Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4978262
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 24
Found at i:3494722 original size:23 final size:22
Alignment explanation
Indices: 3494677--3494736 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 22
3494667 ATAATTTGCA
3494677 CCGAAGTG-CCACATA-TTTTTC
1 CCGAAG-GACCACATAGTTTTTC
3494698 CCGAAGGACCACATAGTTTTTTC
1 CCGAAGGACCACATAG-TTTTTC
*
3494721 CCGAAAGACCACATAG
1 CCGAAGGACCACATAG
3494737 AACCTCGACT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 1 0.03
21 13 0.37
23 21 0.60
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (22 bp):
CCGAAGGACCACATAGTTTTTC
Found at i:3494949 original size:14 final size:14
Alignment explanation
Indices: 3494930--3494956 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3494920 AGCATCTAAC
3494930 ATAGCTTGAATAAT
1 ATAGCTTGAATAAT
3494944 ATAGCTTGAATAA
1 ATAGCTTGAATAA
3494957 AACATTGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.33
Consensus pattern (14 bp):
ATAGCTTGAATAAT
Found at i:3496849 original size:23 final size:20
Alignment explanation
Indices: 3496803--3496854 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
3496793 CCTAAAATTC
3496803 AAATA-AAATAAAAAAAGAT
1 AAATATAAATAAAAAAAGAT
3496822 AAATATTAAATAAGAAGAAAGACT
1 AAATA-TAAATAA-AA-AAAGA-T
3496846 -AATATAAAT
1 AAATATAAAT
3496855 GGAAATGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 5 0.18
21 6 0.21
22 7 0.25
23 9 0.32
24 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (20 bp):
AAATATAAATAAAAAAAGAT
Found at i:3502196 original size:24 final size:24
Alignment explanation
Indices: 3502164--3502234 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 24
3502154 TCAACCTACT
* *
3502164 GAGTTAGCCGAGTTAACTCAGACC
1 GAGTCAGCCGAGTCAACTCAGACC
* * *
3502188 GAGTCAGCCAAGTCAACTCAAATC
1 GAGTCAGCCGAGTCAACTCAGACC
* *
3502212 GAGTCAGCTGAGTCCACTCAGAC
1 GAGTCAGCCGAGTCAACTCAGAC
3502235 TGAACTGAGT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (24 bp):
GAGTCAGCCGAGTCAACTCAGACC
Found at i:3505333 original size:3 final size:3
Alignment explanation
Indices: 3505325--3505349 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3505315 TAATTAAAAT
3505325 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
3505350 TAAAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:3505678 original size:14 final size:15
Alignment explanation
Indices: 3505642--3505683 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
3505632 ATAAAATTGA
3505642 AAATAAATTCAAAAAC
1 AAATAAA-TCAAAAAC
3505658 AAATAAA-CAAAAA-
1 AAATAAATCAAAAAC
3505671 AAATTAAATCAAA
1 AAA-TAAATCAAA
3505684 TGGGTTGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.12
14 10 0.42
15 4 0.17
16 7 0.29
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.17
Consensus pattern (15 bp):
AAATAAATCAAAAAC
Found at i:3507249 original size:23 final size:23
Alignment explanation
Indices: 3507194--3507258 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
3507184 CGAGGGTTCT
* *
3507194 ACGCGATCATTCGGGATAATTCT
1 ACGCGATCCTTCGGGATAATTCA
* * * *
3507217 ATGTGGTCCTCCGGGATAATTCA
1 ACGCGATCCTTCGGGATAATTCA
3507240 ACGCGATCCTTCGGGATAA
1 ACGCGATCCTTCGGGATAA
3507259 ATCCATATGG
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (23 bp):
ACGCGATCCTTCGGGATAATTCA
Found at i:3508114 original size:20 final size:20
Alignment explanation
Indices: 3508101--3508179 Score: 122
Period size: 20 Copynumber: 4.0 Consensus size: 20
3508091 TCGCGACGCA
3508101 ATTCTGACTGTCGCAACACG
1 ATTCTGACTGTCGCAACACG
* *
3508121 ATGCTGACTATCGCAACACG
1 ATTCTGACTGTCGCAACACG
**
3508141 ATTCTGACTGTCGCAACGTG
1 ATTCTGACTGTCGCAACACG
3508161 ATTCTGACTGTCGCAACAC
1 ATTCTGACTGTCGCAACAC
3508180 TGAATTTCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (20 bp):
ATTCTGACTGTCGCAACACG
Found at i:3508168 original size:40 final size:40
Alignment explanation
Indices: 3508085--3508179 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
3508075 CAATGCATTA
* *
3508085 TGACTATCGCGACGCAATTCTGACTGTCGCAACACGATGC
1 TGACTATCGCAACACAATTCTGACTGTCGCAACACGATGC
* ** *
3508125 TGACTATCGCAACACGATTCTGACTGTCGCAACGTGATTC
1 TGACTATCGCAACACAATTCTGACTGTCGCAACACGATGC
*
3508165 TGACTGTCGCAACAC
1 TGACTATCGCAACAC
3508180 TGAATTTCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGACTATCGCAACACAATTCTGACTGTCGCAACACGATGC
Found at i:3511239 original size:16 final size:16
Alignment explanation
Indices: 3511204--3511254 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
3511194 AGGAAAGATC
* *
3511204 ATCAAAATCAAATCACA
1 ATCAAGATC-AATCAAA
3511221 ATCAAGATCAATCAAA
1 ATCAAGATCAATCAAA
*
3511237 ATCAAGA-AAATCAAA
1 ATCAAGATCAATCAAA
3511252 ATC
1 ATC
3511255 CCATTCACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 10 0.32
16 13 0.42
17 8 0.26
ACGTcount: A:0.59, C:0.20, G:0.04, T:0.18
Consensus pattern (16 bp):
ATCAAGATCAATCAAA
Found at i:3511585 original size:20 final size:20
Alignment explanation
Indices: 3511560--3511844 Score: 254
Period size: 20 Copynumber: 14.8 Consensus size: 20
3511550 TTACACATTC
* * *
3511560 ATTTGAATATCACAACGTGA
1 ATTTGACTATCGCAACGCGA
3511580 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
3511600 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
* *
3511619 A----A-AATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
*
3511634 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
3511654 ATATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
3511674 ATTTGTCTATCACAACACGA
1 ATTTGACTATCGCAACGCGA
3511694 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
3511714 ATTTGACTATCGTAACGCGA
1 ATTTGACTATCGCAACGCGA
* * * *
3511734 ATTTGATTATTGTAACG-GCT
1 ATTTGACTATCGCAACGCG-A
*
3511754 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
*
3511774 A----A--ATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
*
3511788 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
* * * *
3511808 ATTTTATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
3511828 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
3511845 AGAAAATCGC
Statistics
Matches: 212, Mismatches: 39, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
14 19 0.09
15 3 0.01
16 1 0.00
18 1 0.00
19 4 0.02
20 183 0.86
21 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:3511797 original size:34 final size:34
Alignment explanation
Indices: 3511753--3511875 Score: 131
Period size: 34 Copynumber: 3.4 Consensus size: 34
3511743 TTGTAACGGC
*
3511753 TATTTGACTATCGCAACGAGAAAATCACAACGCG
1 TATTTGACTATCGCAACGAGAAAATCGCAACGCG
* *
3511787 AATTTGACTATCGCAAC-ACGAATTTTATTATCGCAACGGG
1 TATTTGACTATCGCAACGA-GAA----A--ATCGCAACGCG
*
3511827 TATTTGACTATCGCAACGAGAAAATCGCAAAGCG
1 TATTTGACTATCGCAACGAGAAAATCGCAACGCG
*
3511861 TATTAGACTATCGCA
1 TATTTGACTATCGCA
3511876 TTGCGATTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
33 1 0.01
34 42 0.57
36 1 0.01
38 1 0.01
40 28 0.38
41 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (34 bp):
TATTTGACTATCGCAACGAGAAAATCGCAACGCG
Found at i:3511809 original size:74 final size:74
Alignment explanation
Indices: 3511560--3511875 Score: 298
Period size: 74 Copynumber: 4.2 Consensus size: 74
3511550 TTACACATTC
* * ** * * * *
3511560 ATTTGAATATCACAACGTGAATTTGACTATCGCAAC-GCGAATTTGATTATCGCAACTCA-AAAA
1 ATTTGACTATCGCAACACGAATTTGATTATCGCAACGGC-TATTTGACTATCGCAAC-GAGAAAA
3511623 TCACAACGCGA
64 TCACAACGCGA
* * * * *
3511634 ATTTGACTATCGCAACACGAATATGACTATCGCAAC-GCGAATTTGTCTATCACAAC-ACGAATT
1 ATTTGACTATCGCAACACGAATTTGATTATCGCAACGGC-TATTTGACTATCGCAACGA-GAA--
*
3511697 TGACTATCGCAACGCGA
62 --A--ATCACAACGCGA
* * * *
3511714 ATTTGACTATCGTAACGCGAATTTGATTATTGTAACGGCTATTTGACTATCGCAACGAGAAAATC
1 ATTTGACTATCGCAACACGAATTTGATTATCGCAACGGCTATTTGACTATCGCAACGAGAAAATC
3511779 ACAACGCGA
66 ACAACGCGA
* *
3511788 ATTTGACTATCGCAACACGAATTTTATTATCGCAACGGGTATTTGACTATCGCAACGAGAAAATC
1 ATTTGACTATCGCAACACGAATTTGATTATCGCAACGGCTATTTGACTATCGCAACGAGAAAATC
* * *
3511853 GCAAAGCGT
66 ACAACGCGA
*
3511862 ATTAGACTATCGCA
1 ATTTGACTATCGCA
3511876 TTGCGATTTT
Statistics
Matches: 203, Mismatches: 29, Indels: 20
0.81 0.12 0.08
Matches are distributed among these distances:
72 1 0.00
74 139 0.68
76 1 0.00
78 1 0.00
80 58 0.29
81 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (74 bp):
ATTTGACTATCGCAACACGAATTTGATTATCGCAACGGCTATTTGACTATCGCAACGAGAAAATC
ACAACGCGA
Found at i:3512059 original size:29 final size:28
Alignment explanation
Indices: 3512025--3512079 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
3512015 ATAAGAATTA
*
3512025 TTTACACATCAATATTATACAAATCAACT
1 TTTACAAATCAAT-TTATACAAATCAACT
* *
3512054 TTTACAAATCAATTTTTATAAATCAA
1 TTTACAAATCAATTTATACAAATCAA
3512080 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.38
Consensus pattern (28 bp):
TTTACAAATCAATTTATACAAATCAACT
Found at i:3512080 original size:14 final size:14
Alignment explanation
Indices: 3512020--3512081 Score: 70
Period size: 14 Copynumber: 4.3 Consensus size: 14
3512010 CACAAATAAG
*
3512020 AATTATTTACACATC
1 AATT-TTTACAAATC
*
3512035 AATATTATACAAATC
1 AAT-TTTTACAAATC
*
3512050 AACTTTTACAAATC
1 AATTTTTACAAATC
*
3512064 AATTTTTATAAATC
1 AATTTTTACAAATC
3512078 AATT
1 AATT
3512082 AAACAAGCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
14 26 0.65
15 13 0.32
16 1 0.03
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:3514100 original size:18 final size:18
Alignment explanation
Indices: 3514077--3514143 Score: 89
Period size: 20 Copynumber: 3.5 Consensus size: 18
3514067 GAAACTTAAA
*
3514077 ATCGCAACACGAATGACT
1 ATCGCAACGCGAATGACT
3514095 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG--AATGACT
3514115 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAA--TGACT
3514135 ATCGCAACG
1 ATCGCAACG
3514144 AGAGAATCGC
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
18 12 0.27
20 32 0.73
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.18
Consensus pattern (18 bp):
ATCGCAACGCGAATGACT
Found at i:3514113 original size:20 final size:20
Alignment explanation
Indices: 3514088--3514143 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
3514078 TCGCAACACG
3514088 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
3514108 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
**
3514128 TTTGACTATCGCAACG
1 AATGACTATCGCAACG
3514144 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:3514211 original size:20 final size:20
Alignment explanation
Indices: 3514186--3514253 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
3514176 GTGATTCTTT
**
3514186 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
3514206 CGTTGCGATAGTCATTTTCA
1 CGTTGCGATAGTCATTTTCG
3514226 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
3514246 CGTTGCGA
1 CGTTGCGA
3514254 AAGTAAACTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:3514566 original size:21 final size:21
Alignment explanation
Indices: 3514528--3514573 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
3514518 GCTACCATCT
*
3514528 CACGTAAAGCAGCTACCTCAC
1 CACGTAAAGCAGCTACCTCAA
*
3514549 CACGTAAAGTAGAC-ACCTCAA
1 CACGTAAAGCAG-CTACCTCAA
3514570 CACG
1 CACG
3514574 CCATGCACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.37, C:0.35, G:0.15, T:0.13
Consensus pattern (21 bp):
CACGTAAAGCAGCTACCTCAA
Found at i:3516190 original size:20 final size:20
Alignment explanation
Indices: 3516167--3516217 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
3516157 ACTTAAAATT
*
3516167 GCAACACGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
**
3516187 GCAACGCGAATTTGACTATC
1 GCAACGCGAAAATGACTATC
3516207 GCAACGCGAAA
1 GCAACGCGAAA
3516218 TAAAAATCGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:3516228 original size:19 final size:19
Alignment explanation
Indices: 3516204--3516247 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
3516194 GAATTTGACT
*
3516204 ATCGCAACGCGAAATAAAA
1 ATCGCAACGCAAAATAAAA
*
3516223 ATCGCAACGCAAAATTAAA
1 ATCGCAACGCAAAATAAAA
3516242 ATCGCA
1 ATCGCA
3516248 TTGCGATGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.23, G:0.14, T:0.14
Consensus pattern (19 bp):
ATCGCAACGCAAAATAAAA
Found at i:3516923 original size:20 final size:20
Alignment explanation
Indices: 3516830--3516915 Score: 127
Period size: 20 Copynumber: 4.3 Consensus size: 20
3516820 GCGCTTTGAA
*
3516830 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* * *
3516850 CATCGCGTTGCGACAGTCGG
1 AATCGCGTTGCGATAGTCAG
3516870 AATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
3516890 AATCGCGTTGCGATAGTCAT
1 AATCGCGTTGCGATAGTCAG
3516910 AATCGC
1 AATCGC
3516916 ATTACGATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:3518934 original size:3 final size:3
Alignment explanation
Indices: 3518926--3518956 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
3518916 ATTATAAGAG
3518926 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
3518957 AACCCAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:3526307 original size:81 final size:81
Alignment explanation
Indices: 3526172--3526912 Score: 1126
Period size: 81 Copynumber: 9.2 Consensus size: 81
3526162 GTTTTAAATA
* * *
3526172 AAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATCATGCCAGTTAGATGAAAGGC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
3526237 TAAATGCCTTTGAGTT
66 TAAATGCCTTTGAGTT
* * * *
3526253 AAAGATTAATTGCCTAGCTGTGCATTTGGCAGAAAAGTGTCAATCATGCCAGTTAGATGAAAGGC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
* *
3526318 TAAATGCATTTGAATT
66 TAAATGCCTTTGAGTT
* * * * *
3526334 AAATATTAAACGCCTAGTTGTGCATTTTATAGAAAGATGTCAATCATGCCAGTTAGATGAAAGGC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
3526399 TAAATGCCTTTGAGTT
66 TAAATGCCTTTGAGTT
*
3526415 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGTCAGTTAGATGAAAGGC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
*
3526480 TAAATGCCTTTAAGTT
66 TAAATGCCTTTGAGTT
* *
3526496 AAAGATTAAATGCCTAGTTGTGCATTTGACATAAATGTGTCAATCATGCCAGTTAGATGAAAGGC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
3526561 TAAATGCCTTTGAGTT
66 TAAATGCCTTTGAGTT
* *
3526577 AAAGATTAAATGCCTAGTTGTGCATTTGATAGAAAGGTGTCAATCATGTCAGTTAGATGAAAGGC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
*
3526642 TAAATGCGTTTGAGTT
66 TAAATGCCTTTGAGTT
* * * *
3526658 AAAGATTAAATGCCTAGGTGTGCATTTAACAGAAAGGTGTAAATCATGCCAGTTAGATGAAATGC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
3526723 TAAATGCCTTTGAGTT
66 TAAATGCCTTTGAGTT
** * **
3526739 AAAGATTAAATGCCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAATAC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
3526804 TAAAT-CCTTTGAGTT
66 TAAATGCCTTTGAGTT
* * *
3526819 AAAGATTAAATGCCTTGTTGTGCATTTGGA-AGAAAGGTGTCAATCATGCAAGTTAGATGAAATG
1 AAAGATTAAATGCCTAGTTGTGCATTT-GACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGG
* * *
3526883 CTAAATACCTTTGGGTA
65 CTAAATGCCTTTGAGTT
*
3526900 AAAGAGTAAATGC
1 AAAGATTAAATGC
3526913 ATAACGGTGC
Statistics
Matches: 604, Mismatches: 54, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
80 71 0.12
81 533 0.88
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (81 bp):
AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
TAAATGCCTTTGAGTT
Found at i:3526981 original size:46 final size:46
Alignment explanation
Indices: 3526907--3527059 Score: 171
Period size: 46 Copynumber: 3.3 Consensus size: 46
3526897 GTAAAAGAGT
* * * *
3526907 AAATGCATAACGGTGCATTATCGACATGAAAGGATACCATAAATGA
1 AAATGCATAACGGTACATTATAGGCATGAAAGGATGCCATAAATGA
3526953 AAATGCATAACGGTACATTATAGGCATGAAAGGATGCCATAAATGA
1 AAATGCATAACGGTACATTATAGGCATGAAAGGATGCCATAAATGA
* ** * ** * **
3526999 AAATGCTTAACAATACATAATTCGCATGAAATGATGCCACCAATGA
1 AAATGCATAACGGTACATTATAGGCATGAAAGGATGCCATAAATGA
* *
3527045 AAATACATAATGGTA
1 AAATGCATAACGGTA
3527060 TATTTACGGC
Statistics
Matches: 89, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 89 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (46 bp):
AAATGCATAACGGTACATTATAGGCATGAAAGGATGCCATAAATGA
Found at i:3528312 original size:23 final size:22
Alignment explanation
Indices: 3528280--3528358 Score: 95
Period size: 23 Copynumber: 3.5 Consensus size: 22
3528270 GAGTAGAGGG
3528280 TTCTACGTGGTGCTTCGGGACAA
1 TTCTACGTGGT-CTTCGGGACAA
*
3528303 TTCTATGTGGTCCTTCGGGACAA
1 TTCTACGTGGT-CTTCGGGACAA
*
3528326 TTCTACGTGGTCTTTCAGGACAA
1 TTCTACGTGGTC-TTCGGGACAA
* *
3528349 ATCTATGTGG
1 TTCTACGTGG
3528359 CACTTCCATG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
22 1 0.02
23 48 0.98
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (22 bp):
TTCTACGTGGTCTTCGGGACAA
Found at i:3528377 original size:24 final size:24
Alignment explanation
Indices: 3528324--3528408 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 24
3528314 CCTTCGGGAC
* * *
3528324 AATTCTACGTGG-TCTTTCAGGACA
1 AATTCTACGTGGCACTTCCATG-CA
*
3528348 AA-TCTATGTGGCACTTCCATGCA
1 AATTCTACGTGGCACTTCCATGCA
* **
3528371 TATTCTACGTGGCACTTCGGTGCA
1 AATTCTACGTGGCACTTCCATGCA
3528395 AATTCTACGTGGCA
1 AATTCTACGTGGCA
3528409 GTTTCGACTG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
23 11 0.22
24 39 0.78
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (24 bp):
AATTCTACGTGGCACTTCCATGCA
Found at i:3530496 original size:15 final size:15
Alignment explanation
Indices: 3530476--3530505 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3530466 AAACTTTAAC
3530476 TACTTAACAATTCAT
1 TACTTAACAATTCAT
*
3530491 TACTTAATAATTCAT
1 TACTTAACAATTCAT
3530506 GAACATTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (15 bp):
TACTTAACAATTCAT
Found at i:3530898 original size:23 final size:22
Alignment explanation
Indices: 3530872--3530945 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 22
3530862 CAAATGACTG
3530872 CGTAGAAATGTCTCGAAGGACCA
1 CGTAGAAATGTC-CGAAGGACCA
*
3530895 CGTAGAATTGTCCCGAAGGACCA
1 CGTAGAAATGT-CCGAAGGACCA
* *
3530918 C--ATATATGTCCTGAAGGACCA
1 CGTAGAAATGTCC-GAAGGACCA
3530939 CGTAGAA
1 CGTAGAA
3530946 CCCTCGACTC
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
20 2 0.05
21 15 0.37
23 23 0.56
24 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (22 bp):
CGTAGAAATGTCCGAAGGACCA
Found at i:3534550 original size:14 final size:14
Alignment explanation
Indices: 3534531--3534559 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3534521 CGTTCGTGAA
3534531 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
3534545 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
3534559 C
1 C
3534560 ATTCATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.17, G:0.28, T:0.48
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:3535658 original size:10 final size:10
Alignment explanation
Indices: 3535643--3535717 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
3535633 GGGTCTCCAA
3535643 CGTTTATGTT
1 CGTTTATGTT
3535653 CGTTTATGTT
1 CGTTTATGTT
3535663 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
3535674 ATGTTCGTGTT
1 -CGTTTATGTT
3535685 CGTTTATGTT
1 CGTTTATGTT
*
3535695 CG----TGGT
1 CGTTTATGTT
3535701 CGTTTATGTT
1 CGTTTATGTT
3535711 CGTTTAT
1 CGTTTAT
3535718 TTATTAAATG
Statistics
Matches: 49, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
6 5 0.10
10 33 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.23, T:0.56
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:3535674 original size:16 final size:16
Alignment explanation
Indices: 3535649--3535713 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
3535639 CCAACGTTTA
3535649 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
3535665 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
3535681 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
3535697 TGGTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
3535713 T
1 T
3535714 TTATTTATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.08, C:0.12, G:0.25, T:0.55
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:3542343 original size:14 final size:16
Alignment explanation
Indices: 3542303--3542343 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
3542293 ATAACTATGA
3542303 ATAATTATATTTATAAT
1 ATAATT-TATTTATAAT
3542320 ATAATATTATTTATAA-
1 ATAAT-TTATTTATAAT
3542336 A-AATTTAT
1 ATAATTTAT
3542344 AAAAATATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.17
15 3 0.13
16 1 0.04
17 14 0.61
18 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATAATTTATTTATAAT
Found at i:3544477 original size:17 final size:16
Alignment explanation
Indices: 3544446--3544484 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
3544436 TAAGGTTTCG
3544446 ATGGTGATGGGTGATA
1 ATGGTGATGGGTGATA
* *
3544462 ATGGTGATTTGGTGATG
1 ATGGTGA-TGGGTGATA
3544479 ATGGTG
1 ATGGTG
3544485 GAGTTGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.36
Consensus pattern (16 bp):
ATGGTGATGGGTGATA
Found at i:3545454 original size:147 final size:144
Alignment explanation
Indices: 3545178--3545473 Score: 540
Period size: 147 Copynumber: 2.0 Consensus size: 144
3545168 AAGTTCATTG
3545178 TTGTTCAGGGCTTGAGTAGATTTCACTTGTGTTTGTGATCCAAGGGCCTGTAGGGGAAAGAATGA
1 TTGTTCAGGGCTTGAGTAGATTTCACTTGTGTTTGTGATCCAAGGGCCTGTAGGGGAAAGAATGA
3545243 TGTGTTTCATTCCTTGAACTCTTCATTTCCACATGGGCATGTAACCTTTGCTGACAAAGGCTTGG
66 -GTGTTTCATTCCTTGAACTCTTCATTTCCACATGGGCATGTAACCTTTGCTGACAAAGGCTTGG
3545308 ACTGCTGTTTGGAGT
130 ACTGCTGTTTGGAGT
3545323 TTGTTCAGGGCTTGAGTAGATTTCACTTGTGTTGTGGTGATCCAAGGGCCTGTAGGGGAAAGAAT
1 TTGTTCAGGGCTTGAGTAGATTTCACTTGTGTT-T-GTGATCCAAGGGCCTGTAGGGGAAAGAAT
3545388 GA-TGTTTCATTCCTTGAACTCTTCAATTTCCACATGGGCATGTATACCTTTGCTGACAAAGGCT
64 GAGTGTTTCATTCCTTGAACTCTTC-ATTTCCACATGGGCATGTA-ACCTTTGCTGACAAAGGCT
3545452 TGGACTGCTGTTTGGAGT
127 TGGACTGCTGTTTGGAGT
3545470 TTGT
1 TTGT
3545474 CTTTGAGAAA
Statistics
Matches: 147, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
145 55 0.37
146 20 0.14
147 72 0.49
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (144 bp):
TTGTTCAGGGCTTGAGTAGATTTCACTTGTGTTTGTGATCCAAGGGCCTGTAGGGGAAAGAATGA
GTGTTTCATTCCTTGAACTCTTCATTTCCACATGGGCATGTAACCTTTGCTGACAAAGGCTTGGA
CTGCTGTTTGGAGT
Found at i:3548645 original size:17 final size:16
Alignment explanation
Indices: 3548616--3548650 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
3548606 TTCATTGTCG
*
3548616 TGGTGTGTTTTTCTTC
1 TGGTGTGTGTTTCTTC
3548632 TGGTGGTGTGTTTCTTC
1 TGGT-GTGTGTTTCTTC
3548649 TG
1 TG
3548651 TGTTGGCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.00, C:0.11, G:0.31, T:0.57
Consensus pattern (16 bp):
TGGTGTGTGTTTCTTC
Found at i:3552085 original size:34 final size:34
Alignment explanation
Indices: 3552037--3552112 Score: 143
Period size: 34 Copynumber: 2.2 Consensus size: 34
3552027 AGGCATCCTT
*
3552037 TATGTATTATTCTTTTATGCCGATAATGCACCCA
1 TATGCATTATTCTTTTATGCCGATAATGCACCCA
3552071 TATGCATTATTCTTTTATGCCGATAATGCACCCA
1 TATGCATTATTCTTTTATGCCGATAATGCACCCA
3552105 TATGCATT
1 TATGCATT
3552113 TCAACTAAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (34 bp):
TATGCATTATTCTTTTATGCCGATAATGCACCCA
Found at i:3552121 original size:93 final size:93
Alignment explanation
Indices: 3551955--3552130 Score: 307
Period size: 93 Copynumber: 1.9 Consensus size: 93
3551945 CTTTGACATC
* *
3551955 CTTTCATGCCAATAATGCACCCATATGTATTATTCTTTTATGTCGATAATGCACCCATATGCATT
1 CTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATGCATT
*
3552020 TCAGCTAAGGCATCCTTTATGTATTATT
66 TCAACTAAGGCATCCTTTATGTATTATT
* *
3552048 CTTTTATGCCGATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATGCATT
1 CTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATGCATT
3552113 TCAACTAAGGCATCCTTT
66 TCAACTAAGGCATCCTTT
3552131 CATGCCAATA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 78 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (93 bp):
CTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATGCATT
TCAACTAAGGCATCCTTTATGTATTATT
Found at i:3552719 original size:20 final size:21
Alignment explanation
Indices: 3552668--3552719 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 21
3552658 GTTTTAAAAT
3552668 GGTATCGATAC-CTTCCCTTC
1 GGTATCGATACTCTTCCCTTC
3552688 GGTATCGATACTC-TCCCTTC
1 GGTATCGATACTCTTCCCTTC
3552708 GGTATCGATACT
1 GGTATCGATACT
3552720 GATTGAATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.35
Consensus pattern (21 bp):
GGTATCGATACTCTTCCCTTC
Found at i:3564335 original size:17 final size:17
Alignment explanation
Indices: 3564313--3564355 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
3564303 TCGAAATTTG
3564313 GCATAATAACATATACC
1 GCATAATAACATATACC
3564330 GCATAATAACATATACC
1 GCATAATAACATATACC
*
3564347 ACATAATAA
1 GCATAATAA
3564356 TATTTAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.51, C:0.21, G:0.05, T:0.23
Consensus pattern (17 bp):
GCATAATAACATATACC
Found at i:3564734 original size:23 final size:23
Alignment explanation
Indices: 3564694--3564751 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
3564684 TATAAATTAA
3564694 TATATTATGT-AAATGTTTCGAT
1 TATATTATGTAAAATGTTTCGAT
3564716 TATATTATGTAAAATGTTTCGAT
1 TATATTATGTAAAATGTTTCGAT
3564739 TATA--ATGTAAAAT
1 TATATTATGTAAAAT
3564752 TATAACTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.26
22 10 0.29
23 16 0.46
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (23 bp):
TATATTATGTAAAATGTTTCGAT
Found at i:3564792 original size:13 final size:13
Alignment explanation
Indices: 3564763--3564797 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
3564753 ATAACTAATA
*
3564763 ATATTAAAT-ATT
1 ATATTAAATAAAT
3564775 ATATTAAATAAAT
1 ATATTAAATAAAT
3564788 ATATTAAATA
1 ATATTAAATA
3564798 TATTTATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTAAATAAAT
Found at i:3567801 original size:8 final size:8
Alignment explanation
Indices: 3567788--3567832 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
3567778 CTCATTTTCA
3567788 GAGAATTT
1 GAGAATTT
3567796 GAGAATTT
1 GAGAATTT
*
3567804 -AGAGTTT
1 GAGAATTT
3567811 G-GAAATTT
1 GAG-AATTT
3567819 GAGAATTT
1 GAGAATTT
3567827 GA-AATT
1 GAGAATT
3567833 GTGAACTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
7 11 0.34
8 20 0.62
9 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (8 bp):
GAGAATTT
Found at i:3567817 original size:15 final size:15
Alignment explanation
Indices: 3567788--3567832 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
3567778 CTCATTTTCA
3567788 GAGAATTTGAGAATTT
1 GAGAATTTGA-AATTT
*
3567804 -AGAGTTTGGAAATTT
1 GAGAATTT-GAAATTT
3567819 GAGAATTTGAAATT
1 GAGAATTTGAAATT
3567833 GTGAACTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 17 0.68
16 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (15 bp):
GAGAATTTGAAATTT
Found at i:3568119 original size:126 final size:126
Alignment explanation
Indices: 3567894--3568621 Score: 1372
Period size: 126 Copynumber: 5.8 Consensus size: 126
3567884 CTATAATCGG
3567894 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
3567959 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
3568020 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
3568085 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
3568146 TTCACTATTCACGTGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
3568210 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGAGATATCAGTACCTACTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
*
3568271 TTCACTATTCACGTGAAGGTGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
3568336 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
3568397 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCA-T-TTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
* *
3568460 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGTCACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
*
3568521 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
3568586 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGA
3568622 ATAACTTAAA
Statistics
Matches: 589, Mismatches: 10, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
124 120 0.20
125 125 0.21
126 344 0.58
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
Found at i:3568338 original size:251 final size:252
Alignment explanation
Indices: 3567894--3568621 Score: 1381
Period size: 251 Copynumber: 2.9 Consensus size: 252
3567884 CTATAATCGG
3567894 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
3567959 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
3568024 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
3568089 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
196 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
3568146 TTCACTATTCACGTGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
* *
3568210 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGAGATATCAGTACCTACTATTTCA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
*
3568275 CTATTCACGTGAAGGTGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
3568340 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
196 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
3568397 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCA-T-TTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
3568460 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGTCACTAGATATATCAGTACCTATTATTTCA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
*
3568525 CTATTCACGTGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
*
3568590 TGCCCTATTATGTCACTCATGTCCCTCGGGGA
196 TGCCCTATTATGTCATTCATGTCCCTCGGGGA
3568622 ATAACTTAAA
Statistics
Matches: 466, Mismatches: 9, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
250 174 0.37
251 249 0.53
252 43 0.09
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (252 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
Found at i:3569087 original size:34 final size:34
Alignment explanation
Indices: 3569008--3569106 Score: 130
Period size: 33 Copynumber: 3.0 Consensus size: 34
3568998 AAATTTAATG
*
3569008 TTAAA-TTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
3569041 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
3569074 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
3569107 AACATTTATC
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
33 33 0.60
34 22 0.40
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:3569712 original size:21 final size:21
Alignment explanation
Indices: 3569624--3569717 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
3569614 TATGGTATAA
*
3569624 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
3569645 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
*
3569666 AA-CATGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
3569687 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
3569708 AACCCTGCGG
1 AACCCTGCGG
3569718 AGATGGCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 3 0.04
21 62 0.93
22 2 0.03
ACGTcount: A:0.21, C:0.26, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:3569747 original size:21 final size:21
Alignment explanation
Indices: 3569721--3569768 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
3569711 CCTGCGGAGA
*
3569721 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
3569742 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
3569763 GGGCAT
1 TGGCAT
3569769 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:3571500 original size:14 final size:15
Alignment explanation
Indices: 3571483--3571553 Score: 65
Period size: 14 Copynumber: 4.7 Consensus size: 15
3571473 ATAATTCTAA
3571483 ATAAATAATATT-AT
1 ATAAATAATATTAAT
*
3571497 ATAAATATTATTTTAAT
1 ATAAATA--ATATTAAT
* *
3571514 AATAAATAATATTTAC
1 -ATAAATAATATTAAT
3571530 ATAAAT-ATATTAAT
1 ATAAATAATATTAAT
*
3571544 ATAAAAAATA
1 ATAAATAATA
3571554 ATAACTATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
14 18 0.40
15 9 0.20
16 9 0.20
17 2 0.04
18 7 0.16
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAAATAATATTAAT
Found at i:3571501 original size:18 final size:18
Alignment explanation
Indices: 3571480--3571556 Score: 55
Period size: 16 Copynumber: 4.7 Consensus size: 18
3571470 TTAATAATTC
3571480 TAAATAAATAATATTATA
1 TAAATAAATAATATTATA
* *
3571498 TAAAT--ATTATTTTA-A
1 TAAATAAATAATATTATA
3571513 T-AATAAATAATA-T-T-
1 TAAATAAATAATATTATA
*
3571527 TACATAAAT-ATATTAATA
1 TAAATAAATAATATT-ATA
3571545 TAAA-AAATAATA
1 TAAATAAATAATA
3571557 ACTATTTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
14 7 0.16
15 10 0.23
16 11 0.25
17 5 0.11
18 11 0.25
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATAAATAATATTATA
Found at i:3571548 original size:29 final size:31
Alignment explanation
Indices: 3571482--3571556 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
3571472 AATAATTCTA
*
3571482 AATAAATAATATTATATAAATATTATTTTAAT
1 AATAAATAATATTACATAAATATTA-TTTAAT
*
3571514 AATAAATAATATTTACATAAATA-TATTAATAT
1 AATAAATAATA-TTACATAAATATTATTTA-AT
*
3571546 AAAAAATAATA
1 AATAAATAATA
3571557 ACTATTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 3 0.08
32 25 0.66
33 10 0.26
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (31 bp):
AATAAATAATATTACATAAATATTATTTAAT
Found at i:3573557 original size:18 final size:17
Alignment explanation
Indices: 3573525--3573559 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3573515 AGTAAGATTT
3573525 TTAAATATTTAAAATTA
1 TTAAATATTTAAAATTA
*
3573542 TTAAATTATTTTAAATTA
1 TTAAA-TATTTAAAATTA
3573560 ATTCTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAATATTTAAAATTA
Found at i:3576831 original size:27 final size:23
Alignment explanation
Indices: 3576774--3576830 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
3576764 GCTTAAGAGC
3576774 TAAAATGAATGCATATAAGCTAA
1 TAAAATGAATGCATATAAGCTAA
3576797 TAAAATGAATGCATATAAGCTAA
1 TAAAATGAATGCATATAAGCTAA
*
3576820 TAAAATAAATG
1 TAAAATGAATG
3576831 ATAAGTATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.26
Consensus pattern (23 bp):
TAAAATGAATGCATATAAGCTAA
Found at i:3577732 original size:11 final size:11
Alignment explanation
Indices: 3577718--3577793 Score: 50
Period size: 11 Copynumber: 6.5 Consensus size: 11
3577708 ATAACTTAAT
3577718 AATAATAATAA
1 AATAATAATAA
*
3577729 AATAATCATGAA
1 AATAATAAT-AA
*
3577741 GATAATAATTTAA
1 AATAATAA--TAA
3577754 ACAT-AT-ATCAA
1 A-ATAATAAT-AA
3577765 AAGTAATAATAA
1 AA-TAATAATAA
3577777 AATAA-AATAA
1 AATAATAATAA
3577787 TAATAAT
1 -AATAAT
3577794 TAAAATGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 19
0.69 0.05 0.26
Matches are distributed among these distances:
10 7 0.14
11 20 0.39
12 15 0.29
13 6 0.12
14 3 0.06
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (11 bp):
AATAATAATAA
Found at i:3577789 original size:16 final size:17
Alignment explanation
Indices: 3577763--3577822 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 17
3577753 AACATATATC
3577763 AAAAGTAATAATAAAAT
1 AAAAGTAATAATAAAAT
*
3577780 AAAA-TAATAAT-AATT
1 AAAAGTAATAATAAAAT
* *
3577795 AAAA-TGA-AAGAAAAT
1 AAAAGTAATAATAAAAT
3577810 AAAAGTAATAATA
1 AAAAGTAATAATA
3577823 TTAAAACTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 2 0.06
15 16 0.47
16 9 0.26
17 7 0.21
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (17 bp):
AAAAGTAATAATAAAAT
Found at i:3577810 original size:19 final size:19
Alignment explanation
Indices: 3577768--3577811 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
3577758 ATATCAAAAG
*
3577768 TAATAATAAAATAAAATAA
1 TAATAATAAAATAAAAGAA
*
3577787 TAATAATTAAAATGAAAGAA
1 TAATAA-TAAAATAAAAGAA
3577807 -AATAA
1 TAATAA
3577812 AAGTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (19 bp):
TAATAATAAAATAAAAGAA
Found at i:3579207 original size:3 final size:3
Alignment explanation
Indices: 3579199--3579303 Score: 138
Period size: 3 Copynumber: 34.7 Consensus size: 3
3579189 TTATTTATTA
* * *
3579199 AAT AAT AAT AAT ATGT AAT ATT AAT ATT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * **
3579245 AAT AAT AAT AAT AAT TAT AAT AAT AAT ACT AAT AAT AAT AAT TTT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3579293 AAT AAT AAT AA
1 AAT AAT AAT AA
3579304 ATTTAAATGA
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
3 85 0.98
4 2 0.02
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:3579216 original size:28 final size:27
Alignment explanation
Indices: 3579184--3579286 Score: 85
Period size: 24 Copynumber: 4.0 Consensus size: 27
3579174 CTCCGGGTTT
3579184 TGTAATTATT-TATTAAATAATAATAATA
1 TGTAA-TATTATATT-AATAATAATAATA
3579212 TGTAATATTAATATTAATAATAATAATA
1 TGTAATATT-ATATTAATAATAATAATA
* * *
3579240 -ATAATA--ATAATAATAATAATTATA
1 TGTAATATTATATTAATAATAATAATA
* *
3579264 -ATAATA--ATACTAATAATAATAAT
1 TGTAATATTATATTAATAATAATAAT
3579287 TTTAATAATA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
24 37 0.54
27 9 0.13
28 18 0.26
29 4 0.06
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (27 bp):
TGTAATATTATATTAATAATAATAATA
Found at i:3579682 original size:76 final size:76
Alignment explanation
Indices: 3579434--3580904 Score: 2581
Period size: 76 Copynumber: 19.4 Consensus size: 76
3579424 GAAATGTTGA
* * * *
3579434 AAACATCATGCACTGAAGGGCTTACAGATAACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-CTTTGAAAACATCAAAAAGCTCCCG
3579499 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* * *
3579511 AAACATCATGCACTGAAGAACTTATAGATGACCCTAAGG-TTTTAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3579575 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
3579586 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCAA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3579651 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
3579662 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
3579727 AGGCCTTTTGG
66 AGGCTTTTTGG
3579738 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
3579803 AGGCTTTTTAG
66 AGGCTTTTTGG
* * * * *
3579814 AAACATCATGCACTGCAGGACTTACAGATGACCTTAAGGTTTTG-AAACATCAAAAAGTTTCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3579878 AGGCTTTTTGG
66 AGGCTTTTTGG
*
3579889 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCAA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3579954 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
3579965 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTG-AAACATCAAAAAGTTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3580029 AGGCTTTTTGG
66 AGGCTTTTTGG
3580040 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3580105 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
3580116 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCAA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3580181 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
3580192 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3580257 AGGCTTTTTGG
66 AGGCTTTTTGG
3580268 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3580333 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
3580344 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTG-AAACATCAAAAAGTTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3580408 AGGCTTTTTGG
66 AGGCTTTTTGG
3580419 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3580484 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
3580495 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCAA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3580560 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
3580571 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3580636 AGGCTTTTTGG
66 AGGCTTTTTGG
*
3580647 AAACATCATGCACTGAAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3580712 AGGCTTTTTGG
66 AGGCTTTTTGG
*
3580723 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3580788 AGGCTTTTTGG
66 AGGCTTTTTGG
*
3580799 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3580864 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
3580875 AAACATCATGCGCTGTAGGACTTACAGATG
1 AAACATCATGCACTGAAGGACTTACAGATG
3580905 TGGGAAATAG
Statistics
Matches: 1333, Mismatches: 57, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
75 286 0.21
76 1013 0.76
77 34 0.03
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:3580167 original size:303 final size:304
Alignment explanation
Indices: 3579434--3580904 Score: 2626
Period size: 303 Copynumber: 4.8 Consensus size: 304
3579424 GAAATGTTGA
* * * *
3579434 AAACATCATGCACTGAAGGGCTTACAGATAACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-CTTTGAAAACATCAAAAAGCTCCCG
* *
3579499 AAGGCTTTTTGGAAACATCATGCACTGAAGAACTTATAGATGACCCTAAGGTTTT-AAAACATCA
65 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCA
3579563 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTT
130 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTT
3579628 TGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGA
195 TGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGA
* *
3579693 CCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCCTTTTGG
260 CCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
3579738 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
* * *
3579803 AGGCTTTTTAGAAACATCATGCACTGCAGGACTTACAGATGACCTTAAGGTTTTG-AAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAA
* * *
3579867 AAAGTTTCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTT
3579932 GAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGAC
196 GAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGAC
*
3579997 CCTAAGGCTTTG-AAACATCAAAAAGTTCCCGAAGGCTTTTTGG
261 CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
3580040 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3580105 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAA
* *
3580170 AAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTT
* *
3580235 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
196 GAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGAC
3580300 CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
261 CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
* *
3580344 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTG-AAACATCAAAAAGTTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
3580408 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAA
3580473 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTT
3580538 GAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGAC
196 GAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGAC
*
3580603 CCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
261 CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
*
3580647 AAACATCATGCACTGAAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
3580712 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAA
* * *
3580777 AAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTT
* * *
3580842 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCGCTGTAGGACTTACAGATG
196 GAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
3580905 TGGGAAATAG
Statistics
Matches: 1120, Mismatches: 43, Indels: 8
0.96 0.04 0.01
Matches are distributed among these distances:
302 146 0.13
303 659 0.59
304 315 0.28
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (304 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAA
AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTT
GAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGAC
CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
Found at i:3581787 original size:22 final size:22
Alignment explanation
Indices: 3581762--3581814 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
3581752 TAAAGCTTTT
3581762 ATCTTTGAAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
*
3581784 ATCTTTAAAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
3581806 ATCTTTGAA
1 ATCTTTGAA
3581815 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCTTTGAAAAGAGAATCTATC
Found at i:3583325 original size:35 final size:34
Alignment explanation
Indices: 3583281--3583346 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
3583271 TCTTATTGAG
3583281 ATGAACCTTCAAAATGCCCAAATATTCATATTGTT
1 ATGAACCTTCAAAATGCCCAAATATTC-TATTGTT
* *
3583316 ATGAGCCTTCAAAATGCCCCAATATTCTATT
1 ATGAACCTTCAAAATGCCCAAATATTCTATT
3583347 TCTGGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (34 bp):
ATGAACCTTCAAAATGCCCAAATATTCTATTGTT
Found at i:3584401 original size:114 final size:114
Alignment explanation
Indices: 3584201--3584422 Score: 381
Period size: 114 Copynumber: 1.9 Consensus size: 114
3584191 ACGATCATGC
* *
3584201 AATTCATCTTTCAATTCCAATGATTGGTTTTAGGGTTCATACCAAATCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAA
*
3584266 GAACACTTCCAGAAGATGCTATTGGATCTCCTTATTTCTACTATGAGCA
66 GAACACTTCCAGAAGATGCTATTGGATCTCCTTATTTATACTATGAGCA
* * * *
3584315 AATTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTTATACCAAACCAGATTAGATAACTCAAA
1 AATTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAA
3584380 GAACACTTCCAGAAGATGCTATTGGATCTCCTTATTTATACTA
66 GAACACTTCCAGAAGATGCTATTGGATCTCCTTATTTATACTA
3584423 CGAGAACGTG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (114 bp):
AATTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATGCTATTGGATCTCCTTATTTATACTATGAGCA
Found at i:3588612 original size:14 final size:14
Alignment explanation
Indices: 3588595--3588633 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
3588585 TAAAAGTATG
3588595 AATGCAAAATGAAA
1 AATGCAAAATGAAA
*
3588609 AATGCAAAGATGCAA
1 AATGCAAA-ATGAAA
3588624 AATG-AAAATG
1 AATGCAAAATG
3588634 CATGTATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (14 bp):
AATGCAAAATGAAA
Found at i:3591587 original size:11 final size:11
Alignment explanation
Indices: 3591573--3591648 Score: 50
Period size: 11 Copynumber: 6.5 Consensus size: 11
3591563 ATAACTTAAT
3591573 AATAATAATAA
1 AATAATAATAA
*
3591584 AATAATCATGAA
1 AATAATAAT-AA
*
3591596 GATAATAATTTAA
1 AATAATAA--TAA
3591609 ACAT-AT-ATCAA
1 A-ATAATAAT-AA
3591620 AAGTAATAATAA
1 AA-TAATAATAA
3591632 AATAA-AATAA
1 AATAATAATAA
3591642 TAATAAT
1 -AATAAT
3591649 TAAAATGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 19
0.69 0.05 0.26
Matches are distributed among these distances:
10 7 0.14
11 20 0.39
12 15 0.29
13 6 0.12
14 3 0.06
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (11 bp):
AATAATAATAA
Found at i:3591644 original size:16 final size:17
Alignment explanation
Indices: 3591618--3591677 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 17
3591608 AACATATATC
3591618 AAAAGTAATAATAAAAT
1 AAAAGTAATAATAAAAT
*
3591635 AAAA-TAATAAT-AATT
1 AAAAGTAATAATAAAAT
* *
3591650 AAAA-TGA-AAGAAAAT
1 AAAAGTAATAATAAAAT
3591665 AAAAGTAATAATA
1 AAAAGTAATAATA
3591678 TTAAAACTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 2 0.06
15 16 0.47
16 9 0.26
17 7 0.21
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (17 bp):
AAAAGTAATAATAAAAT
Found at i:3591665 original size:19 final size:19
Alignment explanation
Indices: 3591623--3591666 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
3591613 ATATCAAAAG
*
3591623 TAATAATAAAATAAAATAA
1 TAATAATAAAATAAAAGAA
*
3591642 TAATAATTAAAATGAAAGAA
1 TAATAA-TAAAATAAAAGAA
3591662 -AATAA
1 TAATAA
3591667 AAGTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (19 bp):
TAATAATAAAATAAAAGAA
Found at i:3593080 original size:3 final size:3
Alignment explanation
Indices: 3593072--3593168 Score: 122
Period size: 3 Copynumber: 31.7 Consensus size: 3
3593062 TTATTTATTA
* *
3593072 AAT AAT AAT AAT ATAT AAT ATT AAT ATT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * **
3593119 AAT AAT TAT AAT AAT AAT ACT AAT AAT AAT AAT TTT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3593167 AA
1 AA
3593169 ATTTAAATGA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
3 74 0.93
4 6 0.08
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:3593953 original size:16 final size:17
Alignment explanation
Indices: 3593932--3593964 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
3593922 ATTAATCTAG
3593932 GTAAATAGGATT-AATA
1 GTAAATAGGATTGAATA
3593948 GTAAATAGGATTGAATA
1 GTAAATAGGATTGAATA
3593965 CTCATTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.30
Consensus pattern (17 bp):
GTAAATAGGATTGAATA
Found at i:3595956 original size:12 final size:13
Alignment explanation
Indices: 3595932--3595960 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
3595922 TAAATGTAAA
3595932 TAATTTAATTTTT
1 TAATTTAATTTTT
3595945 TAATTT-ATTTTT
1 TAATTTAATTTTT
3595957 TAAT
1 TAAT
3595961 AGTTTTGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TAATTTAATTTTT
Found at i:3597258 original size:6 final size:6
Alignment explanation
Indices: 3597247--3597276 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
3597237 TTTTTTTAAA
3597247 AAATTT AAATTT AAATTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT
3597277 TATTGATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:3598975 original size:24 final size:26
Alignment explanation
Indices: 3598946--3598994 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
3598936 TGATAACTTT
*
3598946 AAAAATTTTA-TTT-AAAATTGAAAA
1 AAAAATTATATTTTAAAAATTGAAAA
3598970 AAAAATTATATTTTAAAAATTGAAA
1 AAAAATTATATTTTAAAAATTGAAA
3598995 TACTTTAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 3 0.14
26 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (26 bp):
AAAAATTATATTTTAAAAATTGAAAA
Found at i:3600634 original size:23 final size:23
Alignment explanation
Indices: 3600580--3600624 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
3600570 TTTCAATAAG
*
3600580 TATGCCTATATGACACGTTTTCA
1 TATGCCTTTATGACACGTTTTCA
3600603 TATGCCTTTATGACACGTTTTC
1 TATGCCTTTATGACACGTTTTC
3600625 TTCTGTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (23 bp):
TATGCCTTTATGACACGTTTTCA
Found at i:3606803 original size:16 final size:16
Alignment explanation
Indices: 3606782--3606820 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
3606772 AAGGTCATTC
3606782 TGACCCAGGTCAGTGT
1 TGACCCAGGTCAGTGT
3606798 TGACCCAGGTCAGTGT
1 TGACCCAGGTCAGTGT
3606814 TGACCCA
1 TGACCCA
3606821 ACCAGAGTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.23
Consensus pattern (16 bp):
TGACCCAGGTCAGTGT
Found at i:3609138 original size:22 final size:22
Alignment explanation
Indices: 3609110--3609180 Score: 142
Period size: 22 Copynumber: 3.2 Consensus size: 22
3609100 CAACACCTCT
3609110 AGAGCTTCTATTTGAGACCAAA
1 AGAGCTTCTATTTGAGACCAAA
3609132 AGAGCTTCTATTTGAGACCAAA
1 AGAGCTTCTATTTGAGACCAAA
3609154 AGAGCTTCTATTTGAGACCAAA
1 AGAGCTTCTATTTGAGACCAAA
3609176 AGAGC
1 AGAGC
3609181 AAGCTTTGAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (22 bp):
AGAGCTTCTATTTGAGACCAAA
Found at i:3615677 original size:207 final size:210
Alignment explanation
Indices: 3615320--3615736 Score: 781
Period size: 207 Copynumber: 2.0 Consensus size: 210
3615310 CATAGTTAGA
3615320 AGTGACAAGCAAGTACATTGACGTGCAAAACAAAAACAAAACAAAAAAAGAAGAAAATATGACTC
1 AGTGACAAGCAAGTACATTGACGTGCAAAACAAAAACAAAACAAAAAAAGAAGAAAATATGACTC
3615385 CTACATCAATCAGAAGTTCAAAACAAAAAGAGAAAAACACAAAAGAATAAAATCCAAAAAGAAAT
66 CTACATCAATCAGAAGTTCAAAACAAAAAGAGAAAAACACAAAAGAATAAAATCCAAAAAGAAAT
3615450 AAATTTCCAGCAATCAAAGACAAAATTAAATTGCATTACAAG-CAAATACAAAAGGAAAGGTTGT
131 AAATTTCCAGCAATCAAAGACAAAATTAAATTGCATTACAAGTCAAATACAAAAGGAAAGGTTGT
3615514 AAGTATTGTTCTTGG
196 AAGTATTGTTCTTGG
3615529 AGTGACAAGCAAGTACATTGACGTGCAAAACAAAAAC-AAAC-AAAAAA-AAGAAAATATGACTC
1 AGTGACAAGCAAGTACATTGACGTGCAAAACAAAAACAAAACAAAAAAAGAAGAAAATATGACTC
3615591 CTACATCAATCAAGAAGTTCAAAA-AAAAAGAGAAAAACACAAAAAGAATAAAATCCAAAAAGAA
66 CTACATCAATC-AGAAGTTCAAAACAAAAAGAGAAAAACAC-AAAAGAATAAAATCCAAAAAGAA
3615655 ATAAATTTCCAGCAATCAAAGACAAAATTAAATTGCATTACAAGTCAAATACAAAAGGAAAGGTT
129 ATAAATTTCCAGCAATCAAAGACAAAATTAAATTGCATTACAAGTCAAATACAAAAGGAAAGGTT
3615720 GTAAGTATTGTTCTTGG
194 GTAAGTATTGTTCTTGG
3615737 TTTGTAAGTC
Statistics
Matches: 205, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
206 42 0.20
207 85 0.41
208 41 0.20
209 37 0.18
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (210 bp):
AGTGACAAGCAAGTACATTGACGTGCAAAACAAAAACAAAACAAAAAAAGAAGAAAATATGACTC
CTACATCAATCAGAAGTTCAAAACAAAAAGAGAAAAACACAAAAGAATAAAATCCAAAAAGAAAT
AAATTTCCAGCAATCAAAGACAAAATTAAATTGCATTACAAGTCAAATACAAAAGGAAAGGTTGT
AAGTATTGTTCTTGG
Found at i:3616566 original size:17 final size:17
Alignment explanation
Indices: 3616532--3616566 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
3616522 AATTTACATT
*
3616532 ATTGTTATATTCAAAAA
1 ATTGTTATATTAAAAAA
3616549 ATTGTTATATTAAAAAA
1 ATTGTTATATTAAAAAA
3616566 A
1 A
3616567 CGCTATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (17 bp):
ATTGTTATATTAAAAAA
Found at i:3619160 original size:15 final size:15
Alignment explanation
Indices: 3619140--3619169 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3619130 TTGAAATTTC
*
3619140 TTAATATAGTTAATA
1 TTAATATAATTAATA
3619155 TTAATATAATTAATA
1 TTAATATAATTAATA
3619170 GTATGAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAATATAATTAATA
Found at i:3619432 original size:21 final size:20
Alignment explanation
Indices: 3619403--3619441 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
3619393 CAAAATTATA
*
3619403 ATTAAAATTTATAATAGAAGG
1 ATTAAAATTAAT-ATAGAAGG
*
3619424 ATTATAATTAATATAGAA
1 ATTAAAATTAATATAGAA
3619442 AATAAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (20 bp):
ATTAAAATTAATATAGAAGG
Found at i:3621661 original size:57 final size:58
Alignment explanation
Indices: 3621518--3621676 Score: 182
Period size: 57 Copynumber: 2.8 Consensus size: 58
3621508 AACATATTAC
*
3621518 AATTTTCAAAAAATAAATTTAATGATTTA-TTTCTTTCTTACAAAATAGAATCATACTT
1 AATTTCCAAAAAATAAATTTAATGATTTATTTTCTTT-TTACAAAATAGAATCATACTT
* * * * * * *
3621576 GA-TTCTTAAAAAATAAATTTAATAATTTATTTTCTTTTT-TAAAGTATAATCTTACTT
1 AATTTC-CAAAAAATAAATTTAATGATTTATTTTCTTTTTACAAAATAGAATCATACTT
* *
3621633 AATTTCCAAAATATAAATTGAATGATTTATTTTC-TTTTACAAAA
1 AATTTCCAAAAAATAAATTTAATGATTTATTTTCTTTTTACAAAA
3621677 CAAGAAAATA
Statistics
Matches: 82, Mismatches: 15, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
56 4 0.05
57 44 0.54
58 27 0.33
59 7 0.09
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.46
Consensus pattern (58 bp):
AATTTCCAAAAAATAAATTTAATGATTTATTTTCTTTTTACAAAATAGAATCATACTT
Found at i:3621895 original size:91 final size:89
Alignment explanation
Indices: 3621659--3621898 Score: 241
Period size: 91 Copynumber: 2.6 Consensus size: 89
3621649 ATTGAATGAT
* * * ** *
3621659 TTATTT-TCTTTTACAAAACAAGAAAAT-AATCCAACGATTTATTTTTTTTTACAACCCATAATT
1 TTATTTATTTTTTATAAAATAAGAAAATAAATCCAACGATTTATTTCATTTTACAA---AGAATT
3621722 ATATAGATTATCAAGAAAATAATTCAA
63 ATATAGATTATCAAGAAAATAATTCAA
** * * ** * * *
3621749 CGATTTATTTTGTTTTATAAATAAGAAAATAAATTCAAAAAATTATTTCCTTTTACAAAGCATTA
1 TTATTTATTTT-TTATA-AAATAAGAAAATAAATCCAACGATTTATTTCATTTTACAAAGAATTA
* * *
3621814 TGTGAGATTCTCAAGAAAATAATTTAA
64 TAT-AGATTATCAAGAAAATAATTCAA
3621841 TTATTTATTTTTTATAAAATAAGGAAAATAAATCCAACGATTTATTTCATTTTACAAA
1 TTATTTATTTTTTATAAAATAA-GAAAATAAATCCAACGATTTATTTCATTTTACAAA
3621899 ATTGGAAACT
Statistics
Matches: 119, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
90 10 0.08
91 44 0.37
92 33 0.28
93 11 0.09
94 21 0.18
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.40
Consensus pattern (89 bp):
TTATTTATTTTTTATAAAATAAGAAAATAAATCCAACGATTTATTTCATTTTACAAAGAATTATA
TAGATTATCAAGAAAATAATTCAA
Found at i:3622118 original size:111 final size:110
Alignment explanation
Indices: 3621995--3622201 Score: 249
Period size: 111 Copynumber: 1.9 Consensus size: 110
3621985 TCAAAATAGA
** * * * *
3621995 AATCATTCAAGA-TCTCAA-GGAATAAATTTAAC-GATTTATTTCATTTTAAGATATAATCATTA
1 AATCATTCAAGATTCTCAATAAAATAAATTTAACAGATTT-CTT--TTTAAAAATAGAATCATTA
**
3622057 AATATTCCTAAGAAAATAAATTCAATTATTTATTTATTTTAGAAAACAT
63 AATATTCC-AAGAAAATAAATTCAACAATTTATTTATTTTAGAAAACAT
* *
3622106 AATCATTTAAGATTCTCAATAAAATAAATTTATCAGATTTCTTTTTAAAAATAGAATCATTAAAT
1 AATCATTCAAGATTCTCAATAAAATAAATTTAACAGATTTCTTTTTAAAAATAGAATCATTAAAT
* *
3622171 ATTTCAATAAAATAAATTCAACAATTTATTT
66 ATTCCAAGAAAATAAATTCAACAATTTATTT
3622202 TTTATTCAAG
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
110 23 0.28
111 34 0.42
112 6 0.07
113 13 0.16
114 5 0.06
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (110 bp):
AATCATTCAAGATTCTCAATAAAATAAATTTAACAGATTTCTTTTTAAAAATAGAATCATTAAAT
ATTCCAAGAAAATAAATTCAACAATTTATTTATTTTAGAAAACAT
Found at i:3622204 original size:53 final size:53
Alignment explanation
Indices: 3621979--3622417 Score: 186
Period size: 57 Copynumber: 8.1 Consensus size: 53
3621969 AAACAGGAAC
* * * ** * *
3621979 ATTTTTTCAAAATAGAAATCATTCAAGATCTCAA-GGAATAAATTTAACGATTT
1 ATTTTTTAAAAATAG-AATCATTAAAGATTTCAATAAAATAAATTCAACAATTT
* * * * * * **
3622032 ATTTCATTTTAAGATATAATCATTAAATATTCCTAAGAAAATAAATTCAATTATTT
1 ATTT--TTTAAAAATAGAATCATTAAAGATTTC-AATAAAATAAATTCAACAATTT
* * * * *
3622088 ATTTATTTTAGAAAACATAATCATTTAAGATTCTCAATAAAATAAATTTATCAGATTT
1 A-TT-TTTTA-AAAATAGAATCATTAAAGATT-TCAATAAAATAAATTCAACA-ATTT
* *
3622146 -CTTTTTAAAAATAGAATCATTAAATATTTCAATAAAATAAATTCAACAATTT
1 ATTTTTTAAAAATAGAATCATTAAAGATTTCAATAAAATAAATTCAACAATTT
*** * * *
3622198 ATTTTTTATTCA-AGATTCA-T-AAG--------AAAATAAGTTTAACAATTT
1 ATTTTTTAAAAATAGAATCATTAAAGATTTCAATAAAATAAATTCAACAATTT
* * * *
3622240 ATTTCCATTTACAAAATAGAATCATTTAAGATTCTCAAGAAAATAATTTTAACAATTT
1 ATTT---TTTA-AAAATAGAATCATTAAAGATT-TCAATAAAATAAATTCAACAATTT
** * * *
3622298 ATTTTCTTTTAAAAGATAGAAT-ACTTCGAGATTTTCAAGAAAATAAATTTAACGATTT
1 A--TT-TTTTAAAA-ATAGAATCA-TTAAAGA-TTTCAATAAAATAAATTCAACAATTT
* * * **
3622356 ATTTCCTTACAAATTTAGAATCATTCAAGATTCTCAATAAAATAAATTCAATGATTT
1 ATTT-TTTA-AAA-ATAGAATCATTAAAGATT-TCAATAAAATAAATTCAACAATTT
3622413 ATTTT
1 ATTTT
3622418 CCTTATGAAG
Statistics
Matches: 295, Mismatches: 55, Indels: 69
0.70 0.13 0.16
Matches are distributed among these distances:
42 21 0.07
45 4 0.01
46 1 0.00
47 6 0.02
48 1 0.00
49 3 0.01
50 2 0.01
51 1 0.00
52 10 0.03
53 29 0.10
54 29 0.10
55 16 0.05
56 26 0.09
57 76 0.26
58 65 0.22
59 2 0.01
60 2 0.01
61 1 0.00
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (53 bp):
ATTTTTTAAAAATAGAATCATTAAAGATTTCAATAAAATAAATTCAACAATTT
Found at i:3622401 original size:57 final size:57
Alignment explanation
Indices: 3622205--3622479 Score: 245
Period size: 58 Copynumber: 4.7 Consensus size: 57
3622195 TTTATTTTTT
* *
3622205 ATTCAAGATTCAT-AAGAAAATAAGTTTAACAATTTATTTCCATTTACAAA-ATAGAATC
1 ATTCAAGATTC-TCAAGAAAATAAATTTAACGATTTATTTCC--TTACAAAGATAGAATC
* * * *
3622263 ATTTAAGATTCTCAAGAAAATAATTTTAACAATTTATTTTCTTTTA-AAAGATAGAAT-
1 ATTCAAGATTCTCAAGAAAATAAATTTAACGATTTA-TTTC-CTTACAAAGATAGAATC
* * **
3622320 ACTTCGAGATTTTCAAGAAAATAAATTTAACGATTTATTTCCTTACAAATTTAGAATC
1 A-TTCAAGATTCTCAAGAAAATAAATTTAACGATTTATTTCCTTACAAAGATAGAATC
* * * ** *
3622378 ATTCAAGATTCTCAATAAAATAAATTCAATGATTTATTTTCCTTATGAAGTTAGAATC
1 ATTCAAGATTCTCAAGAAAATAAATTTAACGATTTA-TTTCCTTACAAAGATAGAATC
* * *
3622436 AATGCAAGATTCT-AACGATGAAATAAATCTAATGATTTATTTCC
1 -ATTCAAGATTCTCAA-GA--AAATAAATTTAACGATTTATTTCC
3622480 CTTTTTTAAG
Statistics
Matches: 182, Mismatches: 23, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
56 3 0.02
57 48 0.26
58 93 0.51
59 16 0.09
60 5 0.03
61 17 0.09
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (57 bp):
ATTCAAGATTCTCAAGAAAATAAATTTAACGATTTATTTCCTTACAAAGATAGAATC
Found at i:3622634 original size:44 final size:44
Alignment explanation
Indices: 3622584--3622750 Score: 169
Period size: 45 Copynumber: 3.8 Consensus size: 44
3622574 GAATTAATCC
3622584 TTTAATTTTAGCAACTCAATAATAAAAAGGAAC-AATCATTTGAT
1 TTTAATTTT-GCAACTCAATAATAAAAAGGAACTAATCATTTGAT
* * * *
3622628 TTTAATTGTTGCAACTGAGTAATCAAAAGAAACTAATCATTTGAT
1 TTTAATT-TTGCAACTCAATAATAAAAAGGAACTAATCATTTGAT
* * * * *
3622673 TTTAATTTTGTGAAGTCGATAATCAAAAGGAACTAATCCTTTGA-
1 TTTAATTTTG-CAACTCAATAATAAAAAGGAACTAATCATTTGAT
* * *
3622717 -TTACGTTTGGCAACACAATAATAAAAAGGAACTA
1 TTTA-ATTTTGCAACTCAATAATAAAAAGGAACTA
3622751 CTTTTGGCAA
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
43 22 0.22
44 33 0.33
45 46 0.46
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (44 bp):
TTTAATTTTGCAACTCAATAATAAAAAGGAACTAATCATTTGAT
Found at i:3622757 original size:31 final size:31
Alignment explanation
Indices: 3622722--3622781 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
3622712 TTTGATTACG
3622722 TTTGGCAACACAATAATA-AAAAGGAACTACT
1 TTTGGCAACACAATAA-ACAAAAGGAACTACT
*
3622753 TTTGGCAACTCAATAAACAAAAGGAACTA
1 TTTGGCAACACAATAAACAAAAGGAACTA
3622782 ATCCTTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (31 bp):
TTTGGCAACACAATAAACAAAAGGAACTACT
Found at i:3623476 original size:2 final size:2
Alignment explanation
Indices: 3623469--3623496 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3623459 ATAATAATCA
3623469 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3623497 TGACACCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3623580 original size:27 final size:28
Alignment explanation
Indices: 3623527--3623592 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
3623517 CACATGTAAT
* *
3623527 ACCAATCAAT-TGTATGCTATGGACAAA
1 ACCAAGCAATCTGTATGCGATGGACAAA
*
3623554 ACCAAGTAATCTGTATGCGATGG-CAAA
1 ACCAAGCAATCTGTATGCGATGGACAAA
*
3623581 ACCGAGCAATCT
1 ACCAAGCAATCT
3623593 CCATAAGACG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 22 0.67
28 11 0.33
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (28 bp):
ACCAAGCAATCTGTATGCGATGGACAAA
Found at i:3628110 original size:109 final size:108
Alignment explanation
Indices: 3627978--3628194 Score: 400
Period size: 109 Copynumber: 2.0 Consensus size: 108
3627968 CTTAATGGAT
3627978 TAAACAAGGTTACCTTAGATAGTCATTCAAGACTTATATTAGATTCGATAGTCGACCTAAAAATA
1 TAAACAAGGTTACCTTAGATAGTCATTCAAGACTTATATTAGATTCGATAGTCGACCTAAAAATA
*
3628043 TTCTTCTTAGCATAA-TTTTGTTTGAGCTCATGATTTTAGGATTC
66 --ATTCTTAGCATAATTTTTGTTTGAGCTCATGATTTTAGGATTC
3628087 TAAACAAGGTTACCTTAGATAGTCATTCAAGACTTATATTAGATTCGATAGTCGACCTAAAAATA
1 TAAACAAGGTTACCTTAGATAGTCATTCAAGACTTATATTAGATTCGATAGTCGACCTAAAAATA
3628152 ATTCTTAGCATAATTTTTGTTTGAGCTCATGATTTTAGGATTC
66 ATTCTTAGCATAATTTTTGTTTGAGCTCATGATTTTAGGATTC
3628195 AGAGTTAGGA
Statistics
Matches: 106, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
107 12 0.11
108 29 0.27
109 65 0.61
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (108 bp):
TAAACAAGGTTACCTTAGATAGTCATTCAAGACTTATATTAGATTCGATAGTCGACCTAAAAATA
ATTCTTAGCATAATTTTTGTTTGAGCTCATGATTTTAGGATTC
Found at i:3631753 original size:96 final size:96
Alignment explanation
Indices: 3631584--3631763 Score: 238
Period size: 96 Copynumber: 1.9 Consensus size: 96
3631574 CAACATTGTA
* * * * *
3631584 TTCAAGTAATGCATAGCATAGTCAGTGTTGCATTTAGACAAAGCACTTCAGAGTTAGTAATGTAT
1 TTCAAATAATGCATAGAAGAGTCAGTGTTGCATTAAGACAAAGCACTTCAGAGTTAGTAATGCAT
3631649 TCATATAATTG-ATAATAGAGTTAGTATTGCT
66 TCATATAA-TGCATAATAGAGTTAGTATTGCT
* * * * *
3631680 TTCAAATAATGCATAGAAGAGTCATTGTTGCATTAATACCATGCACTTCAGAGTTAGTATTGCAT
1 TTCAAATAATGCATAGAAGAGTCAGTGTTGCATTAAGACAAAGCACTTCAGAGTTAGTAATGCAT
3631745 TC-TGATAATGCATAATAGA
66 TCAT-ATAATGCATAATAGA
3631764 TACAATCATT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
95 3 0.04
96 69 0.96
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (96 bp):
TTCAAATAATGCATAGAAGAGTCAGTGTTGCATTAAGACAAAGCACTTCAGAGTTAGTAATGCAT
TCATATAATGCATAATAGAGTTAGTATTGCT
Found at i:3639241 original size:27 final size:27
Alignment explanation
Indices: 3639211--3639266 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
3639201 AACTAGAAAG
*
3639211 TGGGTTTGTGTATATAAACCATTCTCT
1 TGGGTTTGTGTATATAAACCATTCCCT
3639238 TGGGTTTGTGTATATAAACCATTCCCT
1 TGGGTTTGTGTATATAAACCATTCCCT
3639265 TG
1 TG
3639267 CTTGATATCC
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:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (27 bp):
TGGGTTTGTGTATATAAACCATTCCCT
Found at i:3643782 original size:23 final size:24
Alignment explanation
Indices: 3643731--3643775 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
3643721 CAAGCTGTTT
3643731 GAGCCGTTGATAGAGTCGTTAACA
1 GAGCCGTTGATAGAGTCGTTAACA
* *
3643755 AAGCC-TTGATTGAGTCGTTAA
1 GAGCCGTTGATAGAGTCGTTAA
3643776 TCGAGCCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (24 bp):
GAGCCGTTGATAGAGTCGTTAACA
Found at i:3645212 original size:17 final size:17
Alignment explanation
Indices: 3645184--3645216 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
3645174 TGAAAACATA
3645184 ATTTATTACTACCTATTC
1 ATTTATTACTA-CTATTC
3645202 ATTTA-TACTACTATT
1 ATTTATTACTACTATT
3645217 AATACTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTATTACTACTATTC
Found at i:3650011 original size:20 final size:19
Alignment explanation
Indices: 3649961--3650016 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
3649951 AACCAATAAT
3649961 AATAAATATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
*
3649980 GATGAAAA-AAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
3650000 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
3650017 GAAGATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:3651082 original size:29 final size:29
Alignment explanation
Indices: 3651031--3651091 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
3651021 TTCTCAATAC
* *
3651031 TTTTAATATATTTAATTTCCAGTATTTTAA
1 TTTTAATATATTTAATATCCAGTA-CTTAA
3651061 TTTTAAT-TATTTAAATAT-CAGTACTTAA
1 TTTTAATATATTT-AATATCCAGTACTTAA
3651089 TTT
1 TTT
3651092 CCTGCATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 7 0.25
29 10 0.36
30 11 0.39
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (29 bp):
TTTTAATATATTTAATATCCAGTACTTAA
Found at i:3651603 original size:132 final size:132
Alignment explanation
Indices: 3651426--3651681 Score: 361
Period size: 132 Copynumber: 1.9 Consensus size: 132
3651416 TGACAATGTT
* * *
3651426 TTAATATTAGAGCCCTCATCTTAGGTTTAATTTCACTTTAGTCCTTTAATTTAGATGATTTTTTA
1 TTAATATTAGAGCCCTCATCTTACGTTTAATTTCACTTTAGTCCTTTAATTCAGATGAATTTTTA
* * * *
3651491 TTTAGTCCTCACATTTATGCTCGAGGTTCTATTTTAATTATTCGATCCAATAAATTGTTTGTTAG
66 TTTAGTCCTCACATTTATGCTCAAGGTTCCATTTTAATCATTCGATCAAATAAATTGTTTGTTAG
3651556 GA
131 GA
* * *
3651558 TTAATATTAGAGCCAC-CATTTTACGTTTAATTTCATTTTAGTCCTTTAATTCAGGTGAATTTTT
1 TTAATATTAGAGCC-CTCATCTTACGTTTAATTTCACTTTAGTCCTTTAATTCAGATGAATTTTT
* * * * *
3651622 ATTTGGTCCTCGCATTTATGCTCAATGTTCCATTTTAGTCATTTGATCAAATAAATTGTT
65 ATTTAGTCCTCACATTTATGCTCAAGGTTCCATTTTAATCATTCGATCAAATAAATTGTT
3651682 AAAATTGGTT
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
132 107 0.99
133 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (132 bp):
TTAATATTAGAGCCCTCATCTTACGTTTAATTTCACTTTAGTCCTTTAATTCAGATGAATTTTTA
TTTAGTCCTCACATTTATGCTCAAGGTTCCATTTTAATCATTCGATCAAATAAATTGTTTGTTAG
GA
Found at i:3651759 original size:138 final size:140
Alignment explanation
Indices: 3651551--3651847 Score: 368
Period size: 138 Copynumber: 2.1 Consensus size: 140
3651541 TAAATTGTTT
* * *
3651551 GTTAGGATTAATATTAGAGCCACCATTTTACGTTTAATTTCATTTTAGTCCTTTAATTCAGGTGA
1 GTTAGGATTAATATTAGAGCCACCATTTTACGTTTAATTTAACTTTAGTCCTTAAATTCAGGTGA
* * *
3651616 ATTTTTA-TTTGGTCCTCGCATTTATGCTCA-ATGTTCCATTTTAGTCATTTGATCAAATAAATT
66 ATTTTTATTTTGGTCCTCGCATTTATACT-AGAGGTTCCATTTTAGTCATTTAATCAAATAAATT
3651679 GTTA-AAATTG
130 GTTATAAATTG
* * * * * *
3651689 GTTATGATCAATATTAGAGTCTCCATTTTAGGTTTAATTTAACTTTATTCCTTAAATT-AGGTGA
1 GTTAGGATTAATATTAGAGCCACCATTTTACGTTTAATTTAACTTTAGTCCTTAAATTCAGGTGA
** * * * * *
3651753 ACTTTTTATTTTTTTCCTCGCTTTTATACTAGGGGTTTCATTTTAGTTATTTAATCTAATAAATT
66 A-TTTTTATTTTGGTCCTCGCATTTATACTAGAGGTTCCATTTTAGTCATTTAATCAAATAAATT
3651818 GTTATAAATTG
130 GTTATAAATTG
*
3651829 GTTAGGTTTAATATTAGAG
1 GTTAGGATTAATATTAGAG
3651848 GACATTTTTG
Statistics
Matches: 133, Mismatches: 22, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
137 7 0.05
138 56 0.42
139 48 0.36
140 22 0.17
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (140 bp):
GTTAGGATTAATATTAGAGCCACCATTTTACGTTTAATTTAACTTTAGTCCTTAAATTCAGGTGA
ATTTTTATTTTGGTCCTCGCATTTATACTAGAGGTTCCATTTTAGTCATTTAATCAAATAAATTG
TTATAAATTG
Found at i:3653449 original size:27 final size:27
Alignment explanation
Indices: 3653419--3653480 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
3653409 TTTCTTATTG
*
3653419 TGCTTATCCTCTTTGTCTTTCTTGTGA
1 TGCTTATCCTCTTTATCTTTCTTGTGA
** *
3653446 TGCTTATTGTCTTTATCTTTCTTTTGA
1 TGCTTATCCTCTTTATCTTTCTTGTGA
*
3653473 TGTTTATC
1 TGCTTATC
3653481 GCCACTTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.60
Consensus pattern (27 bp):
TGCTTATCCTCTTTATCTTTCTTGTGA
Found at i:3654289 original size:31 final size:30
Alignment explanation
Indices: 3654254--3654311 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
3654244 AAATTAATGT
*
3654254 TTTGATTATTTACGTTATTGATTTATTAAAA
1 TTTGATTACTTACGTTATTGA-TTATTAAAA
**
3654285 TTTGATTACTTATTTTATTGATTATTA
1 TTTGATTACTTACGTTATTGATTATTA
3654312 TATTTTAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (30 bp):
TTTGATTACTTACGTTATTGATTATTAAAA
Found at i:3654307 original size:16 final size:17
Alignment explanation
Indices: 3654286--3654318 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3654276 TTATTAAAAT
3654286 TTGATTACT-TATTTTA
1 TTGATTACTATATTTTA
*
3654302 TTGATTATTATATTTTA
1 TTGATTACTATATTTTA
3654319 ACCATTGATT
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:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (17 bp):
TTGATTACTATATTTTA
Found at i:3655254 original size:18 final size:17
Alignment explanation
Indices: 3655229--3655265 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
3655219 CTTAGAAATA
*
3655229 ATATATTATATTTTAAT
1 ATATATTAAATTTTAAT
3655246 ATATAATTAAATTTTAAT
1 ATAT-ATTAAATTTTAAT
3655264 AT
1 AT
3655266 TAACATGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATATTAAATTTTAAT
Found at i:3660109 original size:34 final size:34
Alignment explanation
Indices: 3660066--3660134 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
3660056 CTTTATGAGT
*
3660066 AAGCAAATACTTTAGACTTTTATGATCAATATAG
1 AAGCAAATACTTTAGACTATTATGATCAATATAG
3660100 AAGCAAATACTTTAGACTATTATGATCAATATAG
1 AAGCAAATACTTTAGACTATTATGATCAATATAG
3660134 A
1 A
3660135 TGTAACACTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (34 bp):
AAGCAAATACTTTAGACTATTATGATCAATATAG
Found at i:3664529 original size:35 final size:36
Alignment explanation
Indices: 3664480--3664551 Score: 94
Period size: 35 Copynumber: 2.0 Consensus size: 36
3664470 ACTTTTGTTC
* *
3664480 TTTTTCTTTCTTATTTCTTTCTCATTTATTT-TTTTA
1 TTTTTATTTCTTATTTATTTCTCATTT-TTTATTTTA
*
3664516 TTTTTATTT-TTATTTATTTTTCATTTTTTATTTTA
1 TTTTTATTTCTTATTTATTTCTCATTTTTTATTTTA
3664551 T
1 T
3664552 AACAATTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 3 0.09
35 21 0.66
36 8 0.25
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (36 bp):
TTTTTATTTCTTATTTATTTCTCATTTTTTATTTTA
Found at i:3664532 original size:24 final size:24
Alignment explanation
Indices: 3664503--3664549 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3664493 TTTCTTTCTC
*
3664503 ATTTATTTTT-TTATTTTTATTTTT
1 ATTTATTTTTCAT-TTTTTATTTTT
3664527 ATTTATTTTTCATTTTTTATTTT
1 ATTTATTTTTCATTTTTTATTTT
3664550 ATAACAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (24 bp):
ATTTATTTTTCATTTTTTATTTTT
Found at i:3668920 original size:15 final size:15
Alignment explanation
Indices: 3668894--3668936 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
3668884 CATGTTATCC
3668894 TAAAATAATAATAAA
1 TAAAATAATAATAAA
* *
3668909 TTAAATAGTAATAAA
1 TAAAATAATAATAAA
3668924 TAAAATATATAAT
1 TAAAATA-ATAAT
3668937 TTTATAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
TAAAATAATAATAAA
Found at i:3669731 original size:19 final size:18
Alignment explanation
Indices: 3669705--3669748 Score: 79
Period size: 19 Copynumber: 2.4 Consensus size: 18
3669695 TTCCTCATTT
3669705 TCCCTTCCTCAAACTCTC
1 TCCCTTCCTCAAACTCTC
3669723 TCTCCTTCCTCAAACTCTC
1 TC-CCTTCCTCAAACTCTC
3669742 TCCCTTC
1 TCCCTTC
3669749 TCTCTACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.14, C:0.50, G:0.00, T:0.36
Consensus pattern (18 bp):
TCCCTTCCTCAAACTCTC
Found at i:3670729 original size:22 final size:23
Alignment explanation
Indices: 3670697--3670748 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
3670687 CTGTAAGAAT
3670697 AAAT-AAATAATGAA-ATAAAT-A
1 AAATAAAATAAT-AATATAAATAA
*
3670718 AAATAAAATAATAATATAGATAA
1 AAATAAAATAATAATATAAATAA
3670741 AAATAAAA
1 AAATAAAA
3670749 ATAAATAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 6 0.22
22 12 0.44
23 9 0.33
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (23 bp):
AAATAAAATAATAATATAAATAA
Found at i:3670755 original size:22 final size:20
Alignment explanation
Indices: 3670697--3670753 Score: 53
Period size: 24 Copynumber: 2.6 Consensus size: 20
3670687 CTGTAAGAAT
*
3670697 AAATAAATAATGAAATAAATA
1 AAATAAA-AATAAAATAAATA
3670718 AAAT-AAAATAATAATATAGATAA
1 AAATAAAAATAA-AATA-A-AT-A
3670741 AAATAAAAATAAA
1 AAATAAAAATAAA
3670754 TAGTTAAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
19 4 0.13
20 6 0.20
21 5 0.17
22 2 0.07
23 6 0.20
24 7 0.23
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (20 bp):
AAATAAAAATAAAATAAATA
Found at i:3670766 original size:21 final size:21
Alignment explanation
Indices: 3670717--3670767 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
3670707 TGAAATAAAT
3670717 AAAATAAAATAATAATATAGATA
1 AAAAT-AAA-AATAATATAGATA
*
3670740 AAAATAAAAATAA-ATAGTTA
1 AAAATAAAAATAATATAGATA
3670760 AACAATAA
1 AA-AATAA
3670768 TTAGGCGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 3 0.12
23 5 0.19
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (21 bp):
AAAATAAAAATAATATAGATA
Found at i:3671357 original size:91 final size:92
Alignment explanation
Indices: 3671201--3671372 Score: 238
Period size: 91 Copynumber: 1.9 Consensus size: 92
3671191 GTTACCCTAC
* * * **
3671201 TCCTTTGGGAAGATCAAATGTGAAAAAAAGAGGATTTGTTCCACTACACTTCAGGGTAAATCAGA
1 TCCTTAGGGAAGATCAAATCTGAAAAAAAGAGGATCTACTCCACTACACTTCAGGGTAAATCAGA
3671266 TCTGAAAATGTTGATTCCTTTAGCTAT
66 TCTGAAAATGTTGATTCCTTTAGCTAT
* * * * *
3671293 TCCTTAGGGAATATCAAATCTGGAAAAAAG-GGATCTACTCCACTACTCTTCATGGTAGATCAGA
1 TCCTTAGGGAAGATCAAATCTGAAAAAAAGAGGATCTACTCCACTACACTTCAGGGTAAATCAGA
*
3671357 TCTGGAAATGTTGATT
66 TCTGAAAATGTTGATT
3671373 TATTCCACTG
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
91 43 0.62
92 26 0.38
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (92 bp):
TCCTTAGGGAAGATCAAATCTGAAAAAAAGAGGATCTACTCCACTACACTTCAGGGTAAATCAGA
TCTGAAAATGTTGATTCCTTTAGCTAT
Found at i:3671387 original size:91 final size:92
Alignment explanation
Indices: 3671201--3671396 Score: 225
Period size: 91 Copynumber: 2.1 Consensus size: 92
3671191 GTTACCCTAC
* * * **
3671201 TCCTTTGGGAAGATCAAATGTGAAAAAAAGAGGATTTGTTCCACTACACTTCAGGGTAAATCAGA
1 TCCTTAGGGAAGATCAAATCTGAAAAAAAGAGGATCTACTCCACTACACTTCAGGGTAAATCAGA
* *
3671266 TCTGAAAATGTTGATTCCTTTAGCTAT
66 TCTGAAAATGTTGATTCATTCAGCTAT
* * * * *
3671293 TCCTTAGGGAATATCAAATCTGGAAAAAAG-GGATCTACTCCACTACTCTTCATGGTAGATCAGA
1 TCCTTAGGGAAGATCAAATCTGAAAAAAAGAGGATCTACTCCACTACACTTCAGGGTAAATCAGA
* * *
3671357 TCTGGAAATGTTGATTTATTCCA-CTGT
66 TCTGAAAATGTTGATTCATT-CAGCTAT
*
3671384 TCCTTAGGAAAGA
1 TCCTTAGGGAAGA
3671397 ATGAATCGAG
Statistics
Matches: 86, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
91 59 0.69
92 27 0.31
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (92 bp):
TCCTTAGGGAAGATCAAATCTGAAAAAAAGAGGATCTACTCCACTACACTTCAGGGTAAATCAGA
TCTGAAAATGTTGATTCATTCAGCTAT
Found at i:3671452 original size:132 final size:132
Alignment explanation
Indices: 3671293--3673787 Score: 2739
Period size: 132 Copynumber: 18.9 Consensus size: 132
3671283 CTTTAGCTAT
* * * * * * *
3671293 TCCTTAGGGAATATCAAATCTGGAAAAAAGGGATCTACTCCACTACTCTTCATGGTAGATCAGAT
1 TCCTCAGGGAAGATCAAATCTAGAAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGATCAGAT
* * * * * * *
3671358 CTGGAAATGTTGATTTATTCCACTGTTCCTTAGGAAAGAATGAATCGAGGTAGATTTATTTCATT
66 CTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCACT
*
3671423 GC
131 AC
* * * *
3671425 TCCTCAGGGAAGATCAAATCTAAAAAAAAAGGGATATGCTCCGCTGCTCTTTAGGGTAGAGT-AT
1 TCCTCAGGGAAGATCAAATCT-AGAAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGA-TCAG
* *
3671489 ATCTGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTGTTCCA
64 ATCTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCA
3671554 CTAC
129 CTAC
* * * * * * * *
3671558 TCCTTAAGAAAGATCAAA--TATAAAAAAGGGATTTGCTCGAATGCTCTCCAGGGTAGATCAGAT
1 TCCTCAGGGAAGATCAAATCTAGAAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGATCAGAT
* * * * * *
3671621 CTGGAAACGTTGATTCCTTCCAATGTTCCTCAGGGAAGATTGAATCTAGATAGATTTGTTCCGCT
66 CTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCACT
3671686 AC
131 AC
* * * * * *
3671688 TCCTTATGGAAGATCAAATC-AGAAAAATGGGATCTGCTCCGCTGCTCTTCATGGTAGATCAGAT
1 TCCTCAGGGAAGATCAAATCTAGAAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGATCAGAT
* *
3671752 CTAGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCAACT
66 CTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCACT
3671817 AC
131 AC
** * * * * *
3671819 TCCTCAGAAAAGATCAAAACTTGAAAAAAGGGATATACTCCACTGCTCTTCAAGGTAGATCAAAT
1 TCCTCAGGGAAGATCAAATCTAGAAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGATCAGAT
* * * * * * *
3671884 CTGGAAATGTTGTTTCATTCCAGTGTTCCTCAGAAAAGATAGAATCGAGGTAAATTTGTTCCATT
66 CTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCACT
*
3671949 GC
131 AC
* * * ** * * *
3671951 TTCTCAGGGAAGATCAAATATGGAAAAAAATGATCTACTCCACTGCTCTTCATGGTAGATCAGAT
1 TCCTCAGGGAAGATCAAATCTAGAAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGATCAGAT
* * * * * * * *
3672016 CTGGAAATGTTGATTTATTCCACTGTTCTTTAGGAAAGAATGAATCGAGGTTGATTTGTTTCAGT
66 CTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCACT
*
3672081 GC
131 AC
* * *
3672083 TCCTCAGGGAAGATCAAATCT-GAAAAAAAGGGATATGCTCCGCTGCTCTTCAGGATAGAGT-AT
1 TCCTCAGGGAAGATCAAATCTAG-AAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGA-TCAG
* * * *
3672146 ATCTGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCAAGTTAGATTTGTTCCA
64 ATCTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCA
3672211 CTAC
129 CTAC
* * * * *
3672215 TCCTTAGGGAAGATCAAA--TATAAAAAAGGGATTTGCTCCAATGCTCTCCAGGGTAGATCAGAT
1 TCCTCAGGGAAGATCAAATCTAGAAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGATCAGAT
* * * *
3672278 CTGGAAACGTTGATTTCA-TCCATTGTTCCTCAGGGAAGATTGAATCGAGTTAGATTTGTTCCGC
66 CTGGAAACGTTGA-TTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCAC
3672342 TAC
130 TAC
* * * * * * *
3672345 TCCTTATGGAAGATCAAATCT-GAAAAACGGGATCTGCTCCGCTGCTCTTCAGAGTAGATAAGAT
1 TCCTCAGGGAAGATCAAATCTAGAAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGATCAGAT
* * * *
3672409 CTAGAAACGTTGGTTCATTCCAATGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCAACT
66 CTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCACT
*
3672474 CC
131 AC
* * * *
3672476 TCCTCAGGAAAGATCAAAACTAGAAAAAAGGGATATACTCCACTGCTCTTCAGGGTAGATCAAAT
1 TCCTCAGGGAAGATCAAATCTAGAAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGATCAGAT
* * * * * *
3672541 CTGGAAATGTTGTTTCATTCCACTGTTCCTCAGGAAAGATTTAATCGAGATAAATTTGTTCCATT
66 CTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCACT
*
3672606 GC
131 AC
* * * * * *
3672608 TCCTCAGGGAAGATCAAATATGGAAAAAAGGGATCTACTCCACTACTCTTCATGGTAGATCAGAT
1 TCCTCAGGGAAGATCAAATCTAGAAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGATCAGAT
* * * * * *
3672673 CTGGAAATGTTGATTTATTCCACTGTTCCTTAGGAAAGAATGAATCGAGGTAGATTTGTTTCATT
66 CTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCACT
*
3672738 GC
131 AC
* *
3672740 TCCTCAGGGAAGATCAAATCT-GAAAAAAAGGGATATGCTTCACTGCTCTTCAGGGTAGAGT-AT
1 TCCTCAGGGAAGATCAAATCTAG-AAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGA-TCAG
* * *
3672803 ATATGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTGTTCCA
64 ATCTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCA
3672868 CTAC
129 CTAC
* * * * * *
3672872 TCCTTAGGGAAGATCAAA--TATAAAAAAGGGATTTGCTCCAATGCTCTCCAGGGTAAATCAGAT
1 TCCTCAGGGAAGATCAAATCTAGAAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGATCAGAT
* * ** * * * **
3672935 CTGGAAACATTGATTCCTTCTGCTGTTCCTCAGGGATGATTGAATCGAGTTAGATTTGTTCTGCT
66 CTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCACT
3673000 AC
131 AC
* * * * * *
3673002 TCCTTATGGAAGATCAAATCT-GAAAAAAGGGATTTGCTCCGCTACTATTCAGGGTAGATCAGAT
1 TCCTCAGGGAAGATCAAATCTAGAAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGATCAGAT
* * *
3673066 CTAGAAACGTTGATTCATTCCACTGTTCCTCGGGAAAGATTGAATCGAGGTAGATTTGTTCAACT
66 CTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCACT
3673131 AC
131 AC
* * * *
3673133 TCCTCAGGAAAGATCAAAACTAGAAAAAAGGGATATACTCCACTGCTCTTCAGGGTAGATCAAAT
1 TCCTCAGGGAAGATCAAATCTAGAAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGATCAGAT
* * * *
3673198 CTGGAAATGTTGTTTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAAATTTGTTCCATT
66 CTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCACT
*
3673263 GC
131 AC
* * * * *
3673265 TCCTCAGGGAAGATCAAATATGGAAAAAATGGGGATTTAG-TCCACTTCTCTTCAGGGTAGATTA
1 TCCTCAGGGAAGATCAAATCTAGAAAAAA--GGGATAT-GCTCCACTGCTCTTCAGGGTAGATCA
* * * * *
3673329 GATCTGGAAACGTTGATTCATTCCAGTTTTTCTCAGGGAATATTGAATCGAGGTAGATTTGCTT-
63 GATCTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTG-TTC
3673393 CACTAC
127 CACTAC
* * * * *
3673399 TCCTCAGGGAAGATCAAATCTGGGGAAAAAAGGGATCTGCTCCGCTGTTCTTCAAGGTAGATCAG
1 TCCTCAGGGAAGATCAAATCT--AGAAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGATCAG
* * * * * *
3673464 ATATGGAAACATTGATTCATTCCAATGTTCCTTAGGGAAGATTGAATCGAGGTAAATTTGTTCCA
64 ATCTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCA
* *
3673529 TTGC
129 CTAC
* * * * * *
3673533 TCCTCAGGGAAGATCAAATCTGGAAAACATGGGGATATACTCTATTGCTCTTCAGGGTAAATCAG
1 TCCTCAGGGAAGATCAAATCTAGAAAA-A-AGGGATATGCTCCACTGCTCTTCAGGGTAGATCAG
* ** * *
3673598 ATCTGGAGACGTT-ATTTCATTTGACTGTTCCT-AGGGACGATTGAATCGAGGTAGATTTGTTCC
64 ATCTGGAAACGTTGA-TTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCC
3673661 ACTAC
128 ACTAC
* * * * * * *
3673666 TCATCAAGGAAGATAAAATAT-GAAAAAAGAGATATGCTTCGA-TG-TCCTTCAAGGTAGATCAG
1 TCCTCAGGGAAGATCAAATCTAGAAAAAAGGGATATGC-TCCACTGCT-CTTCAGGGTAGATCAG
*** * * * * * *
3673728 ATCCAAAAACGTTGATTCATTTCACTGTTCTTTAGGGAAGATTGAATCGAGTTTGATTTG
64 ATCTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTG
3673788 CTTCTCTTGT
Statistics
Matches: 1996, Mismatches: 330, Indels: 75
0.83 0.14 0.03
Matches are distributed among these distances:
129 4 0.00
130 381 0.19
131 361 0.18
132 819 0.41
133 163 0.08
134 258 0.13
135 2 0.00
136 8 0.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (132 bp):
TCCTCAGGGAAGATCAAATCTAGAAAAAAGGGATATGCTCCACTGCTCTTCAGGGTAGATCAGAT
CTGGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCACT
AC
Found at i:3671501 original size:224 final size:224
Alignment explanation
Indices: 3671074--3671506 Score: 480
Period size: 224 Copynumber: 1.9 Consensus size: 224
3671064 AATGCTCTTG
* * ** * *
3671074 AGGGAAGATCATATCTGGAAAAAGGGGATCTACTCTGCTTCTCTTCAGGGTAAAGCATATCTGGA
1 AGGGAAGATCAAATCTGGAAAAAAGGGATCTACTCCACTACTCTTCAGGGTAAAGCAGATCTGGA
* * * *
3671139 AACTTTGATTCACTTCACTATTCCTCAAAGAAGATTGAATTGAGGTAGATTTGTTACCCTACTCC
66 AACTTTGATTCACTTCACTATTCCTCAAAGAAGAATGAATCGAGGTAGATTTATTACACTACTCC
** * * * *
3671204 TTTGGGAAGATCAAATGTGAAAAAAAGAGGATTTGTTCCACTACACTTCAGGGTAAATCAGATCT
131 TCAGGGAAGATCAAATCTAAAAAAAAGAGGATATGCTCCACTACACTTCAGGGTAAATCAGATCT
3671269 GAAAATGTTGATTCCTTTAGCTATTCCTT
196 GAAAATGTTGATTCCTTTAGCTATTCCTT
* * * *
3671298 AGGGAATATCAAATCTGGAAAAAAGGGATCTACTCCACTACTCTTCATGGTAGATCAGATCTGGA
1 AGGGAAGATCAAATCTGGAAAAAAGGGATCTACTCCACTACTCTTCAGGGTAAAGCAGATCTGGA
* * * * * * *
3671363 AA-TGTTGATTTA-TTCCACTGTTCCT-TAGGAAAGAATGAATCGAGGTAGATTTATTTCATTGC
66 AACT-TTGATTCACTT-CACTATTCCTCAAAG-AAGAATGAATCGAGGTAGATTTATTACACTAC
* * * * *
3671425 TCCTCAGGGAAGATCAAATCTAAAAAAAA-AGGGATATGCTCCGCTGCTCTTTAGGGTAGAGT-A
128 TCCTCAGGGAAGATCAAATCTAAAAAAAAGA-GGATATGCTCCACTACACTTCAGGGTA-AATCA
* *
3671488 TATCTGGAAATGTTGATTC
191 GATCTGAAAATGTTGATTC
3671507 ATTCCACTGT
Statistics
Matches: 170, Mismatches: 34, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
223 6 0.04
224 162 0.95
225 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (224 bp):
AGGGAAGATCAAATCTGGAAAAAAGGGATCTACTCCACTACTCTTCAGGGTAAAGCAGATCTGGA
AACTTTGATTCACTTCACTATTCCTCAAAGAAGAATGAATCGAGGTAGATTTATTACACTACTCC
TCAGGGAAGATCAAATCTAAAAAAAAGAGGATATGCTCCACTACACTTCAGGGTAAATCAGATCT
GAAAATGTTGATTCCTTTAGCTATTCCTT
Found at i:3672468 original size:525 final size:524
Alignment explanation
Indices: 3671293--3673787 Score: 2825
Period size: 525 Copynumber: 4.7 Consensus size: 524
3671283 CTTTAGCTAT
* * *
3671293 TCCTTAGGGAATATCAAATCTGGAAAAAAGGGATCTACTCCACTACTCTTCATG-GTAGATCAGA
1 TCCTTAGGGAAGATCAAATCT-GAAAAAAGGGATCTGCTCCACTGCTCTTCA-GAGTAGATCAGA
* * * * * * *
3671357 TCTGGAAATGTTGATTTATTCCACTGTTCCTTAGGAAAGAATGAATCGAGGTAGATTTATTTCAT
64 TCTGGAAACGTTGATTCATTCCAATGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCAT
* * * *
3671422 TGCTCCTCAGGGAAGATCAAATCTAAAAAAAAAGGGATATGCTCCGCTGCTCTTTAGGGTAGAGT
129 TGCTCCTCAGGGAAGATCAAATCTAGAAAAAAA-GGATATACTCCACTGCTCTTCAGGGTAGA-T
* * *
3671487 -ATATCTGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTGTT
192 CAGATCTGGAAATGTTGATTTATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTT
* * * * * *
3671551 CCACTACTCCTTAAGAAAGATCAAATAT-AAAAAAGGGATTTGCT-CGAATGCTCTCCAGGGTAG
257 CCACTACTCCTCAGGGAAGATCAAATATGAAAAAAGGGATATGCTCCG-CTGCTCTTCA-GGTAG
* * * * *
3671614 ATCAGATCTGGAAACGTTGATTCCTTCCAATGTTCCTCAGGGAAGATTGAATCTAGATAGATTTG
320 ATCAGATCTGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTG
* * * * * * *
3671679 TTCCGCTACTCCTTATGGAAGATCAAATCA-GAAAAATGGGATCTGCTCCGCTGCTCTTCATGGT
385 TTCCACTACTCCTCAGGGAAGATCAAAT-ATGAAAAAAGGGATTTGCTCCACTGCTCTTCAGGGT
* *
3671743 AGATCAGATCTAGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATT
449 AGATCAGATCTGGAAACGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATT
*
3671808 TGTTCAACTAC
514 TGTTCCACTAC
* ** * * * *
3671819 TCCTCAGAAAAGATCAAAACTTGAAAAAAGGGATATACTCCACTGCTCTTCA-AGGTAGATCAAA
1 TCCTTAGGGAAGATCAAATC-TGAAAAAAGGGATCTGCTCCACTGCTCTTCAGA-GTAGATCAGA
* * * * * *
3671883 TCTGGAAATGTTGTTTCATTCCAGTGTTCCTCAGAAAAGATAGAATCGAGGTAAATTTGTTCCAT
64 TCTGGAAACGTTGATTCATTCCAATGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCAT
* * * * * *
3671948 TGCTTCTCAGGGAAGATCAAATATGGAAAAAAATGATCTACTCCACTGCTCTTCATGGTAGATCA
129 TGCTCCTCAGGGAAGATCAAATCTAGAAAAAAAGGATATACTCCACTGCTCTTCAGGGTAGATCA
* * * * *
3672013 GATCTGGAAATGTTGATTTATTCCACTGTTCTTTAGGAAAGAATGAATCGAGGTTGATTTGTTTC
194 GATCTGGAAATGTTGATTTATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCC
* * *
3672078 AGTGCTCCTCAGGGAAGATCAAATCTGAAAAAAAGGGATATGCTCCGCTGCTCTTCAGGATAGAG
259 ACTACTCCTCAGGGAAGATCAAATATG-AAAAAAGGGATATGCTCCGCTGCTCTTCAGG-TAGA-
* * *
3672143 T-ATATCTGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCAAGTTAGATTTGT
321 TCAGATCTGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTGT
* * *
3672207 TCCACTACTCCTTAGGGAAGATCAAATAT-AAAAAAGGGATTTGCTCCAATGCTCTCCAGGGTAG
386 TCCACTACTCCTCAGGGAAGATCAAATATGAAAAAAGGGATTTGCTCCACTGCTCTTCAGGGTAG
* *
3672271 ATCAGATCTGGAAACGTTGATTTCA-TCCATTGTTCCTCAGGGAAGATTGAATCGAGTTAGATTT
451 ATCAGATCTGGAAACGTTGA-TTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTT
*
3672335 GTTCCGCTAC
515 GTTCCACTAC
* * * *
3672345 TCCTTATGGAAGATCAAATCTGAAAAACGGGATCTGCTCCGCTGCTCTTCAGAGTAGATAAGATC
1 TCCTTAGGGAAGATCAAATCTGAAAAAAGGGATCTGCTCCACTGCTCTTCAGAGTAGATCAGATC
* * * * *
3672410 TAGAAACGTTGGTTCATTCCAATGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCAACTC
66 TGGAAACGTTGATTCATTCCAATGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCATTG
* * * *
3672475 CTCCTCAGGAAAGATCAAAACTAGAAAAAAGGGATATACTCCACTGCTCTTCAGGGTAGATCAAA
131 CTCCTCAGGGAAGATCAAATCTAGAAAAAAAGGATATACTCCACTGCTCTTCAGGGTAGATCAGA
* * *
3672540 TCTGGAAATGTTG-TTTCATTCCACTGTTCCTCAGGAAAGATTTAATCGAGATAAATTTGTTCCA
196 TCTGGAAATGTTGATTT-ATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCA
* * * * * *
3672604 TTGCTCCTCAGGGAAGATCAAATATGGAAAAAAGGGATCTACTCCACTACTCTTCATGGTAGATC
260 CTACTCCTCAGGGAAGATCAAATAT-GAAAAAAGGGATATGCTCCGCTGCTCTTCA-GGTAGATC
* * * * *
3672669 AGATCTGGAAATGTTGATTTATTCCACTGTTCCTTAGGAAAGAATGAATCGAGGTAGATTTGTTT
323 AGATCTGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTGTTC
* * * * *
3672734 CATTGCTCCTCAGGGAAGATCAAATCTGAAAAAAAGGGATATGCTTCACTGCTCTTCAGGGTAGA
388 CACTACTCCTCAGGGAAGATCAAATATG-AAAAAAGGGATTTGCTCCACTGCTCTTCAGGGTAGA
* * *
3672799 GT-ATATATGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTG
452 -TCAGATCTGGAAACGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTG
3672863 TTCCACTAC
516 TTCCACTAC
* * * * * *
3672872 TCCTTAGGGAAGATCAAATAT-AAAAAAGGGATTTGCTCCAATGCTCTCCAGGGTAAATCAGATC
1 TCCTTAGGGAAGATCAAATCTGAAAAAAGGGATCTGCTCCACTGCTCTTCAGAGTAGATCAGATC
* * *** * * * *** *
3672936 TGGAAACATTGATTCCTTCTGCTGTTCCTCAGGGATGATTGAATCGAGTTAGATTTGTTCTGCTA
66 TGGAAACGTTGATTCATTCCAATGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCATTG
* * * * * * * *
3673001 CTCCTTATGGAAGATCAAATCT-GAAAAAAGGGATTTGCTCCGCTACTATTCAGGGTAGATCAGA
131 CTCCTCAGGGAAGATCAAATCTAGAAAAAAAGGATATACTCCACTGCTCTTCAGGGTAGATCAGA
* * * * *
3673065 TCTAGAAACGTTGATTCATTCCACTGTTCCTCGGGAAAGATTGAATCGAGGTAGATTTGTTCAAC
196 TCTGGAAATGTTGATTTATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCAC
* * *
3673130 TACTCCTCAGGAAAGATCAAA-ACTAGAAAAAAGGGATATACTCCACTGCTCTTCAGGGTAGATC
261 TACTCCTCAGGGAAGATCAAATA-T-GAAAAAAGGGATATGCTCCGCTGCTCTTCA-GGTAGATC
* * * *
3673194 AAATCTGGAAATGTTGTTTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAAATTTGTTC
323 AGATCTGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTGTTC
* * *
3673259 CATTGCTCCTCAGGGAAGATCAAATATGGAAAAAATGGGGATTTAG-TCCACTTCTCTTCAGGGT
388 CACTACTCCTCAGGGAAGATCAAATAT-GAAAAAA--GGGATTT-GCTCCACTGCTCTTCAGGGT
* * * * *
3673323 AGATTAGATCTGGAAACGTTGATTCATTCCAGTTTTTCTCAGGGAATATTGAATCGAGGTAGATT
449 AGATCAGATCTGGAAACGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATT
3673388 TGCTT-CACTAC
514 TG-TTCCACTAC
* * *
3673399 TCCTCAGGGAAGATCAAATCTGGGGAAAAAAGGGATCTGCTCCGCTGTTCTTCA-AGGTAGATCA
1 TCCTTAGGGAAGATCAAATCT---GAAAAAAGGGATCTGCTCCACTGCTCTTCAGA-GTAGATCA
* * * * *
3673463 GATATGGAAACATTGATTCATTCCAATGTTCCTTAGGGAAGATTGAATCGAGGTAAATTTGTTCC
62 GATCTGGAAACGTTGATTCATTCCAATGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCC
* ** * * *
3673528 ATTGCTCCTCAGGGAAGATCAAATCTGGAAAACATGGGGATATACTCTATTGCTCTTCAGGGTAA
127 ATTGCTCCTCAGGGAAGATCAAATCTAGAAAA-A-AAGGATATACTCCACTGCTCTTCAGGGTAG
* * ** * *
3673593 ATCAGATCTGGAGACGTT-ATTTCATTTGACTGTTCCT-AGGGACGATTGAATCGAGGTAGATTT
190 ATCAGATCTGGAAATGTTGATTT-ATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTT
* * * * * *
3673656 GTTCCACTACTCATCAAGGAAGATAAAATATGAAAAAAGAGATATGCTTCGATG-TCCTTCAAGG
254 GTTCCACTACTCCTCAGGGAAGATCAAATATGAAAAAAGGGATATGCTCCGCTGCT-CTTC-AGG
*** * * * * * *
3673720 TAGATCAGATCCAAAAACGTTGATTCATTTCACTGTTCTTTAGGGAAGATTGAATCGAGTTTGAT
317 TAGATCAGATCTGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGAT
3673785 TTG
382 TTG
3673788 CTTCTCTTGT
Statistics
Matches: 1667, Mismatches: 262, Indels: 74
0.83 0.13 0.04
Matches are distributed among these distances:
524 6 0.00
525 667 0.40
526 363 0.22
527 330 0.20
528 7 0.00
531 108 0.06
532 84 0.05
533 52 0.03
534 50 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (524 bp):
TCCTTAGGGAAGATCAAATCTGAAAAAAGGGATCTGCTCCACTGCTCTTCAGAGTAGATCAGATC
TGGAAACGTTGATTCATTCCAATGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCATTG
CTCCTCAGGGAAGATCAAATCTAGAAAAAAAGGATATACTCCACTGCTCTTCAGGGTAGATCAGA
TCTGGAAATGTTGATTTATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTCCAC
TACTCCTCAGGGAAGATCAAATATGAAAAAAGGGATATGCTCCGCTGCTCTTCAGGTAGATCAGA
TCTGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTGTTCCAC
TACTCCTCAGGGAAGATCAAATATGAAAAAAGGGATTTGCTCCACTGCTCTTCAGGGTAGATCAG
ATCTGGAAACGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTGTTCCA
CTAC
Found at i:3672560 original size:657 final size:658
Alignment explanation
Indices: 3671293--3673787 Score: 3737
Period size: 657 Copynumber: 3.8 Consensus size: 658
3671283 CTTTAGCTAT
* * * *
3671293 TCCTTAGGGAATATCAAATCTGGAAAAAAGGGATCTACTCCACTACTCTTCATGGTAGATCAGAT
1 TCCTCAGGGAAGATCAAATATGGAAAAAAAGGATCTACTCCACTACTCTTCATGGTAGATCAGAT
*
3671358 CTGGAAATGTTGATTTATTCCACTGTTCCTTAGGAAAGAATGAATCGAGGTAGATTTATTTCATT
66 CTGGAAATGTTGATTTATTCCACTGTTCCTTAGGAAAGAATGAATCGAGGTAGATTTGTTTCATT
** *
3671423 GCTCCTCAGGGAAGATCAAATCTAAAAAAAAAGGGATATGCTCCGCTGCTCTTTAGGGTAGAGTA
131 GCTCCTCAGGGAAGATCAAATCTGGAAAAAAAGGGATATGCTCCGCTGCTCTTCAGGGTAGAGTA
*
3671488 TATCTGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTGTTCC
196 TATATGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTGTTCC
* * * *
3671553 ACTACTCCTTAAGAAAGATCAAATATAAAAAAGGGATTTGCTCGAATGCTCTCCAGGGTAGATCA
261 ACTACTCCTTAGGGAAGATCAAATATAAAAAAGGGATTTGCTCCAATGCTCTCCAGGGTAAATCA
* * * *
3671618 GATCTGGAAACGTTGATTCCTTCCAATGTTCCTCAGGGAAGATTGAATCTAGATAGATTTGTTCC
326 GATCTGGAAACGTTGATTCCATCCACTGTTCCTCAGGGAAGATTGAATCGAGTTAGATTTGTTCC
* *
3671683 GCTACTCCTTATGGAAGATCAAATCAGAAAAATGGGATCTGCTCCGCTGCTCTTCATG-GTAGAT
391 GCTACTCCTTATGGAAGATCAAATCTGAAAAAAGGGATCTGCTCCGCTGCTCTTCA-GAGTAGAT
3671747 CAGATCTAGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTT
455 CAGATCTAGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTT
* * *
3671812 CAACTACTCCTCAGAAAAGATCAAAACTTGAAAAAAGGGATATACTCCACTGCTCTTCAAGGTAG
520 CAACTACTCCTCAGGAAAGATCAAAACTAGAAAAAAGGGATATACTCCACTGCTCTTCAGGGTAG
* * *
3671877 ATCAAATCTGGAAATGTTGTTTCATTCCAGTGTTCCTCAGAAAAGATAGAATCGAGGTAAATTTG
585 ATCAAATCTGGAAATGTTGTTTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAAATTTG
3671942 TTCCATTGC
650 TTCCATTGC
* * *
3671951 TTCTCAGGGAAGATCAAATATGGAAAAAAATGATCTACTCCACTGCTCTTCATGGTAGATCAGAT
1 TCCTCAGGGAAGATCAAATATGGAAAAAAAGGATCTACTCCACTACTCTTCATGGTAGATCAGAT
* * *
3672016 CTGGAAATGTTGATTTATTCCACTGTTCTTTAGGAAAGAATGAATCGAGGTTGATTTGTTTCAGT
66 CTGGAAATGTTGATTTATTCCACTGTTCCTTAGGAAAGAATGAATCGAGGTAGATTTGTTTCATT
*
3672081 GCTCCTCAGGGAAGATCAAATCT-GAAAAAAAGGGATATGCTCCGCTGCTCTTCAGGATAGAGTA
131 GCTCCTCAGGGAAGATCAAATCTGGAAAAAAAGGGATATGCTCCGCTGCTCTTCAGGGTAGAGTA
* * *
3672145 TATCTGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCAAGTTAGATTTGTTCC
196 TATATGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTGTTCC
*
3672210 ACTACTCCTTAGGGAAGATCAAATATAAAAAAGGGATTTGCTCCAATGCTCTCCAGGGTAGATCA
261 ACTACTCCTTAGGGAAGATCAAATATAAAAAAGGGATTTGCTCCAATGCTCTCCAGGGTAAATCA
* *
3672275 GATCTGGAAACGTTGATTTCATCCATTGTTCCTCAGGGAAGATTGAATCGAGTTAGATTTGTTCC
326 GATCTGGAAACGTTGATTCCATCCACTGTTCCTCAGGGAAGATTGAATCGAGTTAGATTTGTTCC
* *
3672340 GCTACTCCTTATGGAAGATCAAATCTGAAAAACGGGATCTGCTCCGCTGCTCTTCAGAGTAGATA
391 GCTACTCCTTATGGAAGATCAAATCTGAAAAAAGGGATCTGCTCCGCTGCTCTTCAGAGTAGATC
* *
3672405 AGATCTAGAAACGTTGGTTCATTCCAATGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTC
456 AGATCTAGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTC
*
3672470 AACTCCTCCTCAGGAAAGATCAAAACTAGAAAAAAGGGATATACTCCACTGCTCTTCAGGGTAGA
521 AACTACTCCTCAGGAAAGATCAAAACTAGAAAAAAGGGATATACTCCACTGCTCTTCAGGGTAGA
* *
3672535 TCAAATCTGGAAATGTTGTTTCATTCCACTGTTCCTCAGGAAAGATTTAATCGAGATAAATTTGT
586 TCAAATCTGGAAATGTTGTTTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAAATTTGT
3672600 TCCATTGC
651 TCCATTGC
*
3672608 TCCTCAGGGAAGATCAAATATGGAAAAAAGGGATCTACTCCACTACTCTTCATGGTAGATCAGAT
1 TCCTCAGGGAAGATCAAATATGGAAAAAAAGGATCTACTCCACTACTCTTCATGGTAGATCAGAT
3672673 CTGGAAATGTTGATTTATTCCACTGTTCCTTAGGAAAGAATGAATCGAGGTAGATTTGTTTCATT
66 CTGGAAATGTTGATTTATTCCACTGTTCCTTAGGAAAGAATGAATCGAGGTAGATTTGTTTCATT
* *
3672738 GCTCCTCAGGGAAGATCAAATCT-GAAAAAAAGGGATATGCTTCACTGCTCTTCAGGGTAGAGTA
131 GCTCCTCAGGGAAGATCAAATCTGGAAAAAAAGGGATATGCTCCGCTGCTCTTCAGGGTAGAGTA
3672802 TATATGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTGTTCC
196 TATATGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTGTTCC
3672867 ACTACTCCTTAGGGAAGATCAAATATAAAAAAGGGATTTGCTCCAATGCTCTCCAGGGTAAATCA
261 ACTACTCCTTAGGGAAGATCAAATATAAAAAAGGGATTTGCTCCAATGCTCTCCAGGGTAAATCA
* * ** * *
3672932 GATCTGGAAACATTGATTCCTTCTGCTGTTCCTCAGGGATGATTGAATCGAGTTAGATTTGTTCT
326 GATCTGGAAACGTTGATTCCATCCACTGTTCCTCAGGGAAGATTGAATCGAGTTAGATTTGTTCC
* * * *
3672997 GCTACTCCTTATGGAAGATCAAATCTGAAAAAAGGGATTTGCTCCGCTACTATTCAGGGTAGATC
391 GCTACTCCTTATGGAAGATCAAATCTGAAAAAAGGGATCTGCTCCGCTGCTCTTCAGAGTAGATC
*
3673062 AGATCTAGAAACGTTGATTCATTCCACTGTTCCTCGGGAAAGATTGAATCGAGGTAGATTTGTTC
456 AGATCTAGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTC
3673127 AACTACTCCTCAGGAAAGATCAAAACTAGAAAAAAGGGATATACTCCACTGCTCTTCAGGGTAGA
521 AACTACTCCTCAGGAAAGATCAAAACTAGAAAAAAGGGATATACTCCACTGCTCTTCAGGGTAGA
3673192 TCAAATCTGGAAATGTTGTTTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAAATTTGT
586 TCAAATCTGGAAATGTTGTTTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAAATTTGT
3673257 TCCATTGC
651 TCCATTGC
* * * * * *
3673265 TCCTCAGGGAAGATCAAATATGGAAAAAATGGGGATTTAGTCCACTTCTCTTCAGGGTAGATTAG
1 TCCTCAGGGAAGATCAAATATGGAAAAAA--AGGATCTACTCCACTACTCTTCATGGTAGATCAG
* * * * * * * * * *
3673330 ATCTGGAAACGTTGATTCATTCCAGTTTTTCTCAGGGAATATTGAATCGAGGTAGATTTGCTTCA
64 ATCTGGAAATGTTGATTTATTCCACTGTTCCTTAGGAAAGAATGAATCGAGGTAGATTTGTTTCA
* * * * * *
3673395 CTACTCCTCAGGGAAGATCAAATCTGGGGAAAAAAGGGATCTGCTCCGCTGTTCTTCAAGGTAGA
129 TTGCTCCTCAGGGAAGATCAAATCT-GGAAAAAAAGGGATATGCTCCGCTGCTCTTCAGGGTAGA
* ** * * *
3673460 -TCAGATATGGAAACATTGATTCATTCCAATGTTCCTTAGGGAAGATTGAATCGAGGTAAATTTG
193 GT-ATATATGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTG
* * * * * * * * * *
3673524 TTCCATTGCTCCTCAGGGAAGATCAAATCTGGAAAACATGGGGATATACTCTATTGCTCTTCAGG
257 TTCCACTACTCCTTAGGGAAGATCAAATAT--AAAA-A-AGGGATTTGCTCCAATGCTCTCCAGG
* * ** * *
3673589 GTAAATCAGATCTGGAGACGTT-ATTTCATTTGACTGTTCCT-AGGGACGATTGAATCGAGGTAG
318 GTAAATCAGATCTGGAAACGTTGATTCCA-TCCACTGTTCCTCAGGGAAGATTGAATCGAGTTAG
* * * * * * * * * *
3673652 ATTTGTTCCACTACTCATCAAGGAAGATAAAATATGAAAAAAGAGATATGCTTCGATG-TCCTTC
382 ATTTGTTCCGCTACTCCTTATGGAAGATCAAATCTGAAAAAAGGGATCTGCTCCGCTGCT-CTTC
* * * * * * *
3673716 A-AGGTAGATCAGATCCAAAAACGTTGATTCATTTCACTGTTCTTTAGGGAAGATTGAATCGAGT
446 AGA-GTAGATCAGATCTAGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGG
*
3673780 TTGATTTG
510 TAGATTTG
3673788 CTTCTCTTGT
Statistics
Matches: 1681, Mismatches: 143, Indels: 20
0.91 0.08 0.01
Matches are distributed among these distances:
656 1 0.00
657 1127 0.67
658 142 0.08
659 107 0.06
660 1 0.00
661 114 0.07
663 5 0.00
664 135 0.08
665 49 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (658 bp):
TCCTCAGGGAAGATCAAATATGGAAAAAAAGGATCTACTCCACTACTCTTCATGGTAGATCAGAT
CTGGAAATGTTGATTTATTCCACTGTTCCTTAGGAAAGAATGAATCGAGGTAGATTTGTTTCATT
GCTCCTCAGGGAAGATCAAATCTGGAAAAAAAGGGATATGCTCCGCTGCTCTTCAGGGTAGAGTA
TATATGGAAATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGATTTGTTCC
ACTACTCCTTAGGGAAGATCAAATATAAAAAAGGGATTTGCTCCAATGCTCTCCAGGGTAAATCA
GATCTGGAAACGTTGATTCCATCCACTGTTCCTCAGGGAAGATTGAATCGAGTTAGATTTGTTCC
GCTACTCCTTATGGAAGATCAAATCTGAAAAAAGGGATCTGCTCCGCTGCTCTTCAGAGTAGATC
AGATCTAGAAACGTTGATTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAGATTTGTTC
AACTACTCCTCAGGAAAGATCAAAACTAGAAAAAAGGGATATACTCCACTGCTCTTCAGGGTAGA
TCAAATCTGGAAATGTTGTTTCATTCCACTGTTCCTCAGGAAAGATTGAATCGAGGTAAATTTGT
TCCATTGC
Found at i:3674579 original size:45 final size:45
Alignment explanation
Indices: 3674530--3674644 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 45
3674520 GCACGCGAAT
*
3674530 GTCAAGTAAGAAAACACTAAAAGATCGACTCCCAT-TT-TCAAGAAA
1 GTCAAGTAACAAAACACTAAAAGATCGACT--CATCTTCTCAAGAAA
* *
3674575 GTCAA-TAATAGAAACACTAAAAGATTGACTCATCTTCTCAAGAAA
1 GTCAAGTAACA-AAACACTAAAAGATCGACTCATCTTCTCAAGAAA
*
3674620 GTCAAG-AACAACAATACTAAAAGAT
1 GTCAAGTAACAA-AACACTAAAAGAT
3674645 TGATTTCTCT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
43 3 0.05
44 7 0.11
45 51 0.84
ACGTcount: A:0.49, C:0.18, G:0.12, T:0.21
Consensus pattern (45 bp):
GTCAAGTAACAAAACACTAAAAGATCGACTCATCTTCTCAAGAAA
Found at i:3676230 original size:42 final size:44
Alignment explanation
Indices: 3676183--3676268 Score: 149
Period size: 42 Copynumber: 2.0 Consensus size: 44
3676173 GGATGATATG
3676183 GGATGATATGGGCCTTCAAAAATG-CCC-ACATTTATCATTTCT
1 GGATGATATGGGCCTTCAAAAATGCCCCAACATTTATCATTTCT
*
3676225 GGATGATATGTGCCTTCAAAAATGCCCCAACATTTATCATTTCT
1 GGATGATATGGGCCTTCAAAAATGCCCCAACATTTATCATTTCT
3676269 TGCTCCACTG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 23 0.56
43 3 0.07
44 15 0.37
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (44 bp):
GGATGATATGGGCCTTCAAAAATGCCCCAACATTTATCATTTCT
Found at i:3677251 original size:221 final size:221
Alignment explanation
Indices: 3676868--3677308 Score: 866
Period size: 221 Copynumber: 2.0 Consensus size: 221
3676858 TATTCACTAA
3676868 AACTCCTATTTAGTAAATTCAATTAATTTACCATGCTTGTCTAGCTAAATTCAAACTTTATTGTA
1 AACTCCTATTTAGTAAATTCAATTAATTTACCATGCTTGTCTAGCTAAATTCAAACTTTATTGTA
3676933 CATTTATATTTTATAATGCCTTTATTTGGCTATTTGAATCTATCCATAAAGTCGGGGCGTTTAAC
66 CATTTATATTTTATAATGCCTTTATTTGGCTATTTGAATCTATCCATAAAGTCGGGGCGTTTAAC
3676998 CAGTTGCTCTATAGGATAACTCAAGCTTTATTGTTTACATATAATTATTATGGGTATATGGATTC
131 CAGTTGCTCTATAGGATAACTCAAGCTTTATTGTTTACATATAATTATTATGGGTATATGGATTC
3677063 AATTTCTTAAGCTTGTCAAGAAGAAC
196 AATTTCTTAAGCTTGTCAAGAAGAAC
3677089 AACTCCTATTTAGTAAATTCAATTAATTTACCATGCTTGTCTAGCTAAATTC-AACTTTATTGTA
1 AACTCCTATTTAGTAAATTCAATTAATTTACCATGCTTGTCTAGCTAAATTCAAACTTTATTGTA
3677153 CATTTATATTTTATAATGCCTTTATTTGGCTATTTGAATCTATCCATAAAGTCGGGGCGTTTAAC
66 CATTTATATTTTATAATGCCTTTATTTGGCTATTTGAATCTATCCATAAAGTCGGGGCGTTTAAC
3677218 CAGTTGCTCTATAGGCATAACTCAAGCTTTATTGTTTACATATAATTATTATGGGTATATGGATT
131 CAGTTGCTCTATAGG-ATAACTCAAGCTTTATTGTTTACATATAATTATTATGGGTATATGGATT
3677283 CAATTTCTTAAGCTTGTCAAGAAGAA
195 CAATTTCTTAAGCTTGTCAAGAAGAA
3677309 TGTTATAGTC
Statistics
Matches: 219, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
220 92 0.42
221 127 0.58
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (221 bp):
AACTCCTATTTAGTAAATTCAATTAATTTACCATGCTTGTCTAGCTAAATTCAAACTTTATTGTA
CATTTATATTTTATAATGCCTTTATTTGGCTATTTGAATCTATCCATAAAGTCGGGGCGTTTAAC
CAGTTGCTCTATAGGATAACTCAAGCTTTATTGTTTACATATAATTATTATGGGTATATGGATTC
AATTTCTTAAGCTTGTCAAGAAGAAC
Found at i:3682218 original size:5 final size:5
Alignment explanation
Indices: 3682201--3682230 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
3682191 AAAAATAATT
*
3682201 ATAAA ATAGA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
3682231 TTAGGCCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
ATAAA
Done.