATTCACGTTGCGATTTT
10852247 GGAAACTGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 12 0.35
21 22 0.65
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.47
Consensus pattern (21 bp):
ATTCACGTTGCGATTTTTACT
Found at i:10852525 original size:29 final size:29
Alignment explanation
Indices: 10852483--10852567 Score: 154
Period size: 29 Copynumber: 3.0 Consensus size: 29
10852473 GATAGGTTTA
10852483 ATTTTCCATAAGATGCTGGCAAACTCCTG
1 ATTTTCCATAAGATGCTGGCAAACTCCTG
10852512 ATTTTCCATAAGATGCTGGCAAACTCCTG
1 ATTTTCCATAAGATGCTGGCAAACTCCTG
*
10852541 ATTTTCCATAAGATGTTGGC-AACTCCT
1 ATTTTCCATAAGATGCTGGCAAACTCCT
10852568 CACCTCACGT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 7 0.13
29 48 0.87
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (29 bp):
ATTTTCCATAAGATGCTGGCAAACTCCTG
Found at i:10853219 original size:18 final size:18
Alignment explanation
Indices: 10853190--10853281 Score: 116
Period size: 18 Copynumber: 5.2 Consensus size: 18
10853180 ATAACTGTAA
*
10853190 CATATGATAACTGAAAAT
1 CATATAATAACTGAAAAT
* *
10853208 CATCTAATAACTGTAAAT
1 CATATAATAACTGAAAAT
10853226 -ATATAATAACTGAAAAT
1 CATATAATAACTGAAAAT
* *
10853243 CATATGATAACTGTAAAT
1 CATATAATAACTGAAAAT
10853261 -ATATAATAACTGAAAAAT
1 CATATAATAACTG-AAAAT
10853279 CAT
1 CAT
10853282 CTGATAATTG
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
17 26 0.42
18 34 0.55
19 2 0.03
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (18 bp):
CATATAATAACTGAAAAT
Found at i:10853234 original size:17 final size:17
Alignment explanation
Indices: 10853180--10853272 Score: 107
Period size: 18 Copynumber: 5.4 Consensus size: 17
10853170 TATACGTTTG
* *
10853180 ATAACTGT-AACATATG
1 ATAACTGTAAATATATA
* *
10853196 ATAACTGAAAATCATCTA
1 ATAACTGTAAAT-ATATA
10853214 ATAACTGTAAATATATA
1 ATAACTGTAAATATATA
* *
10853231 ATAACTGAAAATCATATG
1 ATAACTGTAAAT-ATATA
10853249 ATAACTGTAAATATATA
1 ATAACTGTAAATATATA
10853266 ATAACTG
1 ATAACTG
10853273 AAAAATCATC
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
16 7 0.11
17 28 0.44
18 29 0.45
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (17 bp):
ATAACTGTAAATATATA
Found at i:10853240 original size:35 final size:35
Alignment explanation
Indices: 10853178--10853295 Score: 175
Period size: 35 Copynumber: 3.4 Consensus size: 35
10853168 AATATACGTT
* *
10853178 TGATAACTGT-AACATATGATAACTGAAAATCATC
1 TGATAACTGTAAATATATAATAACTGAAAATCATC
* *
10853212 TAATAACTGTAAATATATAATAACTGAAAATCATA
1 TGATAACTGTAAATATATAATAACTGAAAATCATC
10853247 TGATAACTGTAAATATATAATAACTGAAAAATCATC
1 TGATAACTGTAAATATATAATAACTG-AAAATCATC
*
10853283 TGATAATTGTAAA
1 TGATAACTGTAAA
10853296 CATTTAGAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
34 9 0.12
35 46 0.61
36 20 0.27
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.31
Consensus pattern (35 bp):
TGATAACTGTAAATATATAATAACTGAAAATCATC
Found at i:10861212 original size:31 final size:31
Alignment explanation
Indices: 10861097--10861212 Score: 108
Period size: 32 Copynumber: 3.7 Consensus size: 31
10861087 CTAAGGTATC
* * * *
10861097 CCTTGGGTAGACTCTTAGGCCTCGAGATATT
1 CCTTGGGTAGGCTCTAAGGCCCCAAGATATT
* * *
10861128 CCCTTTGGTAGGCTTTCAA-GCCCCAAGGTACTT
1 -CCTTGGGTAGGCTCT-AAGGCCCCAAGATA-TT
* * *
10861161 CTTTGGGTAGGCTTTGAGGCCCCAAGATATT
1 CCTTGGGTAGGCTCTAAGGCCCCAAGATATT
10861192 CCTTGGGTAGGCTCTAAGGCC
1 CCTTGGGTAGGCTCTAAGGCC
10861213 TAAATGCATT
Statistics
Matches: 67, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
31 21 0.31
32 43 0.64
33 3 0.04
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (31 bp):
CCTTGGGTAGGCTCTAAGGCCCCAAGATATT
Found at i:10864631 original size:24 final size:24
Alignment explanation
Indices: 10864598--10864644 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10864588 TTTATTAGTT
*
10864598 TAATTTAATATATAAAATTATTAA
1 TAATTAAATATATAAAATTATTAA
* *
10864622 TAATTAAATATGTAATATTATTA
1 TAATTAAATATATAAAATTATTA
10864645 TATATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TAATTAAATATATAAAATTATTAA
Found at i:10865404 original size:23 final size:23
Alignment explanation
Indices: 10865369--10865434 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
10865359 CAAAAGGAAA
* *
10865369 ATAAATACGTGTCACAAAGGCAGGG
1 ATAAATA--TGTCACAAAGACAGAG
**
10865394 ATAAATATGTCATGAAGACAGAG
1 ATAAATATGTCACAAAGACAGAG
*
10865417 ATAAACATGTCACAAAGA
1 ATAAATATGTCACAAAGA
10865435 TATAATTATT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 27 0.79
25 7 0.21
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.18
Consensus pattern (23 bp):
ATAAATATGTCACAAAGACAGAG
Found at i:10866838 original size:7 final size:7
Alignment explanation
Indices: 10866826--10866850 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10866816 CTTAACATTG
10866826 AATCCTA
1 AATCCTA
10866833 AATCCTA
1 AATCCTA
10866840 AATCCTA
1 AATCCTA
10866847 AATC
1 AATC
10866851 AAACATATCA
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:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
AATCCTA
Found at i:10867026 original size:2 final size:2
Alignment explanation
Indices: 10867019--10867105 Score: 174
Period size: 2 Copynumber: 43.5 Consensus size: 2
10867009 ACAATAATCT
10867019 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
10867061 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
10867103 TA T
1 TA T
10867106 GTGTGTGTGT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 85 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10868102 original size:13 final size:13
Alignment explanation
Indices: 10868082--10868117 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
10868072 AATAAAAACC
10868082 TAAAAAAAGCTAAA
1 TAAAAAAAG-TAAA
10868096 TAAAAAAAGTAAA
1 TAAAAAAAGTAAA
10868109 TAAATAAAA
1 TAAA-AAAA
10868118 AATATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (13 bp):
TAAAAAAAGTAAA
Found at i:10868157 original size:20 final size:19
Alignment explanation
Indices: 10868134--10868191 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 19
10868124 TAAAACAATT
*
10868134 TAAAAAAGAAAGAAAAGAGA
1 TAAAAAAGAAAGAAAA-ACA
10868154 TAAAAATA-AAAGAAAAACA
1 TAAAAA-AGAAAGAAAAACA
10868173 TAAAATAAAGAAAGTAAAA
1 T-AAA-AAAGAAAG-AAAA
10868192 TAAAAGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 3 0.09
20 18 0.56
21 7 0.22
22 4 0.12
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (19 bp):
TAAAAAAGAAAGAAAAACA
Found at i:10869346 original size:18 final size:18
Alignment explanation
Indices: 10869323--10869395 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 18
10869313 ATGGACCTGC
10869323 AAATAAAAGAAAATAAAT
1 AAATAAAAGAAAATAAAT
10869341 AAATAAAAACGAAAAAATAAAT
1 AAAT-AAAA-G--AAAATAAAT
*
10869363 -AATAAAATAAAATAGAAT
1 AAATAAAAGAAAATA-AAT
*
10869381 AAA-AATA-AAAATAAA
1 AAATAAAAGAAAATAAA
10869396 AATAAAAAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
16 2 0.04
17 12 0.26
18 10 0.21
19 6 0.13
20 5 0.11
21 3 0.06
22 9 0.19
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (18 bp):
AAATAAAAGAAAATAAAT
Found at i:10869373 original size:5 final size:5
Alignment explanation
Indices: 10869323--10869402 Score: 51
Period size: 5 Copynumber: 15.6 Consensus size: 5
10869313 ATGGACCTGC
* *
10869323 AAATA AAAGA AAAT- AAAT- AAATA AAA-A CGAA-A AAATAA ATAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA -AAATA AAAT-A A-AATA
*
10869367 AAATA AAATA GAATAA AAATAA AAATAA AAATA AAA
1 AAATA AAATA AAAT-A AAAT-A AAAT-A AAATA AAA
10869403 AACAAATATA
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
4 11 0.17
5 29 0.46
6 20 0.32
7 3 0.05
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:10869381 original size:22 final size:21
Alignment explanation
Indices: 10869324--10869401 Score: 74
Period size: 22 Copynumber: 3.8 Consensus size: 21
10869314 TGGACCTGCA
*
10869324 AATAAAAGAAAATAAATAAAT
1 AATAAAATAAAATAAATAAAT
**
10869345 -A-AAAACGAAA-AAATAAAT
1 AATAAAATAAAATAAATAAAT
10869363 AATAAAATAAAATAGAATAAA-
1 AATAAAATAAAATA-AATAAAT
10869384 AATAAAAATAAAAATAAA
1 AAT-AAAAT-AAAATAAA
10869402 AAACAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
18 8 0.17
19 8 0.17
20 8 0.17
21 4 0.09
22 13 0.28
23 6 0.13
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (21 bp):
AATAAAATAAAATAAATAAAT
Found at i:10869389 original size:6 final size:6
Alignment explanation
Indices: 10869353--10869403 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
10869343 ATAAAAACGA
*
10869353 AAAAAT AAATAAT -AAAAT -AAAAT -AGAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
10869399 AAAAA
1 AAAAA
10869404 ACAAATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 12 0.29
6 26 0.63
7 3 0.07
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:10869494 original size:36 final size:36
Alignment explanation
Indices: 10869409--10869826 Score: 365
Period size: 37 Copynumber: 11.4 Consensus size: 36
10869399 AAAAAACAAA
* *
10869409 TATATATCATATATATATATTCTAAAATGTTTTTAAAAAA
1 TATATAT--TATATATATTTTC-AAAATG-TTTTAAAAAC
10869449 T-TATA-TATATAT-TTTTCAAAAATGTTTTAAAAAC
1 TATATATTATATATATTTTC-AAAATGTTTTAAAAAC
** *
10869483 TATATATTATATATATATATTTTGAAATATTTTAAAAAC
1 TATATA-T-TATATATAT-TTTCAAAATGTTTTAAAAAC
* *
10869522 TATAAATTATATATATATTCAAAATGTTTTAAAAAC
1 TATATATTATATATATTTTCAAAATGTTTTAAAAAC
* *
10869558 CATATATTATATATATATTCAAAATGTTTTCAAAAAC
1 TATATATTATATATATTTTCAAAATGTTTT-AAAAAC
* * *
10869595 TATATATTATATATATTTTCAAAA-GCTAT-ATAA-
1 TATATATTATATATATTTTCAAAATGTTTTAAAAAC
* *
10869628 TATATA-TATATATATATTCAAAATCTTTTCAAAAAC
1 TATATATTATATATATTTTCAAAATGTTTT-AAAAAC
* *
10869664 TATATAATATATATATTTTCAAAATATTTTCAAAAAC
1 TATATATTATATATATTTTCAAAATGTTTT-AAAAAC
* **
10869701 TATATA-T-TATGTATTTTCAAAATGTTTTTTAAAC
1 TATATATTATATATATTTTCAAAATGTTTTAAAAAC
* * *
10869735 TATATATTATATA-ATTTTTAAAATATTTTAAAAAAAAA
1 TATATATTATATATATTTTCAAAATGTTTT---AAAAAC
** *
10869773 TCATATATTATATA-AGTTTTCAAAAATCATTTACAAA-
1 T-ATATATTATATATA-TTTTC-AAAATGTTTTAAAAAC
10869810 TATATATATATATATAT
1 TATATAT-TATATATAT
10869827 ATATATATAT
Statistics
Matches: 317, Mismatches: 39, Indels: 47
0.79 0.10 0.12
Matches are distributed among these distances:
32 16 0.05
33 8 0.03
34 23 0.07
35 51 0.16
36 70 0.22
37 79 0.25
38 17 0.05
39 37 0.12
40 8 0.03
41 8 0.03
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (36 bp):
TATATATTATATATATTTTCAAAATGTTTTAAAAAC
Found at i:10869598 original size:26 final size:26
Alignment explanation
Indices: 10869569--10869636 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
10869559 ATATATTATA
*
10869569 TATATATTCA-AAATGTTTTCAAAAAC
1 TATATATT-ATAAATATTTTCAAAAAC
* *
10869595 TATATATTATATATATTTTCAAAAGC
1 TATATATTATAAATATTTTCAAAAAC
* *
10869621 TATATAATATATATAT
1 TATATATTATAAATAT
10869637 ATATATATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 1 0.03
26 36 0.97
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (26 bp):
TATATATTATAAATATTTTCAAAAAC
Found at i:10869630 original size:24 final size:25
Alignment explanation
Indices: 10869584--10869636 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 25
10869574 ATTCAAAATG
10869584 TTTTCAAAAACTATATATTATATATA
1 TTTTCAAAAACTATATA-TATATATA
*
10869610 TTTTCAAAAGCTATATAATATATATA
1 TTTTCAAAAACTATAT-ATATATATA
10869636 T
1 T
10869637 ATATATATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (25 bp):
TTTTCAAAAACTATATATATATATA
Found at i:10869640 original size:41 final size:42
Alignment explanation
Indices: 10869595--10869706 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 42
10869585 TTTCAAAAAC
* *
10869595 TATATATTATATATATTTTCAAAAGCTATATAATATATATATA
1 TATATATTA-AAATATTTTCAAAAACTATATAATATATATATA
*
10869638 TATATATTCAAAATCTTTTCAAAAACTATAT-A-ATATATATA
1 TATATATT-AAAATATTTTCAAAAACTATATAATATATATATA
*
10869679 T-T-T-TCAAAATATTTTCAAAAACTATATA
1 TATATATTAAAATATTTTCAAAAACTATATA
10869707 TTATGTATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
37 21 0.34
38 1 0.02
39 1 0.02
40 1 0.02
41 10 0.16
42 1 0.02
43 26 0.42
44 1 0.02
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (42 bp):
TATATATTAAAATATTTTCAAAAACTATATAATATATATATA
Found at i:10869640 original size:71 final size:68
Alignment explanation
Indices: 10869484--10869757 Score: 257
Period size: 69 Copynumber: 3.9 Consensus size: 68
10869474 TTTAAAAACT
** * * *
10869484 ATATATTATATATATATATTTTGAAATATTTTAAAAACTATAAATTATATATATATTCAAAATGT
1 ATATA-TATATATATATA-TTCAAAATGTTTTAAAAACTATATATTATATATATTTTCAAAA-G-
* *
10869549 TTTAAAA
62 TATATAA
*
10869556 ACCATATATTATATATATATTCAAAATGTTTTCAAAAACTATATATTATATATATTTTCAAAAGC
1 A-TATATA-TATATATATATTCAAAATGTTTT-AAAAACTATATATTATATATATTTTCAAAAG-
10869621 TATAT-A
62 TATATAA
* *
10869627 ATATATATATATATATATTCAAAATCTTTTCAAAAACTATATAATATATATATTTTCAAAA-TAT
1 ATATATATATATATATATTCAAAATGTTTT-AAAAACTATATATTATATATATTTTCAAAAGTA-
*
10869691 TTTCAA
64 TAT-AA
* * * ** *
10869697 AAACTATATATTATGTATTTTCAAAATGTTTTTTAAACTATATATTATATA-ATTTTTAAAA
1 ATA-TATATA-TATATATATTCAAAATGTTTTAAAAACTATATATTATATATATTTTCAAAA
10869758 TATTTTAAAA
Statistics
Matches: 173, Mismatches: 21, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
67 2 0.01
68 2 0.01
69 52 0.30
70 17 0.10
71 24 0.14
72 35 0.20
73 41 0.24
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (68 bp):
ATATATATATATATATATTCAAAATGTTTTAAAAACTATATATTATATATATTTTCAAAAGTATA
TAA
Found at i:10869816 original size:2 final size:2
Alignment explanation
Indices: 10869809--10869837 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10869799 TCATTTACAA
10869809 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10869838 AAATTCGGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10870165 original size:2 final size:2
Alignment explanation
Indices: 10870160--10870230 Score: 133
Period size: 2 Copynumber: 35.5 Consensus size: 2
10870150 ATACTTACAT
10870160 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
*
10870202 AT AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
10870231 TATATATATA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.48, G:0.00, T:0.01
Consensus pattern (2 bp):
AC
Found at i:10870383 original size:35 final size:35
Alignment explanation
Indices: 10870265--10870410 Score: 161
Period size: 35 Copynumber: 4.0 Consensus size: 35
10870255 TGCAAATGAT
*
10870265 TTTTGAAAACTTATATAATATATGATTTTTTAAAAATA
1 TTTTGAAAA--TATATAATATAT-AGTTTTTAAAAATA
* *
10870303 TTTTAAAAAT-TGAATAATATATA-TTTTTAAAAAAACA
1 TTTTGAAAATAT--ATAATATATAGTTTTT--AAAAATA
* *
10870340 TTTTGAAAATATATAATATGTAGTTTTTGAAAATA
1 TTTTGAAAATATATAATATATAGTTTTTAAAAATA
*
10870375 TTTTGAAAATATATAATATATAGTTTTTGAAAATA
1 TTTTGAAAATATATAATATATAGTTTTTAAAAATA
10870410 T
1 T
10870411 ATATATTATA
Statistics
Matches: 95, Mismatches: 7, Indels: 15
0.81 0.06 0.13
Matches are distributed among these distances:
35 46 0.48
36 11 0.12
37 29 0.31
38 9 0.09
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.45
Consensus pattern (35 bp):
TTTTGAAAATATATAATATATAGTTTTTAAAAATA
Found at i:10870406 original size:24 final size:26
Alignment explanation
Indices: 10870375--10870433 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
10870365 TTTGAAAATA
10870375 TTTTGAAAATATATA-A-TATATAGT
1 TTTTGAAAATATATATATTATATAGT
10870399 TTTTGAAAATATATATATTATATAGT
1 TTTTGAAAATATATATATTATATAGT
10870425 TTTTGAAAA
1 TTTTGAAAA
10870434 CATTTTGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 15 0.45
25 1 0.03
26 17 0.52
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (26 bp):
TTTTGAAAATATATATATTATATAGT
Found at i:10870425 original size:61 final size:60
Alignment explanation
Indices: 10870340--10870458 Score: 186
Period size: 61 Copynumber: 2.0 Consensus size: 60
10870330 TAAAAAAACA
* *
10870340 TTTTGAAAATATATAATATGTAGTTTTTGAAAATATTTTGAAAATATATA-ATATATAGT
1 TTTTGAAAATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATATATATAGT
*
10870399 TTTTGAAAATATATATATTATATAGTTTTTGAAAACATTTTGAATATATATATATATATA
1 TTTTGAAAATATATA-A-TATATAGTTTTTGAAAACATTTTGAAAATATATATATATATA
10870459 TGTTATAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 15 0.28
60 1 0.02
61 31 0.57
62 7 0.13
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.47
Consensus pattern (60 bp):
TTTTGAAAATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATATATATAGT
Found at i:10871573 original size:24 final size:25
Alignment explanation
Indices: 10871546--10871593 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
10871536 TATATATATA
10871546 TATATATTA-AAATATTTTAAAAAC
1 TATATATTATAAATATTTTAAAAAC
* *
10871570 TATATATTATATATATTTTCAAAA
1 TATATATTATAAATATTTTAAAAA
10871594 TGTTTTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
TATATATTATAAATATTTTAAAAAC
Found at i:10871581 original size:35 final size:37
Alignment explanation
Indices: 10871534--10871812 Score: 263
Period size: 37 Copynumber: 7.4 Consensus size: 37
10871524 CTATAATATA
*
10871534 TATATATATATATATATATT-AAAATATTTT-AAAAAC
1 TATATAT-TATATATATTTTCAAAATATTTTCAAAAAC
*
10871570 TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
1 TATATATTATATATATTTTCAAAATATTTTCAAAAAC
*
10871607 TATATAATATATATATATTTTTCAAAATGTTTTCAAAAAC
1 TATAT-AT-TATATATA-TTTTCAAAATATTTTCAAAAAC
*
10871647 TATATAATATATATATTTTCAAAATATTTTCAAAAAC
1 TATATATTATATATATTTTCAAAATATTTTCAAAAAC
* *
10871684 TATATA-T-TATATATTTTCAAAATGTTTTTTTTAAAAAAC
1 TATATATTATATATATTTTCAAAA----TATTTTCAAAAAC
* * * *
10871723 TATATATTATACA-ATTTTTAAAATA--TTAAAAAAA
1 TATATATTATATATATTTTCAAAATATTTTCAAAAAC
*
10871757 TCATATATTATATA-AGTTTTCAAAAATCATTTGC--AAAC
1 T-ATATATTATATATA-TTTTC-AAAAT-ATTTTCAAAAAC
10871795 TATAATATATATATATAT
1 TAT-ATAT-TATATATAT
10871813 ATATATATAT
Statistics
Matches: 208, Mismatches: 15, Indels: 37
0.80 0.06 0.14
Matches are distributed among these distances:
34 9 0.04
35 38 0.18
36 22 0.11
37 45 0.22
38 19 0.09
39 33 0.16
40 39 0.19
41 3 0.01
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (37 bp):
TATATATTATATATATTTTCAAAATATTTTCAAAAAC
Found at i:10871605 original size:37 final size:37
Alignment explanation
Indices: 10871534--10871781 Score: 260
Period size: 35 Copynumber: 6.6 Consensus size: 37
10871524 CTATAATATA
* *
10871534 TATATATATATATATATATT-AAAATATTTT-AAAAAC
1 TATATAT-TATATATATTTTCAAAATGTTTTCAAAAAC
10871570 TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
1 TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
10871607 TATATAATATATATATATTTTTCAAAATGTTTTCAAAAAC
1 TATAT-AT-TATATATA-TTTTCAAAATGTTTTCAAAAAC
* *
10871647 TATATAATATATATATTTTCAAAATATTTTCAAAAAC
1 TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
*
10871684 TATATA-T-TATATATTTTCAAAATGTTTTTTTTAAAAAAC
1 TATATATTATATATATTTTCAAAATG----TTTTCAAAAAC
* * * * *
10871723 TATATATTATACA-ATTTTTAAAA--TATTAAAAAAA
1 TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
10871757 TCATATATTATATA-AGTTTTCAAAA
1 T-ATATATTATATATA-TTTTCAAAA
10871782 ATCATTTGCA
Statistics
Matches: 187, Mismatches: 12, Indels: 26
0.83 0.05 0.12
Matches are distributed among these distances:
34 10 0.05
35 39 0.21
36 25 0.13
37 38 0.20
38 10 0.05
39 25 0.13
40 37 0.20
41 3 0.02
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (37 bp):
TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
Found at i:10871662 original size:77 final size:76
Alignment explanation
Indices: 10871530--10871711 Score: 259
Period size: 77 Copynumber: 2.4 Consensus size: 76
10871520 AAAACTATAA
* * *
10871530 TATATATATATATATATATATATT-AAAATATTTTAAAAACTATATATTATATATATTTTCAAAA
1 TATATA-ATATATATATAT-TTTTCAAAATGTTTTAAAAACTATATAATATATATATTTTCAAAA
*
10871594 TGTTTTCAAAAAC
64 TATTTTCAAAAAC
10871607 TATATAATATATATATATTTTTCAAAATGTTTTCAAAAACTATATAATATATATATTTTCAAAAT
1 TATATAATATATATATATTTTTCAAAATGTTTT-AAAAACTATATAATATATATATTTTCAAAAT
10871672 ATTTTCAAAAAC
65 ATTTTCAAAAAC
10871684 --TAT-ATAT-TATATA-TTTTCAAAATGTTTT
1 TATATAATATATATATATTTTTCAAAATGTTTT
10871712 TTTTAAAAAA
Statistics
Matches: 99, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
72 15 0.15
73 6 0.06
74 4 0.04
75 6 0.06
76 21 0.21
77 47 0.47
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.47
Consensus pattern (76 bp):
TATATAATATATATATATTTTTCAAAATGTTTTAAAAACTATATAATATATATATTTTCAAAATA
TTTTCAAAAAC
Found at i:10871806 original size:2 final size:2
Alignment explanation
Indices: 10871795--10871851 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
10871785 ATTTGCAAAC
10871795 TA TA -A 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
10871836 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
10871852 ATTCGGACGA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10872590 original size:7 final size:7
Alignment explanation
Indices: 10872578--10872610 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
10872568 CCAAATTCTC
10872578 TTATATT
1 TTATATT
10872585 TTATATT
1 TTATATT
10872592 TTAT-TT
1 TTATATT
10872598 TTATATT
1 TTATATT
10872605 TT-TATT
1 TTATATT
10872611 AATTATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 10 0.40
7 15 0.60
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTATATT
Found at i:10872601 original size:13 final size:14
Alignment explanation
Indices: 10872578--10872610 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
10872568 CCAAATTCTC
10872578 TTATATTTTATATT
1 TTATATTTTATATT
10872592 TTAT-TTTTATATT
1 TTATATTTTATATT
10872605 TT-TATT
1 TTATATT
10872611 AATTATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.06
13 13 0.72
14 4 0.22
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATATTTTATATT
Found at i:10873445 original size:22 final size:23
Alignment explanation
Indices: 10873399--10873447 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
10873389 CATATAATTA
10873399 TAAATTAGTTAAAAATTTAAAGG
1 TAAATTAGTTAAAAATTTAAAGG
*
10873422 TAAATTA-TTTAAAA-TTAAAGGG
1 TAAATTAGTTAAAAATTTAAA-GG
10873444 TAAA
1 TAAA
10873448 CTATACCAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 12 0.50
23 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (23 bp):
TAAATTAGTTAAAAATTTAAAGG
Found at i:10873615 original size:188 final size:188
Alignment explanation
Indices: 10873286--10873655 Score: 580
Period size: 188 Copynumber: 2.0 Consensus size: 188
10873276 TGCATTCTTA
* * * *
10873286 TTTTATAGGATGATTCTTGTGCGCTCGACGAGCAACAATGAGCACTATTAATGATGAGAATCATT
1 TTTTATAGGATGATTCTTGTGCGCTCGACGAGCAACAATGAGCACCACTAACGATGAGAACCATT
* * * *
10873351 AATTTAATTTATAAAATTTTAAATTTTAAAAGACTCAACATATAATTATAAATTAGTTAAAAATT
66 AATTTAATTTATAAAATTTAAAATTATAAAAGACTAAACATATAATTATAAATTAGTTAAAAATA
* * *
10873416 TAAAGGTAAATTATTTAAAATTAAAGGGTAAACTATACCAGTGATCACCTAATCGCCC
131 TAAAAGTAAATTATTGAAAATTAAAGGGTAAACTATACCACTGATCACCTAATCGCCC
****
10873474 TTTTATAGGATGATTCTTGTGCGCTCGACGAGCGTTGATGAGCACCACTAACGATGA-ACACCAT
1 TTTTATAGGATGATTCTTGTGCGCTCGACGAGCAACAATGAGCACCACTAACGATGAGA-ACCAT
*
10873538 TAATTTAATTTATAAAATTTAAAATTATAAAAGGCTAAACATATAATTATAAATTAGTTAAAAAT
65 TAATTTAATTTATAAAATTTAAAATTATAAAAGACTAAACATATAATTATAAATTAGTTAAAAAT
10873603 ATAAAAGTAAATTATTGAAAATTAAAGGGTAAACTATACCACTGATCACCTAA
130 ATAAAAGTAAATTATTGAAAATTAAAGGGTAAACTATACCACTGATCACCTAA
10873656 CCATTACCCC
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
187 1 0.01
188 164 0.99
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (188 bp):
TTTTATAGGATGATTCTTGTGCGCTCGACGAGCAACAATGAGCACCACTAACGATGAGAACCATT
AATTTAATTTATAAAATTTAAAATTATAAAAGACTAAACATATAATTATAAATTAGTTAAAAATA
TAAAAGTAAATTATTGAAAATTAAAGGGTAAACTATACCACTGATCACCTAATCGCCC
Found at i:10873635 original size:22 final size:23
Alignment explanation
Indices: 10873587--10873628 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10873577 CATATAATTA
10873587 TAAATTAGTTAAAAATATAAAAG
1 TAAATTAGTTAAAAATATAAAAG
*
10873610 TAAATTA-TTGAAAAT-TAAA
1 TAAATTAGTTAAAAATATAAA
10873629 GGGTAAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 7 0.39
23 7 0.39
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (23 bp):
TAAATTAGTTAAAAATATAAAAG
Found at i:10874692 original size:19 final size:19
Alignment explanation
Indices: 10874664--10874703 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10874654 TTAAATATAG
* *
10874664 TATAAGTTGACCATTAAAT
1 TATAAATTGACAATTAAAT
*
10874683 TATAAATTGATAATTAAAT
1 TATAAATTGACAATTAAAT
10874702 TA
1 TA
10874704 GTTCATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (19 bp):
TATAAATTGACAATTAAAT
Found at i:10876530 original size:26 final size:28
Alignment explanation
Indices: 10876469--10876532 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 28
10876459 AGCCAGGGAG
10876469 AAAAAAAAAAAAGAGAAACACAAATCTC
1 AAAAAAAAAAAAGAGAAACACAAATCTC
** *
10876497 AGGGAAAAAAACAGAG-AACA-AAAT-TC
1 A-AAAAAAAAAAAGAGAAACACAAATCTC
10876523 AAAAAAAAAA
1 AAAAAAAAAA
10876533 CAAAAACACC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
25 7 0.23
26 3 0.10
27 4 0.13
28 5 0.17
29 11 0.37
ACGTcount: A:0.72, C:0.11, G:0.11, T:0.06
Consensus pattern (28 bp):
AAAAAAAAAAAAGAGAAACACAAATCTC
Found at i:10890324 original size:163 final size:163
Alignment explanation
Indices: 10890036--10890616 Score: 861
Period size: 163 Copynumber: 3.6 Consensus size: 163
10890026 CGTTTGATGG
* **
10890036 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGTGATT-TATGAAGATTGT-G
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGT-TGAAGATTGTCG
* * *
10890099 GGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATAC
65 AGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGAT-TTTGAAGATTGCTCGAGTCTTATAC
*
10890164 TCTCTGAAGAAATAGGGGACAGACGCGATTGTTGA
129 TCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
10890199 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGATTGCTCG
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGATTG-TCG
* *
10890264 AGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATTTATGAAGATTG-T-GGGTCTTATAC
65 AGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTT-TGAAGATTGCTCGAGTCTTATAC
*
10890327 TCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGA
129 TCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
* *
10890362 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGACAGACGCGATTGTTGAAGATTGTTCG
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGATTG-TCG
*
10890427 AGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGATTGCTCGAGTCTTATAC
65 AGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATT-TTGAAGATTGCTCGAGTCTTATAC
*
10890492 TCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
129 TCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
* * * *
10890527 AGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGAGCAAACACGATTATTGAAGATTGTCCG
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGATTGT-CG
* *
10890590 AGT-TCTATACTCTCTAAAGAAAGAGGG
65 AGTCT-TATACTCTCTGAAGAAATAGGG
10890617 AGCGAACCCG
Statistics
Matches: 384, Mismatches: 25, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
162 2 0.01
163 279 0.73
164 7 0.02
165 96 0.25
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (163 bp):
AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGATTGTCGA
GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTTTGAAGATTGCTCGAGTCTTATACTC
TCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
Found at i:10890619 original size:55 final size:55
Alignment explanation
Indices: 10890036--10890616 Score: 874
Period size: 55 Copynumber: 10.7 Consensus size: 55
10890026 CGTTTGATGG
* *
10890036 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGTGATT-TATGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGT-TGA
* *
10890091 AGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
*
10890144 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGACAGACGCGATTGTTGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
*
10890199 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
* *
10890254 AGATTGCTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATT-TATGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGT-TGA
* *
10890309 AGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
*
10890362 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGACAGACGCGATTGTTGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
*
10890417 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
* *
10890472 AGATTGCTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
* * * * *
10890527 AGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGAGCAAACACGATTATTGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
* * *
10890580 AGATTGTCCGAGT-TCTATACTCTCTAAAGAAAGAGGG
1 AGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGG
10890617 AGCGAACCCG
Statistics
Matches: 483, Mismatches: 33, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
53 139 0.29
54 9 0.02
55 335 0.69
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (55 bp):
AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
Found at i:10890639 original size:218 final size:218
Alignment explanation
Indices: 10890036--10890616 Score: 1038
Period size: 218 Copynumber: 2.7 Consensus size: 218
10890026 CGTTTGATGG
* *
10890036 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGTGATTTATGAAGATTGTGGG
1 AGATTGCTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATTTATGAAGATTGTGGG
10890101 TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTC
66 TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTC
10890166 TCTGAAGAAATAGGGGACAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAA
131 TCTGAAGAAATAGGGGACAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAA
10890231 TAGGGGGCAGACACGATTGTTGA
196 TAGGGGGCAGACACGATTGTTGA
10890254 AGATTGCTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATTTATGAAGATTGTGGG
1 AGATTGCTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATTTATGAAGATTGTGGG
10890319 TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTC
66 TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTC
10890384 TCTGAAGAAATAGGGGACAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAA
131 TCTGAAGAAATAGGGGACAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAA
10890449 TAGGGGGCAGACACGATTGTTGA
196 TAGGGGGCAGACACGATTGTTGA
* *
10890472 AGATTGCTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGG
1 AGATTGCTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATTTATGAAGATTGTGGG
* * * ** *
10890537 TCTTATACTCTCTGAAGAAATAGGGAGCAAACACGATTATTGAAGATTGTCCGAGT-TCTATACT
66 TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCT-TATACT
* *
10890601 CTCTAAAGAAAGAGGG
130 CTCTGAAGAAATAGGG
10890617 AGCGAACCCG
Statistics
Matches: 350, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
217 1 0.00
218 349 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (218 bp):
AGATTGCTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATTTATGAAGATTGTGGG
TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTC
TCTGAAGAAATAGGGGACAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAA
TAGGGGGCAGACACGATTGTTGA
Found at i:10899540 original size:21 final size:22
Alignment explanation
Indices: 10899516--10899560 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
10899506 ATCAGGCATG
10899516 GGTTTTA-AAACCTACTATAGA
1 GGTTTTAGAAACCTACTATAGA
*
10899537 GG-TTTAGAAACCTACTGTAGA
1 GGTTTTAGAAACCTACTATAGA
10899558 GGT
1 GGT
10899561 CTGGGCAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (22 bp):
GGTTTTAGAAACCTACTATAGA
Found at i:10901428 original size:21 final size:21
Alignment explanation
Indices: 10901404--10901481 Score: 93
Period size: 21 Copynumber: 3.6 Consensus size: 21
10901394 AAGTTGTCAT
10901404 GAAGGACCACATATATGTCCC
1 GAAGGACCACATATATGTCCC
* * *
10901425 GAAGGACCTCGTAGAATTGTCCC
1 GAAGGACCACATA-TA-TGTCCC
10901448 GAAGGACCACATATATGTCCC
1 GAAGGACCACATATATGTCCC
* *
10901469 GAAGAACCTCATA
1 GAAGGACCACATA
10901482 GAACCCTCGA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
21 28 0.60
22 2 0.04
23 17 0.36
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (21 bp):
GAAGGACCACATATATGTCCC
Found at i:10901445 original size:44 final size:44
Alignment explanation
Indices: 10901397--10901484 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
10901387 CCATATAAAG
* * *
10901397 TTGTCATGAAGGACCACATATATGTCCCGAAGGACCTCGTAGAA
1 TTGTCACGAAGGACCACATATATGTCCCGAAGAACCTCATAGAA
*
10901441 TTGTCCCGAAGGACCACATATATGTCCCGAAGAACCTCATAGAA
1 TTGTCACGAAGGACCACATATATGTCCCGAAGAACCTCATAGAA
10901485 CCCTCGACTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (44 bp):
TTGTCACGAAGGACCACATATATGTCCCGAAGAACCTCATAGAA
Found at i:10905536 original size:20 final size:20
Alignment explanation
Indices: 10905508--10905546 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10905498 CAAGAAATTA
10905508 ATTGATGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
* *
10905528 ATTGGTGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
10905547 CCCTTGAAAA
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:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:10912801 original size:20 final size:19
Alignment explanation
Indices: 10912776--10912827 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
10912766 AAAAGCATGA
*
10912776 GTGCATCGATGCAAAGTCTT
1 GTGCATCGATGCAAAGT-AT
**
10912796 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCAAAGTAT
10912815 GTGCATCGATGCA
1 GTGCATCGATGCA
10912828 TAAAATGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (19 bp):
GTGCATCGATGCAAAGTAT
Found at i:10912819 original size:19 final size:20
Alignment explanation
Indices: 10912776--10912829 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
10912766 AAAAGCATGA
* *
10912776 GTGCATCGATGCAAAGTCTT
1 GTGCATCGATGCATAGTCAT
*
10912796 GTGCATCGATGCATGGT-AT
1 GTGCATCGATGCATAGTCAT
10912815 GTGCATCGATGCATA
1 GTGCATCGATGCATA
10912830 AAATGTATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (20 bp):
GTGCATCGATGCATAGTCAT
Found at i:10912835 original size:19 final size:19
Alignment explanation
Indices: 10912795--10912835 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
10912785 TGCAAAGTCT
***
10912795 TGTGCATCGATGCATGGTA
1 TGTGCATCGATGCATAAAA
10912814 TGTGCATCGATGCATAAAA
1 TGTGCATCGATGCATAAAA
10912833 TGT
1 TGT
10912836 ATTCGATGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (19 bp):
TGTGCATCGATGCATAAAA
Found at i:10913951 original size:21 final size:21
Alignment explanation
Indices: 10913927--10913966 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
10913917 ATGGGTTTTG
10913927 AAACCTACTGTAGAGGTTTAT
1 AAACCTACTGTAGAGGTTTAT
10913948 AAACCTACTGTAGAGGTTT
1 AAACCTACTGTAGAGGTTT
10913967 GGGTAGGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (21 bp):
AAACCTACTGTAGAGGTTTAT
Found at i:10923398 original size:21 final size:21
Alignment explanation
Indices: 10923380--10923419 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10923370 AGGGGTTTTG
10923380 AAACCTACTATAGAGGTTTAT
1 AAACCTACTATAGAGGTTTAT
*
10923401 AAACCTACTGTAGAGGTTT
1 AAACCTACTATAGAGGTTT
10923420 GGGTAGGGCA
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:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
AAACCTACTATAGAGGTTTAT
Found at i:10925066 original size:19 final size:19
Alignment explanation
Indices: 10925016--10925056 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
10925006 TACTCTCATT
10925016 CCTATCCTCTCTACTGGGG
1 CCTATCCTCTCTACTGGGG
*
10925035 CCTATCCTCTCTATTGGGG
1 CCTATCCTCTCTACTGGGG
10925054 CCT
1 CCT
10925057 GAGCTCTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.10, C:0.37, G:0.20, T:0.34
Consensus pattern (19 bp):
CCTATCCTCTCTACTGGGG
Found at i:10926822 original size:46 final size:46
Alignment explanation
Indices: 10926753--10926840 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
10926743 ACCGCTATGT
*
10926753 ATTTTCATTTGTGGCATCATTTCATGCCAATTATGCATTGTTATAC
1 ATTTTCATTTATGGCATCATTTCATGCCAATTATGCATTGTTATAC
*
10926799 ATTTTCATTTATGGCAT-ACTTTCATGTCAATTATGCATTGTT
1 ATTTTCATTTATGGCATCA-TTTCATGCCAATTATGCATTGTT
10926841 CTTCATCTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 1 0.03
46 38 0.97
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (46 bp):
ATTTTCATTTATGGCATCATTTCATGCCAATTATGCATTGTTATAC
Found at i:10937025 original size:16 final size:17
Alignment explanation
Indices: 10936999--10937043 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
10936989 ATCCGAAATC
10936999 AACCTGAAAGTAACCCG
1 AACCTGAAAGTAACCCG
10937016 AACC-GAAAGTAACCCG
1 AACCTGAAAGTAACCCG
*
10937032 AA-CTAAAAGTAA
1 AACCTGAAAGTAA
10937044 TTGAACCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 1 0.04
16 21 0.81
17 4 0.15
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.11
Consensus pattern (17 bp):
AACCTGAAAGTAACCCG
Found at i:10937588 original size:2 final size:2
Alignment explanation
Indices: 10937577--10937678 Score: 179
Period size: 2 Copynumber: 51.5 Consensus size: 2
10937567 ACTTTATCTT
* *
10937577 TA TA TA -A TA TA TA TA TA TG TA TA TA TA TA TA TA TG 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
10937618 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
10937660 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
10937679 GGATTTTTAT
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
1 1 0.01
2 94 0.99
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10937734 original size:41 final size:41
Alignment explanation
Indices: 10937689--10937766 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
10937679 GGATTTTTAT
*
10937689 ATTATTAAAATATATT-CTTTAATTATTGAAAATATAAGCCC
1 ATTA-TAAAATATATTACTTTAATAATTGAAAATATAAGCCC
* * *
10937730 ATTATAAAATGTATTATTTTAATAATTTAAAATATAA
1 ATTATAAAATATATTACTTTAATAATTGAAAATATAA
10937767 TAAATAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 10 0.31
41 22 0.69
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (41 bp):
ATTATAAAATATATTACTTTAATAATTGAAAATATAAGCCC
Found at i:10937807 original size:43 final size:44
Alignment explanation
Indices: 10937730--10937812 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 44
10937720 ATATAAGCCC
* *
10937730 ATTATAAAATGTATTATTTTAATAATTTAAAATA-TAATAAATA
1 ATTATAAAATATATTAATTTAATAATTTAAAATATTAATAAATA
* *
10937773 ATTAT-AAATATATTAATTTAATTATTTTAGAATATTAATA
1 ATTATAAAATATATTAATTTAA-TAATTTAAAATATTAATA
10937813 TATTTAGATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 14 0.41
43 15 0.44
44 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (44 bp):
ATTATAAAATATATTAATTTAATAATTTAAAATATTAATAAATA
Found at i:10943415 original size:23 final size:23
Alignment explanation
Indices: 10943351--10943407 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
10943341 CTTTTAGTAG
10943351 CACATTTTTCTCTGCCTTTGTGA
1 CACATTTTTCTCTGCCTTTGTGA
*
10943374 CATATTTTTCTCTGCCTTTGTGA
1 CACATTTTTCTCTGCCTTTGTGA
10943397 CACATTTTTCT
1 CACATTTTTCT
10943408 TTGTCTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.14, C:0.25, G:0.11, T:0.51
Consensus pattern (23 bp):
CACATTTTTCTCTGCCTTTGTGA
Found at i:10943786 original size:18 final size:19
Alignment explanation
Indices: 10943750--10943789 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
10943740 ATTATGCTTA
10943750 TAAATATTTATTATAATTT
1 TAAATATTTATTATAATTT
*
10943769 TAAATATTT-TTTTAATTT
1 TAAATATTTATTATAATTT
10943787 TAA
1 TAA
10943790 TAAAACTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TAAATATTTATTATAATTT
Found at i:10949880 original size:11 final size:11
Alignment explanation
Indices: 10949864--10949892 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
10949854 AAGACGTTTT
10949864 AGAAATCTTTG
1 AGAAATCTTTG
10949875 AGAAATCTTTG
1 AGAAATCTTTG
10949886 AGAAATC
1 AGAAATC
10949893 GTGAAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (11 bp):
AGAAATCTTTG
Found at i:10951160 original size:29 final size:29
Alignment explanation
Indices: 10951128--10951192 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
10951118 GATCTCATAT
10951128 AGAAACAGGACAAGG-ATAAAATCCCATGA
1 AGAAACAGGAC-AGGAATAAAATCCCATGA
* * * *
10951157 AGAAACATGACGGGAATAAAATCTCATGT
1 AGAAACAGGACAGGAATAAAATCCCATGA
10951186 AGAAACA
1 AGAAACA
10951193 CGATGAGGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 2 0.06
29 29 0.94
ACGTcount: A:0.51, C:0.15, G:0.20, T:0.14
Consensus pattern (29 bp):
AGAAACAGGACAGGAATAAAATCCCATGA
Found at i:10984881 original size:15 final size:14
Alignment explanation
Indices: 10984854--10984911 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
10984844 GACTCGCTTG
10984854 ACCCGACTGAGTCA
1 ACCCGACTGAGTCA
*
10984868 ACCCGCATTGAGTCA
1 ACCCG-ACTGAGTCA
*
10984883 ACTCGACTGAGTCA
1 ACCCGACTGAGTCA
* *
10984897 ACTC-ACTGGGTCA
1 ACCCGACTGAGTCA
10984910 AC
1 AC
10984912 TCATTGACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
13 10 0.26
14 17 0.44
15 12 0.31
ACGTcount: A:0.28, C:0.33, G:0.21, T:0.19
Consensus pattern (14 bp):
ACCCGACTGAGTCA
Found at i:10984909 original size:13 final size:13
Alignment explanation
Indices: 10984876--10984914 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
10984866 CAACCCGCAT
10984876 TGAGTCAACTCGAC
1 TGAGTCAACTC-AC
10984890 TGAGTCAACTCAC
1 TGAGTCAACTCAC
*
10984903 TGGGTCAACTCA
1 TGAGTCAACTCA
10984915 TTGACTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (13 bp):
TGAGTCAACTCAC
Found at i:10988455 original size:114 final size:115
Alignment explanation
Indices: 10988236--10988448 Score: 254
Period size: 114 Copynumber: 1.9 Consensus size: 115
10988226 AATCTTAAAT
* *
10988236 AAAGAAATAAAATTATTGAATTTATTTTCTTATGAATCCTGAATGACTTTATCATGTAAAAGGAA
1 AAAGAAATAAAATCATTGAATTTATTTTCTTAGGAATCCTGAATGACTTTATCATGTAAAAGGAA
*
10988301 ATAAATAATTGGATTTAATTTCTTATGAATCTTATAATTTTGGTTTATAA
66 ATAAATAATTGGATTTAATTTCCTATGAATCTTATAATTTTGGTTTATAA
* * * * * ** * **
10988351 AAAGAAAT-AAATCGTTTAATTTATTTTCTTGGGAATCTTGAATGATTTTATTTTTTAAAAGTTA
1 AAAGAAATAAAATCATTGAATTTATTTTCTTAGGAATCCTGAATGACTTTATCATGTAAAAGGAA
**
10988415 ATAAATTGTT-GATTT-ATTTCCTA-GAAATCTTATA
66 ATAAATAATTGGATTTAATTTCCTATG-AATCTTATA
10988449 TGATTTTTTA
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
111 1 0.01
112 16 0.20
113 5 0.06
114 52 0.63
115 8 0.10
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (115 bp):
AAAGAAATAAAATCATTGAATTTATTTTCTTAGGAATCCTGAATGACTTTATCATGTAAAAGGAA
ATAAATAATTGGATTTAATTTCCTATGAATCTTATAATTTTGGTTTATAA
Found at i:10988609 original size:57 final size:58
Alignment explanation
Indices: 10988474--10988610 Score: 179
Period size: 57 Copynumber: 2.4 Consensus size: 58
10988464 AAATGGACCG
* *
10988474 TTGAATTTATTTTCTTGGAAATCAAATATGGTTTTACTTTGAAAACACGAAATGAATCA
1 TTGAATTTA-TTTCTTGGAAATCAAATATGATTTTACTTTGAAAACACGAAATAAATCA
* * * *
10988533 TTGAATAT-TTTCTTGGAAATCGAGTATGATTTTACTTTGAAAA-ATGAAATAAATCA
1 TTGAATTTATTTCTTGGAAATCAAATATGATTTTACTTTGAAAACACGAAATAAATCA
* *
10988589 TTGAATTTATTTCCTAGAAATC
1 TTGAATTTATTTCTTGGAAATC
10988611 TTGATATATT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
56 18 0.26
57 43 0.63
59 7 0.10
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.40
Consensus pattern (58 bp):
TTGAATTTATTTCTTGGAAATCAAATATGATTTTACTTTGAAAACACGAAATAAATCA
Found at i:10991845 original size:9 final size:9
Alignment explanation
Indices: 10991835--10991919 Score: 80
Period size: 10 Copynumber: 8.9 Consensus size: 9
10991825 TGGAAAACCA
10991835 GTTTGACCAG
1 GTTTGACC-G
*
10991845 TTTTGAACCG
1 GTTTG-ACCG
10991855 GTTTGACCG
1 GTTTGACCG
*
10991864 GTTCGAACCG
1 GTTTG-ACCG
10991874 GTTTGACCG
1 GTTTGACCG
*
10991883 GTCTGAACCG
1 GTTTG-ACCG
10991893 GTTTGACCG
1 GTTTGACCG
*
10991902 GTCTGAACCG
1 GTTTG-ACCG
*
10991912 GGTTGACC
1 GTTTGACC
10991920 CGACCCGACT
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
9 27 0.44
10 32 0.52
11 3 0.05
ACGTcount: A:0.16, C:0.25, G:0.31, T:0.28
Consensus pattern (9 bp):
GTTTGACCG
Found at i:10991859 original size:10 final size:10
Alignment explanation
Indices: 10991846--10991917 Score: 87
Period size: 10 Copynumber: 7.5 Consensus size: 10
10991836 TTTGACCAGT
10991846 TTTGAACCGG
1 TTTGAACCGG
10991856 TTTG-ACCGG
1 TTTGAACCGG
*
10991865 TTCGAACCGG
1 TTTGAACCGG
10991875 TTTG-ACCGG
1 TTTGAACCGG
*
10991884 TCTGAACCGG
1 TTTGAACCGG
10991894 TTTG-ACCGG
1 TTTGAACCGG
*
10991903 TCTGAACCGG
1 TTTGAACCGG
*
10991913 GTTGA
1 TTTGA
10991918 CCCGACCCGA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
9 24 0.46
10 28 0.54
ACGTcount: A:0.17, C:0.24, G:0.32, T:0.28
Consensus pattern (10 bp):
TTTGAACCGG
Found at i:10991873 original size:19 final size:19
Alignment explanation
Indices: 10991848--10991919 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
10991838 TGACCAGTTT
10991848 TGAACCGGTTTGACCGGT-
1 TGAACCGGTTTGACCGGTC
10991866 TCGAACCGGTTTGACCGGTC
1 T-GAACCGGTTTGACCGGTC
10991886 TGAACCGGTTTGACCGGTC
1 TGAACCGGTTTGACCGGTC
*
10991905 TGAACCGGGTTGACC
1 TGAACCGGTTTGACC
10991920 CGACCCGACT
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
18 1 0.02
19 49 0.96
20 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.32, T:0.25
Consensus pattern (19 bp):
TGAACCGGTTTGACCGGTC
Found at i:10991893 original size:38 final size:39
Alignment explanation
Indices: 10991830--10991919 Score: 121
Period size: 38 Copynumber: 2.3 Consensus size: 39
10991820 GCTGCTGGAA
* * *
10991830 AACCAGTTTGACCAGTTTTGAACCGGTTTGACCGGT-TCG
1 AACCGGTTTGACCAGGTCTGAACCGGTTTGACCGGTCT-G
10991869 AACCGGTTTGACC-GGTCTGAACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCAGGTCTGAACCGGTTTGACCGGTCTG
*
10991907 AACCGGGTTGACC
1 AACCGGTTTGACC
10991920 CGACCCGACT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
38 33 0.72
39 13 0.28
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.27
Consensus pattern (39 bp):
AACCGGTTTGACCAGGTCTGAACCGGTTTGACCGGTCTG
Found at i:10991935 original size:17 final size:17
Alignment explanation
Indices: 10991913--10991953 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
10991903 TCTGAACCGG
*
10991913 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
10991930 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
10991947 GTTGACC
1 GTTGACC
10991954 GTTGACAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.41, G:0.24, T:0.17
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:10999546 original size:3 final size:3
Alignment explanation
Indices: 10999538--10999604 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
10999528 GAAAAACTAA
10999538 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
10999586 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
10999605 TAAGAGAGAG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11010108 original size:22 final size:23
Alignment explanation
Indices: 11010077--11010123 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
11010067 TATAATTGTG
11010077 AAAAAAATATTAAAT-TT-AATTT
1 AAAAAAATA-TAAATCTTAAATTT
*
11010099 AAAAATATATAAATCTTAAATTT
1 AAAAAAATATAAATCTTAAATTT
11010122 AA
1 AA
11010124 TTTTTTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 10 0.45
23 7 0.32
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAAAAATATAAATCTTAAATTT
Found at i:11016009 original size:31 final size:31
Alignment explanation
Indices: 11015974--11016036 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
11015964 AATTTGGTGA
11015974 ATTCAATATGTCCTTCTCACTAGGAACTCCC
1 ATTCAATATGTCCTTCTCACTAGGAACTCCC
11016005 ATTCAATATGTCCTTCTCACTAGGAACTCCC
1 ATTCAATATGTCCTTCTCACTAGGAACTCCC
11016036 A
1 A
11016037 AACTCTTGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.32
Consensus pattern (31 bp):
ATTCAATATGTCCTTCTCACTAGGAACTCCC
Found at i:11020358 original size:3 final size:3
Alignment explanation
Indices: 11020350--11020402 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
11020340 ATTTTAAAAT
*
11020350 TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TATA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TTA
*
11020397 ATA TTA
1 TTA TTA
11020403 CAAAACCCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 38 0.86
4 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:11021660 original size:15 final size:15
Alignment explanation
Indices: 11021613--11021672 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
11021603 ATCCATTAGT
11021613 TTTTAA-TATTATTA
1 TTTTAATTATTATTA
*
11021627 CTTTTAATT-TTTTTCA
1 -TTTTAATTATTATT-A
*
11021643 TTTTAATTATTGTTA
1 TTTTAATTATTATTA
11021658 TTTT-ATT-TTATTA
1 TTTTAATTATTATTA
11021671 TT
1 TT
11021673 ACGTTTGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 7 0.18
14 3 0.08
15 23 0.59
16 6 0.15
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (15 bp):
TTTTAATTATTATTA
Found at i:11021747 original size:14 final size:15
Alignment explanation
Indices: 11021730--11021762 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11021720 TATTATTAAG
11021730 TTATATAA-ATATAT
1 TTATATAATATATAT
*
11021744 TTATATAATATTTAT
1 TTATATAATATATAT
11021759 TTAT
1 TTAT
11021763 TTATTCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATAATATATAT
Found at i:11022639 original size:30 final size:26
Alignment explanation
Indices: 11022576--11022639 Score: 67
Period size: 30 Copynumber: 2.3 Consensus size: 26
11022566 TCTTTTCAAA
11022576 ATTTT-TTTATATACTTATTATTTTC
1 ATTTTATTTATATACTTATTATTTTC
**
11022601 ATAGTATTTATATATTCTTATTAATATTTC
1 ATTTTATTTATATA--CTTATT-AT-TTTC
11022631 ATTTTATTT
1 ATTTTATTT
11022640 GCAAATATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 3 0.10
26 8 0.27
28 6 0.20
29 2 0.07
30 11 0.37
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (26 bp):
ATTTTATTTATATACTTATTATTTTC
Found at i:11024263 original size:14 final size:14
Alignment explanation
Indices: 11024225--11024278 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
11024215 ATTTTAAATA
*
11024225 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
11024239 TTTTACATTTGCAT
1 ATTTACATTTGCAT
11024253 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
11024268 CTTTGCATTTG
1 ATTTACATTTG
11024279 TATTGCACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:11027520 original size:16 final size:17
Alignment explanation
Indices: 11027494--11027525 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11027484 CTCATCCAAC
11027494 AAAGAAAGAAGAAAAAA
1 AAAGAAAGAAGAAAAAA
11027511 AAAG-AAGAAGAAAAA
1 AAAGAAAGAAGAAAAA
11027526 GGAAAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAGAAAAAA
Found at i:11030069 original size:114 final size:114
Alignment explanation
Indices: 11029783--11030123 Score: 583
Period size: 114 Copynumber: 3.0 Consensus size: 114
11029773 AAGTGCCATG
11029783 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
11029848 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCC-AAAACCAATCATTGGATTTGAAAGATGAATT
* *
11029898 TGCTTATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
11029963 TGATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
* *
11030012 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * *
11030077 TGGTTCGGTAGGAACCCCAGAACCAATCATTTGAATTGAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAA
11030124 CTGCATGATC
Statistics
Matches: 213, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
114 133 0.62
115 80 0.38
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
Found at i:11032364 original size:54 final size:52
Alignment explanation
Indices: 11032216--11032416 Score: 230
Period size: 54 Copynumber: 3.8 Consensus size: 52
11032206 AGAAATCTTG
* * * *
11032216 GCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAACGCTTTATGAACGTCTGA
1 GCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTA-CAAC-TCTGA
*
11032270 GCAAAAACCACA-AGAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGA
1 GCAGAAACCACAGA-AAAGGATGAATGTGTTGTCAAATGTTTTAC-AAC-TCTGA
* * *
11032324 GCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATCTC-GA
1 GCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACAACTCTGA
* *
11032375 -CAGAAACCATAGGAAAA-GATGAATGTATTGTCAAATGTTTTA
1 GCAGAAACCACA-GAAAAGGATGAATGTGTTGTCAAATGTTTTA
11032417 TGAACCAGTG
Statistics
Matches: 129, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
50 32 0.25
51 7 0.05
52 2 0.02
53 3 0.02
54 84 0.65
55 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.25
Consensus pattern (52 bp):
GCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACAACTCTGA
Found at i:11032817 original size:22 final size:22
Alignment explanation
Indices: 11032788--11032842 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
11032778 ATCTACACTC
*
11032788 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
11032810 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
11032832 TTCAAAGATGA
1 TTCAAAGATGA
11032843 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:11033441 original size:113 final size:113
Alignment explanation
Indices: 11033243--11037540 Score: 7801
Period size: 113 Copynumber: 38.0 Consensus size: 113
11033233 TAGAAAAGAT
*
11033243 TCAAATCCATCATCTGATGGATCAGCTTTTCTAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
11033308 AGAAGGAAGAATAAATTCATAATGAGAAGAATTTATTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11033356 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
11033421 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTTTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
11033469 TCAAATCCATCATCTGATGGATCAGTTTTTTCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11033534 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
11033582 TCAAATCCATCATCTGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTAA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11033647 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11033695 TCAAATCCATCATCTGATGGATCAGCTTTTCCAAAAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATCTGATGGATCAGCTTTTCC-AGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
11033760 AAGAAAGAAGAAGAAATTCATAATGAGAAAAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11033809 TCAAATCCATCATCTGCTGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11033874 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11033922 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTTATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11033987 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11034035 TCAAATCCATCATCTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11034100 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
11034148 TCAAATCTATCATCTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11034213 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11034261 TCAAATCCATCATATGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11034326 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11034374 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAACTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11034439 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11034487 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11034552 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11034600 TCAAATCCATCATCTGATAGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11034665 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11034713 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11034778 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11034826 TCAAATACATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
11034891 AGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11034939 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11035004 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11035052 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11035117 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
**
11035165 TCAAATCCATCATCTGATGGATCAAATTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
11035230 AGAATGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11035278 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAATTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11035343 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11035391 TCAAATCCATCATCTGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
11035456 AAAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11035504 TCAAATCCATCATCTGGTGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
11035569 AGAATGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11035617 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11035682 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
11035730 TCAAATCCATCATCTGATGGATCAGCTTTTCTAGAAAAACTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11035795 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11035843 TCAAATCCATCATCT-ATTGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATCTGA-TGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
11035907 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
11035956 TCAAATCCATCATCTGATAGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11036021 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11036069 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11036134 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
11036182 TCAAATACATCATCTGATGGATCAGCTTTTCCAGAAAAAATTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
11036247 AGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11036295 TCAATTCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
11036360 AAAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11036408 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11036473 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
** *
11036521 TCAAATCCATCATCTGATGGATCAAATTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTAA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11036586 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11036634 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAATTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11036699 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11036747 TCAAATCCATCATCTGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11036812 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
11036860 TCAAATCCAACATCTGATGGATCAGCTTTTCCAGATAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
11036925 AG-A--AAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11036970 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
11037035 AGAAGGAAAAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11037083 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGGGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
11037148 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11037196 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
11037261 AGAAGGAAGTAGAAATTCATAATGAGAAGAATTTTTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11037309 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* * ** * *
11037374 AGGA-GAAGAA-AAAGTTCAAAATGAGAAGAGCTTATTCAACCTTTCGC
66 AGAAGGAAGAAGAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* ** * * *
11037421 AT-AATTCTATCACAGAAGCAGATAGATTAGCATCAGCTTTTCCATAGAAAGTTCATAATGAGAA
1 -TCAA----ATC-C---ATCATCT-GA-T-GGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAA
*
11037485 GAACTCATCTGAAGAA-GAAGAAG---TTCACAATGAGAAG-ATCTTGTTCAACCTTTTGC
54 GAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT-TTGTTCAACCTTTTGC
11037541 ATAATTCTAT
Statistics
Matches: 4053, Mismatches: 111, Indels: 35
0.97 0.03 0.01
Matches are distributed among these distances:
110 106 0.03
111 4 0.00
112 37 0.01
113 3705 0.91
114 110 0.03
116 3 0.00
117 1 0.00
120 31 0.01
121 2 0.00
122 1 0.00
123 53 0.01
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (113 bp):
TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:11037556 original size:120 final size:119
Alignment explanation
Indices: 11037329--11037682 Score: 474
Period size: 120 Copynumber: 2.9 Consensus size: 119
11037319 CATCTGATGG
*
11037329 ATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGAAGAAAAAGTTCAAA
1 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG-A--AGAAGAAAAAGTTCAAA
* *
11037394 ATGAGAAGAGCTTATTCAACCTTTCGCATAATTCTATCACAGAAGCAGATAGATTAGC
63 ATGAGAAGAACTTATTCAACCTTTTGCATAATTCTATCACAGAAG-AGATAGATTAGC
* * *
11037452 ATCAGCTTTTCCATAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATG
1 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAAAGTTCAAAATG
* * *
11037517 AGAAGATCTTGTTCAACCTTTTGCATAATTCTATTACAGAAAGAGATAGATTAGC
66 AGAAGAACTTATTCAACCTTTTGCATAATTCTATCACAG-AAGAGATAGATTAGC
* * * *
11037572 ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGGGGAAAGAAAAAGTTCAT
1 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA---G-AAGAAAAAGTTCAA
* * * *
11037637 AATGAGAAGAACTTATTCAGCCTTTTGAATGACTCTATCACAGAAG
62 AATGAGAAGAACTTATTCAACCTTTTGCATAATTCTATCACAGAAG
11037683 GAAATAGGTC
Statistics
Matches: 205, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
120 107 0.52
121 3 0.01
122 1 0.00
123 46 0.22
124 48 0.23
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.26
Consensus pattern (119 bp):
ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAAAGTTCAAAATG
AGAAGAACTTATTCAACCTTTTGCATAATTCTATCACAGAAGAGATAGATTAGC
Found at i:11037900 original size:3 final size:3
Alignment explanation
Indices: 11037892--11037947 Score: 67
Period size: 3 Copynumber: 18.0 Consensus size: 3
11037882 ATTTTAAAAT
* *
11037892 TTA TTA TTA TTA TTA TTA TAA TAA TTA TTA TTA TTA TATA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA
*
11037939 TTA ATA TTA
1 TTA TTA TTA
11037948 CAAAACCCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
3 41 0.87
4 6 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:11039205 original size:15 final size:15
Alignment explanation
Indices: 11039158--11039217 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
11039148 ATCCATTAGT
11039158 TTTTAA-TATTATTA
1 TTTTAATTATTATTA
*
11039172 CTTTTAATT-TTTTTCA
1 -TTTTAATTATTATT-A
*
11039188 TTTTAATTATTGTTA
1 TTTTAATTATTATTA
11039203 TTTT-ATT-TTATTA
1 TTTTAATTATTATTA
11039216 TT
1 TT
11039218 ACGTTTGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 7 0.18
14 3 0.08
15 23 0.59
16 6 0.15
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (15 bp):
TTTTAATTATTATTA
Found at i:11039292 original size:14 final size:15
Alignment explanation
Indices: 11039275--11039307 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11039265 TATTATTAAG
11039275 TTATATAA-ATATAT
1 TTATATAATATATAT
*
11039289 TTATATAATATTTAT
1 TTATATAATATATAT
11039304 TTAT
1 TTAT
11039308 TTATTCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATAATATATAT
Found at i:11039526 original size:138 final size:138
Alignment explanation
Indices: 11039383--11039631 Score: 360
Period size: 138 Copynumber: 1.8 Consensus size: 138
11039373 AAAAATAAAC
* * *
11039383 ATATTTTGATATGTATTTATTATTTAATATCTAAGAAAAGAGCTGTCTTAAAATACCTAGAAG-T
1 ATATTTTAATATGTATTTATTATTTAATATCAAAGAAAAGAGCTGTCTTAAAACACCTAGAAGCT
* *
11039447 CTTTTTCTGATA-TTCTTAAATAAATAAATGTCCTACTTT-TATAAATTGTATATATTAATCTAT
66 C-TTTTATGATATTTC-TAAATAAATAAATATCCTA-TTTATATAAATTGTATATATTAATCTAT
11039510 TTTTTAGATAA
128 TTTTTAGATAA
* * * *
11039521 ATATTTTAATATTTATTTATTTTTTAATATCAAAGGAATGAGCTGTCTTAAAACACCTAGAAGCT
1 ATATTTTAATATGTATTTATTATTTAATATCAAAGAAAAGAGCTGTCTTAAAACACCTAGAAGCT
*
11039586 CTTTTATGATATTTCTAAATAAATAAATATCTTATTTATATAAATT
66 CTTTTATGATATTTCTAAATAAATAAATATCCTATTTATATAAATT
11039632 AATAAATTTA
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
137 3 0.03
138 90 0.92
139 5 0.05
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (138 bp):
ATATTTTAATATGTATTTATTATTTAATATCAAAGAAAAGAGCTGTCTTAAAACACCTAGAAGCT
CTTTTATGATATTTCTAAATAAATAAATATCCTATTTATATAAATTGTATATATTAATCTATTTT
TTAGATAA
Found at i:11040429 original size:22 final size:22
Alignment explanation
Indices: 11040388--11040432 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
11040378 CATTGCATAA
11040388 AAATTAAACAGTTATAACTCCTG
1 AAATTAAACAG-TATAACTCCTG
11040411 AAATTAAATCAG-ATAACTCCTG
1 AAATTAAA-CAGTATAACTCCTG
11040433 TAACTCCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.48
23 8 0.38
24 3 0.14
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (22 bp):
AAATTAAACAGTATAACTCCTG
Found at i:11041208 original size:2 final size:2
Alignment explanation
Indices: 11041201--11041271 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
11041191 TGACATTAAT
11041201 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
11041243 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 T
11041272 TGTGTATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11045774 original size:45 final size:45
Alignment explanation
Indices: 11045706--11045813 Score: 123
Period size: 45 Copynumber: 2.4 Consensus size: 45
11045696 AAATATATTG
* * *
11045706 TCTAATTCATAATTAGTGCTACAACACATCAAA-CC-AACATATGA
1 TCTAAGTCATAAATAGTACTACAACACATCAAAGCCTAA-ATATGA
* *
11045750 T-TAAAGTCTATAAATAGTACTACAACACATTAAAGCCTAAATATTA
1 TCT-AAGTC-ATAAATAGTACTACAACACATCAAAGCCTAAATATGA
11045796 TCTAAGTCATAAATAGTA
1 TCTAAGTCATAAATAGTA
11045814 GTACTCGACA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
43 1 0.02
44 5 0.09
45 32 0.59
46 13 0.24
47 3 0.06
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (45 bp):
TCTAAGTCATAAATAGTACTACAACACATCAAAGCCTAAATATGA
Found at i:11047388 original size:36 final size:35
Alignment explanation
Indices: 11047348--11047419 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 35
11047338 AGAAACTAGA
11047348 TTCATATTACATTTAAGCTATAACCTAAAGCTAAAG
1 TTCATATTACATTTAAGCTATAACCT-AAGCTAAAG
* * *
11047384 TTCATATTACGTTTAAGCTTTTACCTAAGCTAAAG
1 TTCATATTACATTTAAGCTATAACCTAAGCTAAAG
11047419 T
1 T
11047420 GGATGTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 10 0.30
36 23 0.70
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (35 bp):
TTCATATTACATTTAAGCTATAACCTAAGCTAAAG
Found at i:11052726 original size:21 final size:20
Alignment explanation
Indices: 11052640--11052797 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
11052630 AAATGACCAA
**
11052640 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
11052659 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
11052679 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
11052699 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
11052720 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
11052741 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
11052761 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
11052782 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
11052798 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Done.