Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 42 of 373
Found at i:12128091 original size:45 final size:46
Alignment explanation
Indices: 12127996--12128092 Score: 106
Period size: 46 Copynumber: 2.1 Consensus size: 46
12127986 AAAACTATAG
* ***
12127996 TTGAAAGACACTATGACAGCACGACAAAAAGTAAATAAGACCATGG
1 TTGAAAGACACTATGACAGCAAGACAAAAAGTAAATAAGACCACAC
* * * * *
12128042 TTGAAAGACACTATGGCATCAAGTCAAGAA-TAAATTAGACCACAC
1 TTGAAAGACACTATGACAGCAAGACAAAAAGTAAATAAGACCACAC
12128087 TTGAAA
1 TTGAAA
12128093 AGCACCATGG
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
45 17 0.40
46 25 0.60
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.19
Consensus pattern (46 bp):
TTGAAAGACACTATGACAGCAAGACAAAAAGTAAATAAGACCACAC
Found at i:12154005 original size:28 final size:28
Alignment explanation
Indices: 12153939--12154066 Score: 166
Period size: 28 Copynumber: 4.5 Consensus size: 28
12153929 CATGAGATTG
* * **
12153939 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
12153968 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
12153996 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
*
12154025 GTACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
12154053 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
12154067 GACTTACTAT
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 44 0.51
29 43 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:12154031 original size:57 final size:57
Alignment explanation
Indices: 12153939--12154066 Score: 177
Period size: 57 Copynumber: 2.2 Consensus size: 57
12153929 CATGAGATTG
*
12153939 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * * *
12153996 GCACTAAGTGTGCGAGTTTGATTATGTA-AGTACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
12154053 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
12154067 GACTTACTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 60 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:12159153 original size:47 final size:47
Alignment explanation
Indices: 12159042--12159267 Score: 389
Period size: 47 Copynumber: 4.7 Consensus size: 47
12159032 GCCCTTCGGG
* *
12159042 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCGCATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTAT--CACATATATAC
* *
12159092 GCTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
12159139 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
12159186 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
12159233 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
12159268 CTATCATTTC
Statistics
Matches: 170, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
47 136 0.80
49 31 0.18
50 3 0.02
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:12168494 original size:44 final size:44
Alignment explanation
Indices: 12168372--12168502 Score: 131
Period size: 50 Copynumber: 2.8 Consensus size: 44
12168362 TGAGGTATAA
* *
12168372 TGCCGAAGCCATATCCCAGACATGGTCTTACACTGACTTTAACATATTTG
1 TGCCGATGCCATATCCAAGACATGGTCTTACACTG------ACATATTTG
* *
12168422 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACATATCTTG
1 TGCCGATGCCATATCCAAGACATGGTCTTACACTGACATAT-TTG
*
12168467 TAGCTGATG-CATATCCAAGACAT-GTCTTACACTGAC
1 T-GCCGATGCCATATCCAAGACATGGTCTTACACTGAC
12168503 TTACATCTCG
Statistics
Matches: 74, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
44 19 0.26
45 16 0.22
46 6 0.08
50 33 0.45
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (44 bp):
TGCCGATGCCATATCCAAGACATGGTCTTACACTGACATATTTG
Found at i:12168535 original size:46 final size:47
Alignment explanation
Indices: 12168385--12168639 Score: 174
Period size: 46 Copynumber: 5.4 Consensus size: 47
12168375 CGAAGCCATA
* *
12168385 TCCCAGACATGGTCTTACACTGACTTTAACATATTTG-TGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGAC-TT-ACAT-CTTGAGGCCGATG-CATG
* * *
12168435 TCCCAGACATGGTCTTACACTGAC--ATATCTTGTA-GCTGATGCATA
1 TCCCAGACATGGTCTTACACTGACTTACATCTTG-AGGCCGATGCATG
* *
12168480 TCCAAGACAT-GTCTTACACTGACTTACATCTCGAGGCCGATGCATG
1 TCCCAGACATGGTCTTACACTGACTTACATCTTGAGGCCGATGCATG
* * * * *
12168526 TCCCAGACAT-GCCTTACACT-AGCTCT-CGT-TTCAATGCTGATGCCATG
1 TCCCAGACATGGTCTTACACTGA-CT-TACATCTT-GAGGCCGATG-CATG
* * * *
12168573 TCCCAGACATGGTCTTACACTGGC-T-CTTGTAATGTGGCCGATGCATG
1 TCCCAGACATGGTCTTACACTGACTTACATCT--TGAGGCCGATGCATG
*
12168620 TCCCAGACAT-GTCGTACACT
1 TCCCAGACATGGTCTTACACT
12168640 AGCACACAAT
Statistics
Matches: 167, Mismatches: 24, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
44 13 0.08
45 18 0.11
46 65 0.39
47 30 0.18
48 16 0.10
49 1 0.01
50 24 0.14
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
TCCCAGACATGGTCTTACACTGACTTACATCTTGAGGCCGATGCATG
Found at i:12168588 original size:94 final size:93
Alignment explanation
Indices: 12168369--12168643 Score: 262
Period size: 94 Copynumber: 2.9 Consensus size: 93
12168359 ACATGAGGTA
* * * *
12168369 TAATGCCGAAGCCATATCCCAGACATGGTCTTACACTGACTTTAACATATTTGTGCCGATGCCAT
1 TAATGCTGATGCCATATCCCAGACATGGTCTTACACTGAC-TT-ACAT-CTTGGGCCGATG-CAT
12168434 GTCCCAGACATGGTCTTACACT-GACATATCTTG
62 GTCCCAGACAT-GTCTTACACTAG-CATATCTTG
* *
12168467 T-A-GCTGATG-CATATCCAAGACAT-GTCTTACACTGACTTACATCTCGAGGCCGATGCATGTC
1 TAATGCTGATGCCATATCCCAGACATGGTCTTACACTGACTTACATCTTG-GGCCGATGCATGTC
* *
12168528 CCAGACATGCCTTACACTAGC-TCTCGTT-
65 CCAGACATGTCTTACACTAGCATATC-TTG
* * * *
12168556 TCAATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CTTGTAATGTGGCCGATGCAT
1 T-AATGCTGATGCCATATCCCAGACATGGTCTTACACTGACTTACATCT--TG-GGCCGATGCAT
*
12168619 GTCCCAGACATGTCGTACACTAGCA
62 GTCCCAGACATGTCTTACACTAGCA
12168644 CACAATTAAC
Statistics
Matches: 149, Mismatches: 17, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
89 4 0.03
90 12 0.08
91 18 0.12
92 21 0.14
93 15 0.10
94 59 0.40
95 13 0.09
96 5 0.03
97 1 0.01
98 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (93 bp):
TAATGCTGATGCCATATCCCAGACATGGTCTTACACTGACTTACATCTTGGGCCGATGCATGTCC
CAGACATGTCTTACACTAGCATATCTTG
Found at i:12175535 original size:44 final size:44
Alignment explanation
Indices: 12175472--12175560 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
12175462 CATTCTAAGG
*
12175472 TAAAGATTTTCGTTGCTTAAAGGGTTATCCATTACGGTATAGTT
1 TAAAGATTTTCGTTGCTTAAAGGGTTATCCATTACAGTATAGTT
*
12175516 TAAAGATTTTCGTTGCTTAAAGGGTTATCCATTACAGTTTAGTT
1 TAAAGATTTTCGTTGCTTAAAGGGTTATCCATTACAGTATAGTT
12175560 T
1 T
12175561 GGTTTAGTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (44 bp):
TAAAGATTTTCGTTGCTTAAAGGGTTATCCATTACAGTATAGTT
Found at i:12186066 original size:12 final size:12
Alignment explanation
Indices: 12186049--12186073 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12186039 ATGTAAGTGA
12186049 TCTTGATGATTT
1 TCTTGATGATTT
12186061 TCTTGATGATTT
1 TCTTGATGATTT
12186073 T
1 T
12186074 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:12186891 original size:48 final size:47
Alignment explanation
Indices: 12186836--12187095 Score: 174
Period size: 47 Copynumber: 5.5 Consensus size: 47
12186826 GAGTTGTGCT
* *
12186836 AGTGTAAGACATGTCTGGGGCATG-TATCAGCACACATAAATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCAATCAGCACA-A-AAATGAGAGCC
* * *
12186884 AGTGTAAGATCATGTCTGGGACATGCAATCGGCACAAAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACATGCAATCAGCACAAAAATGAGAGCC
** * * * * *
12186932 AAAGTAAGACATGTCTGGGACAAGC-ATCGGCCTCAACAGA-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCAATCAG-CACAA-AAATGAGAGCC
* * * * * * * * *
12186979 AGTGTAAGACGTGTCTGGGACACGC-ATCGGC-TAAGAGT-TGTGCT
1 AGTGTAAGACATGTCTGGGACATGCAATCAGCACAAAAATGAGAGCC
* * * *
12187023 AGTGTAAGACATGTCTAGGACATGC-ATCAGCACGCATATATAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCAATCAGCA--CAAAAATGAGAGCC
12187071 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
12187096 GCATTGGCAA
Statistics
Matches: 166, Mismatches: 36, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
44 29 0.17
45 2 0.01
46 6 0.04
47 52 0.31
48 40 0.24
49 29 0.17
50 8 0.05
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.21
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCAATCAGCACAAAAATGAGAGCC
Found at i:12186951 original size:47 final size:47
Alignment explanation
Indices: 12186789--12187104 Score: 227
Period size: 44 Copynumber: 6.7 Consensus size: 47
12186779 TGAATTGTGC
* * * * *
12186789 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGC-TAAGAG-T-TGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAACAGATGAGT
* * * * * * *
12186833 GCTAGTGTAAGACATGTCTGGGGCATGTATCAGCACACATAAATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACA-ACAGATGAGT
12186881 GCCAGTGTAAGATCATGTCTGGGACATGCAATCGGCACAA-AGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGC-ATCGGCACAACAGATGAGT
** * *
12186929 GCCAAAGTAAGACATGTCTGGGACAAGCATCGGCCTCAACAGA-GA-T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACAACAGATGAGT
* * * * *
12186975 AGCCAGTGTAAGACGTGTCTGGGACACGCATCGGC-TAAGAG-T-TGT
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAACAGATGAGT
* * * * * * * *
12187020 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCACGCATATATAAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-AACAGATGAGT
*
12187068 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
12187105 ATATATCCCA
Statistics
Matches: 212, Mismatches: 43, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
44 57 0.27
45 6 0.03
46 11 0.05
47 52 0.25
48 43 0.20
49 28 0.13
50 15 0.07
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAACAGATGAGT
Found at i:12193235 original size:4 final size:4
Alignment explanation
Indices: 12193226--12193257 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
12193216 GATAGAAAAA
*
12193226 TTAT TTAT TTAT TTAT TTAT GTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
12193258 ATGAGGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:12193670 original size:12 final size:12
Alignment explanation
Indices: 12193653--12193677 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12193643 ATGTAAGTTA
12193653 TCTTGATGATTT
1 TCTTGATGATTT
12193665 TCTTGATGATTT
1 TCTTGATGATTT
12193677 T
1 T
12193678 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:12194435 original size:44 final size:44
Alignment explanation
Indices: 12194373--12194634 Score: 159
Period size: 44 Copynumber: 5.7 Consensus size: 44
12194363 TGAATTGTGA
* * * *
12194373 GCTAGTGTAAGACGTGTCTGGGACACACATCGGCTAATAGTTGT
1 GCTAGTGTAAGACATGTCTAGGACACGCATCGGCTAAGAGTTGT
* * * * * * *
12194417 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCACACATAAATGAGA
1 GCTAGTGTAAGACATGTCTAGGACACGCATCGGC-TA-A-GAGT-TGT
* * * * *
12194465 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-ACAGAGATGAAT
1 GCTAGTGTAAGA-CATGTCTAGGACA-CGCATCGGCTA-AGAGTTG--T
* * * * *
12194513 GCTAGAGTAAGACATGTCTAGGACATGCATCAGCCTCAACAGAGAT-A
1 GCTAGTGTAAGACATGTCTAGGACACGCATC-GGCT--A-AGAGTTGT
* * * *
12194560 GCCAGTGTAAAACGTGTCTGGGACACGCATCGGCTAAGAGTTGT
1 GCTAGTGTAAGACATGTCTAGGACACGCATCGGCTAAGAGTTGT
*
12194604 GCTAGTGTAAGACATGTCTAGGACATGCATC
1 GCTAGTGTAAGACATGTCTAGGACACGCATC
12194635 AGCATGCATA
Statistics
Matches: 165, Mismatches: 40, Indels: 26
0.71 0.17 0.11
Matches are distributed among these distances:
43 5 0.03
44 56 0.34
45 1 0.01
46 10 0.06
47 42 0.25
48 25 0.15
49 12 0.07
50 14 0.08
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTAGGACACGCATCGGCTAAGAGTTGT
Found at i:12194477 original size:48 final size:47
Alignment explanation
Indices: 12194420--12194684 Score: 195
Period size: 47 Copynumber: 5.6 Consensus size: 47
12194410 TAGTTGTGCT
12194420 AGTGTAAGACATGTCTAGGACATGCATCAGCACACATAAATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCACACA-AAATGAGAGCC
* * *
12194468 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACACAGAGATGA-ATGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGCACACA-AAATGAGA-GCC
* * *
12194516 AGAGTAAGACATGTCTAGGACATGCATCAGC-CTCAACAGA-GATAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCACACAA-A-ATGAGAGCC
* * * * * * * * * * *
12194563 AGTGTAAAACGTGTCTGGGACACGCATCGGC-TA-AGAGT-TGTGCT
1 AGTGTAAGACATGTCTAGGACATGCATCAGCACACAAAATGAGAGCC
** *
12194607 AGTGTAAGACATGTCTAGGACATGCATCAGCATGCATATATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCACACA-AAATGAGAGCC
*
12194655 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATC
12194685 GGCAATATAT
Statistics
Matches: 166, Mismatches: 36, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
44 28 0.17
45 2 0.01
46 8 0.05
47 48 0.29
48 43 0.26
49 27 0.16
50 10 0.06
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (47 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCACACAAAATGAGAGCC
Found at i:12194631 original size:91 final size:92
Alignment explanation
Indices: 12194371--12194687 Score: 363
Period size: 93 Copynumber: 3.4 Consensus size: 92
12194361 GGTGAATTGT
* * * *
12194371 GAGCTAGTGTAAGACGTGTCTGGGACACACATCGGCTAATAGTTGTGCTAGTGTAAGACATGTCT
1 GAGCCAGTGTAAAACGTGTCTGGGACACGCATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCT
12194436 AGGACATGCATCAGCACACATAAATGA
66 AGGACATGCATCAGCACACATAAATGA
* * * * * *
12194463 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-ACAGAGATGAATGCTAGAGTAAGACA
1 GAGCCAGTGTAA-AACGTGTCTGGGACA-CGCATCGGCTA-AGAGTTG--TGCTAGTGTAAGACA
*
12194527 TGTCTAGGACATGCATCAGC-CTCA-ACAGA-GA
61 TGTCTAGGACATGCATCAGCACACATA-A-ATGA
*
12194558 TAGCCAGTGTAAAACGTGTCTGGGACACGCATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCT
1 GAGCCAGTGTAAAACGTGTCTGGGACACGCATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCT
** *
12194623 AGGACATGCATCAGCATGCATATATGA
66 AGGACATGCATCAGCACACATAAATGA
* * *
12194650 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGCCAGTGTAA-AACGTGTCTGGGACA-CGCATCGGC
12194688 AATATATCCC
Statistics
Matches: 187, Mismatches: 25, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
91 35 0.19
92 26 0.14
93 40 0.21
94 34 0.18
95 17 0.09
96 35 0.19
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (92 bp):
GAGCCAGTGTAAAACGTGTCTGGGACACGCATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCT
AGGACATGCATCAGCACACATAAATGA
Found at i:12201032 original size:8 final size:8
Alignment explanation
Indices: 12201019--12201047 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
12201009 ACACTTTTAT
12201019 AAAAAATA
1 AAAAAATA
12201027 AAAAAATA
1 AAAAAATA
12201035 AAAAAATA
1 AAAAAATA
12201043 AAAAA
1 AAAAA
12201048 GGACTCCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:12204593 original size:18 final size:18
Alignment explanation
Indices: 12204570--12204617 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
12204560 AAAGCCCAAT
*
12204570 TTATTTTTTAAACGAATC
1 TTATTTTTTAAACGAAAC
* *
12204588 TTATTTTTT-TACTAAAC
1 TTATTTTTTAAACGAAAC
12204605 TTATTTTTTAAAC
1 TTATTTTTTAAAC
12204618 TTATTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.56
Consensus pattern (18 bp):
TTATTTTTTAAACGAAAC
Found at i:12205625 original size:21 final size:21
Alignment explanation
Indices: 12205599--12205638 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
12205589 AAAATAGACA
12205599 AGAAAATG-GATGTTTTGTTTG
1 AGAAAATGTGAT-TTTTGTTTG
12205620 AGAAAATGTGATTTTTGTT
1 AGAAAATGTGATTTTTGTT
12205639 GTACAGGGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (21 bp):
AGAAAATGTGATTTTTGTTTG
Found at i:12207567 original size:30 final size:30
Alignment explanation
Indices: 12207533--12207595 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
12207523 ATTTATTTTA
12207533 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
12207563 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
12207593 TTG
1 TTG
12207596 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:12213067 original size:14 final size:14
Alignment explanation
Indices: 12213048--12213075 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12213038 AACTCTATAA
12213048 ACGTGGTTAAGAAT
1 ACGTGGTTAAGAAT
12213062 ACGTGGTTAAGAAT
1 ACGTGGTTAAGAAT
12213076 TGTTATTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (14 bp):
ACGTGGTTAAGAAT
Found at i:12214142 original size:5 final size:5
Alignment explanation
Indices: 12214132--12214196 Score: 130
Period size: 5 Copynumber: 13.0 Consensus size: 5
12214122 TACTTAAGAA
12214132 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
12214182 TATAT TATAT TATAT
1 TATAT TATAT TATAT
12214197 AAATAAAACA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 60 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:12214283 original size:17 final size:19
Alignment explanation
Indices: 12214257--12214298 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
12214247 GAAAAAGAGA
*
12214257 AGAAAA-AGAAA-GAAAGG
1 AGAAAAGAGAAATAAAAGG
12214274 A-AAAAGAGAAATAAAAGG
1 AGAAAAGAGAAATAAAAGG
12214292 AGAAAAG
1 AGAAAAG
12214299 TTAGGGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.19
17 6 0.29
18 6 0.29
19 5 0.24
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.02
Consensus pattern (19 bp):
AGAAAAGAGAAATAAAAGG
Found at i:12220097 original size:33 final size:32
Alignment explanation
Indices: 12220060--12220167 Score: 126
Period size: 33 Copynumber: 3.3 Consensus size: 32
12220050 TACTTTCTGT
* * *
12220060 TTGGTATGCTGGTTGGATTAGCTTTTATGGGCA
1 TTGGTGTG-TGGTTGGATTAGCTCTTATGAGCA
*
12220093 TTGGTGTGATGGTTGGTTTAGCTCTTATGAGCA
1 TTGGTGTG-TGGTTGGATTAGCTCTTATGAGCA
* * *
12220126 CTGGTGTGAGAGTGGGATTAGCTCTTATGAGCA
1 TTGGTGTGTG-GTTGGATTAGCTCTTATGAGCA
12220159 TTGGTGTGT
1 TTGGTGTGT
12220168 TTTGCTGGAC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 1 0.02
33 62 0.98
ACGTcount: A:0.16, C:0.09, G:0.35, T:0.40
Consensus pattern (32 bp):
TTGGTGTGTGGTTGGATTAGCTCTTATGAGCA
Found at i:12221587 original size:70 final size:70
Alignment explanation
Indices: 12221474--12221618 Score: 272
Period size: 70 Copynumber: 2.1 Consensus size: 70
12221464 GTGTAGACGA
12221474 AAATAAGCCATTTTAAGACCACATTTCTTACCCTTTTTAAAATCTACCTGCACACAACCTTCAAA
1 AAATAAGCCATTTTAAGACCACATTTCTTACCCTTTTTAAAATCTACCTGCACACAACCTTCAAA
*
12221539 TACAT
66 TACAC
*
12221544 AAATAGGCCATTTTAAGACCACATTTCTTACCCTTTTTAAAATCTACCTGCACACAACCTTCAAA
1 AAATAAGCCATTTTAAGACCACATTTCTTACCCTTTTTAAAATCTACCTGCACACAACCTTCAAA
12221609 TACAC
66 TACAC
12221614 AAATA
1 AAATA
12221619 TGTCCAAACC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (70 bp):
AAATAAGCCATTTTAAGACCACATTTCTTACCCTTTTTAAAATCTACCTGCACACAACCTTCAAA
TACAC
Found at i:12222245 original size:35 final size:35
Alignment explanation
Indices: 12222184--12222269 Score: 138
Period size: 35 Copynumber: 2.5 Consensus size: 35
12222174 AGTGCCACAA
*
12222184 TTCACAACTCAGTAT-GGAAATGCCATACTTACGT
1 TTCACAACTCAGTATGGGAAATGCCATACCTACGT
*
12222218 TTCACAACTCAGTATGGGAAATGCCATACCTATGT
1 TTCACAACTCAGTATGGGAAATGCCATACCTACGT
*
12222253 TTCATAACTCAGTATGG
1 TTCACAACTCAGTATGG
12222270 TTTTCTTTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 15 0.31
35 33 0.69
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (35 bp):
TTCACAACTCAGTATGGGAAATGCCATACCTACGT
Found at i:12224476 original size:27 final size:25
Alignment explanation
Indices: 12224406--12224720 Score: 154
Period size: 26 Copynumber: 12.5 Consensus size: 25
12224396 ATATGCAACA
* * *
12224406 AAATATTATATAAAACAATTTGAAGT
1 AAATAATAT-TAAAACAATTTAAAAT
* *
12224432 CAATAATA-TAAAACAATTTCAAAT
1 AAATAATATTAAAACAATTTAAAAT
12224456 AAATAATATGTAAAACAAATTTAAAAT
1 AAATAATAT-TAAAAC-AATTTAAAAT
* *
12224483 AAAT-A-A-TAAGACAATTTTAAAT
1 AAATAATATTAAAACAATTTAAAAT
*
12224505 GAATAATATATAGAAAAACAAGTTTAAAAT
1 AAATAATAT-T---AAAACAA-TTTAAAAT
** * * *
12224535 GGATACTATAAAAAGCAATTTAAAGT
1 AAATAATATTAAAA-CAATTTAAAAT
*
12224561 AAATAGTA-TAAAACAATTTAAAAT
1 AAATAATATTAAAACAATTTAAAAT
* * * *
12224585 CATTAATA-TACAA-AA--TAATA-
1 AAATAATATTAAAACAATTTAAAAT
* * *
12224605 AAATAATATATAGAGCAACTTAAAAT
1 AAATAATAT-TAAAACAATTTAAAAT
*
12224631 AAATAATTTATAAAACAATTTAAAAT
1 AAATAATAT-TAAAACAATTTAAAAT
* * *
12224657 -AACAA-A-TAAAA-AGTTCAAAAT
1 AAATAATATTAAAACAATTTAAAAT
*
12224678 AAATAATATGTGAAAAATAAATTTAAAAT
1 AAATAATAT-T--AAAA-CAATTTAAAAT
12224707 AAATAATATATAAA
1 AAATAATAT-TAAA
12224721 TATATATATA
Statistics
Matches: 221, Mismatches: 42, Indels: 51
0.70 0.13 0.16
Matches are distributed among these distances:
20 6 0.03
21 12 0.05
22 24 0.11
23 11 0.05
24 41 0.19
25 14 0.06
26 52 0.24
27 23 0.10
29 24 0.11
30 14 0.06
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (25 bp):
AAATAATATTAAAACAATTTAAAAT
Found at i:12224721 original size:26 final size:25
Alignment explanation
Indices: 12224406--12224938 Score: 156
Period size: 24 Copynumber: 21.6 Consensus size: 25
12224396 ATATGCAACA
* * *
12224406 AAATATTATATAAAACAATTTGAAGT
1 AAATAATATATAAAA-AATTTAAAAT
* * *
12224432 CAATAATATA-AAACAATTTCAAAT
1 AAATAATATATAAAAAATTTAAAAT
*
12224456 AAATAATATGTAAAACAAATTTAAAAT
1 AAATAATATAT-AAA-AAATTTAAAAT
* * *
12224483 AAAT-A-ATA-AGACAATTTTAAAT
1 AAATAATATATAAAAAATTTAAAAT
*
12224505 GAATAATATATAGAAAAACAAGTTTAAAAT
1 AAATAATATAT---AAAA-AA-TTTAAAAT
** * *
12224535 GGATACTATA-AAAAGCAATTTAAAGT
1 AAATAATATATAAAA--AATTTAAAAT
* *
12224561 AAATAGTATA-AAACAATTTAAAAT
1 AAATAATATATAAAAAATTTAAAAT
* * *
12224585 CATTAATATACAAAATAA--TAAAAT
1 AAATAATATATAAAA-AATTTAAAAT
* ** *
12224609 -AAT-ATATA-GAGCAACTTAAAAT
1 AAATAATATATAAAAAATTTAAAAT
*
12224631 AAATAATTTATAAAACAATTTAAAAT
1 AAATAATATATAAAA-AATTTAAAAT
* * *
12224657 -AA-CA-A-ATAAAAAGTTCAAAAT
1 AAATAATATATAAAAAATTTAAAAT
*
12224678 AAATAATATGTGAAAAATAAATTTAAAAT
1 AAATAATA--T-ATAAA-AAATTTAAAAT
* * *
12224707 AAATAATATAT-AAATATAT-ATAT
1 AAATAATATATAAAAAATTTAAAAT
* * * *
12224730 ACAT-ATATA-AAACAGTTTAATAT
1 AAATAATATATAAAAAATTTAAAAT
* *
12224753 AAGTAATATAT--GAAATCTTAAAAT
1 AAATAATATATAAAAAAT-TTAAAAT
** *
12224777 --A-AATA-ATAAAAGGTTTACAAT
1 AAATAATATATAAAAAATTTAAAAT
12224798 AAATAATA-A-AAAAGAATTT-AAAT
1 AAATAATATATAAAA-AATTTAAAAT
** * * * * *
12224821 CAGTTAACATATAAAACA-GTATGACT
1 -AAATAATATATAAAAAATTTA-AAAT
*
12224847 AAATAACATAT--AAAATTTAAAAT
1 AAATAATATATAAAAAATTTAAAAT
* *
12224870 AGATAATATATATAAAATAGTTTAAAGT
1 AAATAATATATA-AAAA-A-TTTAAAAT
*
12224898 AAATAACATATAAAAATATTTAAAAT
1 AAATAATATATAAAAA-ATTTAAAAT
*
12224924 AAATAATATGTAAAA
1 AAATAATATATAAAA
12224939 CTGGTTAAAA
Statistics
Matches: 367, Mismatches: 90, Indels: 100
0.66 0.16 0.18
Matches are distributed among these distances:
20 4 0.01
21 19 0.05
22 42 0.11
23 45 0.12
24 78 0.21
25 24 0.07
26 74 0.20
27 24 0.07
28 23 0.06
29 19 0.05
30 15 0.04
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (25 bp):
AAATAATATATAAAAAATTTAAAAT
Found at i:12224729 original size:12 final size:12
Alignment explanation
Indices: 12224705--12224738 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
12224695 TAAATTTAAA
12224705 ATAAATA-ATAT
1 ATAAATATATAT
12224716 ATAAATATATAT
1 ATAAATATATAT
*
12224728 ATACATATATA
1 ATAAATATATA
12224739 AAACAGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAAATATATAT
Found at i:12224946 original size:26 final size:26
Alignment explanation
Indices: 12224846--12224955 Score: 100
Period size: 26 Copynumber: 4.2 Consensus size: 26
12224836 ACAGTATGAC
*
12224846 TAAATAACATAT-AAAA--TTTAAAA
1 TAAATAATATATAAAAATGTTTAAAA
* *
12224869 TAGATAATATATATAAAATAGTTTAAAG
1 TAAATAATATATA-AAAAT-GTTTAAAA
* *
12224897 TAAATAACATATAAAAATATTTAAAA
1 TAAATAATATATAAAAATGTTTAAAA
* * *
12224923 TAAATAATATGTAAAACTGGTTAAAA
1 TAAATAATATATAAAAATGTTTAAAA
12224949 TGAAATA
1 T-AAATA
12224956 TTTATATATA
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
23 10 0.14
25 4 0.06
26 28 0.41
27 10 0.14
28 17 0.25
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (26 bp):
TAAATAATATATAAAAATGTTTAAAA
Found at i:12226193 original size:17 final size:17
Alignment explanation
Indices: 12226151--12226201 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
12226141 GGGTTTGTAA
*
12226151 TTGGGTTTTAACTTTGGG
1 TTGGGTTTT-AGTTTGGG
*
12226169 TT-GG-TTTAGTTTGGT
1 TTGGGTTTTAGTTTGGG
12226184 TTGGGTTTTAGTTTGGG
1 TTGGGTTTTAGTTTGGG
12226201 T
1 T
12226202 CATCTGCTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 8 0.29
16 5 0.18
17 13 0.46
18 2 0.07
ACGTcount: A:0.08, C:0.02, G:0.35, T:0.55
Consensus pattern (17 bp):
TTGGGTTTTAGTTTGGG
Found at i:12226621 original size:44 final size:45
Alignment explanation
Indices: 12226586--12227018 Score: 169
Period size: 44 Copynumber: 9.8 Consensus size: 45
12226576 TTGTTGCTTT
12226586 AATCTACTCCAATGCAACTTCAGGAAGATAAGATTTGCTATCTTC
1 AATCTACTCCAATGCAACTTCAGGAAGATAAGATTTGCTATCTTC
* * * * * * *
12226631 AGTCTGCTCCACTGCAACTACAGGGAGATAAGA-CT-CTTAACTTC
1 AATCTACTCCAATGCAACTTCAGGAAGATAAGATTTGC-TATCTTC
* * * * ** *
12226675 AACCT-GTCCCACTGCAACTTTAGGGGGATAAGGTTTGCTATCTTC
1 AATCTACT-CCAATGCAACTTCAGGAAGATAAGATTTGCTATCTTC
* * * * ** * * *
12226720 GATCTACTCCACTGCAGCTCCAGGGGGATCAGATCTG-TAACTTC
1 AATCTACTCCAATGCAACTTCAGGAAGATAAGATTTGCTATCTTC
* * *
12226764 AATCTACTCCACTACAAC-TCTAGGGAGATAAGACTCTTG--A-CTTC
1 AATCTACTCCAATGCAACTTC-AGGAAGATAAGA-T-TTGCTATCTTC
* * * * * *
12226808 AA-CTTGCCCCACTGCAACTTCAGGGAGATAAGGTTTACTATCTTC
1 AATC-TACTCCAATGCAACTTCAGGAAGATAAGATTTGCTATCTTC
* ** *** *
12226853 AATCTACTCCACTGCAAC-TCTAGGGGGATAAGACCAG-TAACTTC
1 AATCTACTCCAATGCAACTTC-AGGAAGATAAGATTTGCTATCTTC
* * * * * **
12226897 AATTTACTCCACTGCAACTTTAGGGAGATAAGATTAG-TGGCTTC
1 AATCTACTCCAATGCAACTTCAGGAAGATAAGATTTGCTATCTTC
* * * * * **
12226941 AATTTGCTCC-CTGCAAC-TCTAGGGAGATAAGATTAG-TGGCTTC
1 AATCTACTCCAATGCAACTTC-AGGAAGATAAGATTTGCTATCTTC
* * *
12226984 AATATGCTCCACTGCAACTTCAGAGAA-ATAAGATT
1 AATCTACTCCAATGCAACTTCAG-GAAGATAAGATT
12227019 CGCCATGGTG
Statistics
Matches: 310, Mismatches: 58, Indels: 41
0.76 0.14 0.10
Matches are distributed among these distances:
42 3 0.01
43 44 0.14
44 160 0.52
45 98 0.32
46 5 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (45 bp):
AATCTACTCCAATGCAACTTCAGGAAGATAAGATTTGCTATCTTC
Found at i:12226705 original size:89 final size:89
Alignment explanation
Indices: 12226589--12227017 Score: 286
Period size: 89 Copynumber: 4.9 Consensus size: 89
12226579 TTGCTTTAAT
* * *
12226589 CTACTCCAATGCAACTTCAGGAAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTACAG
1 CTACTCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTACAG
12226654 GGAGATAAGACTCT-TAACTTCAAC
66 GGAGATAAGA-TCTGTAACTTCAAC
* * * * * *
12226678 CT-GTCCCACTGCAACTTTAGGGGGATAAGGTTTGCTATCTTC-GATCTACTCCACTGCAGCTCC
1 CTACT-CCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAG-TCTGCTCCACTGCAACTAC
* * *
12226741 AGGGGGATCAGATCTGTAACTTCAAT
64 AGGGAGATAAGATCTGTAACTTCAAC
* * * * *
12226767 CTACTCCACTACAACTCTAGGGAGATAAGACTCTTG--A-CTTCA-ACTTGCCCCACTGCAACTT
1 CTACTCCACTGCAACTTTAGGGAGATAAGA-T-TTGCTATCTTCAGTC-TGCTCCACTGCAACTA
* * * * *
12226828 CAGGGAGATAAGGTTTACTATCTTCAAT
63 CAGGGAGATAAGATCT-GTAACTTCAAC
* * *** * * * * **
12226856 CTACTCCACTGCAACTCTAGGGGGATAAGACCAG-TAACTTCAATTTACTCCACTGCAACTTTAG
1 CTACTCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTACAG
** *
12226920 GGAGATAAGAT-TAGTGGCTTCAAT
66 GGAGATAAGATCT-GTAACTTCAAC
* * * * ** * * *
12226944 TTGCTCC-CTGCAACTCTAGGGAGATAAGATTAG-TGGCTTCAATATGCTCCACTGCAACTTCAG
1 CTACTCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTACAG
* *
12227007 AGAAATAAGAT
66 GGAGATAAGAT
12227018 TCGCCATGGT
Statistics
Matches: 274, Mismatches: 54, Indels: 26
0.77 0.15 0.07
Matches are distributed among these distances:
87 59 0.22
88 49 0.18
89 161 0.59
90 2 0.01
91 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (89 bp):
CTACTCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTACAG
GGAGATAAGATCTGTAACTTCAAC
Found at i:12226941 original size:133 final size:133
Alignment explanation
Indices: 12226586--12227002 Score: 444
Period size: 133 Copynumber: 3.1 Consensus size: 133
12226576 TTGTTGCTTT
* * ** *** * * *
12226586 AATCTACTCCAATGCAACTTCAGGAAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTA
1 AATCTACTCCACTGCAACTCCAGGGGGATAAGACCAG-TAACTTCAATCTACTCCACTGCAACTA
* * * * * * *
12226651 CAGGGAGATAAGACTCTTAACTTCAACCTGTCCCACTGCAACTTTAGGGGGATAAGGTTTGCTAT
65 TAGGGAGATAAGACTCTTGACTTCAACTTGCCCCACTGCAACTTCAGGGAGATAAGGTTTACTAT
12226716 CTTC
130 CTTC
* * * * * * *
12226720 GATCTACTCCACTGCAGCTCCAGGGGGATCAGATCTGTAACTTCAATCTACTCCACTACAACTCT
1 AATCTACTCCACTGCAACTCCAGGGGGATAAGACCAGTAACTTCAATCTACTCCACTGCAACTAT
12226785 AGGGAGATAAGACTCTTGACTTCAACTTGCCCCACTGCAACTTCAGGGAGATAAGGTTTACTATC
66 AGGGAGATAAGACTCTTGACTTCAACTTGCCCCACTGCAACTTCAGGGAGATAAGGTTTACTATC
12226850 TTC
131 TTC
* * *
12226853 AATCTACTCCACTGCAACTCTAGGGGGATAAGACCAGTAACTTCAATTTACTCCACTGCAACTTT
1 AATCTACTCCACTGCAACTCCAGGGGGATAAGACCAGTAACTTCAATCTACTCCACTGCAACTAT
* ** * * * * * **
12226918 AGGGAGATAAGATTAGTGGCTTCAATTTGCTCC-CTGCAAC-TCTAGGGAGATAA-GATTAGTGG
66 AGGGAGATAAGACTCTTGACTTCAACTTGCCCCACTGCAACTTC-AGGGAGATAAGGTTTACTAT
12226980 CTTC
130 CTTC
* *
12226984 AATATGCTCCACTGCAACT
1 AATCTACTCCACTGCAACT
12227003 TCAGAGAAAT
Statistics
Matches: 241, Mismatches: 41, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
131 28 0.12
132 17 0.07
133 167 0.69
134 29 0.12
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (133 bp):
AATCTACTCCACTGCAACTCCAGGGGGATAAGACCAGTAACTTCAATCTACTCCACTGCAACTAT
AGGGAGATAAGACTCTTGACTTCAACTTGCCCCACTGCAACTTCAGGGAGATAAGGTTTACTATC
TTC
Found at i:12229980 original size:37 final size:37
Alignment explanation
Indices: 12229935--12230006 Score: 128
Period size: 37 Copynumber: 1.9 Consensus size: 37
12229925 ATCCATATGA
12229935 TTGGTTATGAATGAAAT-AGAAAGAATAAAAGAATATT
1 TTGGTTATGAATGAAATGA-AAAGAATAAAAGAATATT
12229972 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATA
1 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATA
12230007 CTTGCTCAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
37 33 0.97
38 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (37 bp):
TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
Found at i:12246029 original size:66 final size:65
Alignment explanation
Indices: 12245874--12246061 Score: 236
Period size: 66 Copynumber: 2.9 Consensus size: 65
12245864 TTTTGCACTT
* * *
12245874 ATAACACATCTAGTTAGGAGCATTTGATTTATTTTTGATCATAGCATCCTAATTATTTGACATAA
1 ATAATACATCTAGTTAGGAGCATTTGATTCA-TTTTGATCATAGCATCCTAATTATTTAACATAA
12245939 G
65 G
* * * ** * *
12245940 -T-ATCGCATCTAGTTAGGTGCATTTGACTCATTTCAATGATAGCATCCTAATTATTTAACATCA
1 ATAAT-ACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTAACATAA
12246003 G
65 G
*
12246004 CATAATACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTT
1 -ATAATACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTT
12246062 GGCATAAAAA
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
64 30 0.30
65 23 0.23
66 46 0.46
67 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (65 bp):
ATAATACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTAACATAAG
Found at i:12247016 original size:176 final size:176
Alignment explanation
Indices: 12246699--12247251 Score: 526
Period size: 176 Copynumber: 3.1 Consensus size: 176
12246689 TGGAAGAGAC
* * * * * *
12246699 GAATCTTATATCCATGTACCGGA-AATGGAGCAGATTTAAGCCTCAAAGCCTCATCTCTCTGAGG
1 GAATCTTATCTCCATGTATC-GACAATGGAGCAGATTTTA-CCACAAAGCCTTATCTCTCTGACG
* * * *
12246763 TAGCAAGAGAGCAGGTTGAAAAATGAGTCTTATCTTCCAGAAATAGCAAGGAAGCAGACTGAGAA
64 TAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGATAGCAAGGAAGCAGACTAAGAA
* *
12246828 TTAAATATTTTATCTCCCTAAACAATAGCGGAGCAGATTGAAGATGGT
129 TTGAAGATTTTATCTCCCTAAACAATAGCGGAGCAGATTGAAGATGGT
* *
12246876 GAATCTTATCTCCATATATCGACAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGACGTA
1 GAATCTTATCTCCATGTATCGACAATGGAGCAGATTTTACCACAAAGCCTTATCTCTCTGACGTA
* * * *
12246941 GCAAGAGAGCAGGTTGAAGAATGAGTTTTACCTTCCTGAGGTAGCAAGGAAACAGACTAAGAATT
66 GCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGATAGCAAGGAAGCAGACTAAGAATT
* ** * * * * *
12247006 GAAGATTTTATCTCCCTGAA-GTTGCAACGGAGTATATCTTCGTAGATGAT
131 GAAGATTTTATCTCCCTAAACAAT--AGCGGAGCAGA--TT-GAAGATGGT
* * * * * * *
12247056 GAATCTTATCTCCATGTATTGGCGATGGAACAGATTTTTACCACTAA-CCTTATCTTTCTGATGT
1 GAATCTTATCTCCATGTATCGACAATGGAGCAGA-TTTTACCACAAAGCCTTATCTCTCTGACGT
* * * *
12247120 AGCAATAGAGCAGGTCG--GCAATTGTAGTCTTATCTTCCTGAGATAGCAAGGAAGTAAACTGAA
65 AGCAAGAGAGCAGGTTGAAG-AA-TG-AGTCTTATCTTCCTGAGATAGCAAGGAAGCAGACT-AA
* * * * ** *
12247183 G-ATTGAAGA-TCTATTTCCCTAAAGCAGTTGTAGAGCAGATTGAAGATGGC
126 GAATTGAAGATTTTATCTCCCTAAA-CAATAGCGGAGCAGATTGAAGATGGT
* *
12247233 AAATCTTATCTTCATGTAT
1 GAATCTTATCTCCATGTAT
12247252 TAGCAATGAA
Statistics
Matches: 305, Mismatches: 58, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
175 1 0.00
176 98 0.32
177 63 0.21
178 3 0.01
179 4 0.01
180 84 0.28
181 48 0.16
182 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (176 bp):
GAATCTTATCTCCATGTATCGACAATGGAGCAGATTTTACCACAAAGCCTTATCTCTCTGACGTA
GCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGATAGCAAGGAAGCAGACTAAGAATT
GAAGATTTTATCTCCCTAAACAATAGCGGAGCAGATTGAAGATGGT
Found at i:12250551 original size:27 final size:24
Alignment explanation
Indices: 12250508--12250789 Score: 130
Period size: 26 Copynumber: 11.3 Consensus size: 24
12250498 TTTCGACATC
*
12250508 AATAATATAAAACAATTTCAAATA
1 AATAATATAAAACAATTTAAAATA
12250532 AATAATATGTAAAACAAATTTAAAATA
1 AATAATA--TAAAAC-AATTTAAAATA
* *
12250559 AAT-A-ATAAGACAATTTTAAATGAA
1 AATAATATAAAACAATTTAAAAT--A
* * *
12250583 TAATATATAGAAAAACAAGTTTAAATTT
1 -AATA-ATA-TAAAACAA-TTTAAAATA
* * *
12250611 GATACTATAAAAAGCAATTTAAAGTA
1 AATAATAT-AAAA-CAATTTAAAATA
* * *
12250637 AATAGTGTAAAACAATTTAAAATC
1 AATAATATAAAACAATTTAAAATA
* * *
12250661 ATTAATATACAA-AATAATAAAAT-
1 AATAATATAAAACAAT-TTAAAATA
*** *
12250684 AAT-ATATAGTGCAACTTAAAATA
1 AATAATATAAAACAATTTAAAATA
12250707 AATAATTTATAAAACAATTTAAAAT-
1 AATAA--TATAAAACAATTTAAAATA
* * *
12250732 AA-CATATAAAA-AGTTCAAAATA
1 AATAATATAAAACAATTTAAAATA
*
12250754 AATAATATGTGAAAAATAAATTTAAAATA
1 AATAATA--T--AAAA-CAATTTAAAATA
12250783 AATAATA
1 AATAATA
12250790 AATAATATAT
Statistics
Matches: 192, Mismatches: 39, Indels: 49
0.69 0.14 0.17
Matches are distributed among these distances:
21 8 0.04
22 29 0.15
23 18 0.09
24 34 0.18
25 11 0.06
26 39 0.20
27 24 0.12
28 1 0.01
29 22 0.11
30 6 0.03
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (24 bp):
AATAATATAAAACAATTTAAAATA
Found at i:12250837 original size:24 final size:23
Alignment explanation
Indices: 12250810--12250877 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
12250800 ATATAACAGT
* *
12250810 TTAATATAAGTAATATATAAAATC
1 TTAAAATAAATAATA-ATAAAATC
12250834 TTAAAATAAATAATAATAAAAGGT-
1 TTAAAATAAATAATAATAAAA--TC
*
12250858 TTACAATAAATAATAA-AAAA
1 TTAAAATAAATAATAATAAAA
12250878 GAATTTAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
23 10 0.26
24 28 0.72
25 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (23 bp):
TTAAAATAAATAATAATAAAATC
Found at i:12250884 original size:24 final size:24
Alignment explanation
Indices: 12250838--12250884 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12250828 AAAATCTTAA
*
12250838 AATAAATAATAATAAAAGGTTTAC
1 AATAAATAATAATAAAAGATTTAC
12250862 AATAAATAATAA-AAAAGAATTTA
1 AATAAATAATAATAAAAG-ATTTA
12250885 AATCAGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (24 bp):
AATAAATAATAATAAAAGATTTAC
Found at i:12250986 original size:26 final size:26
Alignment explanation
Indices: 12250913--12251022 Score: 118
Period size: 26 Copynumber: 4.2 Consensus size: 26
12250903 ACAGTATGAC
12250913 TAAATAACATAT--AAA-ATTTAAAA
1 TAAATAACATATAAAAATATTTAAAA
* *
12250936 TAGATAATATATATAAAATAGTTTAAAA
1 TAAATAACATATA-AAAATA-TTTAAAA
12250964 TAAATAACATATAAAAATATTTAAAA
1 TAAATAACATATAAAAATATTTAAAA
* * * *
12250990 TAAATAATATGTAAAACTGTTTAAAA
1 TAAATAACATATAAAAATATTTAAAA
12251016 TGAAATA
1 T-AAATA
12251023 TTTATATATA
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.14
26 33 0.45
27 12 0.16
28 18 0.25
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (26 bp):
TAAATAACATATAAAAATATTTAAAA
Found at i:12251030 original size:54 final size:54
Alignment explanation
Indices: 12250786--12251022 Score: 157
Period size: 49 Copynumber: 4.7 Consensus size: 54
12250776 TAAAATAAAT
* * * * * *
12250786 AATAAATAATATATATATAACAGTTTAATATAAGTAATATAT-AAAAT-CTTAA
1 AATAAATAATATATATAAAATAGTTTAAAATAAATAACATATAAAAATATTTAA
* * *
12250838 AATAAAT-A-ATA-ATAAAA-GGTTTACAATAAAT-A-ATA-AAAAAGAATTT-A
1 AATAAATAATATATATAAAATAGTTTAAAATAAATAACATATAAAAA-TATTTAA
* * * * * * * *
12250885 AATCAGTTA-ACATATAAAACAGTAT-GACTAAATAACATAT--AAA-ATTTAA
1 AATAAATAATATATATAAAATAGTTTAAAATAAATAACATATAAAAATATTTAA
*
12250934 AATAGATAATATATATAAAATAGTTTAAAATAAATAACATATAAAAATATTTAA
1 AATAAATAATATATATAAAATAGTTTAAAATAAATAACATATAAAAATATTTAA
* *
12250988 AATAAATAATATGTA-AAACT-GTTTAAAATGAAATA
1 AATAAATAATATATATAAAATAGTTTAAAAT-AAATA
12251023 TTTATATATA
Statistics
Matches: 143, Mismatches: 26, Indels: 31
0.71 0.13 0.16
Matches are distributed among these distances:
46 7 0.05
47 7 0.05
48 19 0.13
49 23 0.16
50 23 0.16
51 17 0.12
52 16 0.11
53 12 0.08
54 19 0.13
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (54 bp):
AATAAATAATATATATAAAATAGTTTAAAATAAATAACATATAAAAATATTTAA
Found at i:12256571 original size:50 final size:50
Alignment explanation
Indices: 12256456--12256648 Score: 296
Period size: 50 Copynumber: 3.8 Consensus size: 50
12256446 GATAATAACA
* ** * *
12256456 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
12256507 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
12256557 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
12256607 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
12256649 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 96 0.74
51 33 0.26
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:12256764 original size:13 final size:13
Alignment explanation
Indices: 12256743--12256773 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12256733 GCTTAGATCA
*
12256743 TCATCAAATAAAT
1 TCATAAAATAAAT
12256756 TCATAAAATAAAT
1 TCATAAAATAAAT
12256769 TCATA
1 TCATA
12256774 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:12257022 original size:29 final size:30
Alignment explanation
Indices: 12256984--12257043 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
12256974 GCCCTCGACT
* *
12256984 CTAAATTTTTCAA-AATTACAATTTTGCCC
1 CTAAACTTTTAAATAATTACAATTTTGCCC
*
12257013 CTAAACTTTTAAATAATTACATTTTTGCCC
1 CTAAACTTTTAAATAATTACAATTTTGCCC
12257043 C
1 C
12257044 AAGGCTCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (30 bp):
CTAAACTTTTAAATAATTACAATTTTGCCC
Found at i:12258464 original size:19 final size:19
Alignment explanation
Indices: 12258440--12258479 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
12258430 TTCAGTGGAC
12258440 AATTTCAACATATTAAATT
1 AATTTCAACATATTAAATT
*
12258459 AATTTCGACATATTAAATT
1 AATTTCAACATATTAAATT
12258478 AA
1 AA
12258480 CTAACACACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (19 bp):
AATTTCAACATATTAAATT
Found at i:12261404 original size:34 final size:35
Alignment explanation
Indices: 12261356--12261435 Score: 117
Period size: 35 Copynumber: 2.3 Consensus size: 35
12261346 AATGCCACAA
* *
12261356 TTCACAACTTAATAT-GGACATACCATACCTACGT
1 TTCACAACTCAATATGGGAAATACCATACCTACGT
**
12261390 TTCACAACTCAATATGGGAAATGTCATACCTACGT
1 TTCACAACTCAATATGGGAAATACCATACCTACGT
12261425 TTCACAACTCA
1 TTCACAACTCA
12261436 GTATAGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 14 0.34
35 27 0.66
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (35 bp):
TTCACAACTCAATATGGGAAATACCATACCTACGT
Found at i:12262541 original size:27 final size:27
Alignment explanation
Indices: 12262509--12262564 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
12262499 TATTTAATCC
*
12262509 TTCTAGCAACTTTTACACCTTTTTTAA
1 TTCTAGCAACTTTTACACCTTTTTCAA
12262536 TTCTAGCAACTTTTACACCTTTTTCAA
1 TTCTAGCAACTTTTACACCTTTTTCAA
12262563 TT
1 TT
12262565 TAGTCCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.23, G:0.04, T:0.48
Consensus pattern (27 bp):
TTCTAGCAACTTTTACACCTTTTTCAA
Found at i:12264520 original size:25 final size:25
Alignment explanation
Indices: 12264467--12264520 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
12264457 TTTCCTTTCC
** *
12264467 TTTTCCTTTTCATTTTTAATTTAGG
1 TTTTCCTTTTCATTTTTAAAGTAGA
12264492 TTTTCTCTTTTC-TTTTTAAAGTAGA
1 TTTTC-CTTTTCATTTTTAAAGTAGA
12264517 TTTT
1 TTTT
12264521 ATTCTTATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.17, C:0.11, G:0.07, T:0.65
Consensus pattern (25 bp):
TTTTCCTTTTCATTTTTAAAGTAGA
Found at i:12271649 original size:21 final size:22
Alignment explanation
Indices: 12271620--12271660 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12271610 AGCTTTTATC
12271620 AACCCTGAA-CTCTAAACCCGT
1 AACCCTGAACCTCTAAACCCGT
* *
12271641 AACCTTGAACCTTTAAACCC
1 AACCCTGAACCTCTAAACCC
12271661 CGAAGACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.34, C:0.37, G:0.07, T:0.22
Consensus pattern (22 bp):
AACCCTGAACCTCTAAACCCGT
Found at i:12279384 original size:163 final size:163
Alignment explanation
Indices: 12279102--12279427 Score: 564
Period size: 163 Copynumber: 2.0 Consensus size: 163
12279092 TTTCTAAGTT
*
12279102 CTTTCGTTTCTCCACTCTTAAAAGCCGATTTTTCTTTATCCTTTCCAACACCATTACTTTCGTTA
1 CTTTCGTTTCTACACTCTTAAAAGCCGATTTTTCTTTATCCTTTCCAACACCATTACTTTCGTTA
* * *
12279167 ACCTATGGTTTCTCCGTTTATTTCTCTTTCTCCCTCTCATTCAAGAGTGTGATCGCTGGCTAAGT
66 ACCTATGGCTTCTCCATTTATTTCACTTTCTCCCTCTCATTCAAGAGTGTGATCGCTGGCTAAGT
12279232 AGTAGTTGATGGAAAATG-GAGGTTCTAGCAGAG
131 AGTAGTTGATGGAAAATGAG-GGTTCTAGCAGAG
* * *
12279265 CTTTTGTTTCTACACTCTTAAAAGCTGATTTTTCTTTATCCTTTCCAATACCATTACTTTCGTTA
1 CTTTCGTTTCTACACTCTTAAAAGCCGATTTTTCTTTATCCTTTCCAACACCATTACTTTCGTTA
*
12279330 ACCTATGGCTTCTCCATTTATTTCACTTTCTCCCTCTCATTCTAGAGTGTGATCGCTGGCTAAGT
66 ACCTATGGCTTCTCCATTTATTTCACTTTCTCCCTCTCATTCAAGAGTGTGATCGCTGGCTAAGT
12279395 AGTAGTTGATGGAAAATGAGGGTTCTAGCAGAG
131 AGTAGTTGATGGAAAATGAGGGTTCTAGCAGAG
12279428 AGGTTGGGAT
Statistics
Matches: 154, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
163 153 0.99
164 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.40
Consensus pattern (163 bp):
CTTTCGTTTCTACACTCTTAAAAGCCGATTTTTCTTTATCCTTTCCAACACCATTACTTTCGTTA
ACCTATGGCTTCTCCATTTATTTCACTTTCTCCCTCTCATTCAAGAGTGTGATCGCTGGCTAAGT
AGTAGTTGATGGAAAATGAGGGTTCTAGCAGAG
Found at i:12280047 original size:29 final size:30
Alignment explanation
Indices: 12280005--12280094 Score: 111
Period size: 29 Copynumber: 3.2 Consensus size: 30
12279995 ACATGGCTTG
*
12280005 GAAT-TGATTCGGGCC-AGATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
12280033 GAATGTGATTTGGGCCTA-ATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
12280062 -AATGAGA-TTGGGCCTAG-TGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
12280089 GCATGT
1 GAATGT
12280095 ATGCAGACTT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
27 19 0.35
28 13 0.24
29 21 0.39
30 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (30 bp):
GAATGTGATTTGGGCCTAGATGGGCCATAT
Found at i:12280082 original size:27 final size:28
Alignment explanation
Indices: 12280010--12280089 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 28
12280000 GCTTGGAATT
*
12280010 GATTCGGGCC-AGATGGGCCATATGAATGT
1 GATT-GGGCCTAG-TGGGCCATATGAATGA
*
12280039 GATTTGGGCCTAATGGGCCATAT-AATGA
1 GA-TTGGGCCTAGTGGGCCATATGAATGA
12280067 GATTGGGCCTAGTGGGCCATATG
1 GATTGGGCCTAGTGGGCCATATG
12280090 CATGTATGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
27 19 0.42
28 6 0.13
29 17 0.38
30 3 0.07
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (28 bp):
GATTGGGCCTAGTGGGCCATATGAATGA
Found at i:12284217 original size:13 final size:14
Alignment explanation
Indices: 12284186--12284220 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
12284176 AATCACACCC
12284186 TTAAAATTAAAATA
1 TTAAAATTAAAATA
*
12284200 TTAAAATTAAATTA
1 TTAAAATTAAAATA
12284214 -TAAAATT
1 TTAAAATT
12284221 TTTAAAGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAAAATTAAAATA
Found at i:12286455 original size:28 final size:29
Alignment explanation
Indices: 12286405--12286461 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
12286395 TTAATTTAAC
* *
12286405 ATCTTCTTCTTTTCTATTTCTTTCTTTTT
1 ATCTTCTTCTTTTATATTTCTTTCGTTTT
12286434 ATCTT-TTCTTTTAT-TTTCCTTTCGTTTT
1 ATCTTCTTCTTTTATATTT-CTTTCGTTTT
12286462 GTCGTTTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 3 0.12
28 17 0.68
29 5 0.20
ACGTcount: A:0.07, C:0.19, G:0.02, T:0.72
Consensus pattern (29 bp):
ATCTTCTTCTTTTATATTTCTTTCGTTTT
Found at i:12288317 original size:47 final size:47
Alignment explanation
Indices: 12288228--12288317 Score: 110
Period size: 47 Copynumber: 1.9 Consensus size: 47
12288218 GGTAAGGTGC
* **
12288228 AGATGCCATGTCCTAGACACGGTCTTACACTGGTTCATATCTCAAGT
1 AGATGCCATGTCCCAGACACGGTCTTACACTGACTCATATCTCAAGT
* * *
12288275 AGATGCCATGTCCCAGGCATGGTCTTACATTGACT-ATCATCTC
1 AGATGCCATGTCCCAGACACGGTCTTACACTGACTCAT-ATCTC
12288318 GTAGCCGATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
46 2 0.06
47 34 0.94
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
AGATGCCATGTCCCAGACACGGTCTTACACTGACTCATATCTCAAGT
Found at i:12288408 original size:46 final size:47
Alignment explanation
Indices: 12288321--12288448 Score: 143
Period size: 46 Copynumber: 2.7 Consensus size: 47
12288311 TCATCTCGTA
* * * *
12288321 GCCGATACATGTCCCAAACATGTCTTACACT-GGCTTACGTCTCGAG
1 GCCGATACATGTCCCAGACATGTCTTACACTAGCCCTACGTCTCAAG
* * *
12288367 GCTGATACATGTCCCTGACATGTCTTACACTAGCCCT-CGTCTCAAT
1 GCCGATACATGTCCCAGACATGTCTTACACTAGCCCTACGTCTCAAG
* *
12288413 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGC
1 GCCGAT-ACATGTCCCAGACAT-GTCTTACACTAGC
12288449 TCTCACAAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 39 0.57
47 16 0.24
48 13 0.19
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (47 bp):
GCCGATACATGTCCCAGACATGTCTTACACTAGCCCTACGTCTCAAG
Found at i:12297048 original size:5 final size:6
Alignment explanation
Indices: 12297035--12297081 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
12297025 ATAATTTAAT
*
12297035 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
12297082 AATATAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:12297082 original size:20 final size:20
Alignment explanation
Indices: 12297035--12297085 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
12297025 ATAATTTAAT
**
12297035 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATAAAA
*
12297055 AACTAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
12297075 ATAA-AAAAATA
1 A-AATAAAAATA
12297086 TAATTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:12297121 original size:9 final size:9
Alignment explanation
Indices: 12297100--12297158 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
12297090 TTTATACGAA
*
12297100 TAATTCGGT
1 TAATTCGGG
*
12297109 TAATTTGGG
1 TAATTCGGG
12297118 TAATTCGGG
1 TAATTCGGG
**
12297127 TAATTCGAT
1 TAATTCGGG
**
12297136 TAATTCGAT
1 TAATTCGGG
*
12297145 TAATTCGGT
1 TAATTCGGG
12297154 TAATT
1 TAATT
12297159 TTATACTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGG
Found at i:12297131 original size:27 final size:27
Alignment explanation
Indices: 12297100--12297158 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
12297090 TTTATACGAA
* * *
12297100 TAATTCGGTTAATTTGGGTAATTCGGG
1 TAATTCGATTAATTCGAGTAATTCGGG
* *
12297127 TAATTCGATTAATTCGATTAATTCGGT
1 TAATTCGATTAATTCGAGTAATTCGGG
12297154 TAATT
1 TAATT
12297159 TTATACTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.44
Consensus pattern (27 bp):
TAATTCGATTAATTCGAGTAATTCGGG
Found at i:12299968 original size:21 final size:21
Alignment explanation
Indices: 12299944--12299995 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
12299934 CTTTTTATTC
12299944 AATTAAC-TATCGAAACTTTAA
1 AATTAACTTA-CGAAACTTTAA
*
12299965 AATT-TCTTGACGAAACTTTAA
1 AATTAACTT-ACGAAACTTTAA
*
12299986 TATTAACTTA
1 AATTAACTTA
12299996 TTAACACTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.38
Consensus pattern (21 bp):
AATTAACTTACGAAACTTTAA
Found at i:12303070 original size:20 final size:20
Alignment explanation
Indices: 12303038--12303076 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
12303028 ATTTAATGGT
12303038 TATATTTAAATATT-TAAAA
1 TATATTTAAATATTCTAAAA
*
12303057 TATAGTTTATATATTCTAAA
1 TATA-TTTAAATATTCTAAA
12303077 TAAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATTTAAATATTCTAAAA
Found at i:12307555 original size:23 final size:24
Alignment explanation
Indices: 12307524--12307576 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
12307514 CTAATTAAAT
*
12307524 TTTATAAATAATTAATATTTATTG
1 TTTATAAATAATTAAAATTTATTG
*
12307548 TTTA-AAATATTTAAAATTTATAT-
1 TTTATAAATAATTAAAATTTAT-TG
12307571 TTTATA
1 TTTATA
12307577 TATTAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTATAAATAATTAAAATTTATTG
Found at i:12307779 original size:13 final size:13
Alignment explanation
Indices: 12307763--12307828 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
12307753 TTTAAACTAA
12307763 ACTTTTTAAAAGC
1 ACTTTTTAAAAGC
* * *
12307776 ACTTATCAAAAGT
1 ACTTTTTAAAAGC
* *
12307789 ACTTTTTCACAGC
1 ACTTTTTAAAAGC
* *
12307802 ACTTTTAAAAAAC
1 ACTTTTTAAAAGC
12307815 A-TTTTTCAAAAGC
1 ACTTTTT-AAAAGC
12307828 A
1 A
12307829 TTGCCAAACT
Statistics
Matches: 38, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
12 4 0.11
13 34 0.89
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (13 bp):
ACTTTTTAAAAGC
Found at i:12307812 original size:26 final size:26
Alignment explanation
Indices: 12307763--12307828 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
12307753 TTTAAACTAA
*
12307763 ACTTTTTAAAAGCACTTATCAAAAGT
1 ACTTTTTAAAAGCACTTATAAAAAGT
* * *
12307789 ACTTTTTCACAGCACTTTTAAAAA--
1 ACTTTTTAAAAGCACTTATAAAAAGT
12307813 ACATTTTTCAAAAGCA
1 AC-TTTTT-AAAAGCA
12307829 TTGCCAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
24 2 0.06
25 5 0.16
26 25 0.78
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (26 bp):
ACTTTTTAAAAGCACTTATAAAAAGT
Found at i:12317962 original size:32 final size:32
Alignment explanation
Indices: 12317876--12317947 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
12317866 GGCCAGGCTG
* * *
12317876 TGTGGACCACATGGCCAAGGCCAATTTGGGCA
1 TGTGGGCCACACGGCTAAGGCCAATTTGGGCA
* *
12317908 TGTGTGCCACACGGCTAAGGCCAATTTGGGCG
1 TGTGGGCCACACGGCTAAGGCCAATTTGGGCA
12317940 TGTGGGCC
1 TGTGGGCC
12317948 TATACGGGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.19, C:0.25, G:0.35, T:0.21
Consensus pattern (32 bp):
TGTGGGCCACACGGCTAAGGCCAATTTGGGCA
Found at i:12324743 original size:49 final size:49
Alignment explanation
Indices: 12324671--12324842 Score: 204
Period size: 49 Copynumber: 3.3 Consensus size: 49
12324661 GTGTGTATAC
12324671 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
12324720 GTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGCCTAATGACCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAAT----G------G-CCGATGTGATGAAT
* * *
12324780 GTG-AAG-GTGTATATATGTGGTAAGGCGTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
12324827 GTGAAAGTGTATATAT
1 GTGAAAGTGTATATAT
12324843 GTATAATAAG
Statistics
Matches: 106, Mismatches: 4, Indels: 26
0.78 0.03 0.19
Matches are distributed among these distances:
47 17 0.16
48 4 0.04
49 40 0.38
53 1 0.01
54 1 0.01
58 22 0.21
59 4 0.04
60 17 0.16
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:12324763 original size:60 final size:58
Alignment explanation
Indices: 12324697--12324811 Score: 176
Period size: 60 Copynumber: 1.9 Consensus size: 58
12324687 ATGTGATAAG
*
12324697 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACC
1 GCCTAATGACCGATGTGATGAATGTG-AAG-GTATATATATGTGATAAGGCCTAATGACC
* * *
12324757 GCCTAATGACCGATGTGATGAATGTGAAGGTGTATATATGTGGTAAGGCGTAATG
1 GCCTAATGACCGATGTGATGAATGTGAAGGTATATATATGTGATAAGGCCTAATG
12324812 GCCGATGTGA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 23 0.45
59 3 0.06
60 25 0.49
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.29
Consensus pattern (58 bp):
GCCTAATGACCGATGTGATGAATGTGAAGGTATATATATGTGATAAGGCCTAATGACC
Found at i:12324986 original size:49 final size:47
Alignment explanation
Indices: 12324860--12325500 Score: 982
Period size: 47 Copynumber: 13.5 Consensus size: 47
12324850 AAGGATTAAA
12324860 TGAAAGTGTATATATG-GATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
12324906 TGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
12324953 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
12325002 TGAAAGTGTATATATATATTCGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTG--TATATAT-GT-GATAAGGCCTAATGGCCGATGTGATGAATG
* *
12325053 TGAAAGTGTATATATGTGATAAGGCCTAACGGCCGATATGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* *
12325100 TGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGACGAATG
1 TGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
12325149 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
12325198 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* * *
12325245 TGAAGGTGTATATATGTGGTAAGGCCTAATGGCCGATATGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* *
12325292 CGAAAGTGTATATATGTGATAAGG-C-AATAGCCGATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
12325337 CGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
12325384 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* * * * * * * *
12325431 TGAAAATGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
12325478 TGAAAGTGTATAAATGTGATAAG
1 TGAAAGTGTATATATGTGATAAG
12325501 TCCCGAAGGG
Statistics
Matches: 555, Mismatches: 31, Indels: 17
0.92 0.05 0.03
Matches are distributed among these distances:
45 42 0.08
46 18 0.03
47 301 0.54
48 1 0.00
49 154 0.28
50 1 0.00
51 38 0.07
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
Found at i:12325688 original size:37 final size:37
Alignment explanation
Indices: 12325619--12325697 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
12325609 CCGAGCTCTA
* * *
12325619 AAGACCCGATGACTACGCGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGCGTGGAGATTATGTCCGGGT
* *
12325656 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGCGTGGAGATTATGTCCGGGT
12325693 AAGAC
1 AAGAC
12325698 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGCGTGGAGATTATGTCCGGGT
Found at i:12329829 original size:5 final size:5
Alignment explanation
Indices: 12329819--12329848 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
12329809 GAAAAAAATC
12329819 TTATT TTATT TTATT TTATT TTGATT TTAT
1 TTATT TTATT TTATT TTATT TT-ATT TTAT
12329849 ATTAAATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:12332301 original size:16 final size:17
Alignment explanation
Indices: 12332277--12332309 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12332267 AAAACACAGG
12332277 TTTAATGGA-AAGAAAA
1 TTTAATGGAGAAGAAAA
*
12332293 TTTATTGGAGAAGAAAA
1 TTTAATGGAGAAGAAAA
12332310 GAAACAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.27
Consensus pattern (17 bp):
TTTAATGGAGAAGAAAA
Found at i:12353804 original size:209 final size:210
Alignment explanation
Indices: 12353326--12354127 Score: 1052
Period size: 209 Copynumber: 3.8 Consensus size: 210
12353316 TAAGCCGCAG
* *
12353326 CATAGCAGATCTCACCTTCAGATGTTAACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAAATCCAAGATGACAGATCTTATCTCTC
* * * *
12353391 TGTATTTGGCGGGGAGCAGATCGAAGATATAGCTAATTTGACTTTCACGTGTTTACGATGAAGAA
66 TGTATTCGACGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
** * * *
12353456 AATCTAAGATGATTTGTCGCCTCTGTATTGCCAGAGAACAAATCGAAGTCTGACATTTCCACTAT
131 AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
* *
12353521 GATGAAAGGCAGACA
196 GATGGAAGGCAGATA
* *
12353536 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAAATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAAATCCAAGATGACAGATCTTATCTCTC
*
12353601 TGTATTCGACGGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
66 TGTATTCGACGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
*
12353666 AATCTAAGATGATTTGT-GTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
131 AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
*
12353730 GATGGAAGGCAGATG
196 GATGGAAGGCAGATA
12353745 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAAATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAAATCCAAGATGACAGATCTTATCTCTC
* *
12353810 TGTATTCGACGCGGAGCAGATCGAAGATATAGCTGATTTTACTTTCACGTG-TTACGATGAAGCA
66 TGTATTCGACGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
* * * * *
12353874 AATCTAAGATGATTTGTCATCTCTGTATTGTCGGAGAACAAATCGAAGTTTGGCATCTCTACTTC
131 AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
* * *
12353939 AATAGATA-GTAGATA
196 GATGGA-AGGCAGATA
* * * * ** *
12353954 CATAGCAGATCTGACCTTCAGACGATTA-GACTGAAACAAGATCCAAGATGATTTG-GC--ATC-
1 CATAGCAGATCTCACCTTCAGATGTTTACG-CTGAAGCAA-ATCCAAGATGA-CAGATCTTATCT
* ** * * * * * * *
12354014 CT-TGTGCTT--ACAAGGAGCAAATCAAAGACATAGTTGATTT-AGTTTTCACGTGCTTATGATG
63 CTCTGT-ATTCGACGGGGAGCAGATCGAAGATATAGCTGATTTGA-CTTTCACGTGTTTACGATG
*
12354075 AAGCAAATCTAAGATAATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAG
126 AAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAG
12354128 AAGTAGATTT
Statistics
Matches: 537, Mismatches: 47, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
204 1 0.00
205 34 0.06
206 61 0.11
207 4 0.01
208 34 0.06
209 249 0.46
210 153 0.28
211 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (210 bp):
CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAAATCCAAGATGACAGATCTTATCTCTC
TGTATTCGACGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
GATGGAAGGCAGATA
Found at i:12361171 original size:27 final size:27
Alignment explanation
Indices: 12361133--12361206 Score: 139
Period size: 27 Copynumber: 2.7 Consensus size: 27
12361123 GCATGCTTAG
12361133 CATGAGGATGATTGAGAGGCACCGTAC
1 CATGAGGATGATTGAGAGGCACCGTAC
12361160 CATGAGGATGATTGAGAGGCACCGTAC
1 CATGAGGATGATTGAGAGGCACCGTAC
*
12361187 CATGAGGATGATCGAGAGGC
1 CATGAGGATGATTGAGAGGC
12361207 GCCGAGGAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.30, C:0.18, G:0.35, T:0.18
Consensus pattern (27 bp):
CATGAGGATGATTGAGAGGCACCGTAC
Found at i:12375051 original size:53 final size:53
Alignment explanation
Indices: 12374967--12375083 Score: 155
Period size: 53 Copynumber: 2.2 Consensus size: 53
12374957 AGGTGTAGGG
* * *
12374967 GACACACAGCCTAACCACATGCTCGTGTACCAGACCATG-TGTCACACATGGTTTA
1 GACACAC-G-CTAACCACACGCTCGTCTACCAGACCATGAT-TCACACACGGTTTA
*
12375022 GACACACGCTAACCACACGCTCGTCTACCAGGCCATGATTCACACACGGTTTA
1 GACACACGCTAACCACACGCTCGTCTACCAGACCATGATTCACACACGGTTTA
*
12375075 GACGCACGC
1 GACACACGC
12375084 CTGTGTGTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 47 0.84
54 2 0.04
55 7 0.12
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (53 bp):
GACACACGCTAACCACACGCTCGTCTACCAGACCATGATTCACACACGGTTTA
Found at i:12384541 original size:24 final size:24
Alignment explanation
Indices: 12384514--12384564 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
12384504 CAAGAACACC
* *
12384514 TCAAATTGCCATTCATTTTTTTAA
1 TCAAATTCCCATTCAATTTTTTAA
* * *
12384538 TCAATTTCCCCTTTAATTTTTTAA
1 TCAAATTCCCATTCAATTTTTTAA
12384562 TCA
1 TCA
12384565 GTATGGTAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.51
Consensus pattern (24 bp):
TCAAATTCCCATTCAATTTTTTAA
Found at i:12388241 original size:13 final size:13
Alignment explanation
Indices: 12388200--12388232 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
12388190 CTTAAACAAG
12388200 TTTAATTTAAATA
1 TTTAATTTAAATA
*
12388213 TTAAATTTAAATA
1 TTTAATTTAAATA
12388226 TTTAATT
1 TTTAATT
12388233 CAAACATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTAATTTAAATA
Found at i:12391139 original size:15 final size:15
Alignment explanation
Indices: 12391119--12391149 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12391109 GACATGAAAT
*
12391119 AAAGAAAGGAAAAAA
1 AAAGAAAAGAAAAAA
12391134 AAAGAAAAGAAAAAA
1 AAAGAAAAGAAAAAA
12391149 A
1 A
12391150 CATAATGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAA
Found at i:12412803 original size:18 final size:18
Alignment explanation
Indices: 12412777--12412815 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
12412767 AATAAGACCC
* *
12412777 CATCTCTCATTCACTCAT
1 CATCCCTCACTCACTCAT
*
12412795 CATCCCTCACTCATTCAT
1 CATCCCTCACTCACTCAT
12412813 CAT
1 CAT
12412816 TCTCTCCTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.41, G:0.00, T:0.36
Consensus pattern (18 bp):
CATCCCTCACTCACTCAT
Found at i:12412829 original size:22 final size:22
Alignment explanation
Indices: 12412779--12412829 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
12412769 TAAGACCCCA
12412779 TCTCTCATTCACTCATCATCCC
1 TCTCTCATTCACTCATCATCCC
*
12412801 TCACTCATTCA-TCATTC-TCTCC
1 TCTCTCATTCACTCA-TCATC-CC
12412823 TCTCTCA
1 TCTCTCA
12412830 ACTCTCTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.18, C:0.43, G:0.00, T:0.39
Consensus pattern (22 bp):
TCTCTCATTCACTCATCATCCC
Found at i:12419631 original size:16 final size:16
Alignment explanation
Indices: 12419610--12419640 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12419600 AAGGTTGGGC
12419610 CGTGGGTCTGAATGGT
1 CGTGGGTCTGAATGGT
*
12419626 CGTGGGTCTTAATGG
1 CGTGGGTCTGAATGG
12419641 GTATTAGGGC
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:0.13, C:0.13, G:0.42, T:0.32
Consensus pattern (16 bp):
CGTGGGTCTGAATGGT
Found at i:12421295 original size:20 final size:20
Alignment explanation
Indices: 12421252--12421296 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
12421242 ATTGTTTTGT
12421252 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
12421272 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
12421291 TATGGG
1 TATGGG
12421297 AAAGGCCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:12423420 original size:12 final size:13
Alignment explanation
Indices: 12423402--12423456 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
12423392 ATAAAATATG
12423402 ATATTTAATAATA
1 ATATTTAATAATA
12423415 AT-TTTAA-AATA
1 ATATTTAATAATA
* *
12423426 GTATTTAATATACA
1 ATATTTAATA-ATA
*
12423440 ATATATAATATATA
1 ATATTTAATA-ATA
12423454 ATA
1 ATA
12423457 ACAAAAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
11 5 0.15
12 10 0.29
13 3 0.09
14 16 0.47
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:12423616 original size:21 final size:23
Alignment explanation
Indices: 12423558--12423616 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
12423548 AAATTATATT
*
12423558 TATA-ATAAAATAA-TTATATAA
1 TATATATAAAATAAGTTATAGAA
12423579 TATATATAAATATAAGTT-TAGAA
1 TATATATAAA-ATAAGTTATAGAA
12423602 TA-ATATAAAATAAGT
1 TATATATAAAATAAGT
12423617 AATTAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (23 bp):
TATATATAAAATAAGTTATAGAA
Found at i:12423788 original size:14 final size:15
Alignment explanation
Indices: 12423739--12424001 Score: 75
Period size: 15 Copynumber: 17.7 Consensus size: 15
12423729 TTAAAACCTT
12423739 TAATGATAATAAT-ATA
1 TAAT-ATAA-AATAATA
*
12423755 TAGATAAAAAATATATAA
1 TA-ATATAAAATA-AT-A
*
12423773 TAGTATAAAAATAATA
1 TAATAT-AAAATAATA
12423789 TAATATAAAATAATTA
1 TAATATAAAATAA-TA
*
12423805 TAATATAATATGAA-A
1 TAATATAAAAT-AATA
**
12423820 GTATATATGTAA-AA-A
1 -TA-ATATAAAATAATA
*
12423835 TAATATATAATATATA
1 TAATATAAAATA-ATA
*
12423851 TAAT-TAATA-AATA
1 TAATATAAAATAATA
* *
12423864 TATTATACAAGTAA-A
1 TAATATA-AAATAATA
12423879 -AATATAATAATAATA
1 TAATATAA-AATAATA
*
12423894 T-ATA-AATAATAATG
1 TAATATAA-AATAATA
*
12423908 TAA-A-ATAATAATA
1 TAATATAAAATAATA
* *
12423921 T-TTCGTGAAAAGTAATA
1 TAAT-AT-AAAA-TAATA
12423938 T-ATA-ATAAATAATAA
1 TAATATA-AAATAAT-A
12423953 TAATAT-AAATAATA
1 TAATATAAAATAATA
12423967 T-ATAATAAAATAAT-
1 TAAT-ATAAAATAATA
12423981 T-ATAT--AAT-ATA
1 TAATATAAAATAATA
12423992 TAATATAAAA
1 TAATATAAAA
12424002 ATAAGGTTAA
Statistics
Matches: 189, Mismatches: 24, Indels: 70
0.67 0.08 0.25
Matches are distributed among these distances:
10 2 0.01
11 4 0.02
12 4 0.02
13 25 0.13
14 41 0.22
15 44 0.23
16 38 0.20
17 22 0.12
18 9 0.05
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (15 bp):
TAATATAAAATAATA
Found at i:12423870 original size:20 final size:19
Alignment explanation
Indices: 12423751--12423998 Score: 71
Period size: 19 Copynumber: 12.9 Consensus size: 19
12423741 ATGATAATAA
*
12423751 TATATAGATAAAAAATATAT
1 TATATA-ATAATAAATATAT
*
12423771 AATAGT-ATAA-AAATAATAT
1 TATA-TAATAATAAAT-ATAT
*
12423790 AATATAA-AAT-AAT-TAT
1 TATATAATAATAAATATAT
*
12423806 AATATAAT-ATGAAAGTATA-
1 TATATAATAAT-AAA-TATAT
* *
12423825 TATGTAAAAATAATATATAAT
1 TATATAATAATAA-ATAT-AT
12423846 ATATATAATTAATAAATATAT
1 -TATATAA-TAATAAATATAT
* *
12423867 TATACAAGTAA-AAATATAA
1 TATATAA-TAATAAATATAT
12423886 TA-ATAATATATAAATA-AT
1 TATATAATA-ATAAATATAT
* *
12423904 AATGTAA-AAT-AATAATAT
1 TATATAATAATAAAT-ATAT
* *
12423922 T-TCGTGAA-AAGTAATATATAA
1 TAT-AT-AATAA-TAA-ATATAT
* *
12423943 TAAATAATAATAATATAAAT
1 TATATAATAATAA-ATATAT
*
12423963 AATAT-ATAATAAA-ATAAT
1 TATATAATAATAAATAT-AT
12423981 TATATAAT-ATATAATATA
1 TATATAATAATA-AATATA
12423999 AAAATAAGGT
Statistics
Matches: 174, Mismatches: 23, Indels: 63
0.67 0.09 0.24
Matches are distributed among these distances:
16 15 0.09
17 7 0.04
18 33 0.19
19 57 0.33
20 34 0.20
21 11 0.06
22 12 0.07
23 5 0.03
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (19 bp):
TATATAATAATAAATATAT
Found at i:12423916 original size:30 final size:30
Alignment explanation
Indices: 12423758--12424059 Score: 107
Period size: 30 Copynumber: 9.9 Consensus size: 30
12423748 TAATATATAG
12423758 ATAAAA-AATATATAATAGTATAAA-AATAAT
1 ATAAAATAATA-ATAATA-TATAAATAATAAT
*
12423788 ATAATATAA-AATAAT-TAT-AAT-ATAAT
1 ATAAAATAATAATAATATATAAATAATAAT
* * *
12423814 ATGAAAGTATATATGTAA-AAAT-AATATATAAT
1 AT-AAAATA-ATA-ATAATATATAAATA-ATAAT
* * *
12423846 AT-ATATAATTAATAAATATATTATACAAGTAA-
1 ATAAAATAA-TAAT-AATATA-TAAATAA-TAAT
*
12423878 A-AATATAATAATAATATATAAATAATAAT
1 ATAAAATAATAATAATATATAAATAATAAT
* * * *
12423907 GTAAAATAATAAT-ATTTCGTGAAA-AGTAAT
1 ATAAAATAATAATAATAT-AT-AAATAATAAT
*
12423937 ATATAATAAATAATAATAATATAAATAATATAT
1 ATAAAAT-AATAATAAT-ATATAAATAATA-AT
12423970 AATAAAATAATTATATAATATATAATATAA-AA-
1 -ATAAAATAA-TA-ATAATATATAA-ATAATAAT
** *
12424002 ATAAGGTTAAAAATAA-A-ATAAATAATAAT
1 ATAA-AATAATAATAATATATAAATAATAAT
* * *
12424031 AATAAATTTATATATAATAATAGAAATAA
1 -ATAAAATAATA-ATAAT-ATATAAATAA
12424060 ATATATAGGG
Statistics
Matches: 204, Mismatches: 31, Indels: 71
0.67 0.10 0.23
Matches are distributed among these distances:
26 9 0.04
27 11 0.05
28 10 0.05
29 21 0.10
30 60 0.29
31 25 0.12
32 26 0.13
33 18 0.09
34 15 0.07
35 9 0.04
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (30 bp):
ATAAAATAATAATAATATATAAATAATAAT
Found at i:12424029 original size:111 final size:112
Alignment explanation
Indices: 12423817--12424031 Score: 246
Period size: 114 Copynumber: 1.9 Consensus size: 112
12423807 ATATAATATG
* *
12423817 AAAGTATATATGTAAAAATAATATATAATATATATAATTAATAAATATATTATACAAGTAAAAAT
1 AAAGTATATATATAAAAATAATATATAATATAAATAATTAATAAATATATTATACAAGTAAAAAT
* * **
12423882 ATAATAATAATATATAAATAATAATGTAAAATAATAATATTTCGTGA
66 ATAAAAATAAGATATAAATAATAAAATAAAATAATAATATTTCGTGA
*
12423929 AAAGTA-ATATATAATAAATAATA-ATAATATAAATAATATATAATAAA-ATAATTATATAA-TA
1 AAAGTATATATATAA-AAATAATATATAATATAAAT-A-AT-TAATAAATAT-ATTATACAAGTA
* *
12423990 TATAATATAAAAATAAGGT-TAAA-AATAAAAT-AAATAATAATA
61 -AAAATATAAAAATAAGATATAAATAATAAAATAAAATAATAATA
12424032 ATAAATTTAT
Statistics
Matches: 88, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
111 28 0.32
112 21 0.24
113 10 0.11
114 29 0.33
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (112 bp):
AAAGTATATATATAAAAATAATATATAATATAAATAATTAATAAATATATTATACAAGTAAAAAT
ATAAAAATAAGATATAAATAATAAAATAAAATAATAATATTTCGTGA
Found at i:12424052 original size:3 final size:3
Alignment explanation
Indices: 12423739--12424035 Score: 67
Period size: 3 Copynumber: 98.0 Consensus size: 3
12423729 TTAAAACCTT
* * *
12423739 TAA TGA TAA TAA TATA TAGA TAA -AA -AA TATA TAA TAG T-A TAA AAA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* *
12423784 TAA T-A TAA T-A TAA -AA TAA TTA TAA T-A TAA T-A TGAA -AG TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA-A
* * *
12423825 TATG TAA AAA TAA TATA TAA T-A TATA TAA TTAA TAAA TATA TTA TACA
1 TA-A TAA TAA TAA TA-A TAA TAA TA-A TAA -TAA T-AA TA-A TAA TA-A
* * *
12423873 -AG TAA AAA T-A TAA TAA TAA TATA TAAA TAA TAA T-G TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A T-AA TAA TAA TAA TAA TAA TAA
* **
12423916 TAA TATT TCG TGAA -AA GTAA TATA TAA TAAA TAA TAA TAA T-A TAAA
1 TAA TA-A TAA T-AA TAA -TAA TA-A TAA T-AA TAA TAA TAA TAA T-AA
* *
12423962 TAA TATA TAA TAA -AA TAA TTA T-A TAA TATA TAA T-A TAA AAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
*** *
12424006 GGT TAA AAA TAA -AA TAAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
12424036 ATTTATATAT
Statistics
Matches: 215, Mismatches: 39, Indels: 80
0.64 0.12 0.24
Matches are distributed among these distances:
2 35 0.16
3 125 0.58
4 54 0.25
5 1 0.00
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:12424063 original size:18 final size:17
Alignment explanation
Indices: 12423941--12424064 Score: 72
Period size: 18 Copynumber: 6.6 Consensus size: 17
12423931 AGTAATATAT
12423941 AATAAATAATAATAATATA
1 AATAAAT-ATAATAATA-A
12423960 AAT-AATAT-ATAATAA
1 AATAAATATAATAATAA
12423975 AATAATTATATAATATATAA
1 AATAA--ATATAATA-ATAA
* *
12423995 TATAAAAATAAGGTTAAAAATAA
1 -A-ATAAAT-A---TAATAATAA
12424018 AATAAATAATAATAATAA
1 AATAAAT-ATAATAATAA
* *
12424036 ATTTATATATAATAATAGA
1 A-ATAAATATAATAATA-A
12424055 AATAAATATA
1 AATAAATATA
12424065 TAGGGTTAGA
Statistics
Matches: 84, Mismatches: 8, Indels: 27
0.71 0.07 0.23
Matches are distributed among these distances:
15 4 0.05
16 7 0.08
17 2 0.02
18 32 0.38
19 12 0.14
20 6 0.07
21 9 0.11
22 4 0.05
23 4 0.05
24 4 0.05
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAAATATAATAATAA
Found at i:12426141 original size:205 final size:205
Alignment explanation
Indices: 12425643--12426195 Score: 878
Period size: 205 Copynumber: 2.7 Consensus size: 205
12425633 AAATCTGCTT
*
12425643 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* * * *
12425708 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGAAAGCACAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
** ** * * * *
12425773 GGATCTTGTTTCAGTGAAATTATCTGAAGGTGAGATCTATTATGTGCCTGCTCTCCGTTGAAATG
131 GGATC-TACTTCAGTGAAAACATCTGAAGGTGAGATCTACTACGTGCCTGCCCTCCGTCGAAATG
12425838 GAGATGCCAGA
195 GAGATGCCAGA
12425849 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
12425914 GTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
12425979 GGATCTACTTCAGT-ATAAACATCTGAAGGGTG-GATCTGCTACGTGTCTGCCCTCCGTCGAAGT
131 GGATCTACTTCAGTGA-AAACATCTGAA-GGTGAGATCTACTACGTGCCTGCCCTCCGTCGAAAT
*
12426042 GGAGAATGCCAGG
194 GGAG-ATGCCAGA
*
12426055 CTTCGATAT-TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
12426119 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
12426184 GGATCTACTTCA
131 GGATCTACTTCA
12426196 ACCAGATCTA
Statistics
Matches: 324, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
204 1 0.00
205 175 0.54
206 148 0.46
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTGAAAACATCTGAAGGTGAGATCTACTACGTGCCTGCCCTCCGTCGAAATGG
AGATGCCAGA
Found at i:12435683 original size:64 final size:64
Alignment explanation
Indices: 12435603--12435730 Score: 186
Period size: 65 Copynumber: 2.0 Consensus size: 64
12435593 CATATAATAA
*
12435603 CACATCTAGTTAGGAGCATTTGA-TCATTTCGATCATAACATCCTAATTATTTGACATAAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACAT-AAGCAT
* * * * *
12435667 CACATTTAGTTGGGAGCATTTGATTTATTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAGCAT
12435731 AGATACATGA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 27 0.47
65 30 0.53
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAGCAT
Found at i:12436002 original size:133 final size:133
Alignment explanation
Indices: 12435830--12436095 Score: 415
Period size: 133 Copynumber: 2.0 Consensus size: 133
12435820 GGGGCAACAA
*
12435830 GTTGAAGATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAACAGATCGAAGACAGCGGATCTAG
1 GTTGAAGATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAACAGATCGAAAACAGCGGATCTAG
* ** * *
12435895 GCTTCCTGATATTGCAGTGAAGCGGATTTAAGCCACCATCCTAGCTCTCTAAAATTGTAGTGGAG
66 GCTTCCTGATATTGCAGCGAAGCAAATTTAAGCCACCACCCTAGCTCCCTAAAATTGTAGTGGAG
12435960 TAG
131 TAG
* *
12435963 GTTGAAGATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAAACGGCGGATCTAG
1 GTTGAAGATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAACAGATCGAAAACAGCGGATCTAG
* * * * *
12436028 GTTTTCTGATGTTGCAGCGAAGCAAATTTAAGTCACCACCCTAGCTCCCTAAAGTTGTAGTGGAG
66 GCTTCCTGATATTGCAGCGAAGCAAATTTAAGCCACCACCCTAGCTCCCTAAAATTGTAGTGGAG
12436093 TAG
131 TAG
12436096 ACCCAAGATT
Statistics
Matches: 120, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 120 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (133 bp):
GTTGAAGATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAACAGATCGAAAACAGCGGATCTAG
GCTTCCTGATATTGCAGCGAAGCAAATTTAAGCCACCACCCTAGCTCCCTAAAATTGTAGTGGAG
TAG
Found at i:12436179 original size:44 final size:44
Alignment explanation
Indices: 12436129--12436263 Score: 142
Period size: 44 Copynumber: 3.2 Consensus size: 44
12436119 CCAGTGGAGT
12436129 AGATCAAAGATAACAGATTTGGCGACTCTGTAGCGGCGGAGAGC
1 AGATCAAAGATAACAGATTTGGCGACTCTGTAGCGGCGGAGAGC
* ** *
12436173 AGATC------AA-AGATTTGGCGTA-TCTGTAGCTGCAAAGAGT
1 AGATCAAAGATAACAGATTTGGCG-ACTCTGTAGCGGCGGAGAGC
* * *
12436210 AGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGC
1 AGATCAAAGATAACAGATTTGGCGACTCTGTAGCGGCGGAGAGC
12436254 AGATCAAAGA
1 AGATCAAAGA
12436264 CGGTGAATCT
Statistics
Matches: 71, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
37 29 0.41
38 3 0.04
43 2 0.03
44 37 0.52
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (44 bp):
AGATCAAAGATAACAGATTTGGCGACTCTGTAGCGGCGGAGAGC
Found at i:12436196 original size:37 final size:37
Alignment explanation
Indices: 12436143--12436263 Score: 111
Period size: 37 Copynumber: 3.1 Consensus size: 37
12436133 CAAAGATAAC
12436143 AGATTTGGCG-ACTCTGTAGCGGCGGAGAGCAGATCAA
1 AGATTTGGCGTA-TCTGTAGCGGCGGAGAGCAGATCAA
* *
12436180 AGATTTGGCGTATCTGTAGCTGCAAAGAGTAGATCGAAGAT-AA
1 AGATTTGGCGTATCTGTAGCGGC---G-G-AGA--GCAGATCAA
* *
12436223 CAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCAA
1 -AGATTTGGCGTATCTGTAGCGGCGGAGAGCAGATCAA
12436261 AGA
1 AGA
12436264 CGGTGAATCT
Statistics
Matches: 68, Mismatches: 6, Indels: 20
0.72 0.06 0.21
Matches are distributed among these distances:
37 28 0.41
38 3 0.04
39 3 0.04
40 2 0.03
41 2 0.03
42 3 0.04
43 2 0.03
44 25 0.37
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (37 bp):
AGATTTGGCGTATCTGTAGCGGCGGAGAGCAGATCAA
Found at i:12440913 original size:6 final size:6
Alignment explanation
Indices: 12440883--12440923 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
12440873 GGGAAAACAA
* * *
12440883 GCATAG GCCTAG GCATAA GCGTAG GCATAG GCATAG GCATA
1 GCATAG GCATAG GCATAG GCATAG GCATAG GCATAG GCATA
12440924 AGGAGATGAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.32, C:0.20, G:0.32, T:0.17
Consensus pattern (6 bp):
GCATAG
Found at i:12444428 original size:18 final size:17
Alignment explanation
Indices: 12444405--12444447 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
12444395 ATAATTATAT
12444405 ATTTTAATGA-TATAATAA
1 ATTTTAAT-ATTATAAT-A
12444423 ATTTTAATATTTATAATA
1 ATTTTAATA-TTATAATA
12444441 ATTTTAA
1 ATTTTAA
12444448 ATCTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.04
18 16 0.70
19 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTTAATATTATAATA
Found at i:12444555 original size:23 final size:23
Alignment explanation
Indices: 12444529--12444578 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
12444519 TTAGTATTAA
12444529 ATTTTA-TAGTATAATATATGAAT
1 ATTTTACTAGTATAA-ATATGAAT
* *
12444552 ATTTTACTATTATAAATATGAGT
1 ATTTTACTAGTATAAATATGAAT
12444575 ATTT
1 ATTT
12444579 GTTTAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (23 bp):
ATTTTACTAGTATAAATATGAAT
Found at i:12444817 original size:157 final size:156
Alignment explanation
Indices: 12444620--12445081 Score: 616
Period size: 156 Copynumber: 3.0 Consensus size: 156
12444610 TCTAACTCCA
* * *
12444620 ATGTGCTACTATCCACTCCCGCATTTGTAATATATG-AAGGTCAAATTAAGTTTTAATTAAGAAT
1 ATGTGCTACTATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTAAG-AT
* *
12444684 TTTTTATTATTAAGATTATATAATTTATTATTTATTATAAAATATGATCTTATTA-AAACAT-AA
65 TTTTT-TTATTAAGATTATATAAATTATTAATTATTATAAAATATGATCTTATTATAAA-ATAAA
* * *
12444747 TTTCGGTTGCCGCAGTGAAATACTTCTAT
128 TTTCGATTGCCGCAATGAAATACTTCGAT
* **
12444776 ATGTGCTACTATCCACTCTCACATATGAAACGTATGTAAGGTCAAATTAAGTTTTAATTAAGATT
1 ATGTGCTACTATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTAAGATT
*
12444841 TTTTGTTATTAAGATTATATAAAATGA-TAATTATTATAAAATATGATCTTATTATAAAATAAAT
66 TTTT-TTATTAAGATTATAT-AAATTATTAATTATTATAAAATATGATCTTATTATAAAATAAAT
*
12444905 TTCGATTGTCGCAATGAAATACTTCGAT
129 TTCGATTGCCGCAATGAAATACTTCGAT
* * * *
12444933 ATGTGCTACTATCCA--CTCACATATGTAATATATGTAAGGTCAAATTTAGCTTCAATTAATATT
1 ATGTGCTACTATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTAAGATT
* *
12444996 GTTTTTATTAAGTTTATATAAGA-TATTAATTATTATAAAA-ATGATCTTATTATAAAATAAATT
66 TTTTTTATTAAGATTATATAA-ATTATTAATTATTATAAAATATGATCTTATTATAAAATAAATT
* * *
12445059 TCAATTTCCACAATGAAATACTT
130 TCGATTGCCGCAATGAAATACTT
12445082 TTATAATATT
Statistics
Matches: 272, Mismatches: 28, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
153 45 0.17
154 29 0.11
155 44 0.16
156 80 0.29
157 74 0.27
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (156 bp):
ATGTGCTACTATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTAAGATT
TTTTTTATTAAGATTATATAAATTATTAATTATTATAAAATATGATCTTATTATAAAATAAATTT
CGATTGCCGCAATGAAATACTTCGAT
Found at i:12444878 original size:19 final size:18
Alignment explanation
Indices: 12444854--12444901 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
12444844 TGTTATTAAG
12444854 ATTATATAAA-ATGATAATT
1 ATTATA-AAATATGAT-ATT
*
12444873 ATTATAAAATATGATCTT
1 ATTATAAAATATGATATT
12444891 ATTATAAAATA
1 ATTATAAAATA
12444902 AATTTCGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (18 bp):
ATTATAAAATATGATATT
Found at i:12446145 original size:18 final size:18
Alignment explanation
Indices: 12446105--12446147 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
12446095 GGGAAAACAA
* * *
12446105 GCATAGGCATATGCATAT
1 GCATAAGCATAAGCATAG
*
12446123 TCATAAGCATAAGCATAG
1 GCATAAGCATAAGCATAG
12446141 GCATAAG
1 GCATAAG
12446148 GAGATGACAC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (18 bp):
GCATAAGCATAAGCATAG
Found at i:12454772 original size:20 final size:21
Alignment explanation
Indices: 12454750--12454799 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
12454740 AGGTTTGGAG
12454750 TTTAGGGTTTAAGG-TC-AGTG
1 TTTAGGGTTTAAGGATCAAG-G
* *
12454770 TTTAAGGTTTAGGGATCAAGG
1 TTTAGGGTTTAAGGATCAAGG
12454791 TTTAGGGTT
1 TTTAGGGTT
12454800 CAAGATTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 12 0.48
21 11 0.44
22 2 0.08
ACGTcount: A:0.22, C:0.04, G:0.34, T:0.40
Consensus pattern (21 bp):
TTTAGGGTTTAAGGATCAAGG
Found at i:12454792 original size:14 final size:14
Alignment explanation
Indices: 12454773--12454803 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12454763 GTCAGTGTTT
12454773 AAGGTTTAGGGATC
1 AAGGTTTAGGGATC
*
12454787 AAGGTTTAGGGTTC
1 AAGGTTTAGGGATC
12454801 AAG
1 AAG
12454804 ATTCAGAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.35, T:0.29
Consensus pattern (14 bp):
AAGGTTTAGGGATC
Found at i:12457407 original size:28 final size:28
Alignment explanation
Indices: 12457375--12457430 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
12457365 ATACCTAAGT
12457375 ATGTATCAAAACAAAATGCAAAAACATG
1 ATGTATCAAAACAAAATGCAAAAACATG
*
12457403 ATGTATCAAAGCAAAATGCAAAAACATG
1 ATGTATCAAAACAAAATGCAAAAACATG
12457431 TCAACTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.55, C:0.14, G:0.12, T:0.18
Consensus pattern (28 bp):
ATGTATCAAAACAAAATGCAAAAACATG
Found at i:12460453 original size:20 final size:20
Alignment explanation
Indices: 12460428--12460475 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
12460418 GTTGTTAGTA
12460428 AAGGAGAAGGAATGAGTGAC
1 AAGGAGAAGGAATGAGTGAC
12460448 AAGGAGAAGGAATGAGTGAC
1 AAGGAGAAGGAATGAGTGAC
12460468 AAGGAGAA
1 AAGGAGAA
12460476 ACTAGGTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.48, C:0.04, G:0.40, T:0.08
Consensus pattern (20 bp):
AAGGAGAAGGAATGAGTGAC
Found at i:12470063 original size:16 final size:18
Alignment explanation
Indices: 12470037--12470073 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
12470027 AAAATCAACC
*
12470037 TTTTTATCTTTCTTTC-T
1 TTTTTATCTTTATTTCAT
12470054 TTTTTA-CTTTATTTCAT
1 TTTTTATCTTTATTTCAT
12470071 TTT
1 TTT
12470074 AATTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTATCTTTATTTCAT
Found at i:12473807 original size:27 final size:27
Alignment explanation
Indices: 12473776--12473841 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
12473766 CGAACTATCC
*
12473776 CGTGTTTAATGTC-CTATTAGACCATCAT
1 CGTGTTTAATGTCTC-ATTAAACCATC-T
*
12473804 -GTGTTTAATGTCTCATTAAACTATCT
1 CGTGTTTAATGTCTCATTAAACCATCT
12473830 CGTGTTTAATGT
1 CGTGTTTAATGT
12473842 TCTGTCAGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 1 0.03
27 32 0.94
28 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (27 bp):
CGTGTTTAATGTCTCATTAAACCATCT
Found at i:12474004 original size:45 final size:43
Alignment explanation
Indices: 12473955--12474060 Score: 122
Period size: 45 Copynumber: 2.4 Consensus size: 43
12473945 TATTTCAATC
* ** *
12473955 ATGGTTTTACTCATTTACGTCATGACACCATAGCATCTTTTAGCA
1 ATGGTCTTACTCATTTA--TCATGACACCATAGCATCTCATAACA
* *
12474000 ATGGTCTTACTCATCCTTATCATGACGCCATAGCATCTCATAACT
1 ATGGTCTTACTCAT--TTATCATGACACCATAGCATCTCATAACA
12474045 ATGGTCTTACTCATTT
1 ATGGTCTTACTCATTT
12474061 TCGGCACATA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
43 2 0.04
45 48 0.91
47 3 0.06
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (43 bp):
ATGGTCTTACTCATTTATCATGACACCATAGCATCTCATAACA
Found at i:12475396 original size:17 final size:17
Alignment explanation
Indices: 12475337--12475396 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
12475327 CAATAAATTT
12475337 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
12475356 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
12475370 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
12475388 AAAATATAA
1 AAAATATAA
12475397 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:12475917 original size:18 final size:18
Alignment explanation
Indices: 12475881--12476024 Score: 211
Period size: 18 Copynumber: 7.9 Consensus size: 18
12475871 AATCATATCT
*
12475881 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
12475900 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
12475918 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
12475935 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
12475953 TCTAAGATTACAATCATA
1 TCTAAGATTGCAATCATA
*
12475971 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
12475988 TCTAAGATTGCATATCATA
1 TCTAAGATTGCA-ATCATA
12476007 TCTAAGATTGCAGATCAT
1 TCTAAGATTGCA-ATCAT
12476025 TGAAGATTAT
Statistics
Matches: 114, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
17 32 0.28
18 48 0.42
19 34 0.30
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:12475939 original size:35 final size:36
Alignment explanation
Indices: 12475881--12476024 Score: 213
Period size: 35 Copynumber: 4.0 Consensus size: 36
12475871 AATCATATCT
12475881 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
12475918 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
* *
12475953 TCTAAGATT-ACAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGA-TATCATATCTAAGATTGCAATCATA
12475988 TCTAAGATTGCATATCATATCTAAGATTGCAGATCAT
1 TCTAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
12476025 TGAAGATTAT
Statistics
Matches: 97, Mismatches: 4, Indels: 11
0.87 0.04 0.10
Matches are distributed among these distances:
35 49 0.51
36 32 0.33
37 11 0.11
38 5 0.05
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:12476032 original size:53 final size:54
Alignment explanation
Indices: 12475881--12476024 Score: 254
Period size: 53 Copynumber: 2.7 Consensus size: 54
12475871 AATCATATCT
*
12475881 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
12475935 TCTAAGATTGCA-ATCATATCTAAGATTACAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
12475988 TCTAAGATTGCATATCATATCTAAGATTGCAGATCAT
1 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCAT
12476025 TGAAGATTAT
Statistics
Matches: 85, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
53 52 0.61
54 28 0.33
55 5 0.06
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:12478577 original size:18 final size:19
Alignment explanation
Indices: 12478548--12478620 Score: 123
Period size: 18 Copynumber: 3.9 Consensus size: 19
12478538 ATAATCTTCA
12478548 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
12478567 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
12478585 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
12478603 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
12478621 AGATATGATT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
18 36 0.69
19 16 0.31
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:12478979 original size:7 final size:7
Alignment explanation
Indices: 12478962--12479068 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
12478952 AAATTTGTAA
12478962 ATTAT-T
1 ATTATAT
12478968 ATTATAT
1 ATTATAT
12478975 ATTATAT
1 ATTATAT
12478982 -TT-TA-
1 ATTATAT
12478986 ACTTATAT
1 A-TTATAT
12478994 ATCTTATAT
1 A--TTATAT
*
12479003 ATTTATTT
1 A-TTATAT
12479011 ATT-TAT
1 ATTATAT
*
12479017 ATTATAC
1 ATTATAT
12479024 ATTAT-T
1 ATTATAT
* *
12479030 -TTAAAA
1 ATTATAT
*
12479036 ACTTACAT
1 A-TTATAT
*
12479044 -TTTTAT
1 ATTATAT
12479050 ATTATAT
1 ATTATAT
*
12479057 ATTATAA
1 ATTATAT
12479064 ATTAT
1 ATTAT
12479069 TTCATTTATT
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 35 0.45
8 11 0.14
9 8 0.10
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:12479012 original size:21 final size:21
Alignment explanation
Indices: 12478970--12479104 Score: 65
Period size: 21 Copynumber: 6.7 Consensus size: 21
12478960 AAATTATTAT
*
12478970 TATATATTATAT-TTTAACTTA
1 TATATATTATATATTT-ATTTA
*
12478991 TATATCTTATATATTTATTTA
1 TATATATTATATATTTATTTA
* *
12479012 TTTATATTATACA-TTATTT-
1 TATATATTATATATTTATTTA
* * * * *
12479031 TAAAAACTTACATTTTTATAT-
1 TATATA-TTATATATTTATTTA
*
12479052 TATATATTATA-AATTATTTCA
1 TATATATTATATATTTATTT-A
12479073 T-T-TATTAT-TA-TT-TTTA
1 TATATATTATATATTTATTTA
*
12479089 TATACTATCATATATT
1 TATA-TATTATATATT
12479105 ATCTATTTTA
Statistics
Matches: 84, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
16 2 0.02
17 4 0.05
18 2 0.02
19 20 0.24
20 17 0.20
21 36 0.43
22 3 0.04
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATATTATATATTTATTTA
Found at i:12480744 original size:45 final size:45
Alignment explanation
Indices: 12480641--12480824 Score: 214
Period size: 43 Copynumber: 4.2 Consensus size: 45
12480631 GGAAGAATTT
* * * * *
12480641 GTGGCTTCATCCACAACTTATATGGCAGCTTATCTAC-AAAATTG
1 GTGGCTTCATCCACAACCTACATGGTAGCTTATCTGCGAATATTG
* *
12480685 GTGG-TTTATCCACAACCTACATGGTAGCTTGTCTGCGAATATTG
1 GTGGCTTCATCCACAACCTACATGGTAGCTTATCTGCGAATATTG
* * *
12480729 GTGGCTTCATCCACAACCTACATGGAAGCTTGTTTGCGAAT-TTG
1 GTGGCTTCATCCACAACCTACATGGTAGCTTATCTGCGAATATTG
* * * *
12480773 GTGGATT-ATCCACAACCTACATGGTAGCTCATTTGCAAATATTG
1 GTGGCTTCATCCACAACCTACATGGTAGCTTATCTGCGAATATTG
12480817 GTGGCTTC
1 GTGGCTTC
12480825 GACCACATAT
Statistics
Matches: 120, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
43 55 0.46
44 32 0.27
45 33 0.28
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (45 bp):
GTGGCTTCATCCACAACCTACATGGTAGCTTATCTGCGAATATTG
Found at i:12480790 original size:88 final size:88
Alignment explanation
Indices: 12480641--12480824 Score: 251
Period size: 88 Copynumber: 2.1 Consensus size: 88
12480631 GGAAGAATTT
* * * *
12480641 GTGGCTTCATCCACAACTTATATGGCAGCTTATCTACAAAATTGGTGGTTTATCCACAACCTACA
1 GTGGCTTCATCCACAACCTACATGGAAGCTTATCTACAAAATTGGTGGATTATCCACAACCTACA
** *
12480706 TGGTAGCTTGTCTGCGAATATTG
66 TGGTAGCTCATCTGCAAATATTG
* * * * *
12480729 GTGGCTTCATCCACAACCTACATGGAAGCTTGTTTGCGAATTTGGTGGATTATCCACAACCTACA
1 GTGGCTTCATCCACAACCTACATGGAAGCTTATCTACAAAATTGGTGGATTATCCACAACCTACA
*
12480794 TGGTAGCTCATTTGCAAATATTG
66 TGGTAGCTCATCTGCAAATATTG
12480817 GTGGCTTC
1 GTGGCTTC
12480825 GACCACATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (88 bp):
GTGGCTTCATCCACAACCTACATGGAAGCTTATCTACAAAATTGGTGGATTATCCACAACCTACA
TGGTAGCTCATCTGCAAATATTG
Found at i:12483706 original size:32 final size:34
Alignment explanation
Indices: 12483670--12483734 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
12483660 TAACAGTGGT
*
12483670 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGTCCCTTATTCAGATAACAATAA
**
12483702 ACTGGGCCTTAGTCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGTCCCTTATTCAGATAACAATA
12483735 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (34 bp):
ACTGGGCCAGAGTCCCTTATTCAGATAACAATAA
Found at i:12485619 original size:26 final size:26
Alignment explanation
Indices: 12485583--12485690 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
12485573 TGAAATTCCA
12485583 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12485609 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
12485635 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
12485661 ATCATGGACCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12485687 ATCA
1 ATCA
12485691 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Done.