Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007964.1 Hibiscus syriacus cultivar Beakdansim tig00110393_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: 1737572
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 4 of 6
Found at i:887599 original size:49 final size:49
Alignment explanation
Indices: 887527--887626 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
887517 TGAAAGTGTG
887527 TTCTCATCCTTCTCAAAGGACTTTGGCATGAGCACATATAGTTCTGCAC
1 TTCTCATCCTTCTCAAAGGACTTTGGCATGAGCACATATAGTTCTGCAC
887576 TTCTCATCCTTCTCAAAGGACTTTGGCATGAGCACATATAGTTCTGCAC
1 TTCTCATCCTTCTCAAAGGACTTTGGCATGAGCACATATAGTTCTGCAC
887625 TT
1 TT
887627 TTTAATGTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (49 bp):
TTCTCATCCTTCTCAAAGGACTTTGGCATGAGCACATATAGTTCTGCAC
Found at i:888101 original size:34 final size:35
Alignment explanation
Indices: 888061--888130 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
888051 TAATAGAGAT
**
888061 AATTAAAAGTTAGTAAAA-AAAGAAA-ATAAATAAA
1 AATTAAAAGAAAGTAAAAGAAAGAAAGA-AAATAAA
*
888095 AATTAAAAGAAATTAAAAGAAAGAAAGAAAATAAA
1 AATTAAAAGAAAGTAAAAGAAAGAAAGAAAATAAA
888130 A
1 A
888131 TGAATAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 15 0.48
35 15 0.48
36 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (35 bp):
AATTAAAAGAAAGTAAAAGAAAGAAAGAAAATAAA
Found at i:888107 original size:10 final size:10
Alignment explanation
Indices: 888078--888116 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
888068 AGTTAGTAAA
*
888078 AAAAGAAAAT
1 AAAAGAAATT
*
888088 AAATAAAAATT
1 AAA-AGAAATT
888099 AAAAGAAATT
1 AAAAGAAATT
888109 AAAAGAAA
1 AAAAGAAA
888117 GAAAGAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (10 bp):
AAAAGAAATT
Found at i:889582 original size:84 final size:84
Alignment explanation
Indices: 889514--890166 Score: 728
Period size: 84 Copynumber: 7.8 Consensus size: 84
889504 TTGAATGTAA
* * *
889514 TCGAACTCGAAGGTCTTCGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
889579 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* *
889598 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* **
889663 GTCTTGGAGCTGAAAGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * * * *
889682 TCGAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATA
1 TCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
889746 TGCCTTGGAGCTGAGCGTAG
65 TGCCTTGGAGCTGAGCGTAG
* * * * * *
889766 TCGAACTCGAAGGTCTTTTGG-TGGCAGATAGCCCTTCTAGCCTTGAGCTATGCTTCAAATGATG
1 TCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
*
889830 TGCCTTGGTGCTGAGCGTAG
65 TGCCTTGGAGCTGAGCGTAG
** * ** ** * * * * *
889850 TTAAACTCGAAAGTCTTTTGG-TCACAGATAACATTTCTAGCCTTGAGTTATGTTGTAAATGATG
1 TCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
* * * * *
889914 TATCCTCGAAGCTGAGTGTAA
65 T-GCCTTGGAGCTGAGCGTAG
* * * *
889935 TCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
889996 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
*
890015 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
890080 TCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * * * * *
890099 TCGAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTATAGCCTTGAGTTATGTTGTAAATGTTG
1 TCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
890163 TGCC
65 TGCC
890167 CTCGAAGCTG
Statistics
Matches: 482, Mismatches: 79, Indels: 16
0.84 0.14 0.03
Matches are distributed among these distances:
80 28 0.06
81 34 0.07
82 2 0.00
84 384 0.80
85 34 0.07
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAG
Found at i:890375 original size:84 final size:84
Alignment explanation
Indices: 890186--890396 Score: 237
Period size: 84 Copynumber: 2.5 Consensus size: 84
890176 GAGTGTAATC
* * * *
890186 GATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAATGTCTTTGGTTGACAGATAACCCTTCTCGA
1 GATGTGCTTTGGAGCTGAGCGTAGTCGAACTTGAAAGTCTTTGGATGACAGATAACCCTTCTCGA
890251 CTTAAGTTATACTGCAAAT
66 CTTAAGTTATACTGCAAAT
* * * * * *
890270 GATATG-TCTTGGAGGTAAGCGTAGTCGAACTTGAAAGTCTTTGGATGGCAGATAGCCTTTCTCG
1 GATGTGCT-TTGGAGCTGAGCGTAGTCGAACTTGAAAGTCTTTGGATGACAGATAACCCTTCTCG
*
890334 ACTTAA-TCTATTCTGCAAAT
65 ACTTAAGT-TATACTGCAAAT
* * * * *
890354 GATGTGCTTTTGAGTTGAGCGTGGTCAAACTTCGAAGGTCTTT
1 GATGTGCTTTGGAGCTGAGCGTAGTCGAACTT-GAAAGTCTTT
890397 TTTTGCAGAT
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
83 1 0.01
84 94 0.90
85 10 0.10
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (84 bp):
GATGTGCTTTGGAGCTGAGCGTAGTCGAACTTGAAAGTCTTTGGATGACAGATAACCCTTCTCGA
CTTAAGTTATACTGCAAAT
Found at i:894346 original size:11 final size:11
Alignment explanation
Indices: 894330--894363 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
894320 TGAAATAAAC
894330 AAAAAAAATT-
1 AAAAAAAATTA
894340 -AAAAAAATTA
1 AAAAAAAATTA
894350 AAAAAAAATTA
1 AAAAAAAATTA
894361 AAA
1 AAA
894364 TAAAGAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
11 13 0.59
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAAAAATTA
Found at i:894363 original size:9 final size:9
Alignment explanation
Indices: 894312--894355 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
894302 TATAAGTTAG
894312 TAAAAAAAT
1 TAAAAAAAT
* * *
894321 GAAATAAAC
1 TAAAAAAAT
*
894330 AAAAAAAAT
1 TAAAAAAAT
894339 TAAAAAAAT
1 TAAAAAAAT
894348 TAAAAAAA
1 TAAAAAAA
894356 AATTAAAATA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:894376 original size:20 final size:19
Alignment explanation
Indices: 894313--894382 Score: 65
Period size: 18 Copynumber: 3.7 Consensus size: 19
894303 ATAAGTTAGT
*
894313 AAAAAAA-TGAAATAAACA
1 AAAAAAATTAAAATAAACA
*
894331 AAAAAAATTAAAA-AAATTAA
1 AAAAAAATTAAAATAAA--CA
*
894351 AAAAAAATTAAAATAAAGA
1 AAAAAAATTAAAATAAACA
*
894370 AAGAAAA-TAAAAT
1 AAAAAAATTAAAAT
894383 GAATAAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 16 0.36
19 11 0.25
20 14 0.32
21 3 0.07
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (19 bp):
AAAAAAATTAAAATAAACA
Found at i:897441 original size:12 final size:12
Alignment explanation
Indices: 897424--897483 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
897414 TTAATTTAAA
897424 TATATTTTTATT
1 TATATTTTTATT
* * * *
897436 TTTATTGATAATC
1 TATATT-TTTATT
897449 TA-ATTTTATATT
1 TATATTTT-TATT
*
897461 TATATTTATATT
1 TATATTTTTATT
897473 TATATTTTTAT
1 TATATTTTTAT
897484 ATACCTAAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
11 1 0.03
12 26 0.74
13 8 0.23
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (12 bp):
TATATTTTTATT
Found at i:898238 original size:14 final size:14
Alignment explanation
Indices: 898221--898256 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
898211 AAATTTTTAT
*
898221 CCCTAAACTTTAAA
1 CCCTAAACTCTAAA
898235 CCCTAAACTCTAAA
1 CCCTAAACTCTAAA
898249 CCCTAAAC
1 CCCTAAAC
898257 CCCAAATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.22
Consensus pattern (14 bp):
CCCTAAACTCTAAA
Found at i:899004 original size:1 final size:1
Alignment explanation
Indices: 899000--899026 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
898990 AGAGGAACAA
899000 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
899027 ACATTTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:899695 original size:37 final size:37
Alignment explanation
Indices: 899638--899712 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
899628 GGAGCTCAAA
* * * *
899638 AGAAAGGGGGGAAAATGTCATGTATACACAATAAAAT
1 AGAAAGGGAGAAAAAGGTCATGTACACACAATAAAAT
899675 AGAAAGGGAGAAAAAGGTCATGTACACACAATAAAAT
1 AGAAAGGGAGAAAAAGGTCATGTACACACAATAAAAT
899712 A
1 A
899713 CAGGAATTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.52, C:0.09, G:0.23, T:0.16
Consensus pattern (37 bp):
AGAAAGGGAGAAAAAGGTCATGTACACACAATAAAAT
Found at i:903864 original size:17 final size:18
Alignment explanation
Indices: 903823--903861 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
903813 ATTATATTAG
903823 TAAAATA-TTAAATAAAA
1 TAAAATACTTAAATAAAA
*
903840 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAA
903858 TAAA
1 TAAA
903862 TACATAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATACTTAAATAAAA
Found at i:904558 original size:2 final size:2
Alignment explanation
Indices: 904551--904597 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
904541 TAGTGATTTA
904551 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
904593 AT AT A
1 AT AT A
904598 ATTATTGATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:911269 original size:15 final size:15
Alignment explanation
Indices: 911251--911280 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
911241 CCACGGTGCT
911251 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
911266 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
911281 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:925938 original size:31 final size:31
Alignment explanation
Indices: 925900--925983 Score: 159
Period size: 31 Copynumber: 2.7 Consensus size: 31
925890 TGCTTTCTTT
*
925900 ATCAAAATATAATATTAAATATCGATCAATG
1 ATCAAAATATAATGTTAAATATCGATCAATG
925931 ATCAAAATATAATGTTAAATATCGATCAATG
1 ATCAAAATATAATGTTAAATATCGATCAATG
925962 ATCAAAATATAATGTTAAATAT
1 ATCAAAATATAATGTTAAATAT
925984 AATTTAAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.33
Consensus pattern (31 bp):
ATCAAAATATAATGTTAAATATCGATCAATG
Found at i:925971 original size:19 final size:18
Alignment explanation
Indices: 925916--925967 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
925906 ATATAATATT
925916 AAATATCGATCAATGATC
1 AAATATCGATCAATGATC
*
925934 AAA-AT--AT-AATG-TT
1 AAATATCGATCAATGATC
925947 AAATATCGATCAATGATC
1 AAATATCGATCAATGATC
925965 AAA
1 AAA
925968 ATATAATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
13 4 0.15
14 6 0.22
15 2 0.07
16 2 0.07
17 6 0.22
18 7 0.26
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.29
Consensus pattern (18 bp):
AAATATCGATCAATGATC
Found at i:939476 original size:21 final size:22
Alignment explanation
Indices: 939441--939481 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
939431 CAAAAACTAA
*
939441 TAAAACCAATATAAATCAAAAT
1 TAAAACCAATATAAACCAAAAT
*
939463 TAAAA-CAATCTAAACCAAA
1 TAAAACCAATATAAACCAAA
939482 TATATATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAAACCAATATAAACCAAAAT
Found at i:941555 original size:21 final size:21
Alignment explanation
Indices: 941531--941586 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
941521 CGTTGAAGGA
* *
941531 GTATCAATACCTAGCAAGGGG
1 GTATCGATACCTAGAAAGGGG
*
941552 GTATCGATACCTATAAAGGGG
1 GTATCGATACCTAGAAAGGGG
941573 GTATCGATACCTAG
1 GTATCGATACCTAG
941587 TGCACAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (21 bp):
GTATCGATACCTAGAAAGGGG
Found at i:945189 original size:20 final size:21
Alignment explanation
Indices: 945150--945189 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
945140 GAAGCTTTAA
*
945150 GATCATCAATTTCCTATTGAT
1 GATCATCAATTTACTATTGAT
*
945171 GATCATC-ATTTACTCTTGA
1 GATCATCAATTTACTATTGA
945190 AAGTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (21 bp):
GATCATCAATTTACTATTGAT
Found at i:947529 original size:19 final size:19
Alignment explanation
Indices: 947502--947546 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
947492 CGAATAATTT
*
947502 AATTGAATATATAAA-TTAA
1 AATTCAATATA-AAACTTAA
947521 AATTCAATATAAAATCTTAA
1 AATTCAATATAAAA-CTTAA
947541 AATTCA
1 AATTCA
947547 TTAACACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.13
19 10 0.43
20 10 0.43
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (19 bp):
AATTCAATATAAAACTTAA
Found at i:953025 original size:22 final size:22
Alignment explanation
Indices: 952997--953040 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
952987 AGCTACCCCA
*
952997 TCAAACCTTTGAACATCAAATG
1 TCAAACCATTGAACATCAAATG
*
953019 TCAAACCATTGAGCATCAAATG
1 TCAAACCATTGAACATCAAATG
953041 GACAAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (22 bp):
TCAAACCATTGAACATCAAATG
Found at i:954714 original size:106 final size:106
Alignment explanation
Indices: 954585--955176 Score: 936
Period size: 106 Copynumber: 5.6 Consensus size: 106
954575 ATATCGTGCC
*
954585 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCT
*
954650 AATTGCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
954691 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCT
*
954756 AATTTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
954797 ACTCCATACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTT-CT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCT
* **
954861 CAATTTCAGAGTCAATTTCAACTTCACAATGAAGGATATTGG
66 -AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
954903 ACTCCAGACAACACAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAACAACTT-CT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCT
* *
954967 CAATTTCAGAGCCAATTTCAACTTCACAACGAATGATATTGG
66 -AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * *
955009 ACTGTAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCT
* *
955074 AATTTCAGAGTCAATTTCAACTTCATAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
955115 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTT
955177 TCAACTTCAC
Statistics
Matches: 447, Mismatches: 37, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
105 1 0.00
106 445 1.00
107 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCT
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:955481 original size:84 final size:83
Alignment explanation
Indices: 955273--955466 Score: 217
Period size: 84 Copynumber: 2.3 Consensus size: 83
955263 AGGCTATCTG
** * * *
955273 CCAAAGACCCCCGAGTTCGATTACACTCAGCTCCGAGGGCATATCATTTGCAATATAACTTAAGT
1 CCAAAGACCTTCGAGTTCGATTACACTCAGCT-CGAGGGCACATCATTTGCAACATAACTTAAGG
* *
955338 CGAGAGGGTTATCTGCCAA
65 CAAGAGGGCTATCTGCCAA
* * * * * *
955357 CCAAAAACCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCACGTCATTTGTAGCATAACTTAAGG
1 CCAAAGACCTTCGAGTTCGATTACACTCAGC-TCGAGGGCACATCATTTGCAACATAACTTAAGG
* *
955422 CAAGAAGGGCTATTTTCCAA
65 CAAG-AGGGCTATCTGCCAA
*
955442 TCAAAGACCTTCGAGTTCGATTACA
1 CCAAAGACCTTCGAGTTCGATTACA
955467 TTCAACTCAG
Statistics
Matches: 89, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
84 55 0.62
85 34 0.38
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (83 bp):
CCAAAGACCTTCGAGTTCGATTACACTCAGCTCGAGGGCACATCATTTGCAACATAACTTAAGGC
AAGAGGGCTATCTGCCAA
Found at i:959863 original size:2 final size:2
Alignment explanation
Indices: 959856--959896 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
959846 GTTTGCTTCA
*
959856 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG TAG AG AT AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -AG AG AG AG AG
959897 GATTTTGGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.46, T:0.05
Consensus pattern (2 bp):
AG
Found at i:964845 original size:2 final size:2
Alignment explanation
Indices: 964789--964830 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
964779 TAATAACATC
964789 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
964831 GTTATTGGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:965133 original size:2 final size:2
Alignment explanation
Indices: 965126--965202 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
965116 AACCTTGCAT
965126 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
965168 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
965203 GTGTGTGTGT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:973031 original size:21 final size:21
Alignment explanation
Indices: 973005--973046 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
972995 ATTTAACATT
973005 AAATTTTTAGTGAGTG-TATTA
1 AAATTTTTAGTG-GTGTTATTA
973026 AAATTTTTAGTGGTGTTATTA
1 AAATTTTTAGTGGTGTTATTA
973047 TCATGCCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (21 bp):
AAATTTTTAGTGGTGTTATTA
Found at i:977034 original size:10 final size:9
Alignment explanation
Indices: 977011--977079 Score: 66
Period size: 9 Copynumber: 7.3 Consensus size: 9
977001 AGGGCTGGAA
977011 ACCGGTTTG
1 ACCGGTTTG
977020 ACCGGTTTCG
1 ACCGGTTT-G
*
977030 ACCGGTTCG
1 ACCGGTTTG
977039 AACCGGTTTG
1 -ACCGGTTTG
*
977049 ACCGGTATG
1 ACCGGTTTG
*
977058 AATCGGTTTG
1 -ACCGGTTTG
* *
977068 ATCGGTCTG
1 ACCGGTTTG
977077 ACC
1 ACC
977080 CGACCCGACC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
9 27 0.54
10 23 0.46
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:977064 original size:19 final size:19
Alignment explanation
Indices: 977011--977073 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
977001 AGGGCTGGAA
*
977011 ACCGGTTTG-ACCGGTTTCG
1 ACCGGTTCGAACCGGTTT-G
977030 ACCGGTTCGAACCGGTTTG
1 ACCGGTTCGAACCGGTTTG
*
977049 ACCGGTAT-GAATCGGTTTG
1 ACCGGT-TCGAACCGGTTTG
*
977068 ATCGGT
1 ACCGGT
977074 CTGACCCGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
19 30 0.77
20 9 0.23
ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30
Consensus pattern (19 bp):
ACCGGTTCGAACCGGTTTG
Found at i:977095 original size:14 final size:14
Alignment explanation
Indices: 977076--977104 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
977066 TGATCGGTCT
977076 GACCCGACCCGACC
1 GACCCGACCCGACC
977090 GACCCGACCCGACC
1 GACCCGACCCGACC
977104 G
1 G
977105 TTGACCGTTG
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:0.21, C:0.55, G:0.24, T:0.00
Consensus pattern (14 bp):
GACCCGACCCGACC
Found at i:983554 original size:9 final size:9
Alignment explanation
Indices: 983523--983555 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
983513 AGGGCTGGAA
983523 ACCGGTTTG
1 ACCGGTTTG
983532 A-CGGTTTCG
1 ACCGGTTT-G
983541 ACCGGTTTG
1 ACCGGTTTG
983550 ACCGGT
1 ACCGGT
983556 CTAACCCGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 6 0.27
9 10 0.45
10 6 0.27
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:985249 original size:16 final size:16
Alignment explanation
Indices: 985224--985254 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
985214 TATTTTTTCA
*
985224 AATAATTATAATAAAC
1 AATAAATATAATAAAC
985240 AATAAATATAATAAA
1 AATAAATATAATAAA
985255 AAATCAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAAATATAATAAAC
Found at i:985668 original size:18 final size:20
Alignment explanation
Indices: 985626--985668 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
985616 TTTGGTTCAC
*
985626 GGAATGTAAGATTACTAGTG
1 GGAATGTAAGATTACTAGAG
985646 GGAATGTAAGATTAC-A-AG
1 GGAATGTAAGATTACTAGAG
985664 GGAAT
1 GGAAT
985669 AGGATTACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 1 0.05
20 15 0.68
ACGTcount: A:0.40, C:0.05, G:0.30, T:0.26
Consensus pattern (20 bp):
GGAATGTAAGATTACTAGAG
Found at i:985886 original size:36 final size:36
Alignment explanation
Indices: 985815--985887 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
985805 GTTGGAAAAT
* *
985815 ATTTATATATTTTCTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTAAAAAATTGAAAATCATAAA
* *
985851 ATTTATATATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATATA-TTTTCTTAAAAAATTGAAAATCATAAA
985887 A
1 A
985888 AAATTTAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 15 0.47
37 17 0.53
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (36 bp):
ATTTATATATTTTCTTAAAAAATTGAAAATCATAAA
Found at i:990164 original size:366 final size:366
Alignment explanation
Indices: 989494--990226 Score: 1393
Period size: 366 Copynumber: 2.0 Consensus size: 366
989484 GCGAAGACTT
989494 GTTGGATCTCGACTCTCAAGTCTTCCATTAATCAACCAAATAAATTTTGAGTGGTAAAATCAGTA
1 GTTGGATCTCGACTCTCAAGTCTTCCATTAATCAACCAAATAAATTTTGAGTGGTAAAATCAGTA
989559 CGATCAAGCATTTAACGATCTCCAACTGGCAACCATCATTGAGTCTCCGAGTTTGACCATTCTTA
66 CGATCAAGCATTTAACGATCTCCAACTGGCAACCATCATTGAGTCTCCGAGTTTGACCATTCTTA
989624 CACCGATCCATCCTTAAAAGATCGGAGAGCAATATTCTGAACTAGTTTTTCCCTTGGAAAAGATG
131 CACCGATCCATCCTTAAAAGATCGGAGAGCAATATTCTGAACTAGTTTTTCCCTTGGAAAAGATG
989689 GACGAGTTTGGTTGTCATCTTATTTGGCAATTCTCTTGCTGTTGGTTGCTGCCTCCAGTTCTGGT
196 GACGAGTTTGGTTGTCATCTTATTTGGCAATTCTCTTGCTGTTGGTTGCTGCCTCCAGTTCTGGT
989754 ATACGTCATCCAAACACACATTGCATAATGTGATGTTCAATTTGTCTTAATTGCTTCATTTCT-G
261 ATACGTCATCCAAACACACATTGCATAATGTGATGTTCAATTTGTCTTAATTGCTTCATTTCTCG
989818 -GGTTTTAAAATGCAGATCAAGTCTCACTCTCATCTTCAAG
326 TGGTTTTAAAATGCAGATCAAGTCTCACTCTCATCTTCAAG
989858 GTTGGATCTCGACTCTCAAGTCTTCCATTAATC-ACCAAATAAATTTTGAGTGGTAAAATCAGTA
1 GTTGGATCTCGACTCTCAAGTCTTCCATTAATCAACCAAATAAATTTTGAGTGGTAAAATCAGTA
989922 CGATCAAGCATTTAACGATCTCCAACTGGCAACCACTCATTGAGTCATCCGAGTTTGACCATTCT
66 CGATCAAGCATTTAACGATCTCCAACTGGCAACCA-TCATTGAGTC-TCCGAGTTTGACCATTCT
989987 TACACCGATCCATCCTTAAAAGATCGGAGAGCAATATTCTGAACTAGTTTTTCCCTTGGAAAAGA
129 TACACCGATCCATCCTTAAAAGATCGGAGAGCAATATTCTGAACTAGTTTTTCCCTTGGAAAAG-
990052 ATGGAACGAGTTTGGTTGTCATCTTA-TTGGCAATTCTCTTGCTGTTGGTTGCTGCCTCCAGTTC
193 ATGG-ACGAGTTTGGTTGTCATCTTATTTGGCAATTCTCTTGCTGTTGGTTGCTGCCTCCAGTTC
*
990116 TGGTATACTTCATCCAAACACACATTGCATAATGTGATGTTCAATTTGTCTTAATTGCTTCATTT
257 TGGTATACGTCATCCAAACACACATTGCATAATGTGATGTTCAATTTGTCTTAATTGCTTCATTT
990181 CTCGTGGTTTTAAAATGCAGATCAAGTCTCACTCTCATCTTCAAG
322 CTCGTGGTTTTAAAATGCAGATCAAGTCTCACTCTCATCTTCAAG
990226 G
1 G
990227 CATCTGCTTC
Statistics
Matches: 362, Mismatches: 1, Indels: 8
0.98 0.00 0.02
Matches are distributed among these distances:
363 66 0.18
364 43 0.12
365 82 0.23
366 108 0.30
367 22 0.06
368 41 0.11
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (366 bp):
GTTGGATCTCGACTCTCAAGTCTTCCATTAATCAACCAAATAAATTTTGAGTGGTAAAATCAGTA
CGATCAAGCATTTAACGATCTCCAACTGGCAACCATCATTGAGTCTCCGAGTTTGACCATTCTTA
CACCGATCCATCCTTAAAAGATCGGAGAGCAATATTCTGAACTAGTTTTTCCCTTGGAAAAGATG
GACGAGTTTGGTTGTCATCTTATTTGGCAATTCTCTTGCTGTTGGTTGCTGCCTCCAGTTCTGGT
ATACGTCATCCAAACACACATTGCATAATGTGATGTTCAATTTGTCTTAATTGCTTCATTTCTCG
TGGTTTTAAAATGCAGATCAAGTCTCACTCTCATCTTCAAG
Found at i:992343 original size:10 final size:10
Alignment explanation
Indices: 992328--992352 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
992318 TAAAAAATAT
992328 AAAATATACA
1 AAAATATACA
992338 AAAATATACA
1 AAAATATACA
992348 AAAAT
1 AAAAT
992353 TTAAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATATACA
Found at i:993001 original size:2 final size:2
Alignment explanation
Indices: 992994--993025 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
992984 AGGCATGTAC
992994 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
993026 GCAAACAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:997376 original size:26 final size:27
Alignment explanation
Indices: 997335--997386 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
997325 AAAGTCAATT
997335 TTTTTTCAAAAATATATAAA-ATTTATA
1 TTTTTTCAAAAATATA-AAATATTTATA
*
997362 TTTTTT-AAAATTATAAAATATTTAT
1 TTTTTTCAAAAATATAAAATATTTAT
997387 TATCATCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 3 0.13
26 14 0.61
27 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTTTTCAAAAATATAAAATATTTATA
Found at i:999910 original size:20 final size:20
Alignment explanation
Indices: 999885--999955 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
999875 GATTCAATCA
999885 GTATCGATACCGAAGGGGGT
1 GTATCGATACCGAAGGGGGT
*
999905 GTATCGATGCCGAAGGGGGT
1 GTATCGATACCGAAGGGGGT
**
999925 GTATCGATACCGAAGGGAAT
1 GTATCGATACCGAAGGGGGT
999945 GTATCGATACC
1 GTATCGATACC
999956 ATTTTGAAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.27, C:0.17, G:0.35, T:0.21
Consensus pattern (20 bp):
GTATCGATACCGAAGGGGGT
Found at i:1000639 original size:79 final size:79
Alignment explanation
Indices: 1000548--1000789 Score: 387
Period size: 79 Copynumber: 3.1 Consensus size: 79
1000538 GAATGGATGA
* *
1000548 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAATGATGTCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGCATATG
1000613 GGTGCATTATCGAC
66 GGTGCATTATCGAC
* *
1000627 ATAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGCATATG
*
1000692 GGTGCATTATCGGC
66 GGTGCATTATCGAC
* * **
1000706 ATAAAAGAATAATGCATATGCGTGCATTATTGGCATGAAAAGATGCCAAAATTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGCATATG
*
1000771 AGTGCATTATC-AC
66 GGTGCATTATCGAC
1000784 ATAAAA
1 ATAAAA
1000790 ATTTTGCTAT
Statistics
Matches: 151, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
78 7 0.05
79 144 0.95
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGCATATG
GGTGCATTATCGAC
Found at i:1000641 original size:34 final size:34
Alignment explanation
Indices: 1000603--1000746 Score: 135
Period size: 34 Copynumber: 3.9 Consensus size: 34
1000593 TCATAGCTGA
*
1000603 AATGCATATGGGTGCATTATCGACATAAAATAAT
1 AATGCATATGGGTGCATTATCGGCATAAAATAAT
*
1000637 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
1 AATGCATATGGGTGCATTATCGGCAT-AAA--AT---A-A--T
*
1000680 GAAATGCATATGGGTGCATTATCGGCATAAAAGAAT
1 --AATGCATATGGGTGCATTATCGGCATAAAATAAT
* *
1000716 AATGCATATGCGTGCATTATTGGCATGAAAA
1 AATGCATATGGGTGCATTATCGGCAT-AAAA
1000747 GATGCCAAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 23
0.76 0.05 0.19
Matches are distributed among these distances:
34 48 0.52
35 7 0.08
36 1 0.01
37 2 0.02
38 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
42 1 0.01
43 1 0.01
44 3 0.03
45 25 0.27
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATCGGCATAAAATAAT
Found at i:1000688 original size:45 final size:41
Alignment explanation
Indices: 1000637--1000780 Score: 140
Period size: 45 Copynumber: 3.5 Consensus size: 41
1000627 ATAAAATAAT
1000637 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAA-GATGCCA-A--TGA
*
1000682 AATGCATATGGGTGCATTATCGGCAT-AAA-A-G--AAT--
1 AATGCATATGGGTGCATTATTGGCATGAAAGATGCCAATGA
*
1000716 AATGCATATGCGTGCATTATTGGCATGAAAAGATGCCAAAATTGA
1 AATGCATATGGGTGCATTATTGGCATG-AAAGATGCC--AA-TGA
*
1000761 AATGCATATGAGTGCATTAT
1 AATGCATATGGGTGCATTAT
1000781 CACATAAAAA
Statistics
Matches: 84, Mismatches: 4, Indels: 22
0.76 0.04 0.20
Matches are distributed among these distances:
34 24 0.29
36 4 0.05
37 1 0.01
38 2 0.02
39 1 0.01
41 1 0.01
42 3 0.04
43 1 0.01
44 3 0.04
45 44 0.52
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (41 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGATGCCAATGA
Found at i:1003640 original size:21 final size:20
Alignment explanation
Indices: 1003611--1003654 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
1003601 ACTCCGGTCT
*
1003611 TCAAATCTTTGTTTATTTAAC
1 TCAAATC-TTGTCTATTTAAC
*
1003632 TCAAGTCTTGTCTATTTAAC
1 TCAAATCTTGTCTATTTAAC
1003652 TCA
1 TCA
1003655 CTGTCAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.48
Consensus pattern (20 bp):
TCAAATCTTGTCTATTTAAC
Found at i:1024022 original size:17 final size:17
Alignment explanation
Indices: 1024000--1024037 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
1023990 TATGGGGATT
1024000 CAGCTTTGGTAATATAC
1 CAGCTTTGGTAATATAC
1024017 CAGC-TTGGTAATATAC
1 CAGCTTTGGTAATATAC
1024033 CAGCT
1 CAGCT
1024038 CAGAGGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (17 bp):
CAGCTTTGGTAATATAC
Found at i:1025568 original size:19 final size:17
Alignment explanation
Indices: 1025544--1025670 Score: 72
Period size: 18 Copynumber: 7.6 Consensus size: 17
1025534 CTTGAAGAAG
1025544 AAATGAAAAAAAGGAGGAA
1 AAATGAAAAAAA--AGGAA
* *
1025563 AAATGAAAGAAAATGAA
1 AAATGAAAAAAAAGGAA
*
1025580 AAATGAGAAAAAAATGAA
1 AAATGA-AAAAAAAGGAA
*
1025598 AAATGGTGAAAAAAA-GAA
1 AAAT-G-AAAAAAAAGGAA
* *
1025616 AAAAG-AAAAATA--AA
1 AAATGAAAAAAAAGGAA
*
1025630 AAAT--AAAAAAATGAA
1 AAATGAAAAAAAAGGAA
*
1025645 AAAAGAAGAAAAAA-GAA
1 AAATGAA-AAAAAAGGAA
1025662 AAAT-AAAAA
1 AAATGAAAAA
1025671 GAAATAAAAT
Statistics
Matches: 90, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.07
14 5 0.06
15 14 0.16
16 2 0.02
17 18 0.20
18 26 0.29
19 19 0.21
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.09
Consensus pattern (17 bp):
AAATGAAAAAAAAGGAA
Found at i:1025593 original size:18 final size:18
Alignment explanation
Indices: 1025560--1025658 Score: 81
Period size: 18 Copynumber: 5.9 Consensus size: 18
1025550 AAAAAAGGAG
*
1025560 GAAAAATGA-AAGAAAAT
1 GAAAAATGAGAAAAAAAT
1025577 GAAAAATGAGAAAAAAAT
1 GAAAAATGAGAAAAAAAT
*
1025595 GAAAAATGGTGAAAAAAA-
1 GAAAAAT-GAGAAAAAAAT
1025613 GAAAAA--AG--AAAAAT
1 GAAAAATGAGAAAAAAAT
*
1025627 -AAAAA--ATAAAAAAAT
1 GAAAAATGAGAAAAAAAT
*
1025642 GAAAAAAGAAGAAAAAA
1 GAAAAATG-AGAAAAAA
1025659 GAAAAATAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
13 11 0.16
15 7 0.10
16 5 0.07
17 9 0.13
18 20 0.29
19 16 0.24
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (18 bp):
GAAAAATGAGAAAAAAAT
Found at i:1025600 original size:10 final size:10
Alignment explanation
Indices: 1025561--1025658 Score: 52
Period size: 10 Copynumber: 10.3 Consensus size: 10
1025551 AAAAAGGAGG
1025561 AAAAATGAAA
1 AAAAATGAAA
*
1025571 GAAAATG---
1 AAAAATGAAA
1025578 AAAAATGAGAA
1 AAAAATGA-AA
1025589 AAAAATGAAA
1 AAAAATGAAA
***
1025599 AATGGTG-AA
1 AAAAATGAAA
1025608 AAAAA-GAAA
1 AAAAATGAAA
*
1025617 AAAGAA-AAATA
1 AAA-AATGAA-A
1025628 AAAAAT--AA
1 AAAAATGAAA
1025636 AAAAATGAAA
1 AAAAATGAAA
1025646 AAAGAA-GAAA
1 AAA-AATGAAA
1025656 AAA
1 AAA
1025659 GAAAAATAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
7 6 0.09
8 8 0.12
9 10 0.15
10 30 0.44
11 14 0.21
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (10 bp):
AAAAATGAAA
Found at i:1025638 original size:29 final size:29
Alignment explanation
Indices: 1025606--1025674 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
1025596 AAAAATGGTG
1025606 AAAAAAAGAAAAAAGAA-AAATAAA-AAATA
1 AAAAAAAGAAAAAAGAAGAAA-AAAGAAA-A
*
1025635 AAAAAATGAAAAAAGAAGAAAAAAGAAAA
1 AAAAAAAGAAAAAAGAAGAAAAAAGAAAA
*
1025664 ATAAAAAGAAA
1 AAAAAAAGAAA
1025675 TAAAATGAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 29 0.83
30 6 0.17
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (29 bp):
AAAAAAAGAAAAAAGAAGAAAAAAGAAAA
Found at i:1025660 original size:7 final size:7
Alignment explanation
Indices: 1025607--1025674 Score: 54
Period size: 7 Copynumber: 9.4 Consensus size: 7
1025597 AAAATGGTGA
1025607 AAAAAAG
1 AAAAAAG
1025614 AAAAAAG
1 AAAAAAG
1025621 AAAAATA-
1 AAAAA-AG
1025628 AAAAATA-
1 AAAAA-AG
1025635 AAAAAATG
1 AAAAAA-G
1025643 AAAAAAG
1 AAAAAAG
1025650 AAGAAAA-
1 AA-AAAAG
1025657 AAGAAAA-
1 AA-AAAAG
1025664 ATAAAAAG
1 A-AAAAAG
1025672 AAA
1 AAA
1025675 TAAAATGAGG
Statistics
Matches: 55, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
6 1 0.02
7 41 0.75
8 13 0.24
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (7 bp):
AAAAAAG
Found at i:1025675 original size:10 final size:9
Alignment explanation
Indices: 1025606--1025679 Score: 60
Period size: 10 Copynumber: 7.7 Consensus size: 9
1025596 AAAAATGGTG
1025606 AAAAAAAGA
1 AAAAAAAGA
*
1025615 AAAAAGAAAA
1 AAAAA-AAGA
*
1025625 ATAAAAAATA
1 A-AAAAAAGA
*
1025635 AAAAAATGA
1 AAAAAAAGA
1025644 AAAAAGAAGA
1 AAAAA-AAGA
1025654 AAAAAGAA-A
1 AAAAA-AAGA
1025663 AATAAAAAGA
1 AA-AAAAAGA
1025673 AATAAAA
1 AA-AAAA
1025680 TGAGGGTTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
9 21 0.38
10 30 0.55
11 4 0.07
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:1026709 original size:143 final size:143
Alignment explanation
Indices: 1026451--1026741 Score: 557
Period size: 143 Copynumber: 2.0 Consensus size: 143
1026441 GGATCATGGC
*
1026451 ATTCATAATTGCATGATGACTTAAATATCTACAGGTTTCCCAGGGATAGTTGAAGATTGAATATA
1 ATTCATAATTGCATGATGACTTAAATATCTACAGGGTTCCCAGGGATAGTTGAAGATTGAATATA
1026516 TGAAAGTATCAAGATGAAGATAACTAGTTTTGAAATCTTGAAAAGAATGATGTTTAGACGACAAC
66 TGAAAGTATCAAGATGAAGATAACTAGTTTTGAAATCTTGAAAAGAATGATGTTTAGACGACAAC
1026581 TGAGCCAAAGTAG
131 TGAGCCAAAGTAG
1026594 ATTCATAATTGCATGATGACTTTAAATATCTAC-GGGTTCCCAGGGATAGTTGAAGATTGAATAT
1 ATTCATAATTGCATGATGAC-TTAAATATCTACAGGGTTCCCAGGGATAGTTGAAGATTGAATAT
1026658 ATGAAAGTATCAAGATGAAGATAACTAGTTTTGAAATCTTGAAAAGAATGATGTTTAGACGACAA
65 ATGAAAGTATCAAGATGAAGATAACTAGTTTTGAAATCTTGAAAAGAATGATGTTTAGACGACAA
1026723 CTGAGCCAAAGTAG
130 CTGAGCCAAAGTAG
1026737 ATTCA
1 ATTCA
1026742 CATATCCAAT
Statistics
Matches: 146, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
143 134 0.92
144 12 0.08
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (143 bp):
ATTCATAATTGCATGATGACTTAAATATCTACAGGGTTCCCAGGGATAGTTGAAGATTGAATATA
TGAAAGTATCAAGATGAAGATAACTAGTTTTGAAATCTTGAAAAGAATGATGTTTAGACGACAAC
TGAGCCAAAGTAG
Found at i:1027106 original size:55 final size:54
Alignment explanation
Indices: 1026977--1027329 Score: 344
Period size: 55 Copynumber: 6.6 Consensus size: 54
1026967 TTTATGAAGA
* * * *
1026977 TCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGCTGAAGA---
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTT
* * *
1027028 TCGAGTCCTATACTCTCTGAAGGAATAGGGTGCGGACAAGTTTGTTGAAGATTGT
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATT-T
* * * *
1027083 TCGAGT-TCTATACTATCTGAAGGAATAGAGAGCGGGCACGTTTATTGAAGA---
1 TCGAGTCT-TATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTT
* * * *
1027134 TAGAGTCTTATACTCTCTGAAGGAATAGGGAACAGACCCGTTTGTTGAAGATTAT
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATT-T
*
1027189 TCGAGTCTTATACTC-CTTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
1 TCGAGTCTTATACTCTC-TGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATT-T
* * * ** * **
1027244 TTGAGTCTTATACTCCCTGAATGAATAGGGAGCAAACATGTTTGCCGAAGATTGT
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATT-T
* * * *
1027299 CCGAGTCTTATACTCCCTAAAAGAATAGGGA
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGA
1027330 ACAGACTCGT
Statistics
Matches: 256, Mismatches: 34, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
51 87 0.34
52 1 0.00
54 1 0.00
55 166 0.65
56 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (54 bp):
TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTT
Found at i:1027114 original size:106 final size:105
Alignment explanation
Indices: 1026977--1027240 Score: 341
Period size: 106 Copynumber: 2.5 Consensus size: 105
1026967 TTTATGAAGA
* * * *
1026977 TCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGCTGAAGATCGAGTCCTATACT
1 TCGAGTTCTATACT-TCTGAAGGAATAGAGAGCGGACACGTTTGTTGAAGATAGAGTCCTATACT
** * *
1027042 CTCTGAAGGAATAGGGTGCGGACAAGTTTGTTGAAGATTGT
65 CTCTGAAGGAATAGGGAACAGACAAGTTTGTTGAAGATTAT
* * *
1027083 TCGAGTTCTATACTATCTGAAGGAATAGAGAGCGGGCACGTTTATTGAAGATAGAGTCTTATACT
1 TCGAGTTCTATACT-TCTGAAGGAATAGAGAGCGGACACGTTTGTTGAAGATAGAGTCCTATACT
**
1027148 CTCTGAAGGAATAGGGAACAGACCCGTTTGTTGAAGATTAT
65 CTCTGAAGGAATAGGGAACAGACAAGTTTGTTGAAGATTAT
* * *
1027189 TCGAG-TCTTATACTCCTTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGAT
1 TCGAGTTC-TATACTTC-TGAAGGAATAGAGAGCGGACACGTTTGTTGAAGAT
1027241 TGTTTGAGTC
Statistics
Matches: 137, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
105 3 0.02
106 134 0.98
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (105 bp):
TCGAGTTCTATACTTCTGAAGGAATAGAGAGCGGACACGTTTGTTGAAGATAGAGTCCTATACTC
TCTGAAGGAATAGGGAACAGACAAGTTTGTTGAAGATTAT
Found at i:1027347 original size:110 final size:110
Alignment explanation
Indices: 1027136--1027351 Score: 272
Period size: 110 Copynumber: 2.0 Consensus size: 110
1027126 ATTGAAGATA
* * * ** *
1027136 GAGTCTTATACTCTCTGAAGGAATAGGGAACAGACCCGTTTGTTGAAGATTATTCGAGTCTTATA
1 GAGTCTTATACTCCCTGAAGGAATAGGGAACAAACACGTTTGCCGAAGATTATCCGAGTCTTATA
* * * * *
1027201 CTCCTTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTT
66 CTCCCTAAAAGAATAGGGAACAGACACGTATGTTGAAGATTGTTT
* * * *
1027246 GAGTCTTATACTCCCTGAATGAATAGGGAGCAAACATGTTTGCCGAAGATTGTCCGAGTCTTATA
1 GAGTCTTATACTCCCTGAAGGAATAGGGAACAAACACGTTTGCCGAAGATTATCCGAGTCTTATA
*
1027311 CTCCCTAAAAGAATAGGGAACAGACTCGTCAT-TTGAAGATT
66 CTCCCTAAAAGAATAGGGAACAGACACGT-ATGTTGAAGATT
1027352 TTTCAAGTCT
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
110 88 0.99
111 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (110 bp):
GAGTCTTATACTCCCTGAAGGAATAGGGAACAAACACGTTTGCCGAAGATTATCCGAGTCTTATA
CTCCCTAAAAGAATAGGGAACAGACACGTATGTTGAAGATTGTTT
Found at i:1032087 original size:44 final size:45
Alignment explanation
Indices: 1032039--1032123 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 45
1032029 TGAACATCGA
* *
1032039 ATGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCTTTT
1 ATGCATTTGATGCATCGATGCACTAGACCATGCATCGATGCTTTT
*
1032083 ATGCATTTGATGCATCGATGTACTAGACCATGCATCGATGC
1 ATGCATTTGATGCATCGATGCACTAGACCATGCATCGATGC
1032124 ACTCAAGCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 21 0.57
45 16 0.43
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (45 bp):
ATGCATTTGATGCATCGATGCACTAGACCATGCATCGATGCTTTT
Found at i:1032912 original size:30 final size:29
Alignment explanation
Indices: 1032857--1032914 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
1032847 GAGAAGAAAC
*
1032857 ATGTTGAATGAGTTAAGATAGTGGTGAGG
1 ATGTTGAATGAGTAAAGATAGTGGTGAGG
*
1032886 ATGTTGAAGTTAGTAAAGAT-GATGGTGAG
1 ATGTTGAA-TGAGTAAAGATAG-TGGTGAG
1032915 AAGCTTGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (29 bp):
ATGTTGAATGAGTAAAGATAGTGGTGAGG
Found at i:1043146 original size:22 final size:25
Alignment explanation
Indices: 1043090--1043140 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
1043080 TCTTAATTTA
1043090 TTATGAG--AAAAATAATCTCTAAC
1 TTATGAGAAAAAAATAATCTCTAAC
*
1043113 TTATGAGAAAAAAATAATCTTTAAC
1 TTATGAGAAAAAAATAATCTCTAAC
1043138 TTA
1 TTA
1043141 GAAAAACACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 7 0.28
25 18 0.72
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (25 bp):
TTATGAGAAAAAAATAATCTCTAAC
Found at i:1046187 original size:21 final size:21
Alignment explanation
Indices: 1046163--1046202 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1046153 CCCTCTAGAT
*
1046163 ATTATTATTT-TTAATTAAATC
1 ATTATT-TTTATTAAATAAATC
1046184 ATTATTTTTATTAAATAAA
1 ATTATTTTTATTAAATAAA
1046203 AGTAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTATTTTTATTAAATAAATC
Found at i:1046196 original size:17 final size:18
Alignment explanation
Indices: 1046166--1046199 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1046156 TCTAGATATT
1046166 ATTATTTTTAATTAAATC
1 ATTATTTTTAATTAAATC
1046184 ATTATTTTT-ATTAAAT
1 ATTATTTTTAATTAAAT
1046200 AAAAGTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTATTTTTAATTAAATC
Found at i:1046459 original size:14 final size:14
Alignment explanation
Indices: 1046436--1046465 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1046426 TAAACTTTGT
1046436 TGCCAAAATAAGAG
1 TGCCAAAATAAGAG
*
1046450 TGCCAGAATAAGAG
1 TGCCAAAATAAGAG
1046464 TG
1 TG
1046466 AGAAGATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.13, G:0.27, T:0.17
Consensus pattern (14 bp):
TGCCAAAATAAGAG
Found at i:1055590 original size:33 final size:33
Alignment explanation
Indices: 1055542--1055656 Score: 149
Period size: 33 Copynumber: 3.5 Consensus size: 33
1055532 AACCATACGC
*
1055542 CGGCTGATAAGGATACATGCTCATCTCGTGCGG
1 CGGCTGATAAGGATACATGCTCATCCCGTGCGG
* * * *
1055575 CGTCTGATAATGATACATGCTCATCCCTTGCGA
1 CGGCTGATAAGGATACATGCTCATCCCGTGCGG
* * *
1055608 TGGCGGATAAGGATACATGCACATCCCGTGCGG
1 CGGCTGATAAGGATACATGCTCATCCCGTGCGG
*
1055641 CGGATGATAAGGATAC
1 CGGCTGATAAGGATAC
1055657 GAATCACCGT
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 67 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (33 bp):
CGGCTGATAAGGATACATGCTCATCCCGTGCGG
Found at i:1056990 original size:231 final size:235
Alignment explanation
Indices: 1056582--1057052 Score: 871
Period size: 231 Copynumber: 2.0 Consensus size: 235
1056572 TAAATAAATT
*
1056582 ATAAATAAGATCTCTTTAAGTTTATTCTAATTTCCTTCATGAAATCATATTTTATAACTATTAAT
1 ATAAATAAGATCTCTTTAAGTTTATTCTAATTTCCTTCATGAAATCATATTTTATAAC-ACTAAT
1056647 TCTAATTATAGTCACTAAACTTTATCATACATATAATATGAATGAAATGAAAAAAATAAAAAAAT
65 TCTAATTATAGTCACTAAACTTTATCATACA-ATAATATGAATGAAATGAAAAAAATAAAAAAAT
1056712 ATATATATATAAATTTATTTCTCGTGAAGTGATAATATATAGGGGTGTATTCGGTTCGG-TCGG-
129 ATATATATATAAATTTATTTCTCGTGAAGTGATAATATATAGGGGTGTATTCGGTTCGGTTCGGT
1056775 TTTTTACTAAAAAACGAACCGAACCGAAATAAACGATTTTTCA
194 TTTTTACT-AAAAACGAACCGAACCGAAATAAACGATTTTTCA
1056818 ATAAATAAGATCTCTTTAAGTTTATTCTAATTTCCTTCATGAAATCATATTTT-TAA-ACTAATT
1 ATAAATAAGATCTCTTTAAGTTTATTCTAATTTCCTTCATGAAATCATATTTTATAACACTAATT
1056881 CTAATTATAGTCACTAAACTTTATCATAC-ATAATATGAATGAAATGAAAAAAATAAAAAAATAT
66 CTAATTATAGTCACTAAACTTTATCATACAATAATATGAATGAAATGAAAAAAATAAAAAAATAT
1056945 ATATATATAAATTTATTTCTCGTGAAGTGATAATATATAGGGGTGTATTCGGTTCGGTTCGGTTT
131 ATATATATAAATTTATTTCTCGTGAAGTGATAATATATAGGGGTGTATTCGGTTCGGTTCGGTTT
1057010 TTTACTAAAAACGAACCGAACCGAAATAAACGATTTTTCA
196 TTTACTAAAAACGAACCGAACCGAAATAAACGATTTTTCA
1057050 ATA
1 ATA
1057053 TTTAAACCGA
Statistics
Matches: 232, Mismatches: 1, Indels: 8
0.96 0.00 0.03
Matches are distributed among these distances:
231 92 0.40
232 41 0.18
233 43 0.19
235 3 0.01
236 53 0.23
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (235 bp):
ATAAATAAGATCTCTTTAAGTTTATTCTAATTTCCTTCATGAAATCATATTTTATAACACTAATT
CTAATTATAGTCACTAAACTTTATCATACAATAATATGAATGAAATGAAAAAAATAAAAAAATAT
ATATATATAAATTTATTTCTCGTGAAGTGATAATATATAGGGGTGTATTCGGTTCGGTTCGGTTT
TTTACTAAAAACGAACCGAACCGAAATAAACGATTTTTCA
Found at i:1057152 original size:19 final size:19
Alignment explanation
Indices: 1057101--1057154 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 19
1057091 CGAAACCGGT
1057101 TTTTTCGGTTCGGTTCGGA
1 TTTTTCGGTTCGGTTCGGA
1057120 TTTTT---TTACGGTTC-GA
1 TTTTTCGGTT-CGGTTCGGA
1057136 GTTTTTCGGTTCGGTTCGG
1 -TTTTTCGGTTCGGTTCGG
1057155 TTCGGTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
16 4 0.14
17 11 0.38
19 11 0.38
20 3 0.10
ACGTcount: A:0.06, C:0.15, G:0.30, T:0.50
Consensus pattern (19 bp):
TTTTTCGGTTCGGTTCGGA
Found at i:1057310 original size:25 final size:23
Alignment explanation
Indices: 1057282--1057334 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 23
1057272 AAAAAAATGA
1057282 AACC-TTTAAACCGAACCGAAAACCG
1 AACCGTTTAAACC-AACCG--AACCG
*
1057307 AACCGTTTAAAGCAACCGAACCG
1 AACCGTTTAAACCAACCGAACCG
1057330 AACCG
1 AACCG
1057335 AACCGTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 10 0.38
25 9 0.35
26 7 0.27
ACGTcount: A:0.42, C:0.32, G:0.15, T:0.11
Consensus pattern (23 bp):
AACCGTTTAAACCAACCGAACCG
Found at i:1062558 original size:23 final size:23
Alignment explanation
Indices: 1062523--1062581 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
1062513 ATTAAGTATA
* *
1062523 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCACTTAT
*
1062546 ATAATGTAATAGGTAGCACTTAT
1 ATAATATAATAGGTAGCACTTAT
*
1062569 ATAATAAAATAGG
1 ATAATATAATAGG
1062582 CATTTAACCG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (23 bp):
ATAATATAATAGGTAGCACTTAT
Found at i:1062600 original size:87 final size:87
Alignment explanation
Indices: 1062495--1062657 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
1062485 TATGTTATAT
* *
1062495 CATTTAACCGAAAATATTATTAAGTATAATAATATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGTACAATAATATATTAGGTAGCGCTTATATAATGTAATAGGT
1062560 AGCACTTATATAATAAAATAGG
66 AGCACTTATATAATAAAATAGG
*
1062582 CATTTAACCGGAAATATTATCAAGTACAATAATATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGTACAATAATATATTAGGTAGCGCTTATATAATGTAATAGGT
*
1062647 AGCGCTTATAT
66 AGCACTTATAT
1062658 TGACCTATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (87 bp):
CATTTAACCGAAAATATTATCAAGTACAATAATATATTAGGTAGCGCTTATATAATGTAATAGGT
AGCACTTATATAATAAAATAGG
Found at i:1062645 original size:23 final size:23
Alignment explanation
Indices: 1062610--1062657 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
1062600 ATCAAGTACA
*
1062610 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
1062633 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
1062656 AT
1 AT
1062658 TGACCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:1063601 original size:20 final size:20
Alignment explanation
Indices: 1063550--1063601 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
1063540 CATATCTAGT
**
1063550 ATATTTTTACCGGTTTTATC
1 ATATTTTTACCTCTTTTATC
* *
1063570 AT-TTTTAGACCTCTTTTGTC
1 ATATTTT-TACCTCTTTTATC
1063590 ATATTTTTACCT
1 ATATTTTTACCT
1063602 GTTATATTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
19 4 0.16
20 17 0.68
21 4 0.16
ACGTcount: A:0.19, C:0.17, G:0.08, T:0.56
Consensus pattern (20 bp):
ATATTTTTACCTCTTTTATC
Found at i:1063709 original size:363 final size:364
Alignment explanation
Indices: 1063039--1064337 Score: 2036
Period size: 363 Copynumber: 3.6 Consensus size: 364
1063029 TGTTGACTTA
* * *
1063039 TTTTCTCATATTTTTAGCTGTTCTATTGTTATCGATCGATACATTTTCATAAAGTGTCGACACTT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTT
*
1063104 TTTAGGTGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
* * * *
1063169 CACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGATCGATTTTGTCATA-TT
131 CACTTTCAACATATCCGGTAGAGTTTTACCGGTTTTATCATTTTGAGACCGGTTTTGTCATATTT
* *
1063233 TTACATGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCAACACTTTATAGGC-TCTAT
196 TTACATGTTATATTGTTATAGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGT-TAT
*
1063297 AACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATAAAAGTATCGACACTTTCAACAT
260 AACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACAT
1063362 ATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
325 ATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
*
1063402 TTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACGCTT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTT
*
1063467 TTTAGGCGC-ATAACTTCTTCTCTTTTAAATTCTA-AAAGTGTCAATACTTATATTAAATTATCG
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTC-AGAAAGTGTCGATACTTATATTAAATTATCG
** * * * **
1063530 ACACTTTCAACATATCTAGTATATTTTTACCGGTTTTATCATTTTTAGACCTCTTTTGTCATATT
130 ACACTTTCAACATATCCGGTAGAGTTTTACCGGTTTTATCATTTTGAGACCGGTTTTGTCATATT
* * * *
1063595 TTTACCTGTTATATTGTTATAGATTGATACATTTTTTTAAAGTATCGATACTTTATAAGCGTTAT
195 TTTACATGTTATATTGTTATAGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGTTAT
*
1063660 AACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACAT
260 AACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACAT
1063725 ATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
325 ATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
* * *
1063765 TTTTGTCATATTTTTAGATGTTATATTGTTATGGATTGATACATTTTCATAAAGTGTCGATACTT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTT
* *
1063830 TTTAGGCGCTACAACTTCTTCTCTTTTAAATTTAGAAAGTGTCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
1063895 CACTTTCAACATATCCGGT--AG------C-G--------TTTT---ACCGGTTTTGTCATATTT
131 CACTTTCAACATATCCGGTAGAGTTTTACCGGTTTTATCATTTTGAGACCGGTTTTGTCATATTT
* *
1063940 TTACATGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATA
196 TTACATGTTATATTGTTATAGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGTTATA
* *
1064005 ACTTCTTCTCTTTTAAATTCCAAAAGTGTAGATAATTATATTAAAGTATCGACACTTTCAACATA
261 ACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACATA
1064070 TCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
326 TCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
* * * *
1064109 TTTTGTCATATTTTTAGCTGTTATAATATTATGGATCGATACATTTTCATAAAATTTCGACACTT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTT
1064174 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
* *
1064239 CACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACC-GTTTTGTCATATTT
131 CACTTTCAACATATCCGGTAGAGTTTTACCGGTTTTATCATTTTGAGACCGGTTTTGTCATATTT
*
1064303 TTACCTGTTATATTGTTATAGATCGATACATTTTT
196 TTACATGTTATATTGTTATAGATCGATACATTTTT
1064338 CATTTGTATC
Statistics
Matches: 854, Mismatches: 57, Indels: 50
0.89 0.06 0.05
Matches are distributed among these distances:
344 316 0.37
346 1 0.00
347 4 0.00
352 1 0.00
353 1 0.00
355 1 0.00
356 1 0.00
361 4 0.00
362 105 0.12
363 349 0.41
364 71 0.08
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.44
Consensus pattern (364 bp):
TTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTT
TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
CACTTTCAACATATCCGGTAGAGTTTTACCGGTTTTATCATTTTGAGACCGGTTTTGTCATATTT
TTACATGTTATATTGTTATAGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGTTATA
ACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACATA
TCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
Found at i:1063726 original size:182 final size:182
Alignment explanation
Indices: 1063039--1063935 Score: 1297
Period size: 181 Copynumber: 4.9 Consensus size: 182
1063029 TGTTGACTTA
* * *
1063039 TTTTCTCATATTTTTAGCTGTTCTATTGTTATCGATCGATACATTTTCATAAAGTGTCGACACTT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTT
*
1063104 TTTAGGTGCTATAACTTCTTCTCTTTTAAATTC-AGAAAGTGTCGATACTTATATTAAATTATCG
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCTA-AAAGTGTCGATACTTATATTAAATTATCG
* * *
1063168 ACACTTTCAACATATCCGGTAGCGT-TTTACCGGTTTTGTCATTTTGAGATCGA
130 ACACTTTCAACATATCCGGTAG-TTATTTACCGGTTTTGTCATTTTGAGACCGG
** * *
1063221 TTTTGTCATA-TTTTA-CATGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCAACACT
1 TTTTGTCATATTTTTAGC-TGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
* * * * *
1063284 TTATAGGCTCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATAAAAGTATCG
65 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATACTTATATTAAATTATCG
*
1063349 ACACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
130 ACACTTTCAACATATCCGGTAGTTATTTACCGGTTTTGTCATTTTGAGACCGG
*
1063402 TTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACGCTT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTT
*
1063467 TTTAGGCGC-ATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCAATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATACTTATATTAAATTATCGA
** * * * **
1063531 CACTTTCAACATATCTAGTA-TATTTTTACCGGTTTTATCATTTTTAGACCTC
131 CACTTTCAACATATCCGGTAGT-TATTTACCGGTTTTGTCATTTTGAGACCGG
* * * ** * *
1063583 TTTTGTCATATTTTTACCTGTTATATTGTTATAGATTGATACATTTTTTTAAAGTATCGATACTT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTT
* * * *
1063648 TATAAGCGTTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATACTTATATTAAAGTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATACTTATATTAAATTATCGA
*
1063713 CACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
131 CACTTTCAACATATCCGGTAGTTATTTACCGGTTTTGTCATTTTGAGACCGG
* * *
1063765 TTTTGTCATATTTTTAGATGTTATATTGTTATGGATTGATACATTTTCATAAAGTGTCGATACTT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTT
*
1063830 TTTAGGCGCTACAACTTCTTCTCTTTTAAATT-TAGAAAGTGTCGATACTTATATTAAATTATCG
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCTA-AAAGTGTCGATACTTATATTAAATTATCG
*
1063894 ACACTTTCAACATATCCGGTAGCGT-TTTACCGGTTTTGTCAT
130 ACACTTTCAACATATCCGGTAG-TTATTTACCGGTTTTGTCAT
1063936 ATTTTTACAT
Statistics
Matches: 636, Mismatches: 69, Indels: 20
0.88 0.10 0.03
Matches are distributed among these distances:
180 3 0.00
181 318 0.50
182 312 0.49
183 3 0.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (182 bp):
TTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTT
TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATACTTATATTAAATTATCGA
CACTTTCAACATATCCGGTAGTTATTTACCGGTTTTGTCATTTTGAGACCGG
Found at i:1064033 original size:162 final size:162
Alignment explanation
Indices: 1063760--1064097 Score: 518
Period size: 162 Copynumber: 2.1 Consensus size: 162
1063750 TCATTTTGAG
* * *
1063760 ACCGGTTTTGTCATATTTTTAGATGTTATATTGTTATGGATTGATACATTTTCATAAAGTGTCGA
1 ACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGA
* * * * * *
1063825 TACTTTTTAGGCGCTACAACTTCTTCTCTTTTAAATTTAGAAAGTGTCGATACTTATATTAAATT
66 CACTTTATAGGCGCTACAACTTCTTCTCTTTTAAATTCAGAAAGTGTAGATAATTATATTAAAGT
1063890 ATCGACACTTTCAACATATCCGGTAGCGT-TTT
131 ATCGACACTTTCAACATATCCGGTAG-GTATTT
**
1063922 ACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGA
*
1063987 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTAGATAATTATATTAAAG
66 CACTTTATAGGCGCTACAACTTCTTCTCTTTTAAATT-CAGAAAGTGTAGATAATTATATTAAAG
*
1064051 TATCGACACTTTCAACATATCCGGTAGTTATTT
130 TATCGACACTTTCAACATATCCGGTAGGTATTT
*
1064084 ACCTGTTTTGTCAT
1 ACCGGTTTTGTCAT
1064098 TTTGAGACCG
Statistics
Matches: 160, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
161 1 0.01
162 158 0.99
163 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (162 bp):
ACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGA
CACTTTATAGGCGCTACAACTTCTTCTCTTTTAAATTCAGAAAGTGTAGATAATTATATTAAAGT
ATCGACACTTTCAACATATCCGGTAGGTATTT
Found at i:1064213 original size:344 final size:344
Alignment explanation
Indices: 1063221--1064279 Score: 1665
Period size: 344 Copynumber: 3.0 Consensus size: 344
1063211 TTGAGATCGA
*
1063221 TTTTGTCATA-TTTTACATGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCAACACTT
1 TTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTT
* *
1063285 TATAGGCTCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATAAAAGTATCGA
66 TATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGA
1063350 CACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
131 CACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
*
1063415 TTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACGCTTTTTAGGCGC-ATA
196 TTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATA
*
1063479 ACTTCTTCTCTTTTAAATTCTA-AAAGTGTCAATACTTATATTAAATTATCGACACTTTCAACAT
261 ACTTCTTCTCTTTTAAATTC-AGAAAGTGTCGATACTTATATTAAATTATCGACACTTT---CA-
* * **
1063543 ATCTAGTATATTTTTACCGGTTTTATCATTTTTAGACCTC
321 A-C----ATA----T-CCGG---TAGC-GTTTT--ACCGG
* * * *
1063583 TTTTGTCATATTTTTACCTGTTATATTGTTATAGATTGATACATTTTTTTAAAGTATCGATACTT
1 TTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTT
* * *
1063648 TATAAGCGTTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATACTTATATTAAAGTATCGA
66 TATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGA
1063713 CACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
131 CACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
* * * *
1063778 TTAGATGTTATATTGTTATGGATTGATACATTTTCATAAAGTGTCGATACTTTTTAGGCGCTACA
196 TTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATA
*
1063843 ACTTCTTCTCTTTTAAATTTAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATA
261 ACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATA
1063908 TCCGGTAGCGTTTTACCGG
326 TCCGGTAGCGTTTTACCGG
1063927 TTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTT
1 TTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTT
* *
1063992 TATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTAGATAATTATATTAAAGTATCGA
66 TATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGA
1064057 CACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
131 CACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
* * * *
1064122 TTAGCTGTTATAATATTATGGATCGATACATTTTCATAAAATTTCGACACTTTTTAGGCGCTATA
196 TTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATA
1064187 ACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATA
261 ACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATA
1064252 TCCGGTAGCGTTTTACCGG
326 TCCGGTAGCGTTTTACCGG
1064271 TTTTGTCAT
1 TTTTGTCAT
1064280 TTTGAGACCG
Statistics
Matches: 655, Mismatches: 39, Indels: 24
0.91 0.05 0.03
Matches are distributed among these distances:
344 338 0.52
346 4 0.01
347 3 0.00
350 4 0.01
351 1 0.00
355 3 0.00
359 1 0.00
360 1 0.00
361 2 0.00
362 10 0.02
363 232 0.35
364 56 0.09
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (344 bp):
TTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTT
TATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGA
CACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
TTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATA
ACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATA
TCCGGTAGCGTTTTACCGG
Found at i:1064340 original size:182 final size:183
Alignment explanation
Indices: 1063922--1064340 Score: 659
Period size: 182 Copynumber: 2.3 Consensus size: 183
1063912 GTAGCGTTTT
* * *
1063922 ACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTT-TTAAAGTATCG
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTCATAAAATATCG
1063986 ACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTAGATAATTATATTAAAG
66 ACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTAGATAATTATATTAAAG
* *
1064051 TATCGACACTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAG
131 TATCGACACTTTCAACATATCCGGTAGGTATTTACCGGTTTTGTCATTTTGAG
* * * *
1064104 ACCGGTTTTGTCATATTTTTAGCTGTTATAATATTATGGATCGATACA-TTTTCATAAAATTTCG
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTCATAAAATATCG
* * *
1064168 ACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTATATTAAA
66 ACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTAGATAATTATATTAAA
*
1064232 TTATCGACACTTTCAACATATCCGGTAGCGT-TTTACCGGTTTTGTCATTTTGAG
130 GTATCGACACTTTCAACATATCCGGTAG-GTATTTACCGGTTTTGTCATTTTGAG
*
1064286 ACC-GTTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTTCAT
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTCAT
1064341 TTGTATCGAC
Statistics
Matches: 216, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
181 46 0.21
182 169 0.78
183 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.44
Consensus pattern (183 bp):
ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTCATAAAATATCG
ACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTAGATAATTATATTAAAG
TATCGACACTTTCAACATATCCGGTAGGTATTTACCGGTTTTGTCATTTTGAG
Found at i:1067332 original size:24 final size:24
Alignment explanation
Indices: 1067319--1067437 Score: 159
Period size: 24 Copynumber: 5.0 Consensus size: 24
1067309 AAACATAATT
*
1067319 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCATATCAGAATC
* *
1067343 TAGGTCAAGTATCATATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
* *
1067367 CAAGTCAAGTATCATATCATAATC
1 CATGTCAAGTATCATATCAGAATC
*
1067391 CATGTC-AGATATCAGATCAGAATC
1 CATGTCAAG-TATCATATCAGAATC
*
1067415 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCATATCAGAAT
1067438 TCAAATCGAA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 2 0.02
24 80 0.95
25 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.28
Consensus pattern (24 bp):
CATGTCAAGTATCATATCAGAATC
Found at i:1070020 original size:23 final size:23
Alignment explanation
Indices: 1069988--1070037 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
1069978 CCTCATTCTA
1069988 CAAATATTTACA-AAACTAACACC
1 CAAATATTTACACAAA-TAACACC
*
1070011 CAAATTTTTACACAAATAACACC
1 CAAATATTTACACAAATAACACC
1070034 CAAA
1 CAAA
1070038 CAGAAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (23 bp):
CAAATATTTACACAAATAACACC
Found at i:1072163 original size:24 final size:24
Alignment explanation
Indices: 1072150--1072268 Score: 159
Period size: 24 Copynumber: 5.0 Consensus size: 24
1072140 AAACATAATT
* *
1072150 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCAGATCAGAATC
*
1072174 CAGGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
* *
1072198 CAAGTCAAGTATCAGATCATAATC
1 CATGTCAAGTATCAGATCAGAATC
* *
1072222 AATGTC-AGATATCATATCAGAATC
1 CATGTCAAG-TATCAGATCAGAATC
1072246 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
1072269 TCAATCGAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 2 0.02
24 78 0.95
25 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:1074808 original size:23 final size:23
Alignment explanation
Indices: 1074776--1074827 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
1074766 CCACCTTCTA
1074776 CAAATATTTACA-AAACTAACACC
1 CAAATATTTACACAAA-TAACACC
* *
1074799 CAAATTTTTATACAAATAACACC
1 CAAATATTTACACAAATAACACC
1074822 CAAATA
1 CAAATA
1074828 GAAATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (23 bp):
CAAATATTTACACAAATAACACC
Found at i:1076711 original size:2 final size:2
Alignment explanation
Indices: 1076704--1076735 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1076694 CTTTTAAAAC
1076704 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1076736 GTTTCCCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1076930 original size:24 final size:24
Alignment explanation
Indices: 1076917--1077035 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
1076907 AAACATAATT
* *
1076917 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCAGATCAGAATC
*
1076941 CAGGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
* *
1076965 CAAGTCAAGTATCAGATCATAATC
1 CATGTCAAGTATCAGATCAGAATC
*
1076989 CATGTC-AGATATCATATCAGAATC
1 CATGTCAAG-TATCAGATCAGAATC
1077013 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
1077036 TCAAATCGAA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 2 0.02
24 80 0.95
25 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:1077051 original size:72 final size:71
Alignment explanation
Indices: 1076900--1077053 Score: 202
Period size: 72 Copynumber: 2.1 Consensus size: 71
1076890 AATATATAAA
* * *
1076900 AAAATCAAAACATAATTCATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATC
1 AAAATCAGATCATAATCCATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATC
*
1076965 CAAGTC
66 CAAATC
* * *
1076971 AAGTATCAGATCATAATCCATGTC-AGATATCATATCAGAATCCATGTCAAGTATCAGATCAGAA
1 AA-AATCAGATCATAATCCATGTCAAG-TATCATATCAAAATCCAGGTCAAGTATCAGATCAGAA
*
1077035 TTCAAATC
64 TCCAAATC
1077043 GAAAATCAGAT
1 -AAAATCAGAT
1077054 AAAATATTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
71 4 0.06
72 65 0.92
73 2 0.03
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (71 bp):
AAAATCAGATCATAATCCATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATC
CAAATC
Found at i:1081223 original size:2 final size:2
Alignment explanation
Indices: 1081216--1081266 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1081206 ATCTTTTAAA
1081216 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1081258 AC AC AC AC A
1 AC AC AC AC A
1081267 TATATATATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1081494 original size:24 final size:24
Alignment explanation
Indices: 1081464--1081578 Score: 151
Period size: 24 Copynumber: 4.8 Consensus size: 24
1081454 AAACATAATT
* * *
1081464 CATGTCAAGTATGATATCAAAATC
1 CATGTCAAGTATCAGATCAGAATC
*
1081488 CAGGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
* *
1081512 CAAGTCAAGTATCAGATCATAATC
1 CATGTCAAGTATCAGATCAGAATC
*
1081536 CATGTC-AGATATCATATCAGAATC
1 CATGTCAAG-TATCAGATCAGAATC
1081560 CATGTCAAGTATCAGATCA
1 CATGTCAAGTATCAGATCA
1081579 CAATTCAAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 2 0.03
24 75 0.95
25 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:1086275 original size:24 final size:24
Alignment explanation
Indices: 1086242--1086328 Score: 122
Period size: 24 Copynumber: 3.6 Consensus size: 24
1086232 ACATAATTCA
*
1086242 TATCAAGATCAGAATCCAAGTCAAG
1 TATC-AGATCAGAATCCATGTCAAG
*
1086267 TATCAGATCATAATCCATGT-AAG
1 TATCAGATCAGAATCCATGTCAAG
*
1086290 ATATCAGATCAGAATCTATGTCAAG
1 -TATCAGATCAGAATCCATGTCAAG
1086315 TATCAGATCAGAAT
1 TATCAGATCAGAAT
1086329 TCAAATCGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
23 3 0.05
24 46 0.82
25 7 0.12
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (24 bp):
TATCAGATCAGAATCCATGTCAAG
Found at i:1091567 original size:24 final size:24
Alignment explanation
Indices: 1091537--1091655 Score: 132
Period size: 24 Copynumber: 5.0 Consensus size: 24
1091527 AAACATAATT
* *
1091537 CATGTCAAGTATGATATCAAAATC
1 CATGTCAAGTATCATATCAGAATC
* * *
1091561 CAGGTCAAGTATCAGATTAGAATC
1 CATGTCAAGTATCATATCAGAATC
* * *
1091585 CAAGTCAAGTATCAGATCATAATC
1 CATGTCAAGTATCATATCAGAATC
**
1091609 CATGT-TTGATATCATATCAGAATC
1 CATGTCAAG-TATCATATCAGAATC
1091633 CATGTCAAGTATCATATCAGAAT
1 CATGTCAAGTATCATATCAGAAT
1091656 TCAAATCGAA
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
23 1 0.01
24 76 0.97
25 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (24 bp):
CATGTCAAGTATCATATCAGAATC
Found at i:1097611 original size:16 final size:16
Alignment explanation
Indices: 1097586--1097627 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
1097576 TGAAAAATTA
*
1097586 GCAAAGTTGAAAGTTG
1 GCAAAATTGAAAGTTG
1097602 GCAAAATTGAAAGTTG
1 GCAAAATTGAAAGTTG
*
1097618 GCAAATTTGA
1 GCAAAATTGA
1097628 CATCTTTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.26, T:0.26
Consensus pattern (16 bp):
GCAAAATTGAAAGTTG
Found at i:1099527 original size:60 final size:60
Alignment explanation
Indices: 1099431--1099548 Score: 157
Period size: 60 Copynumber: 2.0 Consensus size: 60
1099421 GATCGTTTGA
* * *
1099431 GATGAAATTCAAATGCTCAAAAGTTTAGAGACTAATTTAGAATGAGAATTATAATTTGGG
1 GATGAAATTCAAATACTCAAAAGTTTAGAGACTAATTTAAAATGAGAATAATAATTTGGG
* * * *
1099491 GATGAAATTTAAATATTTAAAAGTTTA-AGAATTAATTTAAAATGAGAATAATAATTTG
1 GATGAAATTCAAATACTCAAAAGTTTAGAG-ACTAATTTAAAATGAGAATAATAATTTG
1099549 AAATGAAGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 2 0.04
60 48 0.96
ACGTcount: A:0.46, C:0.03, G:0.16, T:0.35
Consensus pattern (60 bp):
GATGAAATTCAAATACTCAAAAGTTTAGAGACTAATTTAAAATGAGAATAATAATTTGGG
Found at i:1103782 original size:31 final size:31
Alignment explanation
Indices: 1103679--1103785 Score: 103
Period size: 31 Copynumber: 3.4 Consensus size: 31
1103669 TTAATTCTTT
* *
1103679 TAATTAGAACTAGATTAATTATATATATATATT
1 TAATAAGAACTAGATTAATTATATATATA-A-A
* *
1103712 TAAAAAGATACT-TATT-ATTATATGA-ATCAAA
1 TAATAAGA-ACTAGATTAATTATAT-ATAT-AAA
1103743 TAATAAGAACTAGATTAATTATATATATAAA
1 TAATAAGAACTAGATTAATTATATATATAAA
*
1103774 GAATAAGAACTA
1 TAATAAGAACTA
1103786 AACATATATA
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
30 3 0.05
31 25 0.41
32 19 0.31
33 11 0.18
34 3 0.05
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.36
Consensus pattern (31 bp):
TAATAAGAACTAGATTAATTATATATATAAA
Found at i:1103936 original size:16 final size:16
Alignment explanation
Indices: 1103917--1103952 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1103907 AAATCAATAA
* *
1103917 TTAAATTAAAATTCTC
1 TTAAACTAAAATACTC
1103933 TTAAACTAAAATACTC
1 TTAAACTAAAATACTC
1103949 TTAA
1 TTAA
1103953 TTAGATGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAACTAAAATACTC
Found at i:1112104 original size:16 final size:15
Alignment explanation
Indices: 1112079--1112113 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
1112069 TCATTTAGAG
1112079 AAAATATATTTTTCT
1 AAAATATATTTTTCT
*
1112094 AAAATTATATTTTTTT
1 AAAA-TATATTTTTCT
1112110 AAAA
1 AAAA
1112114 CCACAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
AAAATATATTTTTCT
Found at i:1112215 original size:34 final size:34
Alignment explanation
Indices: 1112177--1112242 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
1112167 TCGAACATCA
1112177 GCAAATAGCTACAATTAGAGGGTGATGCTAAGAT
1 GCAAATAGCTACAATTAGAGGGTGATGCTAAGAT
1112211 GCAAATAGCTACAATTAGAGGGTGATGCTAAG
1 GCAAATAGCTACAATTAGAGGGTGATGCTAAG
1112243 GGTGTATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (34 bp):
GCAAATAGCTACAATTAGAGGGTGATGCTAAGAT
Found at i:1112683 original size:61 final size:61
Alignment explanation
Indices: 1112588--1112703 Score: 205
Period size: 61 Copynumber: 1.9 Consensus size: 61
1112578 CGGGCGCTGA
*
1112588 TTGTTGCCGGTGAACCACGGGCATTGGGGATGGGTTGTTACCGCTCAAGATCCAAAATGGG
1 TTGTTGCCGGTGAACCACGGGCATTGGAGATGGGTTGTTACCGCTCAAGATCCAAAATGGG
* *
1112649 TTGTTGCCGGTGATCCACGGGCGTTGGAGATGGGTTGTTACCGCTCAAGATCCAA
1 TTGTTGCCGGTGAACCACGGGCATTGGAGATGGGTTGTTACCGCTCAAGATCCAA
1112704 CCTTCAACAG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.20, C:0.21, G:0.34, T:0.26
Consensus pattern (61 bp):
TTGTTGCCGGTGAACCACGGGCATTGGAGATGGGTTGTTACCGCTCAAGATCCAAAATGGG
Found at i:1115120 original size:29 final size:29
Alignment explanation
Indices: 1115078--1115147 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
1115068 AATACCCAAA
1115078 AAGAAACTCAGAGGACCTAAGTCCTTCAT
1 AAGAAACTCAGAGGACCTAAGTCCTTCAT
1115107 AAGAAACTCAGAGGACCTAAGTCCTTCAT
1 AAGAAACTCAGAGGACCTAAGTCCTTCAT
1115136 -AGCAAACTCAGA
1 AAG-AAACTCAGA
1115148 ACCCAAGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 2 0.05
29 38 0.95
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (29 bp):
AAGAAACTCAGAGGACCTAAGTCCTTCAT
Found at i:1121090 original size:35 final size:35
Alignment explanation
Indices: 1121043--1121136 Score: 143
Period size: 35 Copynumber: 2.7 Consensus size: 35
1121033 GAAACTAGAT
* * *
1121043 ATAATTACATTTTGAGCTATGTTATTCGTATCTAG
1 ATAATTATATTTTGAGCTATGTTATTCGTATCCAA
1121078 ATAATTATATTTTGAGCTATGTTATTCGTATCCAA
1 ATAATTATATTTTGAGCTATGTTATTCGTATCCAA
* *
1121113 ATAATTATATTTTTAACTATGTTA
1 ATAATTATATTTTGAGCTATGTTA
1121137 CTTGTATTCT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.48
Consensus pattern (35 bp):
ATAATTATATTTTGAGCTATGTTATTCGTATCCAA
Found at i:1125289 original size:35 final size:35
Alignment explanation
Indices: 1125181--1125290 Score: 84
Period size: 35 Copynumber: 3.1 Consensus size: 35
1125171 TTTTAGGGAT
*
1125181 CAAATATGGAATTCTCATGTTCAAAGTTTGGCCAC
1 CAAATATGAAATTCTCATGTTCAAAGTTTGGCCAC
* * * **
1125216 CTACCAA-A-GAATTTTCTAATGTGT-ACGAG-TTAACCAC
1 C-A--AATATGAA-ATTCTCATGT-TCA-AAGTTTGGCCAC
1125253 CAAATATGAAATTCTCATGTTCAAAGTTTGGCCAC
1 CAAATATGAAATTCTCATGTTCAAAGTTTGGCCAC
1125288 CAA
1 CAA
1125291 CCAAGATGAA
Statistics
Matches: 54, Mismatches: 11, Indels: 20
0.64 0.13 0.24
Matches are distributed among these distances:
34 5 0.09
35 20 0.37
36 7 0.13
37 17 0.31
38 5 0.09
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.30
Consensus pattern (35 bp):
CAAATATGAAATTCTCATGTTCAAAGTTTGGCCAC
Found at i:1125348 original size:29 final size:31
Alignment explanation
Indices: 1125280--1125345 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 31
1125270 TGTTCAAAGT
*
1125280 TTGGCCACCAACCAAGATGAAATGTCCAATAAG
1 TTGGCCACCAACCAAGATGAAATGTCC-A-AAC
* *
1125313 TTGGCCACCAACGAAGATGAAATTTCC-AAC
1 TTGGCCACCAACCAAGATGAAATGTCCAAAC
1125343 TTG
1 TTG
1125346 CCAACTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 5 0.17
33 25 0.83
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.21
Consensus pattern (31 bp):
TTGGCCACCAACCAAGATGAAATGTCCAAAC
Found at i:1128545 original size:33 final size:33
Alignment explanation
Indices: 1128504--1128566 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
1128494 TGTTCAAAGT
1128504 TTGGCCACCAACCAAAATGAAATTTCCAATAAG
1 TTGGCCACCAACCAAAATGAAATTTCCAATAAG
*
1128537 TTGGCCACCAACCAAGATGAAATTTCCAAT
1 TTGGCCACCAACCAAAATGAAATTTCCAAT
1128567 TTGCCAACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.22
Consensus pattern (33 bp):
TTGGCCACCAACCAAAATGAAATTTCCAATAAG
Found at i:1137914 original size:78 final size:78
Alignment explanation
Indices: 1137781--1137936 Score: 294
Period size: 78 Copynumber: 2.0 Consensus size: 78
1137771 TACATCACAT
1137781 ACATTATTGATTGTAATTAAACGAAGTGAGAATTCAAATGAAGAGAGAACATAAGTTCTGTTCGA
1 ACATTATTGATTGTAATTAAACGAAGTGAGAATTCAAATGAAGAGAGAACATAAGTTCTGTTCGA
1137846 AAAAACTGCTTGC
66 AAAAACTGCTTGC
* *
1137859 ACATTATTGATTGTAATTAAAGGAAGTGAGAATTCAAATGAAGAGAGAACTTAAGTTCTGTTCGA
1 ACATTATTGATTGTAATTAAACGAAGTGAGAATTCAAATGAAGAGAGAACATAAGTTCTGTTCGA
1137924 AAAAACTGCTTGC
66 AAAAACTGCTTGC
1137937 TGAAAAATTA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (78 bp):
ACATTATTGATTGTAATTAAACGAAGTGAGAATTCAAATGAAGAGAGAACATAAGTTCTGTTCGA
AAAAACTGCTTGC
Found at i:1138813 original size:22 final size:22
Alignment explanation
Indices: 1138797--1138874 Score: 129
Period size: 22 Copynumber: 3.5 Consensus size: 22
1138787 ATTAATATTC
1138797 AATACTAGTGGATTTAACACTT
1 AATACTAGTGGATTTAACACTT
*
1138819 AATACTAGTGGATTTATCACTT
1 AATACTAGTGGATTTAACACTT
* *
1138841 AATATTAGTGGATTTAACACTC
1 AATACTAGTGGATTTAACACTT
1138863 AATACTAGTGGA
1 AATACTAGTGGA
1138875 ATAACCTAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (22 bp):
AATACTAGTGGATTTAACACTT
Found at i:1139493 original size:31 final size:31
Alignment explanation
Indices: 1139458--1139517 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
1139448 AATTCGGTGA
1139458 ATTCAATATGT-TCTTCTCACTAGGAACTCCC
1 ATTCAATATGTCT-TTCTCACTAGGAACTCCC
1139489 ATTCAATATGTCTTTCTCACTAGGAACTC
1 ATTCAATATGTCTTTCTCACTAGGAACTC
1139518 TTGGGTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (31 bp):
ATTCAATATGTCTTTCTCACTAGGAACTCCC
Found at i:1144092 original size:22 final size:22
Alignment explanation
Indices: 1144067--1144124 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
1144057 AAACATAGAA
* *
1144067 TTAATATTCAATATTAGTGGAT
1 TTAACATTCAATACTAGTGGAT
1144089 TTAACACTT-AATACTAGTGGAT
1 TTAACA-TTCAATACTAGTGGAT
*
1144111 TTAACACTCAATAC
1 TTAACATTCAATAC
1144125 ATGTGGAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 1 0.03
22 28 0.90
23 2 0.06
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (22 bp):
TTAACATTCAATACTAGTGGAT
Found at i:1144131 original size:22 final size:22
Alignment explanation
Indices: 1144074--1144124 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
1144064 GAATTAATAT
*
1144074 TCAATATTAGTGGATTTAACAC
1 TCAATACTAGTGGATTTAACAC
*
1144096 TTAATACTAGTGGATTTAACAC
1 TCAATACTAGTGGATTTAACAC
1144118 TCAATAC
1 TCAATAC
1144125 ATGTGGAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (22 bp):
TCAATACTAGTGGATTTAACAC
Found at i:1144731 original size:2 final size:2
Alignment explanation
Indices: 1144724--1144823 Score: 173
Period size: 2 Copynumber: 49.0 Consensus size: 2
1144714 TATGTTCCTC
1144724 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1144766 AT AT AT AT AT AT AT AT AT CCT CAT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT -AT -AT AT AT AT AT AT AT AT AT AT AT
1144810 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1144824 GAAATGTTAC
Statistics
Matches: 95, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
2 92 0.97
3 3 0.03
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1157365 original size:48 final size:48
Alignment explanation
Indices: 1157313--1157404 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
1157303 TCATATTTTC
1157313 ATATCAATTTAACAATTAAAGTTTAATTAAG-GATAAGATATAGAGAAA
1 ATATCAATTTAACAATTAAAGTTTAATTAAGTG-TAAGATATAGAGAAA
**
1157361 ATATCAATTTAACCTTTAAAGTTTAATTAAGTGTAAGATATAGA
1 ATATCAATTTAACAATTAAAGTTTAATTAAGTGTAAGATATAGA
1157405 ATAATGCAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
48 40 0.98
49 1 0.02
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (48 bp):
ATATCAATTTAACAATTAAAGTTTAATTAAGTGTAAGATATAGAGAAA
Found at i:1158327 original size:18 final size:18
Alignment explanation
Indices: 1158304--1158354 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
1158294 ATCTAGTTAA
**
1158304 AACTCAAATCCAATATGT
1 AACTCAAATCCAATATAC
**
1158322 AACTCAAATTTAATATAC
1 AACTCAAATCCAATATAC
*
1158340 AATTCAAATCCAATA
1 AACTCAAATCCAATA
1158355 CCCTTAACTC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (18 bp):
AACTCAAATCCAATATAC
Found at i:1166570 original size:24 final size:24
Alignment explanation
Indices: 1166543--1166637 Score: 118
Period size: 24 Copynumber: 4.0 Consensus size: 24
1166533 ATTTCTTATT
* * *
1166543 TGAATTCTGTTATGATACCTGACC
1 TGAATTCTGATCTGATACATGACC
*
1166567 TGAATTCTGATCTGATACATGATC
1 TGAATTCTGATCTGATACATGACC
* *
1166591 TGGATTCTGATCTGATACATGATC
1 TGAATTCTGATCTGATACATGACC
* *
1166615 TGGATTCTGATCTGATACTTGAC
1 TGAATTCTGATCTGATACATGAC
1166638 GTGATTTATG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (24 bp):
TGAATTCTGATCTGATACATGACC
Found at i:1166581 original size:12 final size:11
Alignment explanation
Indices: 1166570--1166630 Score: 68
Period size: 12 Copynumber: 5.2 Consensus size: 11
1166560 CCTGACCTGA
1166570 ATTCTGATCTG
1 ATTCTGATCTG
*
1166581 ATACATGATCTGG
1 ATTC-TGATCT-G
1166594 ATTCTGATCTG
1 ATTCTGATCTG
*
1166605 ATACATGATCTGG
1 ATTC-TGATCT-G
1166618 ATTCTGATCTG
1 ATTCTGATCTG
1166629 AT
1 AT
1166631 ACTTGACGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
11 10 0.24
12 24 0.57
13 8 0.19
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (11 bp):
ATTCTGATCTG
Found at i:1172187 original size:3 final size:3
Alignment explanation
Indices: 1172179--1172271 Score: 186
Period size: 3 Copynumber: 31.0 Consensus size: 3
1172169 TTATTCCCTT
1172179 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1172227 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1172272 CTGCATGAAC
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:1175256 original size:2 final size:2
Alignment explanation
Indices: 1175249--1175301 Score: 97
Period size: 2 Copynumber: 26.0 Consensus size: 2
1175239 TACTAACATG
1175249 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1175291 AT AT AT GAT AT
1 AT AT AT -AT AT
1175302 GCTTATTAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 48 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1183606 original size:5 final size:5
Alignment explanation
Indices: 1183596--1183626 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
1183586 AATGAAAAGA
1183596 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG A
1 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG A
1183627 AATGAGCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:1185863 original size:22 final size:22
Alignment explanation
Indices: 1185835--1185882 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
1185825 CGTACCGAAT
*
1185835 CGCGATTTTAAAACGACTGGAA
1 CGCGATTTTAAAACAACTGGAA
*
1185857 CGCGATTTTGAAACAACTGGAA
1 CGCGATTTTAAAACAACTGGAA
1185879 CGCG
1 CGCG
1185883 TTTCGGATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (22 bp):
CGCGATTTTAAAACAACTGGAA
Found at i:1187042 original size:34 final size:32
Alignment explanation
Indices: 1186965--1187043 Score: 106
Period size: 32 Copynumber: 2.4 Consensus size: 32
1186955 ATTAGGTTCG
*
1186965 GGTCAGGTTTTTTTAAGTTTGATATTCGAGGTA
1 GGTC-GGTTTTTTTAAGTGTGATATTCGAGGTA
*
1186998 GGTCGGTTTTTTTAAGTGTGATATTC-AGGTC
1 GGTCGGTTTTTTTAAGTGTGATATTCGAGGTA
1187029 GAGTCGGATTTTTTT
1 G-GTCGG-TTTTTTT
1187044 TAAAAAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
31 5 0.12
32 26 0.62
33 11 0.26
ACGTcount: A:0.18, C:0.08, G:0.28, T:0.47
Consensus pattern (32 bp):
GGTCGGTTTTTTTAAGTGTGATATTCGAGGTA
Found at i:1187107 original size:33 final size:33
Alignment explanation
Indices: 1187070--1187134 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1187060 GGGTAGAGTC
* *
1187070 GGGTCAGG-GTTTTTTAAGTTTGATATTCGGGTT
1 GGGTC-GGAGTTTTTTAAATGTGATATTCGGGTT
*
1187103 GGGTCGGAGTTTTTTAAATGTGATATTTGGGT
1 GGGTCGGAGTTTTTTAAATGTGATATTCGGGT
1187135 CGGTTTAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.17, C:0.05, G:0.34, T:0.45
Consensus pattern (33 bp):
GGGTCGGAGTTTTTTAAATGTGATATTCGGGTT
Found at i:1188708 original size:256 final size:255
Alignment explanation
Indices: 1187944--1189032 Score: 1636
Period size: 249 Copynumber: 4.3 Consensus size: 255
1187934 ATATTGAATA
* *
1187944 TTTT-TTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCGGGTCAGGTCGGGAGAAACTTT
1 TTTTATTATTTCGGGTCGGGTC-GGTTTCTAATTCATATATTCGGGTCGGGTCGGGTGAAACTTT
* * * *
1188008 ATTTTGGTCGGGTCAGGTCAGTTTTTTTAAATGTGATATTCGGGTCGGGTCGAGTTCGGGTTCAG
65 ATTTTGGTTGGGTCAGGTCAGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTT-GGGTTTAG
* *
1188073 GGTGAAAAATACCCGACCCGAAAATATATATAATTTTACATTATATATTTAGGAATAATTACAAT
129 GGTGAAAAATACCCAACCCGAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAAT
*
1188138 AATACCCCTCTATATATAATTTTTTCAATTAAGTCACTGTTTTTATTAAATAAAAATAA---
194 AATACCCCTCTATATATAATTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTT
*
1188197 TTTTATTATTTCGGGTCGGGT--G--TCTAATTCATATATTCGGGTCAGGTCGGGTGAAACTTTA
1 TTTTATTATTTCGGGTCGGGTCGGTTTCTAATTCATATATTCGGGTCGGGTCGGGTGAAACTTTA
* * * *
1188258 TTTTGGTTGGGTCGGGTCTGCTTTTTTAAGTGTGATATTCGTGTCGGGTCGAGTTTGGGTTTAGG
66 TTTTGGTTGGGTCAGGTCAGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGAG-TTGGGTTTAGG
*
1188323 GTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATA
130 GTGAAAAATACCCAACCCGAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATA
*
1188388 ATACCCCTCTACATATAATTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTT
195 ATACCCCTCTATATATAATTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTT
1188449 TTTTATTATTTCGGGTCGGGTCGAGTTTCTAATTCATATATTCGGGTCGGGTCGGGTGAAACTTT
1 TTTTATTATTTCGGGTCGGGTCG-GTTTCTAATTCATATATTCGGGTCGGGTCGGGTGAAACTTT
* *
1188514 ATTTTGGTTGGGTCAGGTC-GGTTTTTTAAGTGTGATATTCGGGTTGGGTCGAGTTGAGGCTTAG
65 ATTTTGGTTGGGTCAGGTCAGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTG-GGTTTAG
*
1188578 GGTGAAAAATACTCAACCCGAAAATATATATAATTTTACCTTATATA-TTAGGAATAATTACAAT
129 GGTGAAAAATACCCAACCCGAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAAT
*
1188642 AATACCCCTCTATATATAATTTTTTTTCAATTAAGTCATTGTTTTTATTGAAT-AAAATAATTT
194 AATACCCCTCTATATATAA--TTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTT
*
1188705 TTTTATTATTTCGGGTCGGGTCGGATTTCTAATCCATATATTCGGGTCGGGT-GGGTGAAACTTT
1 TTTTATTATTTCGGGTCGGGTCGG-TTTCTAATTCATATATTCGGGTCGGGTCGGGTGAAACTTT
* *
1188769 ATTTTGGTGGGGTC-GGATC-GGTTTTTTTAAGTGTGATATT-GGGTCGGGT----TCGGGTTTA
65 ATTTTGGTTGGGTCAGG-TCAGG-TTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTGGGTTTA
* *
1188827 GGGTGAAAAATACCTAACCC--AAATATATATAATTTTACCTTATATATTTAGAAATAATTACAA
128 GGGTGAAAAATACCCAACCCGAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAA
*
1188890 TAATA-CCC-CTATATAT-ATATTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTT
193 TAATACCCCTCTATATATAATTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAA-TTT
*
1188951 TTTTATTATTTCGGGTCGGGTCAGGTTTCTAATTCATATAGTCGGGTCGGGTC-GGTGAAACTTT
1 TTTTATTATTTCGGGTCGGGTC-GGTTTCTAATTCATATATTCGGGTCGGGTCGGGTGAAACTTT
*
1189015 ATTTTGG-TCGGTCAGGTC
65 ATTTTGGTTGGGTCAGGTC
1189033 TCAGGTGGAG
Statistics
Matches: 779, Mismatches: 35, Indels: 52
0.90 0.04 0.06
Matches are distributed among these distances:
244 30 0.04
245 13 0.02
246 71 0.09
247 10 0.01
248 29 0.04
249 233 0.30
250 25 0.03
251 3 0.00
252 21 0.03
253 4 0.01
254 18 0.02
255 77 0.10
256 159 0.20
257 86 0.11
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.40
Consensus pattern (255 bp):
TTTTATTATTTCGGGTCGGGTCGGTTTCTAATTCATATATTCGGGTCGGGTCGGGTGAAACTTTA
TTTTGGTTGGGTCAGGTCAGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTGGGTTTAGGG
TGAAAAATACCCAACCCGAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAA
TACCCCTCTATATATAATTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTT
Found at i:1189514 original size:23 final size:22
Alignment explanation
Indices: 1189486--1189535 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
1189476 CAAACAAAAG
*
1189486 GGTTTTTATTAAAGTCGGGCAA
1 GGTTTTTATCAAAGTCGGGCAA
1189508 GGTTTTTATCAAAGTCGGGCAA
1 GGTTTTTATCAAAGTCGGGCAA
1189530 GGTTTT
1 GGTTTT
1189536 AACTTTCGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.10, G:0.28, T:0.38
Consensus pattern (22 bp):
GGTTTTTATCAAAGTCGGGCAA
Found at i:1196588 original size:23 final size:23
Alignment explanation
Indices: 1196558--1196605 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
1196548 CTTTGATGTA
*
1196558 GAATTTCACAAGAAATTTCTCCT
1 GAATTTCACAAGAAATTTCTACT
1196581 GAATTTCACAAGAAATTTCTACT
1 GAATTTCACAAGAAATTTCTACT
1196604 GA
1 GA
1196606 CGTAGGACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (23 bp):
GAATTTCACAAGAAATTTCTACT
Found at i:1204070 original size:21 final size:21
Alignment explanation
Indices: 1204046--1204088 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1204036 TATATTTAAT
1204046 ATTTCTAAATTTACAAACTAA
1 ATTTCTAAATTTACAAACTAA
1204067 ATTTCTAAATTTACAAACTAA
1 ATTTCTAAATTTACAAACTAA
1204088 A
1 A
1204089 ATAATCACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (21 bp):
ATTTCTAAATTTACAAACTAA
Found at i:1204526 original size:37 final size:36
Alignment explanation
Indices: 1204451--1204526 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
1204441 TTTTTATATT
*
1204451 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
1204487 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
1204524 TTT
1 TTT
1204527 GTATTATACA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:1205278 original size:6 final size:6
Alignment explanation
Indices: 1205267--1205297 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1205257 GACTCGTATT
*
1205267 ACCACG ACCACG ACCACG ATCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG A
1205298 ATTTGCGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.35, C:0.45, G:0.16, T:0.03
Consensus pattern (6 bp):
ACCACG
Found at i:1205355 original size:21 final size:20
Alignment explanation
Indices: 1205329--1205486 Score: 112
Period size: 20 Copynumber: 7.9 Consensus size: 20
1205319 GTTTTTGGAG
1205329 TATCGCGTTGCGAATTTCGAC
1 TATCGCGTTGCGAATTT-GAC
*
1205350 TATCGCG-TGCGAATCTT-AA
1 TATCGCGTTGCGAAT-TTGAC
*
1205369 AATCGCGTTGCGAATTTCGAC
1 TATCGCGTTGCGAATTT-GAC
* *
1205390 TTTCGCATTGCGAATTTGAC
1 TATCGCGTTGCGAATTTGAC
* *
1205410 TTTCGCGTTGTGAATTTGGAAC
1 TATCGCGTTGCGAATTT-G-AC
* * *
1205432 -AT-GGGTTGCAAAATTTGAA
1 TATCGCGTTGC-GAATTTGAC
* *
1205451 T-TCACATTGCGAATTTGA-
1 TATCGCGTTGCGAATTTGAC
*
1205469 GATCGCGTTGCGAATTTG
1 TATCGCGTTGCGAATTTG
1205487 TTAGTCATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
19 32 0.30
20 42 0.39
21 31 0.29
22 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (20 bp):
TATCGCGTTGCGAATTTGAC
Done.