Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009595.1 Hibiscus syriacus cultivar Beakdansim tig00116974_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: 1046665
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:538 original size:19 final size:19
Alignment explanation
Indices: 508--561 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
498 CTCGGTTCTG
508 TATGATATATGTATATCAAA
1 TATGA-ATATGTATATCAAA
528 TATGAATATGTATATCAAA
1 TATGAATATGTATATCAAA
*
547 TATGAATATATATAT
1 TATGAATATGTATAT
562 ATTATGTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 28 0.85
20 5 0.15
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (19 bp):
TATGAATATGTATATCAAA
Found at i:1742 original size:35 final size:36
Alignment explanation
Indices: 1651--1744 Score: 131
Period size: 34 Copynumber: 2.7 Consensus size: 36
1641 ATGGATTATG
* *
1651 AATTTAGGGTTGAGCATGTAATT-AAAGTATTTTGA
1 AATTTAGGGTTTAGAATGTAATTGAAAGTATTTTGA
*
1686 AATTGA-GGTTTAGAATGTAATTGAAA-TATTTTGA
1 AATTTAGGGTTTAGAATGTAATTGAAAGTATTTTGA
*
1720 AATTTAGGGTTTAGAATATAATTGA
1 AATTTAGGGTTTAGAATGTAATTGA
1745 TTACTGTGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
34 27 0.52
35 25 0.48
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.40
Consensus pattern (36 bp):
AATTTAGGGTTTAGAATGTAATTGAAAGTATTTTGA
Found at i:15967 original size:20 final size:20
Alignment explanation
Indices: 15942--16002 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
15932 TTTTTGTGCA
*
15942 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
* *
15962 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATACCCCC-AT
*
15983 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATACCCCC
16003 CACAGGGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 16 0.46
21 2 0.06
22 1 0.03
23 16 0.46
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:16011 original size:21 final size:21
Alignment explanation
Indices: 15985--16024 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15975 CCCCCTTTGA
*
15985 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
16006 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
16025 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:16435 original size:24 final size:24
Alignment explanation
Indices: 16395--16440 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
16385 AGAATTTTCC
*
16395 AAAAAATTTTAATTTTTCGAAATAA
1 AAAAAATGTTAATTTTTC-AAATAA
16420 AAAAAATGTTAA-TTTTCAAAT
1 AAAAAATGTTAATTTTTCAAAT
16441 TATTGTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 5 0.25
25 11 0.55
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (24 bp):
AAAAAATGTTAATTTTTCAAATAA
Found at i:17993 original size:15 final size:16
Alignment explanation
Indices: 17954--17995 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
17944 TTGTTTCAAC
*
17954 ATTTTGAATTGTTTGA
1 ATTTTGGATTGTTTGA
*
17970 TTTTGTGGATTG-TTGA
1 ATTT-TGGATTGTTTGA
17986 ATTTTGGATT
1 ATTTTGGATT
17996 TATGGATAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 6 0.27
16 10 0.45
17 6 0.27
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.57
Consensus pattern (16 bp):
ATTTTGGATTGTTTGA
Found at i:18001 original size:23 final size:25
Alignment explanation
Indices: 17957--18002 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
17947 TTTCAACATT
* *
17957 TTGAATTGTTTGATTTTGTGGATTG
1 TTGAATTGTTGGATTTTATGGATTG
17982 TTGAATT-TTGGA-TTTATGGAT
1 TTGAATTGTTGGATTTTATGGAT
18003 AGTGTGAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 4 0.21
25 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (25 bp):
TTGAATTGTTGGATTTTATGGATTG
Found at i:23323 original size:27 final size:27
Alignment explanation
Indices: 23285--23341 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
23275 ACATACTCAA
23285 AATCCTAAGTAAATTGCATGAAAATTG
1 AATCCTAAGTAAATTGCATGAAAATTG
23312 AATCCTAAGTAAATTGCATGAAAATTG
1 AATCCTAAGTAAATTGCATGAAAATTG
23339 AAT
1 AAT
23342 TGAAGCTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (27 bp):
AATCCTAAGTAAATTGCATGAAAATTG
Found at i:37032 original size:17 final size:18
Alignment explanation
Indices: 36996--37038 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
36986 AAATCATTAA
*
36996 ATTATATTTAAAATAATT
1 ATTAAATTTAAAATAATT
*
37014 ATTAAATTTTAAA-AATT
1 ATTAAATTTAAAATAATT
*
37031 ATAAAATT
1 ATTAAATT
37039 ATTATTATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAAATTTAAAATAATT
Found at i:39786 original size:16 final size:16
Alignment explanation
Indices: 39767--39797 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
39757 AAAAATAGTA
39767 AATAAAAAGAAAATAG
1 AATAAAAAGAAAATAG
39783 AATAAAAAGAAAATA
1 AATAAAAAGAAAATA
39798 ATCCTCACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (16 bp):
AATAAAAAGAAAATAG
Found at i:40322 original size:24 final size:24
Alignment explanation
Indices: 40278--40327 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
40268 ATAAAGAACC
*
40278 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
40302 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
40326 AA
1 AA
40328 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:47622 original size:17 final size:16
Alignment explanation
Indices: 47600--47633 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
47590 TAAAAACAGT
47600 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
47617 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
47633 A
1 A
47634 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:51480 original size:19 final size:20
Alignment explanation
Indices: 51458--51500 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
51448 GAGAAAAGGT
*
51458 AAAAGTTAA-AATGAAAGAG
1 AAAAGTGAATAATGAAAGAG
*
51477 AAAA-TGAATAATGAAAGAT
1 AAAAGTGAATAATGAAAGAG
51496 AAAAG
1 AAAAG
51501 AAAAAGTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (20 bp):
AAAAGTGAATAATGAAAGAG
Found at i:57404 original size:17 final size:16
Alignment explanation
Indices: 57382--57415 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
57372 TAAAAACAGT
57382 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
57399 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
57415 A
1 A
57416 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:62064 original size:24 final size:24
Alignment explanation
Indices: 62020--62069 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
62010 ATAAAGAACC
*
62020 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
62044 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
62068 AA
1 AA
62070 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:68839 original size:21 final size:21
Alignment explanation
Indices: 68813--68852 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
68803 ATCTTTTTAC
*
68813 GTCCAGCCGTGGTGTTGGTAT
1 GTCCAGCCGTGGTCTTGGTAT
68834 GTCCAGCCGTGGTCTTGGT
1 GTCCAGCCGTGGTCTTGGT
68853 GCGTCGACCA
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:0.07, C:0.23, G:0.38, T:0.33
Consensus pattern (21 bp):
GTCCAGCCGTGGTCTTGGTAT
Found at i:80578 original size:15 final size:15
Alignment explanation
Indices: 80558--80589 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
80548 ACAAATGGAA
80558 TTTTTATATAAATAT
1 TTTTTATATAAATAT
*
80573 TTTTTATTTAAATAT
1 TTTTTATATAAATAT
80588 TT
1 TT
80590 ATGATTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTTATATAAATAT
Found at i:81016 original size:2 final size:2
Alignment explanation
Indices: 81009--81037 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
80999 TATTTTACCT
81009 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
81038 TTGTATCACA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:81646 original size:15 final size:16
Alignment explanation
Indices: 81608--81648 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
81598 ACAGAGCTTC
*
81608 TGAATCATTCAACATT
1 TGAATCATTCAACACT
*
81624 TGAATCATTCAACGCT
1 TGAATCATTCAACACT
81640 T-AATCATTC
1 TGAATCATTC
81649 TGAAATAAAC
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:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAACACT
Found at i:90550 original size:23 final size:23
Alignment explanation
Indices: 90503--90550 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
90493 ATTAACATAT
**
90503 TAGGTAACGCTTATATAATGTAA
1 TAGGTAACGCTTATATAATAAAA
* *
90526 TAGGTAGCGTTTATATAATAAAA
1 TAGGTAACGCTTATATAATAAAA
90549 TA
1 TA
90551 TGTATTTAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (23 bp):
TAGGTAACGCTTATATAATAAAA
Found at i:90578 original size:87 final size:86
Alignment explanation
Indices: 90462--90628 Score: 262
Period size: 87 Copynumber: 1.9 Consensus size: 86
90452 CGGTTATATT
* * *
90462 ATATTATTTAACTAGAAATATTATTAAGTACATTAACATATTAGGTAACGCTTATATAATGTAAT
1 ATATTATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAAT
* *
90527 AGGTAGCGTTTATATAATAAA
66 AAGTAGCGCTTATATAATAAA
* *
90548 ATATGTATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAA
1 ATAT-TATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAA
90613 TAAGTAGCGCTTATAT
65 TAAGTAGCGCTTATAT
90629 TGACCTATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 4 0.05
87 69 0.95
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (86 bp):
ATATTATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAAT
AAGTAGCGCTTATATAATAAA
Found at i:91014 original size:199 final size:198
Alignment explanation
Indices: 90669--91346 Score: 608
Period size: 199 Copynumber: 3.4 Consensus size: 198
90659 TGTACCGGTA
* *
90669 ACATTACAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTTTGATCAATACTTTTT
1 ACATTACAAATTTACCTATTACATTATAATTATCGGTTTCGAT-TTTTTGTGATCGATACTTTTT
* * * * * *
90734 ATAAATGTATCGATAATATATGCGTTCACCCTTTTGGGCATTCATTCTGGA-AAAAAGTATCGAC
65 AAAAATGTATCGATACTTTATGAGTGCACCCGTTTGGGCATTCATTCTGGACAAAAA-TATCGAC
* *
90798 ACAACA-TTAAAAAGTTTCGACACATTATG-TAGACATATTCTCACATAAAATCGGTATAAATAT
129 ACAA-ATTTAAAAAGTTTCGACACATTATGAT-GACATATTCTCACATAAAACCGATATAAATAT
90861 A-TCGGTT
192 ACT-GGTT
* * * *
90868 ATATTACAAAATTACCTATTACATCATAATTAT-GAGTTTCGATGTTTTTGGGATCGATACTTTT
1 ACATTACAAATTTACCTATTACATTATAATTATCG-GTTTCGAT-TTTTTGTGATCGATACTTTT
* *
90932 TAAAAATGTATCGATACTTTATGAGTGCACCCGTCT-GGCATTCATTATGGACAAAATATATCGA
64 TAAAAATGTATCGATACTTTATGAGTGCACCCGTTTGGGCATTCATTCTGGACAAAA-ATATCGA
* * ** * * * **
90996 CACAAATTTAATAAGTTTCGATATTTTATGATGACCTATTTTCTCATAAAACCGATATATTTATA
128 CACAAATTTAAAAAGTTTCGACACATTATGATGACATATTCTCACATAAAACCGATATAAATATA
91061 CTGGTT
193 CTGGTT
** * *
91067 ACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGATTTTATTGTGATTGATAC-TTTT
1 ACATTACAAATTTACCTATTACATTATAATTATCGGTTTCGATTTT-TTGTGATCGATACTTTTT
* * *
91131 AATAATTGTATCGACACTTTAT-ACGTGCACCCCGTTTGGGCATTCATTCTGGACAATAAGTATC
65 AA-AAATGTATCGATACTTTATGA-GTGCA-CCCGTTTGGGCATTCATTCTGGACAA-AAATATC
* * ** * * * * * * *
91195 AACACAAA-TTACACAAGAGTCGATATATTATGTTGACATGTTTTCTA-AT-TAACCGGTATATT
126 GACACAAATTTA-AAAAGTTTCGACACATTATGATGACATATTCTC-ACATAAAACC-G-ATATA
** * *
91257 TTTATACCGGGT
187 AATATACTGGTT
*** * * *
91269 ACATTGTTAATTTACCTATTACATTATAATTATTGGTTTCCAAGTTTTTTG-GGTCGATAC-TTT
1 ACATTACAAATTTACCTATTACATTATAATTATCGGTTT-CGA-TTTTTTGTGATCGATACTTTT
91332 TAGAAAATGTATCGA
64 TA-AAAATGTATCGA
91347 CATATATTTA
Statistics
Matches: 400, Mismatches: 59, Indels: 37
0.81 0.12 0.07
Matches are distributed among these distances:
198 26 0.06
199 216 0.54
200 17 0.04
201 57 0.14
202 74 0.19
203 6 0.01
204 4 0.01
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (198 bp):
ACATTACAAATTTACCTATTACATTATAATTATCGGTTTCGATTTTTTGTGATCGATACTTTTTA
AAAATGTATCGATACTTTATGAGTGCACCCGTTTGGGCATTCATTCTGGACAAAAATATCGACAC
AAATTTAAAAAGTTTCGACACATTATGATGACATATTCTCACATAAAACCGATATAAATATACTG
GTT
Found at i:95555 original size:22 final size:22
Alignment explanation
Indices: 95520--95585 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
95510 CTCGTATAAA
95520 TGCACCG-AGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
95541 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
95563 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
95585 T
1 T
95586 ATGTCCATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 7 0.16
22 37 0.84
ACGTcount: A:0.26, C:0.27, G:0.27, T:0.20
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:95839 original size:30 final size:31
Alignment explanation
Indices: 95798--95857 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
95788 TAGACATAGT
*
95798 ATTTCCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
*
95828 ATTTACATACCTTTATCACATAGTGCATAT
1 ATTTACATACCTTTAACACATAGTGCATAT
95858 AACTTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:95914 original size:29 final size:29
Alignment explanation
Indices: 95872--95943 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
95862 TTTTCTGCAT
**
95872 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
*
95901 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
95930 ATTCATGTCATGTA
1 ATTCATGTCATGTA
95944 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Found at i:97908 original size:151 final size:152
Alignment explanation
Indices: 97629--97922 Score: 565
Period size: 151 Copynumber: 1.9 Consensus size: 152
97619 TCCTCCCGGG
97629 TCGTTACGGACTGCAATGAGCCTCTGTTAATATCTCTTTCTTCAAGTTCGTCATTGTCGGGTATT
1 TCGTTACGGACTGCAATGAGCCTCTGTTAATATCTCTTTCTTCAAGTTCGTCATTGTCGGGTATT
97694 ACAATTCTTCCTTTACAATATAGATTTCCATCTGACTTAATCTCAAAGTCTTAATCTCTTTGTTC
66 ACAATTCTTCCTTTACAATATAGATTTCCATCTGACTTAATCTCAAAGTCTTAATCTCTTTGTTC
97759 TTGACTTGTTCAACCGGGTGTA
131 TTGACTTGTTCAACCGGGTGTA
97781 TCGTTACGGACTGCAATGAGCCTCTGTTAATATCTCTTTCTTCAAG-TCGTCATTGTCGGGTATT
1 TCGTTACGGACTGCAATGAGCCTCTGTTAATATCTCTTTCTTCAAGTTCGTCATTGTCGGGTATT
97845 ACAATTCTTCCTTTACAATATAGATTTCCATCTGACTTAATCTCAAAGTCTTTAATCTC-TTGTT
66 ACAATTCTTCCTTTACAATATAGATTTCCATCTGACTTAATCTCAAAGTC-TTAATCTCTTTGTT
97909 CTTGACTTGTTCAA
130 CTTGACTTGTTCAA
97923 TTCTTTTCAA
Statistics
Matches: 141, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
151 87 0.62
152 54 0.38
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (152 bp):
TCGTTACGGACTGCAATGAGCCTCTGTTAATATCTCTTTCTTCAAGTTCGTCATTGTCGGGTATT
ACAATTCTTCCTTTACAATATAGATTTCCATCTGACTTAATCTCAAAGTCTTAATCTCTTTGTTC
TTGACTTGTTCAACCGGGTGTA
Found at i:99467 original size:14 final size:14
Alignment explanation
Indices: 99448--99476 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
99438 GACATCCTTG
99448 TAGCAATAATTTCT
1 TAGCAATAATTTCT
99462 TAGCAATAATTTCT
1 TAGCAATAATTTCT
99476 T
1 T
99477 GGCAGACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (14 bp):
TAGCAATAATTTCT
Found at i:101795 original size:22 final size:22
Alignment explanation
Indices: 101778--101844 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
101768 CTCGTATAAA
101778 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
101800 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
101822 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
101844 T
1 T
101845 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:102089 original size:30 final size:30
Alignment explanation
Indices: 102054--102116 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
102044 TCATATCGCG
*
102054 TAGACATAGT-ATTTCCATACCTTTAACACA
1 TAGACATA-TCATTTACATACCTTTAACACA
*
102084 TAGACATATCATTTACATACCTTTATCACA
1 TAGACATATCATTTACATACCTTTAACACA
102114 TAG
1 TAG
102117 TGCATATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (30 bp):
TAGACATATCATTTACATACCTTTAACACA
Found at i:102180 original size:29 final size:29
Alignment explanation
Indices: 102138--102209 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
102128 TTTTATGCAT
**
102138 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
*
102167 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
102196 ATTCATGTCATGTA
1 ATTCATGTCATGTA
102210 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Found at i:103365 original size:398 final size:396
Alignment explanation
Indices: 102437--103506 Score: 1556
Period size: 398 Copynumber: 2.7 Consensus size: 396
102427 TGAGGATTAC
*
102437 CTATTACATTATAATTATCGGTTTCGATGTTTTGGGATCGATACTTTTTATAAATGTATCGACAC
1 CTATTACATTATAATTATCGGTTTCGATTTTTTGGGATCGATACTTTTTATAAATGTATCGACAC
* * *
102502 TTTCTGAGTTCACCCTTTTGGGCATTCATTCTGGCAAAAAGTATCGACACATCATTTAAAAGTGT
66 TTTATGCGTTCACCCTTTTGGGCATTCATTCTGGCAAAAAGTATCGACACAACA-TTAAAAGTGT
* * *
102567 CGACAAATTATGTAGACCTATTCTGACATAAAATCGGTATATTTATACCGGTTATATTACAAAAT
130 CGACACATTATGTAGAACTATTCTAACATAAAATCGGTATATTTATACCGG-T-TATTACAAAAT
* * * * *
102632 TACCTATTACATTATAATTATGGGTTTCGATGTTTTAGGGATCGATATTGTTTAAAAATGTATCG
193 TATCTATTACATTATATTTATGGATTTCGATGTTTTTGGGATCGATACTGTTTAAAAATGTATCG
*
102697 ACAGTTTATGAGTGCAACATTTTTGGATTTTCCTTGTGAACCAAAAGTATCGACACAAATCTAAA
258 ACACTTTATGAGTGCAACATTTTTGGATTTTCCTTGTGAACCAAAAGTATCGACACAAATCTAAA
*
102762 ACGTGTCGATACATTATGTTCACCTATTTTCTAAAAAAACAGGTACATTTATACTGATTACATTG
323 ACGTGTCGATACATTATGTTCACCTATTTTCTAAAAAAACAGGTACATTTATACCGATTACATTG
*
102827 TAAATTTAC
388 TAAATTTAA
* *
102836 CTATTACATTATAATTATCGGTTTCGATGTTTTTAGGATCGATACTTTTTATAAATATATCGACA
1 CTATTACATTATAATTATCGGTTTCGAT-TTTTTGGGATCGATACTTTTTATAAATGTATCGACA
* * *
102901 CTTTATGCGTTCACCCTTTTGGGCATTCATTCTGGCAAAAAGTATTGACATACCATTCAAAAGTG
65 CTTTATGCGTTCACCCTTTTGGGCATTCATTCTGGCAAAAAGTATCGACACAACATT-AAAAGTG
* * *
102966 TCGACACATTATGTAGAACTATTCTAACGTAAAATCGGTATATTTATATCGG-TATCACAAAATT
129 TCGACACATTATGTAGAACTATTCTAACATAAAATCGGTATATTTATACCGGTTATTACAAAATT
* *
103030 ATCTATTATATTATATTTATGGATTTTGATGTTTTTGGGATCGATACTGTTTAAAAATGTATCGA
194 ATCTATTACATTATATTTATGGATTTCGATGTTTTTGGGATCGATACTGTTTAAAAATGTATCGA
* * * * *
103095 CACTTTATGGGTGCACCCTTTTTGGATTTTCCTTGTGGACCAAAAGTATCGACA-ATAATTCTAT
259 CACTTTATGAGTGCAACATTTTTGGATTTTCCTTGTGAACCAAAAGTATCGACACA-AA-TCTAA
* * ** * *
103159 AA-GTGTCGATACATTATGTAT-ATCTATTTTCTCAAAAAAACCGGTTTATTTGTACCGGTTACA
322 AACGTGTCGATACATTATGT-TCACCTATTTTCT-AAAAAAACAGGTACATTTATACCGATTACA
103222 TTGTAAATTTAA
385 TTGTAAATTTAA
* * *
103234 CTATTATATTATAATTATCGGTTTCGATATTTTTGGGATCAATACTTTTTATAATTGTATCGACA
1 CTATTACATTATAATTATCGGTTTCGAT-TTTTTGGGATCGATACTTTTTATAAATGTATCGACA
* *
103299 CTTTATGCGTTCACCCTTTTGGGCATTCATTATGACAAAAAGTATCGACACAACATTAACAAGTG
65 CTTTATGCGTTCACCCTTTTGGGCATTCATTCTGGCAAAAAGTATCGACACAACATTAA-AAGTG
*
103364 TCGACACATTATGTA-AACCTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTACAAA
129 TCGACACATTATGTAGAA-CTATTCTAACATAAAATCGGTATATTTATACCGG-T-TATTACAAA
* * * * *
103428 ATTATCTATTACATTATATTTATTGATTTCGATGTTTCTGAGATCGATACTTTTTAAAACTGTAT
191 ATTATCTATTACATTATATTTATGGATTTCGATGTTTTTGGGATCGATACTGTTTAAAAATGTAT
103493 CGACACTTTATGAG
256 CGACACTTTATGAG
103507 AAACTTTAAG
Statistics
Matches: 602, Mismatches: 58, Indels: 20
0.89 0.09 0.03
Matches are distributed among these distances:
396 1 0.00
397 151 0.25
398 204 0.34
399 30 0.05
400 137 0.23
401 79 0.13
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (396 bp):
CTATTACATTATAATTATCGGTTTCGATTTTTTGGGATCGATACTTTTTATAAATGTATCGACAC
TTTATGCGTTCACCCTTTTGGGCATTCATTCTGGCAAAAAGTATCGACACAACATTAAAAGTGTC
GACACATTATGTAGAACTATTCTAACATAAAATCGGTATATTTATACCGGTTATTACAAAATTAT
CTATTACATTATATTTATGGATTTCGATGTTTTTGGGATCGATACTGTTTAAAAATGTATCGACA
CTTTATGAGTGCAACATTTTTGGATTTTCCTTGTGAACCAAAAGTATCGACACAAATCTAAAACG
TGTCGATACATTATGTTCACCTATTTTCTAAAAAAACAGGTACATTTATACCGATTACATTGTAA
ATTTAA
Found at i:103494 original size:199 final size:196
Alignment explanation
Indices: 102432--103506 Score: 1107
Period size: 199 Copynumber: 5.4 Consensus size: 196
102422 GAAAATGAGG
102432 ATTACCTATTACATTATAATTATCGGTTTCGATGTTTTGGGATCGATACTTTTTATAAATGTATC
1 ATTACCTATTACATTATAATTATCGGTTTCGATGTTTTGGGATCGATACTTTTTA-AAATGTATC
* * *
102497 GACACTTTCTGAGTTCACCCTTTTGGGCATTCATTCTGGCAAAAAGTATCGACACATCATTTAAA
65 GACACTTTATGAGTTCACCCTTTTGGGCATTCATTCTGACAAAAAGTATCGACACAACA-TTAAA
* * *
102562 AGTGTCGACAAATTATGTAGACCTATTCTGACATAAAATCGGTATATTTATACCGGTTATATTAC
129 AGTGTCGACACATTATGTAAACCTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTAC
102627 AAA
194 AAA
*
102630 ATTACCTATTACATTATAATTATGGGTTTCGATGTTTTAGGGATCGATA-TTGTTTAAAAATGTA
1 ATTACCTATTACATTATAATTATCGGTTTCGATGTTTT-GGGATCGATACTT-TTT-AAAATGTA
* * * * * * * *
102694 TCGACAGTTTATGAGTGCAACATTTTTGG-ATTTTCCTTGTGAACCAAAAGTATCGACACAA-AT
63 TCGACACTTTATGAGTTCACCCTTTTGGGCA--TTCATTCTG-ACAAAAAGTATCGACACAACAT
* ** * * * * *
102757 CTAAAACGTGTCGATACATTATGTTCACCTATTTTCTA-A-AAAAACAGGTACATTTATACTGAT
125 -TAAAA-GTGTCGACACATTATGTAAACCTATTCTC-ACATAAAATC-GGTATATTTATACCGGT
* **
102820 TACATTGTAAA
186 TATATTACAAA
* * *
102831 TTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTAGGATCGATACTTTTTATAAATATAT
1 ATTACCTATTACATTATAATTATCGGTTTCGATG-TTTTGGGATCGATACTTTTTA-AAATGTAT
* * * * *
102896 CGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGGCAAAAAGTATTGACATACCATTCAA
64 CGACACTTTATGAGTTCACCCTTTTGGGCATTCATTCTGACAAAAAGTATCGACACAACATT-AA
* * * *
102961 AAGTGTCGACACATTATGTAGAA-CTATTCTAACGTAAAATCGGTATATTTATATCGG---TATC
128 AAGTGTCGACACATTATGTA-AACCTATTCTCACATAAAATCGGTATATTTATACCGGTTATATT
103022 ACAAA
192 ACAAA
* * * * *
103027 ATTATCTATTATATTATATTTAT-GGATTTTGATGTTTTTGGGATCGATACTGTTTAAAAATGTA
1 ATTACCTATTACATTATAATTATCGG-TTTCGATG-TTTTGGGATCGATACT-TTTTAAAATGTA
* * * * * *
103091 TCGACACTTTATGGGTGCACCCTTTTTGG-ATTTTCCTTGTGGACCAAAAGTATCGACA-ATA-A
63 TCGACACTTTATGAGTTCACCCTTTTGGGCA--TTCATTCT-GACAAAAAGTATCGACACA-ACA
* * * * * * * *
103153 TTCTATAAGTGTCGATACATTATGTATATCTATTTTCTCA-AAAAAACCGGTTTATTTGTACCGG
124 -T-TAAAAGTGTCGACACATTATGTAAACCTA--TTCTCACATAAAATCGGTATATTTATACCGG
* **
103217 TTACATTGTAAA
185 TTATATTACAAA
* * * * * *
103229 TTTAACTATTATATTATAATTATCGGTTTCGATATTTTTGGGATCAATACTTTTTATAATTGTAT
1 ATTACCTATTACATTATAATTATCGGTTTCGAT-GTTTTGGGATCGATACTTTTTA-AAATGTAT
* *
103294 CGACACTTTATGCGTTCACCCTTTTGGGCATTCATTATGACAAAAAGTATCGACACAACATTAAC
64 CGACACTTTATGAGTTCACCCTTTTGGGCATTCATTCTGACAAAAAGTATCGACACAACATTAA-
103359 AAGTGTCGACACATTATGTAAACCTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTA
128 AAGTGTCGACACATTATGTAAACCTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTA
103424 CAAA
193 CAAA
* * * * *
103428 ATTATCTATTACATTATATTTATTGATTTCGATGTTTCTGAGATCGATACTTTTTAAAACTGTAT
1 ATTACCTATTACATTATAATTATCGGTTTCGATGTTT-TGGGATCGATACTTTTTAAAA-TGTAT
103493 CGACACTTTATGAG
64 CGACACTTTATGAG
103507 AAACTTTAAG
Statistics
Matches: 710, Mismatches: 124, Indels: 85
0.77 0.13 0.09
Matches are distributed among these distances:
195 3 0.00
196 79 0.11
197 13 0.02
198 90 0.13
199 204 0.29
200 85 0.12
201 147 0.21
202 86 0.12
203 3 0.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (196 bp):
ATTACCTATTACATTATAATTATCGGTTTCGATGTTTTGGGATCGATACTTTTTAAAATGTATCG
ACACTTTATGAGTTCACCCTTTTGGGCATTCATTCTGACAAAAAGTATCGACACAACATTAAAAG
TGTCGACACATTATGTAAACCTATTCTCACATAAAATCGGTATATTTATACCGGTTATATTACAA
A
Found at i:103526 original size:15 final size:15
Alignment explanation
Indices: 103501--103543 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
103491 ATCGACACTT
103501 TATGAGAAACTTTAAG
1 TATG-GAAACTTTAAG
* *
103517 TTTGGAAACTTTATG
1 TATGGAAACTTTAAG
*
103532 TATGAAAACTTT
1 TATGGAAACTTT
103544 GTTATGGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 20 0.87
16 3 0.13
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (15 bp):
TATGGAAACTTTAAG
Found at i:103831 original size:25 final size:25
Alignment explanation
Indices: 103801--103853 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
103791 GTACACAAGA
*
103801 AATTTAAACATAATAATGTTCAAAT
1 AATTTAAACATAACAATGTTCAAAT
* *
103826 AATTTATACATAACAATGTTTAAAT
1 AATTTAAACATAACAATGTTCAAAT
103851 AAT
1 AAT
103854 GTACCTACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.38
Consensus pattern (25 bp):
AATTTAAACATAACAATGTTCAAAT
Found at i:104845 original size:6 final size:6
Alignment explanation
Indices: 104835--104880 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
104825 CTTGTTTGGA
* * * *
104835 TCATCA TCATCA TCATCT TCTTCT TCATCG TCATCT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCAT
104881 TGACCTCTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.20, C:0.33, G:0.02, T:0.46
Consensus pattern (6 bp):
TCATCT
Found at i:104868 original size:18 final size:18
Alignment explanation
Indices: 104835--104880 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
104825 CTTGTTTGGA
*
104835 TCATCATCATCATCATCT
1 TCATCTTCATCATCATCT
* *
104853 TCTTCTTCATCGTCATCT
1 TCATCTTCATCATCATCT
104871 TCATCTTCAT
1 TCATCTTCAT
104881 TGACCTCTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.33, G:0.02, T:0.46
Consensus pattern (18 bp):
TCATCTTCATCATCATCT
Found at i:106875 original size:200 final size:200
Alignment explanation
Indices: 106428--107532 Score: 1431
Period size: 200 Copynumber: 5.5 Consensus size: 200
106418 CTTATTTTCT
* * * *
106428 CATAAAACCGATATATTTATACCGGTTACATTGA-AAATTTACATATTACATTATAATTATCGGT
1 CATAAAACCGGTATATTTATACCGGTTATATT-ACAAAATTACATATTACATTATAATTATAGGT
* ** * * * * * *
106492 TTCGATGTTATTATGATCGACAGTTTTTAAAAATGTATCAACACTTTATGCGTGCA--ACTTTTG
65 TTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTG
* * * ** *
106555 G-ATTTCCTTCTAGACAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGT-TGTAGACC
130 GCA-TTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACAT-TATGTAGACC
106618 TATTCTCT-
193 TATTCT-TA
* * ** * * *
106626 CATAAAACCAGTAT-TGTTATACCGGTTACATTGTAAATTTACATATTACATTATATTTATGGGT
1 CATAAAACCGGTATAT-TTATACCGGTTATATTACAAAATTACATATTACATTATAATTATAGGT
* * * *
106690 TTCGATGTTTCTGGTATCAACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTT
65 TTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTG
* * *
106755 GAATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTATCGATATATTATGTAGACCTA
130 GCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTA
106820 TTCTTA
195 TTCTTA
** * **
106826 CATAAAACCGGTATATTTATATAGGTTATATTACAAAATTACCTATTACATTATAATTATTTGTT
1 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATAGGTT
* * *
106891 TCGATGTTTTTGGGATCAACACTTTTTATAAATGTATCGACACTTTATTCGTTTATCCTTTTTGG
66 TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGG
*
106956 CATTCATTCTGGACAAAAAGCATCGACACAAAATAAAAAA-TGTCGATACATTATGTAGACCTAT
131 CATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTAT
*
107020 TATTA
196 TCTTA
* * *
107025 CATAAAATCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATATGTT
1 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATAGGTT
* * * *
107090 TCTATGTTTTTGGGATCGACGCTTTTTTTAAATGTATCGACACTTTATTCGTTCTTCATTTTTGG
66 TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGG
* **
107155 CATTCATT-TCAGACAAAAAGTATCGACACAAAATAAAAAAGTGTTAATACATTATGTAGACCTA
131 CATTCATTCT-GGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTA
107219 TTCTTA
195 TTCTTA
* **
107225 CATAAAACCGGTATATTTATACCGATTATATTACAAAATTACATATTACATTATAATTATCTGTT
1 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATAGGTT
107290 TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGG
66 TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGG
* * * * *
107355 CATTCATTCTGGACAAAAAGTATCGACACAACATTAAAAAGTGTCGCTACATTATGTAAATCTAT
131 CATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTAT
*
107420 TCTCA
196 TCTTA
* * * *
107425 CATAAAATCGGTATATTTATACCAGTTATATTACAAAATTACCTATTACATTAT-ATATATAGAT
1 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACATATTACATTATAAT-TATAGGT
* * * *
107489 TTCAATGTTTCTAGGATCGGCACTTTTTA-AAACTGTATCGACAC
65 TTCGATGTTTTTGGGATCGACACTTTTTATAAA-TGTATCGACAC
107533 AAAATAAAAA
Statistics
Matches: 803, Mismatches: 91, Indels: 24
0.87 0.10 0.03
Matches are distributed among these distances:
197 1 0.00
198 102 0.13
199 188 0.23
200 509 0.63
201 3 0.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (200 bp):
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATAGGTT
TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGG
CATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTAT
TCTTA
Found at i:107142 original size:399 final size:399
Alignment explanation
Indices: 106428--107532 Score: 1476
Period size: 399 Copynumber: 2.8 Consensus size: 399
106418 CTTATTTTCT
* * * *
106428 CATAAAACCGATATATTTATACCGGTTACATTGA-AAATTTACATATTACATTATAATTATCGGT
1 CATAAAACCGGTATATTTATACCGGTTATATT-ACAAAATTACATATTACATTATAATTATCTGT
* ** * * * * * *
106492 TTCGATGTTATTATGATCGACAGTTTTTAAAAATGTATCAACACTTTATGCGTGCA-AC-TTTTG
65 TTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCCTTTTTG
* * * *
106555 G-ATTTCCTTCTAGACAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGT-TGTAGACC
130 GCA-TTCATTCTGGACAAAAAGTATCGACACAAATT-AAAAAGTGTCGATACAT-TATGTAGACC
* * * ** * *
106618 TATTCTCT-CATAAAACCAGTAT-TGTTATACCGGTTACATTGTAAATTTACATATTACATTATA
192 TATTCT-TACATAAAATCGGTATAT-TTATACCGGTTATATTACAAAATTACCTATTACATTATA
* ** * * * *
106681 TTTATGGGTTTCGATGTTTCTGGTATCAACACTTTTTATAAATGTATCGACACTTTATTCGTTCA
255 ATTATATGTTTCAATGTTTCTGGGATCGACACTTTTTTTAAATGTATCGACACTTTATTCGTTCA
* * * *
106746 TCATTTTTTGAATTCA-TTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTATCGATATATTA
320 TCATTTTTGGAATTCATTTC-AGACAAAAAGTATCGACACAAAATAAAAAAGTATCAATACATTA
106810 TGTAGACCTATTCTTA
384 TGTAGACCTATTCTTA
** * *
106826 CATAAAACCGGTATATTTATATAGGTTATATTACAAAATTACCTATTACATTATAATTATTTGTT
1 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATCTGTT
* *
106891 TCGATGTTTTTGGGATCAACACTTTTTATAAATGTATCGACACTTTATTCGTTTATCCTTTTTGG
66 TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCCTTTTTGG
* * *
106956 CATTCATTCTGGACAAAAAGCATCGACACAAAATAAAAAATGTCGATACATTATGTAGACCTATT
131 CATTCATTCTGGACAAAAAGTATCGACACAAATTAAAAAGTGTCGATACATTATGTAGACCTATT
*
107021 ATTACATAAAATCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATA
196 CTTACATAAAATCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATA
* * * *
107086 TGTTTCTATGTTTTTGGGATCGACGCTTTTTTTAAATGTATCGACACTTTATTCGTTCTTCATTT
261 TGTTTCAATGTTTCTGGGATCGACACTTTTTTTAAATGTATCGACACTTTATTCGTTCATCATTT
* * *
107151 TTGGCATTCATTTCAGACAAAAAGTATCGACACAAAATAAAAAAGTGTTAATACATTATGTAGAC
326 TTGGAATTCATTTCAGACAAAAAGTATCGACACAAAATAAAAAAGTATCAATACATTATGTAGAC
107216 CTATTCTTA
391 CTATTCTTA
*
107225 CATAAAACCGGTATATTTATACCGATTATATTACAAAATTACATATTACATTATAATTATCTGTT
1 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATCTGTT
*
107290 TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGG
66 TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCCTTTTTGG
* * *
107355 CATTCATTCTGGACAAAAAGTATCGACACAACATTAAAAAGTGTCGCTACATTATGTAAATCTAT
131 CATTCATTCTGGACAAAAAGTATCGACACAA-ATTAAAAAGTGTCGATACATTATGTAGACCTAT
* *
107420 TCTCACATAAAATCGGTATATTTATACCAGTTATATTACAAAATTACCTATTACATTAT-A-TAT
195 TCTTACATAAAATCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTAT
* * *
107483 ATAGATTTCAATGTTTCTAGGATCGGCAC-TTTTTAAAACTGTATCGACAC
260 AT-G-TTTCAATGTTTCTGGGATCGACACTTTTTTTAAA-TGTATCGACAC
107533 AAAATAAAAA
Statistics
Matches: 621, Mismatches: 74, Indels: 22
0.87 0.10 0.03
Matches are distributed among these distances:
397 1 0.00
398 107 0.17
399 360 0.58
400 152 0.24
401 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (399 bp):
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATCTGTT
TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCCTTTTTGG
CATTCATTCTGGACAAAAAGTATCGACACAAATTAAAAAGTGTCGATACATTATGTAGACCTATT
CTTACATAAAATCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATA
TGTTTCAATGTTTCTGGGATCGACACTTTTTTTAAATGTATCGACACTTTATTCGTTCATCATTT
TTGGAATTCATTTCAGACAAAAAGTATCGACACAAAATAAAAAAGTATCAATACATTATGTAGAC
CTATTCTTA
Found at i:107646 original size:149 final size:149
Alignment explanation
Indices: 107374--107681 Score: 399
Period size: 149 Copynumber: 2.1 Consensus size: 149
107364 TGGACAAAAA
* * * *
107374 GTATCGACACAACATTAAAAAGTGTCGCTACATTATGTAAATCTATTCTCACATAAAATCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAAATCTATTCTCACATAAAACCGGTAT
107439 ATTTATACCAGTTATATTACAAAATTACCTATTACATTATATATATAGATTTCAATGTTTCTAGG
66 ATTTATACCAGTTATATTACAAAATTACCTATTACATTATATATATAGATTTCAATGTTTCTAGG
*
107504 ATCGGCACTTTTTA-AAACT
131 ATCGACACTTTTTATAAA-T
* *
107523 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGA-CATATTCTCACATAAAACCGGTG
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAAATC-TATTCTCACATAAAACCGGTA
* * * * * ** *
107587 TATTTATATCGGTTATATTATAAAGTTACCTATTACATTATA-ATTATTTG-TTTTGATGTTTTT
65 TATTTATACCAGTTATATTACAAAATTACCTATTACATTATATA-TA-TAGATTTCAATGTTTCT
* *
107650 GGGATCGACACTTTTTATATAT
128 AGGATCGACACTTTTTATAAAT
107672 GTATCGACAC
1 GTATCGACAC
107682 TTTATTCGTT
Statistics
Matches: 138, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
148 2 0.01
149 132 0.96
150 4 0.03
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (149 bp):
GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAAATCTATTCTCACATAAAACCGGTAT
ATTTATACCAGTTATATTACAAAATTACCTATTACATTATATATATAGATTTCAATGTTTCTAGG
ATCGACACTTTTTATAAAT
Found at i:107813 original size:349 final size:349
Alignment explanation
Indices: 107174--107828 Score: 1114
Period size: 349 Copynumber: 1.9 Consensus size: 349
107164 CAGACAAAAA
* * *
107174 GTATCGACACAAAATAAAAAAGTGTTAATACATTATGTAGACCTATTCTTACATAAAACCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCAATACATTATGTAGACATATTCTCACATAAAACCGGTAT
107239 ATTTATACCGATTATATTACAAAATTACATATTACATTATAATTATCTGTTTCGATGTTTTTGGG
66 ATTTATACCGATTATATTACAAAATTACATATTACATTATAATTATCTGTTTCGATGTTTTTGGG
107304 ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
131 ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
* * * * *
107369 AAAAAGTATCGACACAACATTAAAAAGTGTCGCTACATTATGTAAATCTATTCTCACATAAAATC
196 AAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAAACCTATTCTCACATAAAACC
107434 GGTATATTTATACCAGTTATATTACAAAATTACCTATTACATTATATATATAGATTTCAATGTTT
261 GGTATATTTATACCAGTTATATTACAAAATTACCTATTACATTATATATATAGATTTCAATGTTT
107499 CTAGGATCGGCACTTTTTAAAACT
326 CTAGGATCGGCACTTTTTAAAACT
* *
107523 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACATATTCTCACATAAAACCGGTGT
1 GTATCGACACAAAATAAAAAAGTGTCAATACATTATGTAGACATATTCTCACATAAAACCGGTAT
* * * * * * *
107588 ATTTATATCGGTTATATTATAAAGTTACCTATTACATTATAATTATTTGTTTTGATGTTTTTGGG
66 ATTTATACCGATTATATTACAAAATTACATATTACATTATAATTATCTGTTTCGATGTTTTTGGG
*
107653 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
131 ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
*
107718 AAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
196 AAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAAACCTATTCTCACATAAAACC
*
107783 GGTATATTTATACC-GATTATATTACAAAATTACCTTTTACATTATA
261 GGTATATTTATACCAG-TTATATTACAAAATTACCTATTACATTATA
107829 ATTATCTGTT
Statistics
Matches: 285, Mismatches: 20, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
348 1 0.00
349 284 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (349 bp):
GTATCGACACAAAATAAAAAAGTGTCAATACATTATGTAGACATATTCTCACATAAAACCGGTAT
ATTTATACCGATTATATTACAAAATTACATATTACATTATAATTATCTGTTTCGATGTTTTTGGG
ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
AAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAAACCTATTCTCACATAAAACC
GGTATATTTATACCAGTTATATTACAAAATTACCTATTACATTATATATATAGATTTCAATGTTT
CTAGGATCGGCACTTTTTAAAACT
Found at i:107879 original size:21 final size:21
Alignment explanation
Indices: 107853--107904 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
107843 TATTTTTGGG
*
107853 ATCGACACGTTTTATAAATGT
1 ATCGACACATTTTATAAATGT
107874 ATCGACACATTTTATAAATGT
1 ATCGACACATTTTATAAATGT
107895 ATCGACACAT
1 ATCGACACAT
107905 ATGCTTACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (21 bp):
ATCGACACATTTTATAAATGT
Found at i:108189 original size:19 final size:19
Alignment explanation
Indices: 108165--108214 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
108155 ATTACATCCA
108165 TATACAAAATTATAAATCG
1 TATACAAAATTATAAATCG
*
108184 TATACAAAATTATAAATCT
1 TATACAAAATTATAAATCG
108203 TATACAAAATTA
1 TATACAAAATTA
108215 ACTCTACATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (19 bp):
TATACAAAATTATAAATCG
Found at i:109758 original size:18 final size:18
Alignment explanation
Indices: 109723--109830 Score: 150
Period size: 18 Copynumber: 6.2 Consensus size: 18
109713 TCCTCCTCAT
* *
109723 TTCCTCCATCTTTCCTTC
1 TTCCTCCCTCTTTTCTTC
*
109741 TTCATCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
*
109759 TTCCTCTCTCTTTT-TTC
1 TTCCTCCCTCTTTTCTTC
109776 TTCCTCCCTCTTTT-TT-
1 TTCCTCCCTCTTTTCTTC
109792 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
*
109810 TTCCTCCCTCTTTTATTC
1 TTCCTCCCTCTTTTCTTC
109828 TTC
1 TTC
109831 ATATTGTTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.17
17 20 0.25
18 47 0.58
ACGTcount: A:0.03, C:0.40, G:0.00, T:0.57
Consensus pattern (18 bp):
TTCCTCCCTCTTTTCTTC
Found at i:110108 original size:21 final size:21
Alignment explanation
Indices: 110083--110123 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
110073 CATTATGCCT
110083 CTCAAGTGTATCTTCGACTCC
1 CTCAAGTGTATCTTCGACTCC
* *
110104 CTCAAGTTTCTCTTCGACTC
1 CTCAAGTGTATCTTCGACTC
110124 TTGATTGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.34, G:0.12, T:0.37
Consensus pattern (21 bp):
CTCAAGTGTATCTTCGACTCC
Found at i:110226 original size:15 final size:15
Alignment explanation
Indices: 110206--110238 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
110196 ACTCTATTTT
110206 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
*
110221 CCCTCACTGTCATCC
1 CCCTCACCGTCATCC
110236 CCC
1 CCC
110239 AATACAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.61, G:0.06, T:0.21
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:112910 original size:181 final size:183
Alignment explanation
Indices: 112501--113353 Score: 1191
Period size: 181 Copynumber: 4.7 Consensus size: 183
112491 AACACGTACT
* * * * * *
112501 TATTAAAGTATCGACACTTTCATTATA-TCCGGTAGCGCTTTACTGGTTTTGTCTTTTCGAGATC
1 TATTAAAGTATCGACACTTGCAATATATTCTGGTAGCGCTTTACCGGTTTTGTCTTTTCGTGACC
* * * * * * *
112565 GGCTTTATCATATTTTTACATGTTATATCGTTATGGAACGATACATTTTTATTAAGTATCGACAC
66 GGTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACAC
* * *
112630 TTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGACGATACTTA
131 TTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * *
112683 TATTAAATTATCGACACTTACAATATA-TCTGGTAGCGCTTTACCGGTTTTGTCTTTTCGAGATC
1 TATTAAAGTATCGACACTTGCAATATATTCTGGTAGCGCTTTACCGGTTTTGTCTTTTCGTGACC
* * * *
112747 GGCTTTATTATATTTTTACATGTTATATCGTTCTGGATCGATACATATTTATAAAGAATCGACAC
66 GGTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACAC
*
112812 TTTATA-GCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCTATACTTA
131 TTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * * *
112864 TATTAAAGTATCGACACTTGCAATATATTC-GTTATCTCTTTACCGGTTTTGTATTTTCCTGACC
1 TATTAAAGTATCGACACTTGCAATATATTCTGGTAGCGCTTTACCGGTTTTGTCTTTTCGTGACC
* *
112928 GGTTTTGTCATATTTTTACCTGTTGTATCGTTGTGGATCGATACATATTTATAAAGAATCGACAC
66 GGTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACAC
*
112993 TTTATA-GCGCTAAAATTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
131 TTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * *
113045 TATTAAAGTATCGACACTTGCAATATATTC-AGTATCTCTTTACCGGTTTTGTCTTTTCCTGACC
1 TATTAAAGTATCGACACTTGCAATATATTCTGGTAGCGCTTTACCGGTTTTGTCTTTTCGTGACC
113109 GGTTTTGTCATATTTTTAC-TGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACAC
66 GGTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACAC
* * * *
113173 TTTATAGGTGTTAAAACTGCTTTTCCTTTAAATTCACTATGTGTCGATACTTA
131 TTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * *
113226 TATTAAAGTATCGACACGTGTAATATA-TCTGGTAGCGCTTTACCGGTTTTGTCTTTTCGTGACT
1 TATTAAAGTATCGACACTTGCAATATATTCTGGTAGCGCTTTACCGGTTTTGTCTTTTCGTGACC
* * * * * * *
113290 GGTTTTGTCATATTTTTTCCTGTTATATTGATGTGGATCAATACATTTTTATAAAGTATCGACA
66 GGTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACA
113354 TAAACCGACA
Statistics
Matches: 613, Mismatches: 54, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
180 52 0.08
181 396 0.65
182 165 0.27
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (183 bp):
TATTAAAGTATCGACACTTGCAATATATTCTGGTAGCGCTTTACCGGTTTTGTCTTTTCGTGACC
GGTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACAC
TTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
Found at i:113483 original size:57 final size:57
Alignment explanation
Indices: 113422--113537 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
113412 GACCTACTAC
* * *
113422 ATTATTATTACTCAACATTTTCGGTAGCGCTAAATCGAATTTATTAAATATATTTTA
1 ATTATTATTACTCAACATTTTCGATAGCGCTAAACCGAATTTATTAAATATATTGTA
113479 ATTATTATTACTCAACATTTTCGATAGCGCTAAACCGAATTTATTAAATATATTGTA
1 ATTATTATTACTCAACATTTTCGATAGCGCTAAACCGAATTTATTAAATATATTGTA
113536 AT
1 AT
113538 GAATCTGGTA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (57 bp):
ATTATTATTACTCAACATTTTCGATAGCGCTAAACCGAATTTATTAAATATATTGTA
Found at i:121000 original size:21 final size:21
Alignment explanation
Indices: 120966--121016 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
120956 ATTATGACTA
*
120966 TCGCAATGCGATTTTT-CAATT
1 TCGCAATGCAATTTTTCCAA-T
*
120987 TCGCATTGCAATTTTTCCAAT
1 TCGCAATGCAATTTTTCCAAT
121008 TCGCAATGC
1 TCGCAATGC
121017 GAATAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.39
Consensus pattern (21 bp):
TCGCAATGCAATTTTTCCAAT
Found at i:121032 original size:19 final size:21
Alignment explanation
Indices: 121008--121058 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
120998 TTTTTCCAAT
121008 TCGCAATGCGAA-TAAG-AAA
1 TCGCAATGCGAATTAAGAAAA
* **
121027 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
121048 TCGCAATGCGA
1 TCGCAATGCGA
121059 TACTGACTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 11 0.42
20 2 0.08
21 13 0.50
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:121072 original size:20 final size:20
Alignment explanation
Indices: 121047--121141 Score: 111
Period size: 20 Copynumber: 4.7 Consensus size: 20
121037 AATTGGGAAA
*
121047 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
121067 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
121088 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
121108 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
121128 TTCGCAACGAGATA
1 ATCGCAACGCGATA
121142 ATACATAATC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
19 2 0.03
20 46 0.71
21 15 0.23
22 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:121077 original size:41 final size:41
Alignment explanation
Indices: 121044--121121 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
121034 GCGAATTGGG
*
121044 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
*
121085 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATA
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATA
121122 CTGACTTTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:121155 original size:21 final size:20
Alignment explanation
Indices: 121047--121161 Score: 99
Period size: 20 Copynumber: 5.7 Consensus size: 20
121037 AATTGGGAAA
* *
121047 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATAATGACT
*
121067 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATAATGAC--T
*
121088 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATAATGACT
* *
121108 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATAATGACT
* *
121128 TTCGCAACGAGATAAT-ACAT
1 ATCGCAACGCGATAATGAC-T
*
121148 AATCGCAATGCGAT
1 -ATCGCAACGCGAT
121162 TTTCAAAGCG
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.05
20 48 0.61
21 25 0.32
22 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATAATGACT
Found at i:121348 original size:22 final size:22
Alignment explanation
Indices: 121320--121363 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
121310 CCATCTCTCA
121320 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
121342 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
121364 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:121652 original size:20 final size:20
Alignment explanation
Indices: 121627--121664 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
121617 TTATTCTCTC
121627 GTTGCGATTGTCATTTTCGT
1 GTTGCGATTGTCATTTTCGT
*
121647 GTTGCGATTTTCATTTTC
1 GTTGCGATTGTCATTTTC
121665 AAAAACTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.11, C:0.16, G:0.21, T:0.53
Consensus pattern (20 bp):
GTTGCGATTGTCATTTTCGT
Found at i:122980 original size:17 final size:18
Alignment explanation
Indices: 122955--123001 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
122945 CCTCCACTGG
122955 GAGCCATCACCTCA-CCA
1 GAGCCATCACCTCACCCA
*
122972 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
122990 GAGCCATCACCT
1 GAGCCATCACCT
123002 GATCGACCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.28, C:0.45, G:0.13, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:123384 original size:48 final size:48
Alignment explanation
Indices: 123313--123410 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
123303 CTCTAAGCAA
123313 CGAGGTAAGTTTAAGATTTTTCATATTTAACTTGATGATAAATTTACT
1 CGAGGTAAGTTTAAGATTTTTCATATTTAACTTGATGATAAATTTACT
123361 CGAGGTAAGTTTAAGATTTTTCATATTTAACTTGATGATAAATTTACT
1 CGAGGTAAGTTTAAGATTTTTCATATTTAACTTGATGATAAATTTACT
123409 CG
1 CG
123411 TAATTTCACT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (48 bp):
CGAGGTAAGTTTAAGATTTTTCATATTTAACTTGATGATAAATTTACT
Found at i:123636 original size:19 final size:20
Alignment explanation
Indices: 123582--123648 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
123572 ATAGTTTATT
* *
123582 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
123602 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
123622 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
123641 TCGCAACG
1 TCGCAACG
123649 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:123675 original size:19 final size:19
Alignment explanation
Indices: 123621--123703 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
123611 GGAAATGGCT
123621 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
123640 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
123654 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
123673 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
123692 ATCGCAATGCGA
1 ATCGCAATGCGA
123704 TTTGTGTTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 39 0.71
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:123734 original size:14 final size:14
Alignment explanation
Indices: 123715--123773 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
123705 TTGTGTTTCG
123715 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
123729 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
123746 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
123762 CGTTACGATTTT
1 CGTTGCGATTTT
123774 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 17 0.46
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:123747 original size:33 final size:33
Alignment explanation
Indices: 123710--123789 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
123700 GCGATTTGTG
* *
123710 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTACGATTTTCA
123743 TTTCGCATTGCGATTTTGTCGTTACGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTACGATTTTCA
123776 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
123790 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTACGATTTTCA
Found at i:123804 original size:20 final size:19
Alignment explanation
Indices: 123774--123828 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
123764 TTACGATTTT
123774 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
*
123793 CATTTCCGCATTGCGATAGT
1 CATTT-CGCATTGCGATAGC
*
123813 CATTTTCGCGTTGCGA
1 CA-TTTCGCATTGCGA
123829 AAGTAAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 5 0.16
20 24 0.75
21 3 0.09
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:123839 original size:20 final size:20
Alignment explanation
Indices: 123816--123854 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
123806 CGATAGTCAT
123816 TTTCGCGTTGCGAAAGTAAG
1 TTTCGCGTTGCGAAAGTAAG
*
123836 TTTCGTGTTGCGAAAGTAA
1 TTTCGCGTTGCGAAAGTAA
123855 ACTATTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (20 bp):
TTTCGCGTTGCGAAAGTAAG
Found at i:124279 original size:21 final size:21
Alignment explanation
Indices: 124255--124321 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
124245 TCATTCCTCG
124255 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
124276 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
124297 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
124318 AGAG
1 AGAG
124322 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:124279 original size:42 final size:41
Alignment explanation
Indices: 124208--124321 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 41
124198 GCCTGTTATC
* * * * * *
124208 CCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATT
1 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCA-T
*
124250 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCAT
1 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCAT
* * *
124291 CGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 CCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
124322 CCCGATTCAC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.07
42 54 0.90
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (41 bp):
CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCAT
Found at i:125709 original size:14 final size:14
Alignment explanation
Indices: 125667--125703 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
125657 GATTGTTTAA
125667 TTGATTTGTAAAAT
1 TTGATTTGTAAAAT
*
125681 ATGATTTGTAAAAT
1 TTGATTTGTAAAAT
125695 TTGATTTGT
1 TTGATTTGT
125704 TTAATTGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (14 bp):
TTGATTTGTAAAAT
Found at i:125847 original size:14 final size:14
Alignment explanation
Indices: 125828--125882 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
125818 ACGAAATGAA
125828 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
125842 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
125861 AATCGCAACGAGAG
1 AATCGCAACGAGAG
125875 AATCGCAA
1 AATCGCAA
125883 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:125866 original size:19 final size:18
Alignment explanation
Indices: 125810--125902 Score: 76
Period size: 19 Copynumber: 5.4 Consensus size: 18
125800 AAAAATGACT
125810 ATCGCAACACGAAATGAAA
1 ATCGCAAC-CGAAATGAAA
*
125829 ATCGCAA-CG--A-GAGA
1 ATCGCAACCGAAATGAAA
125843 ATCGCAACGCGAAATGAAA
1 ATCGCAAC-CGAAATGAAA
*
125862 ATCGCAA-CG--A-GAGA
1 ATCGCAACCGAAATGAAA
*
125876 ATCGCAATGCGAAATGAAA
1 ATCGCAA-CCGAAATGAAA
125895 ATCGCAAC
1 ATCGCAAC
125903 AAGGGAATCG
Statistics
Matches: 59, Mismatches: 5, Indels: 21
0.69 0.06 0.25
Matches are distributed among these distances:
14 20 0.34
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 27 0.46
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (18 bp):
ATCGCAACCGAAATGAAA
Found at i:125933 original size:33 final size:33
Alignment explanation
Indices: 125810--125922 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
125800 AAAAATGACT
*
125810 ATCGCAACACGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
125843 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* * *
125876 ATCGCAATGCGAAATGAAAATCGCAACAAGGGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
125909 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
125923 CTAAATTCGC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:125950 original size:19 final size:18
Alignment explanation
Indices: 125928--126078 Score: 83
Period size: 19 Copynumber: 8.7 Consensus size: 18
125918 CGAAACTAAA
125928 TTCGCATTGCGATTTTCAT
1 TTCGC-TTGCGATTTTCAT
*
125947 TTCGCTTTGCGA--TTC-C
1 TTCGC-TTGCGATTTTCAT
*
125963 CTCG-TTGCGATTTTCAT
1 TTCGCTTGCGATTTTCAT
**
125980 TTCATATTGCGA--TTC-T
1 TTC-GCTTGCGATTTTCAT
*
125996 CTCG-TTGCGATTTTCAT
1 TTCGCTTGCGATTTTCAT
126013 TTCGCGTTGCGA--TTC-T
1 TTCGC-TTGCGATTTTCAT
*
126029 CTCG-TTGCGATTTTCAT
1 TTCGCTTGCGATTTTCAT
**
126046 TTCGCATTGCGATAGTCAT
1 TTCGC-TTGCGATTTTCAT
126065 TTCCGCGTTGCGAT
1 TT-CGC-TTGCGAT
126079 AGACATTAAG
Statistics
Matches: 102, Mismatches: 14, Indels: 31
0.69 0.10 0.21
Matches are distributed among these distances:
14 18 0.18
16 19 0.19
17 19 0.19
19 36 0.35
20 10 0.10
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (18 bp):
TTCGCTTGCGATTTTCAT
Found at i:125976 original size:33 final size:33
Alignment explanation
Indices: 125934--126058 Score: 198
Period size: 33 Copynumber: 3.8 Consensus size: 33
125924 TAAATTCGCA
*
125934 TTGCGATTTTCATTTCGCTTTGCGATTCCCTCG
1 TTGCGATTTTCATTTCGCTTTGCGATTCTCTCG
*
125967 TTGCGATTTTCATTTC-ATATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCT-TTGCGATTCTCTCG
*
126000 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCTTTGCGATTCTCTCG
*
126033 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCTTTGCGAT
126059 AGTCATTTCC
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
32 1 0.01
33 84 0.99
ACGTcount: A:0.12, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCTTTGCGATTCTCTCG
Found at i:126005 original size:14 final size:14
Alignment explanation
Indices: 125986--126040 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
125976 TCATTTCATA
125986 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
126000 TTGCGATTTTCATTTCGCG
1 TTGCGA--TTC---TCTCG
126019 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
126033 TTGCGATT
1 TTGCGATT
126041 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.24, G:0.22, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:126077 original size:20 final size:20
Alignment explanation
Indices: 126031--126124 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
126021 GCGATTCTCT
**
126031 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
*
126050 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* **
126070 CGTTGCGATAGACA-TTAAG
1 CGTTGCGATAGTCATTTCCG
*
126089 ATGATTGCGA-ACGTCATTTCCG
1 -CG-TTGCGATA-GTCATTTCCG
*
126111 TGTTGCGATAGTCA
1 CGTTGCGATAGTCA
126125 AATGATTGCC
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
19 17 0.29
20 26 0.45
21 12 0.21
22 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:129106 original size:64 final size:63
Alignment explanation
Indices: 129021--129181 Score: 182
Period size: 64 Copynumber: 2.5 Consensus size: 63
129011 TTGTTTAAGG
* * * *
129021 TGCATCGATGCACATGCAGTGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAAGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAAGATTTA
* * * *
129085 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAAGATTTA
*
129149 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
129182 ACCTTCATTA
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
63 1 0.01
64 61 0.73
65 21 0.25
66 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAAGATTTA
Found at i:130437 original size:31 final size:31
Alignment explanation
Indices: 130343--130450 Score: 103
Period size: 31 Copynumber: 3.5 Consensus size: 31
130333 AGTCGAGGGT
* *
130343 TTTACCTATG-TCTTTCGAGACATATGGACAG
1 TTTACCTAGGTTCTTT-GGGACATATGGACAG
* * ** *
130374 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
130405 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
* *
130436 -TTGCCGAGGTTCTTT
1 TTTACCTAGGTTCTTT
130451 ATGACCTCTG
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
30 13 0.21
31 47 0.75
32 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTGGGACATATGGACAG
Found at i:130448 original size:30 final size:30
Alignment explanation
Indices: 130396--130491 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
130386 CTAAGGAACA
* *
130396 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAG-TTACCGAGGTTCTTTGTGACC
* *
130427 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTGTGACC
* * *
130457 TCTGGATAGTTACCG-GGGTCTTTGTGACC
1 TATGGACAGTTACCGAGGTTCTTTGTGACC
*
130486 TCTGGA
1 TATGGA
130492 TAGGTCCTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 18 0.32
30 29 0.52
31 9 0.16
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTGTGACC
Found at i:131495 original size:24 final size:24
Alignment explanation
Indices: 131461--131514 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
131451 CTGAAACATC
*
131461 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
131485 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
131509 ATCAAA
1 ATCAAA
131515 TTTGAATACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:132333 original size:40 final size:40
Alignment explanation
Indices: 132228--132363 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 40
132218 AACTTTGAAA
* * *
132228 ATCGCATTGCGATTATGTATTATCTCGTTACGATAGTCAGA
1 ATCGCATTGCGATT-TGTATTATCGCGTTGCGATAGTCAGT
* * ** ** *
132269 ATCTCGTTGCGA-AAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTGT-ATTATCGCGTTGCGATAGTCAGT
*
132309 ATCGCGTTGCGATTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTTGTATTATCGCGTTGCGATAGTCAGT
*
132349 ATCGCATTGCAATTT
1 ATCGCATTGCGATTT
132364 TCCAAATTCG
Statistics
Matches: 75, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
39 2 0.03
40 61 0.81
41 12 0.16
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (40 bp):
ATCGCATTGCGATTTGTATTATCGCGTTGCGATAGTCAGT
Found at i:132351 original size:20 final size:20
Alignment explanation
Indices: 132248--132358 Score: 116
Period size: 20 Copynumber: 5.5 Consensus size: 20
132238 GATTATGTAT
* *
132248 TATCTCGTTACGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
132268 AATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
132288 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
132308 TATCGCGTTGCGATTTGT-AT
1 TATCGCGTTGCGA-TAGTCAG
132328 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
132348 TATCGCATTGC
1 TATCGCGTTGC
132359 AATTTTCCAA
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.04
20 73 0.94
21 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:132518 original size:13 final size:13
Alignment explanation
Indices: 132500--132528 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
132490 AATGGAGATC
132500 GCGTTGCGAATTA
1 GCGTTGCGAATTA
132513 GCGTTGCGAATTA
1 GCGTTGCGAATTA
132526 GCG
1 GCG
132529 ATCGCATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (13 bp):
GCGTTGCGAATTA
Found at i:134944 original size:2 final size:2
Alignment explanation
Indices: 134937--134989 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
134927 CCCGTCGGAT
134937 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
134979 TA TA TA TA TA T
1 TA TA TA TA TA T
134990 TTATCAAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:135354 original size:83 final size:85
Alignment explanation
Indices: 135243--135407 Score: 307
Period size: 85 Copynumber: 2.0 Consensus size: 85
135233 CGCGATCCGC
*
135243 AAATCTATTTATTAACTAAATTATAATTAAAGCAT-GATTTACCA-TTGTTGATTATTTAGTATT
1 AAATCTATTTATTAACTAAATTAAAATTAAAGCATGGATTTACCATTTGTTGATTATTTAGTATT
135306 ATATTTAATTTGCGAACGCA
66 ATATTTAATTTGCGAACGCA
135326 AAATCTATTTATTAACTAAATTAAAATTAAAGCATGGATTTACCATTTGTTGATTATTTAGTATT
1 AAATCTATTTATTAACTAAATTAAAATTAAAGCATGGATTTACCATTTGTTGATTATTTAGTATT
135391 ATATTTAATTTGCGAAC
66 ATATTTAATTTGCGAAC
135408 TTTCTTGTTA
Statistics
Matches: 79, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
83 34 0.43
84 9 0.11
85 36 0.46
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.44
Consensus pattern (85 bp):
AAATCTATTTATTAACTAAATTAAAATTAAAGCATGGATTTACCATTTGTTGATTATTTAGTATT
ATATTTAATTTGCGAACGCA
Found at i:137298 original size:30 final size:27
Alignment explanation
Indices: 137238--137305 Score: 73
Period size: 30 Copynumber: 2.4 Consensus size: 27
137228 ACTATATAAA
*
137238 TATAATTTAATCTAAAAATAATAAATT
1 TATAATTTAATCTAAAAATAATAAAGT
* *
137265 TATAGTTTAATCTTTAAAATATTATAAAGT
1 TATAATTTAATC--TAAAA-ATAATAAAGT
*
137295 TATAAATTAAT
1 TATAATTTAAT
137306 ATAATAGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 11 0.33
29 5 0.15
30 17 0.52
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (27 bp):
TATAATTTAATCTAAAAATAATAAAGT
Found at i:140052 original size:41 final size:41
Alignment explanation
Indices: 140007--140095 Score: 160
Period size: 41 Copynumber: 2.2 Consensus size: 41
139997 GTGTAATAAC
140007 AATTATAATGTTAATGAATAACATATAAACAATATCACTAA
1 AATTATAATGTTAATGAATAACATATAAACAATATCACTAA
*
140048 AATTATAATGTTAATGAATAACATATAAACCATATCACTAA
1 AATTATAATGTTAATGAATAACATATAAACAATATCACTAA
*
140089 AAGTATA
1 AATTATA
140096 TCAAATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (41 bp):
AATTATAATGTTAATGAATAACATATAAACAATATCACTAA
Found at i:140342 original size:13 final size:13
Alignment explanation
Indices: 140324--140376 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
140314 ATTGGTATGA
140324 TAAAATTTTATAG
1 TAAAATTTTATAG
140337 TAAAATTTTATAG
1 TAAAATTTTATAG
** *
140350 TAAATAGATTAGA-
1 TAAA-ATTTTATAG
140363 TAAAATTTTATAG
1 TAAAATTTTATAG
140376 T
1 T
140377 TTCATAGTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 5 0.16
13 22 0.69
14 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.43
Consensus pattern (13 bp):
TAAAATTTTATAG
Found at i:142673 original size:65 final size:65
Alignment explanation
Indices: 142604--142759 Score: 187
Period size: 65 Copynumber: 2.4 Consensus size: 65
142594 AAATAATAAG
* * *
142604 TAAATAAATCAAAGGAAAAAGA-AAAGAAAATAAAATAAAATAAGA-AAATGAAAAA-TATTAAA
1 TAAATAAATCAAAGGAAAAAAATAAAG-AAA-AAAATAAAATAA-ATAAAAGAAAAACT-GTAAA
142666 -TAT
62 TTAT
* *
142669 TAAATAAATCAAAATGAAAAAAATAAAGTAAAAAATAAAATAAATAAAAGAAAAACTGTAAATTA
1 TAAATAAATC-AAAGGAAAAAAATAAAGAAAAAAATAAAATAAATAAAAGAAAAACTGTAAATTA
142734 T
65 T
142735 TAAATAAATCAAA-GAAAAAAATAAA
1 TAAATAAATCAAAGGAAAAAAATAAA
142760 ATGAAAGAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
64 13 0.16
65 38 0.47
66 26 0.32
67 4 0.05
ACGTcount: A:0.71, C:0.03, G:0.07, T:0.19
Consensus pattern (65 bp):
TAAATAAATCAAAGGAAAAAAATAAAGAAAAAAATAAAATAAATAAAAGAAAAACTGTAAATTAT
Found at i:142703 original size:12 final size:12
Alignment explanation
Indices: 142630--142712 Score: 58
Period size: 12 Copynumber: 6.1 Consensus size: 12
142620 AAAAGAAAAG
142630 AAAATAAAATAA
1 AAAATAAAATAA
*
142642 AATAAGAAAATGAA
1 AA-AATAAAAT-AA
142656 AAATATTAAATATTAA
1 AAA-A-TAAA-A-TAA
142672 ATAAATCAAAATGAAA
1 A-AAAT-AAAAT--AA
*
142688 AAAATAAAGTAA
1 AAAATAAAATAA
142700 AAAATAAAATAA
1 AAAATAAAATAA
142712 A
1 A
142713 TAAAAGAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
12 16 0.28
13 8 0.14
14 10 0.18
15 9 0.16
16 11 0.19
17 3 0.05
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.20
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:142705 original size:31 final size:31
Alignment explanation
Indices: 142648--142707 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
142638 ATAAAATAAG
* **
142648 AAAATGAAAAATATTAAATATTAAATAAATC
1 AAAATGAAAAATAATAAATAAAAAATAAATC
142679 AAAATGAAAAA-AATAAAGTAAAAAATAAA
1 AAAATGAAAAATAATAAA-TAAAAAATAAA
142708 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.22
Consensus pattern (31 bp):
AAAATGAAAAATAATAAATAAAAAATAAATC
Found at i:142758 original size:17 final size:18
Alignment explanation
Indices: 142736--142770 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
142726 GTAAATTATT
142736 AAAT-AAATCAAAGAAAA
1 AAATAAAATCAAAGAAAA
*
142753 AAATAAAATGAAAGAAAA
1 AAATAAAATCAAAGAAAA
142771 TGAAAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.77, C:0.03, G:0.09, T:0.11
Consensus pattern (18 bp):
AAATAAAATCAAAGAAAA
Found at i:142772 original size:10 final size:10
Alignment explanation
Indices: 142740--142780 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
142730 ATTATTAAAT
*
142740 AAATCAAAGA
1 AAATGAAAGA
*
142750 AAA--AAATA
1 AAATGAAAGA
142758 AAATGAAAGA
1 AAATGAAAGA
142768 AAATGAAAGA
1 AAATGAAAGA
142778 AAA
1 AAA
142781 AATGTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 7 0.26
10 20 0.74
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (10 bp):
AAATGAAAGA
Found at i:142791 original size:66 final size:65
Alignment explanation
Indices: 142604--142806 Score: 170
Period size: 66 Copynumber: 3.1 Consensus size: 65
142594 AAATAATAAG
* * * *
142604 TAAATAAATC-AAAGGAAAAAGA-AAAGAAAATAAAATAAAATAAGA-AAATGAAAAA-TATTAA
1 TAAATAAATCAAAATGAAAAAAATAAAG-AAA-AAAATAAAAGAA-ATAAAAGAAAAACTA-TAA
142665 ATAT
62 ATAT
* * *
142669 TAAATAAATCAAAATGAAAAAAATAAAGTAAAAAATAAAATAAATAAAAGAAAAACTGTAAATTA
1 TAAATAAATCAAAATGAAAAAAATAAAGAAAAAAATAAAAGAAATAAAAGAAAAACTATAAA-TA
142734 T
65 T
* * **
142735 TAAATAAATC-AAA-GAAAAAAATAAAATGAAAGAAAATGAAAGAAA-AAATGTTAAACTATAAA
1 TAAATAAATCAAAATGAAAAAAAT-AAA-GAAA-AAAATAAAAGAAATAAAAGAAAAACTATAAA
*
142797 -AG
63 TAT
142799 TAAATAAA
1 TAAATAAA
142807 ATAAAATAAT
Statistics
Matches: 117, Mismatches: 13, Indels: 17
0.80 0.09 0.12
Matches are distributed among these distances:
64 19 0.16
65 41 0.35
66 42 0.36
67 15 0.13
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.19
Consensus pattern (65 bp):
TAAATAAATCAAAATGAAAAAAATAAAGAAAAAAATAAAAGAAATAAAAGAAAAACTATAAATAT
Found at i:143989 original size:12 final size:12
Alignment explanation
Indices: 143945--143999 Score: 65
Period size: 13 Copynumber: 4.3 Consensus size: 12
143935 TTTGGGACCT
*
143945 AAAACAAAAATA
1 AAAATAAAAATA
*
143957 TAAAAGAAATAATA
1 -AAAATAAA-AATA
143971 AATAATAAAAATA
1 AA-AATAAAAATA
143984 AAAATAAAAATA
1 AAAATAAAAATA
143996 AAAA
1 AAAA
144000 ATATAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
12 14 0.37
13 15 0.39
14 9 0.24
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:144000 original size:7 final size:7
Alignment explanation
Indices: 143950--144017 Score: 54
Period size: 7 Copynumber: 10.1 Consensus size: 7
143940 GACCTAAAAC
143950 AAAAATA
1 AAAAATA
* *
143957 TAAAAGA
1 AAAAATA
*
143964 AATAATA
1 AAAAATA
*
143971 AATAAT-
1 AAAAATA
143977 AAAAAT-
1 AAAAATA
143983 AAAAAT-
1 AAAAATA
143989 AAAAATA
1 AAAAATA
143996 AAAAATA
1 AAAAATA
144003 TAAAAA-A
1 -AAAAATA
*
144010 ATAAATA
1 AAAAATA
144017 A
1 A
144018 TATTAATATA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
6 21 0.41
7 25 0.49
8 5 0.10
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.19
Consensus pattern (7 bp):
AAAAATA
Found at i:144019 original size:7 final size:6
Alignment explanation
Indices: 143945--143999 Score: 65
Period size: 6 Copynumber: 8.7 Consensus size: 6
143935 TTTGGGACCT
* *
143945 AAAACA AAAATA TAAAAGA AATAATA AATAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA -AAAATA AA-AATA AA-AATA AAAATA AAAATA AAAATA
143996 AAAA
1 AAAA
144000 ATATAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
6 27 0.61
7 17 0.39
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:144216 original size:39 final size:38
Alignment explanation
Indices: 144033--144399 Score: 402
Period size: 39 Copynumber: 9.8 Consensus size: 38
144023 ATATAATATA
*
144033 AAAATCATTTTT-AAAACTATATATTATAT-T-TTTTTA
1 AAAAT-ATTTTTAAAAACTATATATTATATATATTTTTC
* * *
144069 AAAAT-TGTTTTCAAAACCATATAATATATATA-TTTTC
1 AAAATAT-TTTTAAAAACTATATATTATATATATTTTTC
*
144106 AAAAATAGTTTTT-AAAAC--TATA-TA-ATATA-CTTTC
1 -AAAATA-TTTTTAAAAACTATATATTATATATATTTTTC
** *
144140 AAAAATATTTTCCAAAATTATATATTATATATA-TTTTC
1 -AAAATATTTTTAAAAACTATATATTATATATATTTTTC
144178 AAAATATTTTTAAAAACTATATATTATATATATTTTTTC
1 AAAATATTTTTAAAAACTATATATTATATATA-TTTTTC
* *
144217 AAAATGTTTTCAAAAACTATATATTATATATATGTTTTC
1 AAAATATTTTTAAAAACTATATATTATATATAT-TTTTC
* **
144256 AAAATATTTTT-CAAACTATATATTATATATATTTTAA
1 AAAATATTTTTAAAAACTATATATTATATATATTTTTC
** *
144293 AAAATATTTTCCAAAACTATATATTATACATA-TTTTC
1 AAAATATTTTTAAAAACTATATATTATATATATTTTTC
*
144330 AAAATATTTTTAAAAACTATATATTATATATATATATTC
1 AAAATATTTTTAAAAACTATATATTATATATAT-TTTTC
*
144369 AAAATATTTTCAAAAACTATATATTATATAT
1 AAAATATTTTTAAAAACTATATATTATATAT
144400 GTTTCAAAAA
Statistics
Matches: 286, Mismatches: 27, Indels: 33
0.83 0.08 0.10
Matches are distributed among these distances:
33 4 0.01
34 21 0.07
35 6 0.02
36 28 0.10
37 81 0.28
38 58 0.20
39 87 0.30
40 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.46
Consensus pattern (38 bp):
AAAATATTTTTAAAAACTATATATTATATATATTTTTC
Found at i:144319 original size:152 final size:150
Alignment explanation
Indices: 144033--144399 Score: 518
Period size: 152 Copynumber: 2.5 Consensus size: 150
144023 ATATAATATA
* *
144033 AAAATCATTTTT-AAAACTATATA-T-TATAT-TTTTTTAAAAATTGTTTTC-AAAACCATATA-
1 AAAAT-ATTTTTAAAAACTATATATTATATATATTTTTTCAAAA-TGTTTTCAAAAACTATATAT
*
144092 -ATATATATATTTTCAAAAATAGTTTTTAAAACTATATAATATACTTTCAAAAATATTTTCCAAA
64 TATATATATATTTTCAAAAATAGTTTTTAAAACTATATAATATACTTTAAAAAATATTTTCCAAA
* *
144156 ATTATATATTATATATATTTTC
129 ACTATATATTATACATATTTTC
144178 AAAATATTTTTAAAAACTATATATTATATATATTTTTTCAAAATGTTTTCAAAAACTATATATTA
1 AAAATATTTTTAAAAACTATATATTATATATATTTTTTCAAAATGTTTTCAAAAACTATATATTA
* * *
144243 TATATATGTTTTC-AAAATA-TTTTTCAAACTATATATTATATATATTTTAAAAAATATTTTCCA
66 TATATATATTTTCAAAAATAGTTTTTAAAAC--TATA-TA-ATATACTTTAAAAAATATTTTCCA
144306 AAACTATATATTATACATATTTTC
127 AAACTATATATTATACATATTTTC
* * *
144330 AAAATATTTTTAAAAACTATATATTATATATATATATTCAAAATATTTTCAAAAACTATATATTA
1 AAAATATTTTTAAAAACTATATATTATATATATTTTTTCAAAATGTTTTCAAAAACTATATATTA
144395 TATAT
66 TATAT
144400 GTTTCAAAAA
Statistics
Matches: 200, Mismatches: 11, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
144 6 0.03
145 16 0.08
146 1 0.00
147 12 0.06
148 29 0.14
149 6 0.03
150 17 0.09
151 2 0.01
152 111 0.56
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.46
Consensus pattern (150 bp):
AAAATATTTTTAAAAACTATATATTATATATATTTTTTCAAAATGTTTTCAAAAACTATATATTA
TATATATATTTTCAAAAATAGTTTTTAAAACTATATAATATACTTTAAAAAATATTTTCCAAAAC
TATATATTATACATATTTTC
Found at i:144448 original size:152 final size:152
Alignment explanation
Indices: 144140--144449 Score: 412
Period size: 152 Copynumber: 2.0 Consensus size: 152
144130 ATATACTTTC
* *
144140 AAAAATATTTTCCAAAATTATATATTATATATATTTTCAAAATATTTTTAAAAACTATATATTAT
1 AAAAATATTTTCCAAAACTATATATTATACATATTTTCAAAATATTTTTAAAAACTATATATTAT
* * * * ***
144205 ATATATTTTTTCAAAATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAATATTTTTCAA
66 ATATATATATTCAAAATATTTTCAAAAACTATATATTATATATATGTTTTCAAAAGATTTAAAAA
* * ** * *
144270 ACTATATATTATATATATTTTA
131 ACTAAAAAAAATATAGATATTA
144292 AAAAATATTTTCCAAAACTATATATTATACATATTTTCAAAATATTTTTAAAAACTATATATTAT
1 AAAAATATTTTCCAAAACTATATATTATACATATTTTCAAAATATTTTTAAAAACTATATATTAT
144357 ATATATATATTCAAAATATTTTCAAAAACTATATA-T-TATATATG-TTTCAAAAACGATTTAAA
66 ATATATATATTCAAAATATTTTCAAAAACTATATATTATATATATGTTTTC-AAAA-GATTTAAA
144419 AAAC-AAACAAAAACTATACGATATTA
129 AAACTAAA-AAAAA-TATA-GATATTA
144445 AAAAA
1 AAAAA
144450 AACTCCGGAC
Statistics
Matches: 138, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
149 4 0.03
150 14 0.10
151 11 0.08
152 99 0.72
153 10 0.07
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (152 bp):
AAAAATATTTTCCAAAACTATATATTATACATATTTTCAAAATATTTTTAAAAACTATATATTAT
ATATATATATTCAAAATATTTTCAAAAACTATATATTATATATATGTTTTCAAAAGATTTAAAAA
ACTAAAAAAAATATAGATATTA
Found at i:145296 original size:14 final size:14
Alignment explanation
Indices: 145277--145316 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
145267 CATATCCATT
145277 TAAATCTAAAATTC
1 TAAATCTAAAATTC
*
145291 TAAATCTAAAACTC
1 TAAATCTAAAATTC
**
145305 TTGATCTAAAAT
1 TAAATCTAAAAT
145317 AATATCGGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (14 bp):
TAAATCTAAAATTC
Found at i:146937 original size:16 final size:17
Alignment explanation
Indices: 146909--146940 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
146899 AACTTTTTGC
146909 AATTTTAAATAAAAATT
1 AATTTTAAATAAAAATT
146926 AATTTT-AATAAAAAT
1 AATTTTAAATAAAAAT
146941 GACAAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTTTAAATAAAAATT
Found at i:149893 original size:55 final size:55
Alignment explanation
Indices: 149755--150344 Score: 715
Period size: 55 Copynumber: 10.7 Consensus size: 55
149745 AATCTTTGAA
* * * * *
149755 AAACGTGTCCT-CTCCCTATTATTTCAAGGAATATATGACTCGAACAATCTTCGAC
1 AAACGTGT-CTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAAC
* ** ** *
149810 AAAC-AGTCCACTCCCTATTCTTTCAGGGAGTATAAAACTCGAACAATAC-TCAGC
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAAT-CTTCAAC
* * * *
149864 AAACGTGTCTGCTCCCTATTCTTTAAGGGATTATAGGACTCAAACAATCTTCAAA
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAAC
* * * * *
149919 AAACGTGTTTGCTCCCTATTCTTTCAGAGAGTATAGGACTCGAACAATATTTAGC
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAAC
** * *
149974 AAACGTGTCCACTCCCTATTCTTTCAGGGAGTATAGGACTCGAGCAATCCTCAAC
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAAC
* * * *
150029 AAATGTGTTTGCTCCCTATTCTTTCAGGGAGTATATGACTCGAACAATCTTCAAT
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAAC
* * * *
150084 AAACGTGTCTACTCTCTATTCTTTCAGGGAGTATAGGAATCGAACAATCTTCAGC
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAAC
** ** * *
150139 AAATATGTCCACTCCCTATTCTTTCAGGTAGTATAAGACTCGAACAATCTTCAAC
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAAC
**
150194 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCCGC
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAAC
*
150249 AAACATGT-TGGCTCCCTATTCTTTCAGGGAGTATTA-GACTCGAACAATCTTCAAC
1 AAACGTGTCT-GCTCCCTATTCTTTCAGGGAGTA-TAGGACTCGAACAATCTTCAAC
*
150304 AAACATGT-TCGCTCCCTATTCTTTCAGGGAGTATAGGACTC
1 AAACGTGTCT-GCTCCCTATTCTTTCAGGGAGTATAGGACTC
150345 AAATAATATT
Statistics
Matches: 455, Mismatches: 73, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.00
54 45 0.10
55 407 0.89
56 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (55 bp):
AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAAC
Found at i:150607 original size:37 final size:37
Alignment explanation
Indices: 150565--150643 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
150555 TTAATGATGG
*
150565 CTTGCTTCAATACTCTTCCGTGAAGGCTTAAGATTGA
1 CTTGCTTCAATACTCTTCCGTGAAAGCTTAAGATTGA
* * *
150602 TTTGCTTCACTACTCTTTCGTGAAAGCTTAAGATTGA
1 CTTGCTTCAATACTCTTCCGTGAAAGCTTAAGATTGA
150639 CTTGC
1 CTTGC
150644 CCCAATCTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (37 bp):
CTTGCTTCAATACTCTTCCGTGAAAGCTTAAGATTGA
Found at i:153786 original size:23 final size:23
Alignment explanation
Indices: 153736--153796 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
153726 ACATTTTATA
153736 TGGCACTTTGGTGCAATTCTAAG
1 TGGCACTTTGGTGCAATTCTAAG
* *
153759 CGGCACTTTGGTGCAATTCTACG
1 TGGCACTTTGGTGCAATTCTAAG
* *
153782 TGGCAATTAGGTGCA
1 TGGCACTTTGGTGCA
153797 TTTATACGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (23 bp):
TGGCACTTTGGTGCAATTCTAAG
Found at i:155353 original size:21 final size:21
Alignment explanation
Indices: 155327--155380 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
155317 GTTACAGTAA
155327 CAGTGCATCGATGCATTGTAG
1 CAGTGCATCGATGCATTGTAG
155348 CAGTGCATCGATGCATTGTAG
1 CAGTGCATCGATGCATTGTAG
*
155369 CAGCGCATCGAT
1 CAGTGCATCGAT
155381 ACACAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (21 bp):
CAGTGCATCGATGCATTGTAG
Found at i:157123 original size:23 final size:23
Alignment explanation
Indices: 157059--157131 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
157049 CAGCTCGTAT
* *
157059 AAATGTACC-AAAGTGCCACGTAG
1 AAATGCACCGAAA-TGCCATGTAG
* *
157082 AAATGCACCGTAGTGCCATGTAG
1 AAATGCACCGAAATGCCATGTAG
* *
157105 AATTGCACCGAAATGCCATATA-
1 AAATGCACCGAAATGCCATGTAG
157127 AAATG
1 AAATG
157132 TCCGTAAGGA
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 4 0.10
23 35 0.88
24 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (23 bp):
AAATGCACCGAAATGCCATGTAG
Found at i:158159 original size:24 final size:20
Alignment explanation
Indices: 158102--158179 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
158092 TTTCCCTTGA
*
158102 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
158122 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
*
158145 ATGTGCATCGATGCACTCCT-T
1 A-GTGCATCGATGCA-TCCTAC
158166 A-TGCATCGATGCAT
1 AGTGCATCGATGCAT
158180 TAATTGCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
20 14 0.29
21 2 0.04
22 1 0.02
23 4 0.08
24 14 0.29
25 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:159530 original size:18 final size:20
Alignment explanation
Indices: 159480--159541 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
159470 TGAATATTTG
*
159480 TCCCGAAGGACCACTGATTG
1 TCCCGAAGGACCACTGATTA
* * *
159500 TTCTGAAGAACCACT-A-TA
1 TCCCGAAGGACCACTGATTA
159518 TCCCGAAGGACCACTGATTA
1 TCCCGAAGGACCACTGATTA
159538 TCCC
1 TCCC
159542 TCGACTCTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
18 13 0.39
19 2 0.06
20 18 0.55
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (20 bp):
TCCCGAAGGACCACTGATTA
Found at i:165477 original size:31 final size:31
Alignment explanation
Indices: 165440--165499 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
165430 CATAGGTCAA
165440 TCCATATATCCCGAAGAACATAGGTAAACAG
1 TCCATATATCCCGAAGAACATAGGTAAACAG
*
165471 TCCATATGTCCCGAAGAACATAGGTAAAC
1 TCCATATATCCCGAAGAACATAGGTAAAC
165500 CCTCGACCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (31 bp):
TCCATATATCCCGAAGAACATAGGTAAACAG
Found at i:169893 original size:31 final size:31
Alignment explanation
Indices: 169855--169948 Score: 145
Period size: 31 Copynumber: 3.0 Consensus size: 31
169845 CCCGAAGGAC
* * *
169855 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
169886 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
169917 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
169948 C
1 C
169949 CCTCGACCCT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 58 0.98
32 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:172442 original size:64 final size:64
Alignment explanation
Indices: 172363--172502 Score: 262
Period size: 64 Copynumber: 2.2 Consensus size: 64
172353 CTTATATCCG
*
172363 TGCGAAGGTGAATATCATCATGAGAACCATAAGGTGTGAGCTCCAGTAGTGATCCAATATCCTA
1 TGCGAAGGTGAATATCATCACGAGAACCATAAGGTGTGAGCTCCAGTAGTGATCCAATATCCTA
172427 TGCGAAGGTGAATATCATCACGAGAACCATAAGGTGTGAGCTCCAGTAGTGATCCAATATCCTA
1 TGCGAAGGTGAATATCATCACGAGAACCATAAGGTGTGAGCTCCAGTAGTGATCCAATATCCTA
*
172491 TACGAAGGTGAA
1 TGCGAAGGTGAA
172503 AACCACACGA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (64 bp):
TGCGAAGGTGAATATCATCACGAGAACCATAAGGTGTGAGCTCCAGTAGTGATCCAATATCCTA
Found at i:178776 original size:14 final size:12
Alignment explanation
Indices: 178742--178766 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
178732 TAATAAATAA
178742 AAAAATAAATTG
1 AAAAATAAATTG
178754 AAAAATAAATTG
1 AAAAATAAATTG
178766 A
1 A
178767 GATAAGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAAATAAATTG
Found at i:179330 original size:20 final size:20
Alignment explanation
Indices: 179305--179342 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
179295 CAAAGAAAAA
179305 ATAATTCCTAAAGATAATAG
1 ATAATTCCTAAAGATAATAG
179325 ATAATTCCTAAAGATAAT
1 ATAATTCCTAAAGATAAT
179343 TCTTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (20 bp):
ATAATTCCTAAAGATAATAG
Found at i:186484 original size:15 final size:16
Alignment explanation
Indices: 186458--186490 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
186448 TTCAAACTCA
186458 TCGAATTTTTTTAATC
1 TCGAATTTTTTTAATC
186474 TCGAA-TTTTTTAATC
1 TCGAATTTTTTTAATC
186489 TC
1 TC
186491 CTCAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (16 bp):
TCGAATTTTTTTAATC
Found at i:193278 original size:16 final size:15
Alignment explanation
Indices: 193244--193282 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
193234 TTAAATTAAA
*
193244 ATAAAATTTTATATT
1 ATAAAATTTTATATG
*
193259 ATAATATTTATATATG
1 ATAAAATTT-TATATG
193275 ATAAAATT
1 ATAAAATT
193283 AAATAAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
ATAAAATTTTATATG
Found at i:200122 original size:20 final size:21
Alignment explanation
Indices: 200089--200128 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
200079 TTTTAACGTA
200089 ATTGATATTCATTTT-AAACC
1 ATTGATATTCATTTTCAAACC
200109 ATTGATA-TCAATTTTCAAAC
1 ATTGATATTC-ATTTTCAAAC
200129 AATTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 12 0.67
21 4 0.22
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTGATATTCATTTTCAAACC
Found at i:200136 original size:22 final size:20
Alignment explanation
Indices: 200088--200132 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
200078 ATTTTAACGT
200088 AATTGATATTCATTTTAAAC
1 AATTGATATTCATTTTAAAC
*
200108 CATTGATA-TCAATTTTCAAAC
1 AATTGATATTC-ATTTT-AAAC
200129 AATT
1 AATT
200133 TGATTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.57
21 7 0.33
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (20 bp):
AATTGATATTCATTTTAAAC
Found at i:203487 original size:44 final size:42
Alignment explanation
Indices: 203431--203554 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 42
203421 TTTGTGCTTC
* * *
203431 ATGCACCGATGCATTTAACAATGCATCGATGCATCCCTTTGAAT
1 ATGCATCGATGCA-TAAACAATGCACCGATGCATCCC-TTGAAT
* * * * *
203475 ATGTATCGATGCATCACCATGATGCACCGATTCATGCCTTGAAT
1 ATGCATCGATGCATAAACA--ATGCACCGATGCATCCCTTGAAT
*
203519 ATGCATCGATGCATAAGACCATGCACCGATGCATCC
1 ATGCATCGATGCATAA-ACAATGCACCGATGCATCC
203555 GTCAGGTTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
43 18 0.28
44 31 0.48
45 15 0.23
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (42 bp):
ATGCATCGATGCATAAACAATGCACCGATGCATCCCTTGAAT
Found at i:210380 original size:8 final size:8
Alignment explanation
Indices: 210367--210401 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
210357 GGCGTTACCC
210367 CAATATTA
1 CAATATTA
210375 CAATATTA
1 CAATATTA
*
210383 CAACATTA
1 CAATATTA
*
210391 CAATACTA
1 CAATATTA
210399 CAA
1 CAA
210402 CACTAGCTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (8 bp):
CAATATTA
Found at i:228648 original size:14 final size:14
Alignment explanation
Indices: 228625--228685 Score: 95
Period size: 14 Copynumber: 4.4 Consensus size: 14
228615 CGGTGGGCAT
*
228625 CCGAGACCATCCGA
1 CCGAGGCCATCCGA
228639 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
228653 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
228667 CTGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
228681 ACGAG
1 CCGAG
228686 CTATGTGAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 43 1.00
ACGTcount: A:0.25, C:0.39, G:0.28, T:0.08
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:228742 original size:31 final size:32
Alignment explanation
Indices: 228677--228749 Score: 103
Period size: 33 Copynumber: 2.3 Consensus size: 32
228667 CTGAGGCCAT
* * *
228677 CCGAACGAGCTATGTGAGGGCATCCGAGGGCAA
1 CCGAGCGAGCTATGCGAGGGAATCC-AGGGCAA
228710 CCGAGCGAGCTATGCGAGGGAATCC-GGGCAA
1 CCGAGCGAGCTATGCGAGGGAATCCAGGGCAA
228741 CCGAGCGAG
1 CCGAGCGAG
228750 GGTAGGTCGC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 15 0.41
33 22 0.59
ACGTcount: A:0.26, C:0.26, G:0.38, T:0.10
Consensus pattern (32 bp):
CCGAGCGAGCTATGCGAGGGAATCCAGGGCAA
Found at i:228806 original size:33 final size:33
Alignment explanation
Indices: 228767--228846 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
228757 CGCCCGGTTG
* *
228767 CTCGGATTCCCTCGCATAGCTCGCTCGGTTGCC
1 CTCGGATGCCCTCGCATAGCTCGCTCGGATGCC
* *
228800 CTCGGATGCCCTCGCATAGCTCGTTCGGATGGC
1 CTCGGATGCCCTCGCATAGCTCGCTCGGATGCC
*
228833 CTCGGATGCTCTCG
1 CTCGGATGCCCTCG
228847 GATGGCCTCG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.10, C:0.36, G:0.28, T:0.26
Consensus pattern (33 bp):
CTCGGATGCCCTCGCATAGCTCGCTCGGATGCC
Found at i:228809 original size:10 final size:10
Alignment explanation
Indices: 228767--228861 Score: 64
Period size: 10 Copynumber: 8.9 Consensus size: 10
228757 CGCCCGGTTG
*
228767 CTCGGATTCC
1 CTCGGATGCC
*
228777 CTCGCATAGCTC
1 CTCGGAT-GC-C
*
228789 GCTCGGTTGCC
1 -CTCGGATGCC
228800 CTCGGATGCC
1 CTCGGATGCC
*
228810 CTCGCATAGCTC
1 CTCGGAT-GC-C
* *
228822 GTTCGGATGGC
1 -CTCGGATGCC
*
228833 CTCGGATGCT
1 CTCGGATGCC
*
228843 CTCGGATGGC
1 CTCGGATGCC
228853 CTCGGATGC
1 CTCGGATGC
228862 TTTCGGATAG
Statistics
Matches: 64, Mismatches: 15, Indels: 12
0.70 0.16 0.13
Matches are distributed among these distances:
10 44 0.69
11 5 0.08
12 5 0.08
13 10 0.16
ACGTcount: A:0.11, C:0.35, G:0.29, T:0.25
Consensus pattern (10 bp):
CTCGGATGCC
Done.